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8615 publications

PubMed DOI Crossref
Shared requirement for MYC upstream super-enhancer region in tissue regeneration and cancer.
Sur I, Zhao W, Zhang J, ..., de la Roche M, Taipale J
Life Sci. Alliance 8 (6) - [2025-06-00; online 2025-04-03]
NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A red fluorescent lifeact marker to study actin morphology in podocytes.
Wiesner E, Binz-Lotter J, Tröder SE, ..., Wedlich-Söldner R, Hackl MJ
Sci Rep 15 (1) 12386 [2025-04-11; online 2025-04-11]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Nuclear AGO2 supports influenza A virus replication through type-I interferon regulation.
Huang HC, Fong M, Nowak I, ..., Angeletti D, Sarshad AA
Nucleic Acids Res. 53 (7) - [2025-04-10; online 2025-04-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Ectoderm barcoding reveals neural and cochlear compartmentalization.
de Haan S, He J, Corbat AA, ..., Kelley MW, Andersson ER
Science 388 (6742) 60-68 [2025-04-04; online 2025-04-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Sex pheromone biosynthesis in the Oriental fruit moth Grapholita molesta involves Δ8 desaturation.
Dam MI, Ding BJ, Brauburger K, ..., Heckel DG, Löfstedt C
Insect Biochem. Mol. Biol. - (-) 104307 [2025-03-30; online 2025-03-30]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The DNA methylation landscape of primary triple-negative breast cancer.
Aine M, Nacer DF, Arbajian E, ..., Borg Å, Staaf J
Nat Commun 16 (1) 3041 [2025-03-28; online 2025-03-28]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
Phylogeny of Palicoureeae (Rubiaceae) based on 353 low-copy nuclear genes - With particular focus on Hymenocoleus Robbr.
Thilén L, Lachenaud O, Thureborn O, Razafimandimbison SG, Rydin C
Mol. Phylogenet. Evol. - (-) 108338 [2025-03-28; online 2025-03-28]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cell membranes sustain phospholipid imbalance via cholesterol asymmetry.
Doktorova M, Symons JL, Zhang X, ..., Levental KR, Levental I
Cell - (-) - [2025-03-26; online 2025-03-26]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Blood-based biomarkers of Alzheimer's disease and incident dementia in the community.
Grande G, Valletta M, Rizzuto D, ..., Fratiglioni L, Vetrano DL
Nat. Med. - (-) - [2025-03-26; online 2025-03-26]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Identification of a SNAI1 enhancer RNA that drives cancer cell plasticity.
Fan C, Wang Q, Krijger PHL, ..., de Laat W, Ten Dijke P
Nat Commun 16 (1) 2890 [2025-03-25; online 2025-03-25]
CRISPR Functional Genomics [Service]
PubMed DOI Crossref
Neural ensembles that encode nocifensive mechanical and heat pain in mouse spinal cord.
Zhang MD, Kupari J, Su J, ..., Lagerström MC, Ernfors P
Nat. Neurosci. - (-) - [2025-03-24; online 2025-03-24]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Intestinal estrogen receptor beta modulates the murine colon tumor immune microenvironment.
Birgersson M, Holm M, Gallardo-Dodd CJ, ..., Archer A, Williams C
Cancer Lett. - (-) 217661 [2025-03-20; online 2025-03-20]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Sox9 and nuclear factor I transcription factors regulate the timing of neurogenesis and ependymal maturation in dopamine progenitors.
Lahti L, Volakakis N, Gillberg L, ..., Gronostajski R, Perlmann T
Development 152 (6) - [2025-03-15; online 2025-03-26]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dietary patterns and blood-based biomarkers of Alzheimer's disease in cognitively intact older adults: Findings from a population-based study.
Mrhar A, Carballo-Casla A, Grande G, ..., Calderón-Larrañaga A, Vetrano DL
J Prev Alzheimers Dis - (-) 100124 [2025-03-14; online 2025-03-14]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Genetic liability for anxiety and treatment response to the monoamine stabilizer OSU6162 in alcohol dependence: a retrospective secondary analysis.
Hong MG, Khemiri L, Guterstam J, ..., Jayaram-Lindström N, Melas PA
Pharmacol Rep - (-) - [2025-03-12; online 2025-03-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Historic manioc genomes illuminate maintenance of diversity under long-lived clonal cultivation.
Kistler L, de Oliveira Freitas F, Gutaker RM, ..., Capriles JM, Allaby RG
Science 387 (6738) eadq0018 [2025-03-07; online 2025-03-07]
Ancient DNA [Collaborative]
PubMed DOI Crossref
Continuous map of early hematopoietic stem cell differentiation across human lifetime.
Komic H, Schmachtel T, Simoes C, ..., Thorén FB, Rieger MA
Nat Commun 16 (1) 2287 [2025-03-07; online 2025-03-07]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Antisense-mediated regulation of exon usage in the elastic spring region of Titin modulates sarcomere function.
Celik S, Hyrefelt L, Czuba T, ..., Smith JG, Gidlöf O
Cardiovasc. Res. - (-) - [2025-03-05; online 2025-03-05]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Decreased levels and function of dendritic cells in blood and airways predict COVID-19 severity.
Österberg B, Falck-Jones S, Vangeti S, ..., Färnert A, Smed-Sörensen A
Clin Transl Immunology 14 (3) e70026 [2025-03-03; online 2025-03-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Associations of PFAS and OH-PCBs with risk of multiple sclerosis onset and disability worsening.
Vaivade A, Erngren I, Carlsson H, ..., Burman J, Kultima K
Nat Commun 16 (1) 2014 [2025-02-27; online 2025-02-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Duplexed CeTEAM drug biosensors reveal determinants of PARP inhibitor selectivity in cells.
Pires MJ, Alam S, Lovric A, ..., Altun M, Valerie NCK
J. Biol. Chem. - (-) 108361 [2025-02-26; online 2025-02-26]
Chemical Biology Consortium Sweden (CBCS) [Service]
DOI Crossref
Dissecting the properties of circulating IgG against streptococcal pathogens through a combined systems antigenomics-serology workflow
Gomez Toledo A, Chowdhury S, Hjortswang E, ..., Rasmussen M, Malmström J
Nat Commun 16 (1) - [2025-02-24; online 2025-02-24]
Structural Proteomics [Collaborative]
DOI Crossref
Spatial mapping of DNA synthesis reveals dynamics and geometry of human replication nanostructures
Hawgood M, Urién González B, Agostinho A, ..., Blom H, Lemmens B
- - (-) - [2025-02-23; online 2025-02-23]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Temporal dynamics of airborne fungi in Swedish forest nurseries.
Larsson R, Menkis A, Olson Å
Appl. Environ. Microbiol. 91 (2) e0130624 [2025-02-19; online 2025-01-16]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Measuring plasma membrane fluidity using confocal microscopy.
Carravilla P, Andronico L, Schlegel J, ..., Lorent J, Sezgin E
Nat Protoc - (-) - [2025-02-19; online 2025-02-19]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
A chromosome-level genome assembly of the European green toad (Bufotes viridis).
Rödin-Mörch P, Bunikis I, Choi E, ..., Proux-Wéra E, Höglund J
G3 (Bethesda) - (-) - [2025-02-19; online 2025-02-19]
NGI Long read [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Circular RNA circASH1L(4,5) protects microRNA-129-5p from target-directed microRNA degradation in human skin wound healing.
Wang Q, Niu G, Liu Z, ..., Sommar P, Xu Landén N
Br J Dermatol 192 (3) 468-480 [2025-02-18; online 2024-10-18]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Microbial communities in slow sand filters for drinking water treatment adapt to organic matter altered by ozonation.
Rosenqvist T, Hilding J, Suarez C, Paul CJ
Water Res. 270 (-) 122843 [2025-02-15; online 2024-11-23]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Methodological aspects of investigating the resistome in pig farm environments.
Ladyhina V, Rajala E, Sternberg-Lewerin S, ..., Bongcam-Rudloff E, Dicksved J
J Microbiol Methods 230-231 (-) 107103 [2025-02-13; online 2025-02-13]
Clinical Genomics [Collaborative] Clinical Genomics Linköping [Collaborative]
PubMed DOI Crossref
Imaging Single Particle Profiler to Study Nanoscale Bioparticles Using Conventional Confocal Microscopy.
Sych T, Görgens A, Steiner L, ..., El Andaloussi S, Sezgin E
Nano Lett. 25 (6) 2173-2180 [2025-02-12; online 2025-01-29]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Rare and common single nucleotide variants in childhood-onset systemic lupus erythematosus.
Sayadi A, Sandling JK, Eloranta ML, ..., Rönnblom L, DISSECT Consortium
Lupus Sci Med 12 (1) - [2025-02-11; online 2025-02-11]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
High-content morphological profiling by Cell Painting in 3D spheroids
Ringers C, Holmberg D, Flobak Å, ..., Carreras Puigvert J, Spjuth O
- - (-) - [2025-02-08; online 2025-02-08]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
PubMed DOI Crossref
Whole genome sequencing in early onset advanced heart failure.
Linnér E, Czuba T, Gidlöf O, ..., Ehrencrona H, Smith JG
Sci Rep 15 (1) 4306 [2025-02-05; online 2025-02-05]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The expanded genome of Hexamita inflata, a free-living diplomonad.
Akdeniz Z, Havelka M, Stoklasa M, ..., Andersson JO, Tachezy J
Sci Data 12 (1) 192 [2025-02-01; online 2025-02-01]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Single cell sequencing reveals shared clonal signatures in non-malignant B- and tumor cells in T-prolymphocytic leukemia
Hesselager C, Thörn I, Marincevic M, ..., Baliakas P, Amini RM
Blood Neoplasia - (-) 100076 [2025-02-00; online 2025-02-00]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
DOI Crossref
Modelling age at death reveals Nordic Corded Ware paleodemography
Tornberg A, Vandkilde H
Archaeol Anthropol Sci 17 (2) - [2025-02-00; online 2025-01-20]
Ancient DNA [Service]
DOI Crossref
Impact of plant diversity in potato-ley strip-cropping systems on soil microbial communities
Riggi LGA, Ranheim Sveen T, Castaño C, ..., Clemmensen KE, Bahram M
Applied Soil Ecology 206 (-) 105777 [2025-02-00; online 2025-02-00]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Impact of excess sugar on the whole genome DNA methylation pattern in human sperm.
Jönsson J, Perfilyev A, Kugelberg U, ..., Öst A, Ling C
Epigenomics 17 (2) 89-104 [2025-02-00; online 2024-12-20]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Evolved and Plastic Gene Expression in Adaptation of a Specialist Fly to a Novel Niche.
Steward RA, Ortega Giménez J, Choudhary S, ..., Van Aken O, Runemark A
Mol. Ecol. 34 (4) e17653 [2025-02-00; online 2025-01-09]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Earliest modern human genomes constrain timing of Neanderthal admixture.
Sümer AP, Rougier H, Villalba-Mouco V, ..., Prüfer K, Krause J
Nature 638 (8051) 711-717 [2025-02-00; online 2024-12-12]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Diffusion Smart-seq3 of breast cancer spheroids to explore spatial tumor biology and test evolutionary principles of tumor heterogeneity.
Cougnoux A, Mahmoud L, Johnsson PA, ..., Sandberg R, Hausser J
Sci Rep 15 (1) 3811 [2025-01-30; online 2025-01-30]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Modulation of biological activities in adipose derived stem cells by histone deacetylation.
Abdallah S, Tabebi M, Qanadilo S, ..., Elmasry M, El-Serafi A
Sci Rep 15 (1) 3629 [2025-01-29; online 2025-01-29]
Clinical Genomics [Collaborative] Clinical Genomics Linköping [Collaborative]
PubMed DOI Crossref
The di-leucine motif in the host defense peptide LL-37 is essential for initiation of autophagy in human macrophages.
Rekha RS, Padhi A, Frengen N, ..., Guðmundsson GH, Bergman P
Cell Rep 44 (1) 115031 [2025-01-28; online 2024-12-20]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Association between alcohol consumption and peripheral artery disease: two de novo prospective cohorts and a systematic review with meta-analysis.
Yuan S, Wu J, Chen J, ..., Åkesson A, Larsson SC
Eur J Prev Cardiol 32 (2) 149-155 [2025-01-27; online 2024-04-16]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Ultra-Sensitive Detection of Bacterial Spores via SERS.
Segervald J, Malyshev D, Öberg R, ..., Wågberg T, Andersson M
ACS Sens. - (-) - [2025-01-23; online 2025-01-23]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
A de novo, mosaic and complex chromosome 21 rearrangement causes APP triplication and familial autosomal dominant early onset Alzheimer disease.
Ehn E, Eisfeldt J, Laffita-Mesa JM, ..., Nennesemo I, Graff C
Sci Rep 15 (1) 2912 [2025-01-23; online 2025-01-23]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Chromosome-scale genome assembly reveals how repeat elements shape non-coding RNA landscapes active during newt limb regeneration.
Brown T, Mishra K, Elewa A, ..., Yun MH, Simon A
Cell Genomics - (-) 100761 [2025-01-22; online 2025-01-22]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Visualization using NIPTviewer support the clinical interpretation of noninvasive prenatal testing results.
Smeds P, Baranowska Körberg I, Melin M, Ladenvall C
BMC Med Genomics 18 (1) 15 [2025-01-20; online 2025-01-20]
Clinical Genomics [Technology development] Clinical Genomics Uppsala [Technology development]
PubMed DOI Crossref
Systems-level immunomonitoring in children with solid tumors to enable precision medicine.
Chen Q, Zhao B, Tan Z, ..., Ljungblad L, Brodin P
Cell - (-) - [2025-01-17; online 2025-01-17]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Somatic CAG repeat expansion in blood associates with biomarkers of neurodegeneration in Huntington's disease decades before clinical motor diagnosis.
Scahill RI, Farag M, Murphy MJ, ..., Langbehn DR, Tabrizi SJ
Nat. Med. - (-) - [2025-01-17; online 2025-01-17]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Structure of the T=13 capsid of infectious pancreatic necrosis virus (IPNV)-a salmonid birnavirus.
Munke A, Ahmed Abdelrahim Gamil A, Mikalsen AB, ..., Evensen Ø, Okamoto K
J. Virol. - (-) e0145424 [2025-01-16; online 2025-01-16]
Cryo-EM [Service]
PubMed DOI Crossref
A thermoplastic chip for 2D and 3D correlative assays combining screening and high-resolution imaging of immune cell responses.
van Ooijen H, Verron Q, Zhang H, ..., Sandström N, Önfelt B
Cell Reports Methods - (-) 100965 [2025-01-16; online 2025-01-16]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
The Progression of Mycosis Fungoides During Treatment with Mogamulizumab: A BIO-MUSE Case Study of the Tumor and Immune Response in Peripheral Blood and Tissue.
Johansson A, Kalliara E, Belfrage E, ..., Drott K, Ek S
Biomedicines 13 (1) - [2025-01-14; online 2025-01-14]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Spatial transcriptomics unveils estrogen-modulated immune responses and structural alterations in the ectocervical mucosa of depot medroxyprogesterone acetate users.
Kaldhusdal V, Boger MF, Tjernlund A, ..., Czarnewski P, Broliden K
Sci Rep 15 (1) 1014 [2025-01-06; online 2025-01-06]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Spatial omics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Model-informed drug development for antimicrobials: translational pharmacokinetic-pharmacodynamic modelling of apramycin to facilitate prediction of efficacious dose in complicated urinary tract infections.
Hernández-Lozano I, Aranzana-Climent V, Cao S, ..., Vingsbo Lundberg C, Friberg LE
J. Antimicrob. Chemother. 80 (1) 301-310 [2025-01-03; online 2024-11-16]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Single-cell proteo-transcriptomic profiling reveals altered characteristics of stem and progenitor cells in patients receiving cytoreductive hydroxyurea in early-phase chronic myeloid leukemia.
Komic H, Nilsson MS, Wennström L, ..., Thorén FB, Martner A
Haematologica 110 (1) 117-128 [2025-01-01; online 2025-01-01]
NGI Short read [Service] NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dark carbon fixation is a common process in the water column of stratified boreal lakes.
Martin G, Rissanen AJ, Garcia SL, Peura S
Sci. Total Environ. 958 (-) 177433 [2025-01-01; online 2024-12-10]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Trees First Inhibit Then Promote Litter Decomposition in the Subarctic.
Jonsson M, Clemmensen KE, Castaño C, Parker TC
Ecol. Lett. 28 (1) e70063 [2025-01-00; online 2025-01-20]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Evaluation of nationwide analysis surveillance for methicillin-resistant Staphylococcus aureus within Genomic Medicine Sweden.
Tång Hallbäck E, Björkman JT, Dyrkell F, ..., Sikora P, Mölling P
Microb Genom 11 (1) - [2025-01-00; online 2025-01-27]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
DOI Crossref
Sulfidic mine waste rock alkaliphilic microbial communities rapidly replaced by aerobic acidophiles following deposition
Johnson A, Lönntoft E, Piatek P, ..., Simons A, Dopson M
Biogeochemistry 168 (1) - [2024-12-31; online 2024-12-31]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Life Science 2.0: reframing the life science sector for 'the benefit on mankind'.
Vallin M, Tomson G, Kampmann B, ..., Wanyenze RK, Ottersen OP
Glob Health Action 17 (1) 2330758 [2024-12-31; online 2024-04-05]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Identification of novel FosX family determinants from diverse environmental samples.
Kieffer N, Böhm ME, Berglund F, ..., Gillings MR, Larsson DGJ
J Glob Antimicrob Resist 41 (-) 8-14 [2024-12-24; online 2024-12-24]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
VLDLR mediates Semliki Forest virus neuroinvasion through the blood-cerebrospinal fluid barrier.
Martikainen M, Lugano R, Pietilä I, ..., Dimberg A, Essand M
Nat Commun 15 (1) 10718 [2024-12-23; online 2024-12-23]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
MARC1 downregulation reduces hepatocyte lipid content by increasing beta-oxidation.
Ciociola E, Dutta T, Sasidharan K, ..., Mancina RM, Romeo S
Clin Mol Hepatol - (-) - [2024-12-23; online 2024-12-23]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Evolution of fast-growing piscivorous herring in the young Baltic Sea.
Goodall J, Pettersson ME, Bergström U, ..., Wennerström L, Andersson L
Nat Commun 15 (1) 10707 [2024-12-23; online 2024-12-23]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Phthalate esters in baltic lagoons: Spatial distribution, ecological risks, and novel insights into their fate using transcriptomics.
Lorre E, Bianchi F, Broman E, ..., Woźniczka A, Zilius M
Sci. Total Environ. 957 (-) 177526 [2024-12-20; online 2024-11-18]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
MUC17 is an essential small intestinal glycocalyx component that is disrupted in Crohn's disease.
Layunta E, Jäverfelt S, van de Koolwijk FC, ..., Vallance BA, Pelaseyed T
JCI Insight 10 (3) - [2024-12-19; online 2024-12-19]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Genetic and neuro-epigenetic effects of divergent artificial selection for feather pecking behaviour in chickens.
de Haas EN, Pértille F, Kjaer JB, Jensen P, Guerrero-Bosagna C
BMC Genomics 25 (1) 1219 [2024-12-19; online 2024-12-19]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Treatment of Periprosthetic Joint Infection with Intravenous Vancomycin: Do We Hit the Target?
Haglund R, Tornberg U, Claesson AC, Freyhult E, Hailer NP
Antibiotics (Basel) 13 (12) - [2024-12-18; online 2024-12-18]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Transcriptome analysis of sugar beet in response to the pathogenic oomycete Aphanomyces cochlioides.
Rossi V, Holmquist L, Alexandersson E, Grenville-Briggs L
BMC Plant Biol. 24 (1) 1177 [2024-12-18; online 2024-12-18]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
The AxBioTick study - immune gene expression signatures in human skin bitten by Borrelia-infected versus non-infected ticks.
Berthén NC, Cronhjort S, Nordberg M, ..., Wilhelmsson P, Sjöwall J
BMC Infect. Dis. 24 (1) 1422 [2024-12-18; online 2024-12-18]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Spatiotemporal single-cell roadmap of human skin wound healing.
Liu Z, Bian X, Luo L, ..., Li D, Landén NX
Cell Stem Cell - (-) - [2024-12-18; online 2024-12-18]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Complete genome sequences of the prosthecate dimorphic bacteria Brevundimonas intermedia CB63T and Brevundimonas staleyi FWC43T.
Hallgren J, Daneby F, Jonas K
Microbiol Resour Announc 13 (12) e0105024 [2024-12-12; online 2024-11-20]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Stem Cell-Associated Proteins and Extracellular Matrix Composition of the Human Atrioventricular Junction.
Thorsell A, Sjölin L, Berger E, ..., Rotter Sopasakis V, Vukusic K
Cells 13 (24) - [2024-12-11; online 2024-12-11]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Naturally acquired IgG responses to Plasmodium falciparum do not target the conserved termini of the malaria vaccine candidate Merozoite Surface Protein 2.
Zerebinski J, Margerie L, Han NS, ..., Färnert A, Plaza DF
Front Immunol 15 (-) 1501700 [2024-12-09; online 2024-12-09]
Autoimmunity and Serology Profiling [Collaborative] Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Sex-Specific Dominance of Gene Expression in Seed Beetles.
Kaufmann P, Rönn JL, Immonen E, Arnqvist G
Mol. Biol. Evol. 41 (12) - [2024-12-06; online 2024-12-18]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Coupling cellular drug-target engagement to downstream pharmacology with CeTEAM.
Valerie NCK, Sanjiv K, Mortusewicz O, ..., Page BDG, Altun M
Nat Commun 15 (1) 10347 [2024-12-06; online 2024-12-06]
Chemical Biology Consortium Sweden (CBCS) [Service]
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Edlund J, Sdougkou K, Papazian S, ..., Martin JW, Harlid S
J Expo Sci Environ Epidemiol - (-) - [2024-12-06; online 2024-12-06]
Exposomics [Collaborative]
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Multi-omics analysis detail a submicroscopic inv(15)(q14q15) generating fusion transcripts and MEIS2 and NUSAP1 haploinsufficiency.
Ek M, Kvarnung M, Pettersson M, ..., Eisfeldt J, Lindstrand A
Sci Rep 14 (1) 30343 [2024-12-05; online 2024-12-05]
NGI Long read [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Dynamics of the blood plasma proteome during hyperacute HIV-1 infection.
Nazziwa J, Freyhult E, Hong MG, ..., Hassan AS, Esbjörnsson J
Nat Commun 15 (1) 10593 [2024-12-05; online 2024-12-05]
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A landscape of X-inactivation during human T cell development.
Gylemo B, Bensberg M, Hennings V, ..., Ekwall O, Nestor CE
Nat Commun 15 (1) 10527 [2024-12-04; online 2024-12-04]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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High-solid digestion - A comparison of completely stirred and plug-flow reactor systems.
Perman E, Karlsson A, Westerholm M, Isaksson S, Schnürer A
Waste Management 189 (-) 265-275 [2024-12-01; online 2024-08-31]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
The evolutionary history of metastatic pancreatic neuroendocrine tumours reveals a therapy driven route to high-grade transformation.
Backman S, Botling J, Nord H, ..., Åkerström T, Crona J
J. Pathol. 264 (4) 357-370 [2024-12-00; online 2024-10-03]
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Quantitative Comparisons of Progressive Supranuclear Palsy Rating Scale Versions Using Item Response Theory.
Gewily M, Plan EL, Yousefi E, ..., Höglinger G, Karlsson MO
Mov Disord 39 (12) 2181-2189 [2024-12-00; online 2024-08-29]
Bioinformatics Support for Computational Resources [Service]
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Occurrence of cancer in Marfan syndrome: Report of two patients with neuroblastoma and review of the literature.
Maya-González C, Delgado-Vega AM, Taylan F, ..., Martinsson T, Nordgren A
Am. J. Med. Genet. A 194 (12) e63812 [2024-12-00; online 2024-07-11]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Longitudinal Analysis of Natural History Progression of Rare and Ultra-Rare Cerebellar Ataxias Using Item Response Theory.
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Clin. Pharmacol. Ther. 116 (6) 1593-1605 [2024-12-00; online 2024-10-15]
Bioinformatics Support for Computational Resources [Service]
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Lifestyle, biological, and genetic factors related to brain iron accumulation across adulthood.
Gustavsson J, Ištvánfyová Z, Papenberg G, ..., Mangialasche F, Kalpouzos G
Neurobiol. Aging 144 (-) 56-67 [2024-12-00; online 2024-09-10]
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Chen LL, Naesström M, Halvorsen M, ..., Crowley JJ, Pascal D
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Marine Pollution Bulletin 209 (-) 117225 [2024-12-00; online 2024-12-00]
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Aquaculture Reports 39 (-) 102495 [2024-12-00; online 2024-12-00]
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Vascul Pharmacol 157 (-) 107434 [2024-12-00; online 2024-10-17]
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Swedish NMR Centre (SNC) [Service]
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Solar Energy Materials and Solar Cells 278 (-) 113202 [2024-12-00; online 2024-12-00]
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Swedish NMR Centre (SNC) [Collaborative]
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Nat Commun 15 (1) 10212 [2024-11-25; online 2024-11-25]
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BMC Infect. Dis. 24 (1) 1329 [2024-11-21; online 2024-11-21]
Affinity Proteomics Stockholm [Collaborative]
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De Coster W, Höijer I, Bruggeman I, ..., Ameur A, Rademakers R
Genome Res. 34 (11) 2074-2080 [2024-11-20; online 2024-11-20]
Clinical Genomics [Technology development] Clinical Genomics Uppsala [Technology development] NGI Long read [Technology development] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
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Systematic screens for fertility genes essential for malaria parasite transmission reveal conserved aspects of sex in a divergent eukaryote.
Sayers C, Pandey V, Balakrishnan A, ..., Berntsson R, Billker O
Cell Syst 15 (11) 1075-1091.e6 [2024-11-20; online 2024-11-13]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Christ W, Kapell S, Sobkowiak MJ, ..., El Andaloussi S, Ezzat K
ACS Chem Neurosci 15 (22) 4095-4104 [2024-11-20; online 2024-11-07]
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Genome Res. 34 (11) 1763-1773 [2024-11-20; online 2024-11-20]
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Meng Z, Saei AA, Lyu H, Gaetani M, Zubarev RA
Anal. Chem. - (-) - [2024-11-20; online 2024-11-20]
Chemical Proteomics [Technology development]
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Notarnicola A, Hellstrom C, Horuluoglu B, ..., Nilsson P, Lundberg IE
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Bioinformatics Support for Computational Resources [Service]
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Chemical Biology Consortium Sweden (CBCS) [Service]
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Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
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PubMed DOI Crossref
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PubMed DOI Crossref
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PubMed DOI Crossref
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PubMed DOI Crossref
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Swedish NMR Centre (SNC) [Service]
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Swedish NMR Centre (SNC) [Service]
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Bioinformatics Support for Computational Resources [Service]
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Mirabello C, Wallner B, Nystedt B, Azinas S, Carroni M
Nat Commun 15 (1) 8724 [2024-10-09; online 2024-10-09]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Cryo-EM [Service]
PubMed DOI Crossref
The genome sequence of the white-tailed eagle, Haliaeetus albicilla (Linnaeus, 1758).
Pálsson S, Skarphéðinsson KH, Heintz J, ..., Tree of Life Core Informatics collective , Darwin Tree of Life Consortium
Wellcome Open Res 9 (-) 575 [2024-10-09; online 2024-10-09]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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De novo production of protoberberine and benzophenanthridine alkaloids through metabolic engineering of yeast.
Jiao X, Fu X, Li Q, ..., Nielsen J, Chen Y
Nat Commun 15 (1) 8759 [2024-10-09; online 2024-10-09]
Chalmers Mass Spectrometry Infrastructure [Collaborative] Integrated Microscopy Technologies Gothenburg [Service]
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Estradiol-mediated enhancement of the human ectocervical epithelial barrier correlates with desmoglein-1 expression in the follicular menstrual phase.
Bradley F, Stern A, Franzén Boger M, ..., Fowke KR, Broliden K
Front Endocrinol (Lausanne) 15 (-) 1454006 [2024-10-08; online 2024-10-08]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Chemical Exposomics in Human Plasma by Lipid Removal and Large-Volume Injection Gas Chromatography–High-Resolution Mass Spectrometry
Xie H, Sdougkou K, Bonnefille B, ..., Rantakokko P, Martin JW
Environ. Sci. Technol. 58 (40) 17592-17605 [2024-10-08; online 2024-09-24]
Exposomics [Technology development]
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Orthogonal Phase Transfer of Oppositely Charged FeII 4L6 Cages.
Matic ES, Bernard M, Jernstedt AJ, Grommet AB
Chemistry - (-) e202403411 [2024-10-07; online 2024-10-07]
Chalmers Mass Spectrometry Infrastructure [Collaborative] Swedish NMR Centre (SNC) [Service]
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Characteristics of gene expression in epicardial adipose tissue and subcutaneous adipose tissue in patients at risk for heart failure undergoing coronary artery bypass grafting.
Frisk C, Ekström M, Eriksson MJ, ..., Linde C, Persson B
BMC Genomics 25 (1) 938 [2024-10-07; online 2024-10-07]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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- - (-) - [2024-10-07; online 2024-10-07]
In Situ Sequencing (ISS) [Service]
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Leijonhufvud G, Soratto TAT, Matos GM, ..., Ljungman G, Andersson B
J. Clin. Virol. 175 (-) 105736 [2024-10-06; online 2024-10-06]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Li D, Liu Z, Zhang L, ..., Sommar P, Xu Landén N
Nat Commun 15 (1) 8637 [2024-10-05; online 2024-10-05]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Single cell [Service] NGI Spatial omics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Pesticide-induced transgenerational alterations of genome-wide DNA methylation patterns in the pancreas of Xenopus tropicalis correlate with metabolic phenotypes.
Roza M, Eriksson ANM, Svanholm S, Berg C, Karlsson O
J Hazard Mater 478 (-) 135455 [2024-10-05; online 2024-08-09]
Bioinformatics Support for Computational Resources [Service]
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Genomic tumor evolution dictates human medulloblastoma progression.
Ruchiy Y, Tsea I, Preka E, ..., Johnsen JI, Baryawno N
Neurooncol Adv 6 (1) vdae172 [2024-10-05; online 2024-10-05]
Bioinformatics Support for Computational Resources [Service]
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Elucidating Thermothielavioides terrestris secretome changes for improved saccharification of mild steam-pretreated spruce.
Caputo F, Siaperas R, Dias C, Nikolaivits E, Olsson L
Biotechnol Biofuels Bioprod 17 (1) 127 [2024-10-05; online 2024-10-05]
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The single-cell transcriptomic atlas iPain identifies senescence of nociceptors as a therapeutical target for chronic pain treatment.
Techameena P, Feng X, Zhang K, Hadjab S
Nat Commun 15 (1) 8585 [2024-10-04; online 2024-10-04]
Bioinformatics Support for Computational Resources [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Kaptan D, Atağ G, Vural KB, ..., Somel M, Özer F
Mol. Biol. Evol. 41 (10) - [2024-10-04; online 2024-10-23]
Ancient DNA [Service] NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Östling H, Lodefalk M, Bergman L, ..., Backman H, Kruse R
Placenta 158 (-) 78-88 [2024-10-04; online 2024-10-04]
Affinity Proteomics Uppsala [Service]
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Multiplexed chromatin immunoprecipitation sequencing for quantitative study of histone modifications and chromatin factors.
Kumar B, Navarro C, Yung PYK, ..., Martin M, Elsässer SJ
Nat Protoc - (-) - [2024-10-03; online 2024-10-03]
Bioinformatics Support for Computational Resources [Service]
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Estrogen-stimulated uropathogenic E. coli mediate enhanced neutrophil responses.
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Sci Rep 14 (1) 23030 [2024-10-03; online 2024-10-03]
Affinity Proteomics Uppsala [Service]
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Early-Life Hygiene-Related Factors and Risk of Inflammatory Bowel Disease: A Scandinavian Birth Cohort Study.
Guo A, Östensson M, Størdal K, Ludvigsson J, Mårild K
Inflamm Bowel Dis 30 (10) 1820-1830 [2024-10-03; online 2023-11-03]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Childhood Socioeconomic Characteristics and Risk of Inflammatory Bowel Disease: A Scandinavian Birth Cohort Study.
Sigvardsson I, Størdal K, Östensson M, ..., Ludvigsson J, Mårild K
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Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Liu L, Hakhverdyan M, Wallgren P, ..., Hulst M, Van Borm S
Microbiol Spectr 12 (10) e0420823 [2024-10-03; online 2024-08-20]
Bioinformatics Support for Computational Resources [Service]
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Multi-omics analysis reveals the key factors involved in the severity of the Alzheimer's disease.
Meng L, Jin H, Yulug B, ..., Uhlén M, Mardinoglu A
Alzheimers Res Ther 16 (1) 213 [2024-10-02; online 2024-10-02]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] NGI Short read NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Andersson A, Escriva Conde M, Surova O, ..., Nilsson M, Nyström H
Clin. Cancer Res. 30 (19) 4517-4529 [2024-10-01; online 2024-07-26]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service] In Situ Sequencing (ISS) [Service]
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Autoimmunity and Serology Profiling [Service]
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Hermans M, Stranne C, Broman E, ..., Jilbert T, Humborg C
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
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Møller MT, Birch H, Sjøholm KK, ..., Papazian S, Mayer P
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Exposomics [Collaborative]
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Dyrdak R, Stamouli S, Ganeshappa Aralaguppe S, ..., Murrell B, Albert J
Lancet Microbe - (-) 100998 [2024-10-01; online 2024-10-01]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Clin. Genet. 106 (4) 427-436 [2024-10-00; online 2024-06-18]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Journal of Archaeological Science: Reports 58 (-) 104730 [2024-10-00; online 2024-10-00]
Ancient DNA [Service]
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Seasonal nitrogen removal in an outdoor microalgal polyculture at Nordic conditions.
Mattsson L, Farnelid H, Hirwa M, ..., Legrand C, Lindehoff E
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Bioinformatics Support for Computational Resources [Service]
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Strand D, Lundgren B, Bergdahl IA, Martin JW, Karlsson O
Environ Int 192 (-) 108991 [2024-10-00; online 2024-08-30]
Drug Discovery and Development (DDD) [Collaborative]
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Borgmästars E, Ulfenborg B, Johansson M, ..., Lubovac-Pilav Z, Sund M
Transl Oncol 48 (-) 102059 [2024-10-00; online 2024-07-16]
Affinity Proteomics Uppsala [Service] Swedish Metabolomics Centre (SMC) [Service]
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Holmsten K, Sjödahl G, Abrahamsson J, ..., Liedberg F, Ullén A
JCO Precision Oncology 8 (-) e2400209 [2024-10-00; online 2024-10-02]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Horváth V, Garza R, Jönsson ME, ..., Douse CH, Jakobsson J
Nat. Struct. Mol. Biol. 31 (10) 1543-1556 [2024-10-00; online 2024-06-04]
Clinical Genomics [Service] Clinical Genomics Lund [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Liquefaction of lignocellulosic biomass into phenolic monomers and dimers over multifunctional Pd/NbOPO4 catalyst
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Renewable Energy 233 (-) 121148 [2024-10-00; online 2024-10-00]
Integrated Microscopy Technologies Umeå [Service]
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Khosousi S, Sturchio A, Appleton E, ..., Iwaki H, Svenningsson P
Mov Disord 39 (10) 1881-1885 [2024-10-00; online 2024-05-26]
Affinity Proteomics Stockholm [Service]
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Khan FK, Sánchez-García M, Johannesson H, Ryberg M
New Phytol. 244 (1) 219-234 [2024-10-00; online 2024-08-07]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Fish Shellfish Immunol. 153 (-) 109864 [2024-10-00; online 2024-08-30]
Glycoproteomics and MS Proteomics [Collaborative]
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Obanda V, Akinyi M, King'ori E, ..., Stenberg-Lewerin S, Lwande OW
Virus Res. 348 (-) 199434 [2024-10-00; online 2024-07-19]
Clinical Genomics [Collaborative] Clinical Genomics Umeå [Collaborative]
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Industrial Crops and Products 218 (-) 118858 [2024-10-00; online 2024-10-00]
Swedish NMR Centre (SNC) [Service]
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Euro Surveill. 29 (41) - [2024-10-00; online 2024-10-11]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service] Clinical Genomics Örebro [Collaborative]
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Moustardas P, Abbasi M, Javidjam D, ..., Aberdam D, Lagali N
Ocul Surf 34 (-) 225-234 [2024-10-00; online 2024-08-08]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Comparative proteomic analyses of potato leaves from field-grown plants grown under extremely long days.
Resjö S, Willforss J, Large A, ..., Levander F, Andreasson E
Plant Physiol Biochem 215 (-) 109032 [2024-10-00; online 2024-08-10]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre (SMC) [Service]
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Overgaard CK, Jamy M, Radutoiu S, Burki F, Dueholm MKD
Mol Ecol Resour 24 (7) e13991 [2024-10-00; online 2024-07-09]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Wikström Shemer D, Mostafaei S, Tang B, ..., Fall T, Hägg S
Geroscience 46 (5) 5003-5014 [2024-10-00; online 2024-06-27]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A randomized controlled cross-over trial investigating the acute inflammatory and metabolic response after meals based on red meat, fatty fish, or soy protein: the postprandial inflammation in rheumatoid arthritis (PIRA) trial.
Hulander E, Bärebring L, Winkvist A, Gjertsson I, Lindqvist HM
Eur J Nutr 63 (7) 2631-2642 [2024-10-00; online 2024-06-27]
Swedish NMR Centre (SNC) [Service]
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Zheng D, Wilén BM, Öberg O, Wik T, Modin O
Environ. Microbiol. 26 (10) e16696 [2024-10-00; online 2024-10-09]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Piombo E, Vetukuri RR, Konakalla NC, ..., Karlsson M, Dubey M
BMC Biol. 22 (1) 219 [2024-09-30; online 2024-09-30]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
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Rajan A, Gallego P, Dolan B, ..., Simrén M, Pelaseyed T
Gut Microbes 16 (1) 2409247 [2024-09-30; online 2024-09-30]
Glycoproteomics and MS Proteomics [Service]
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A research data management (RDM) community for ELIXIR.
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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SETD8 inhibition targets cancer cells with increased rates of ribosome biogenesis.
Murga M, Lopez-Pernas G, Soliva R, ..., Orozco M, Fernández-Capetillo O
Cell Death Dis 15 (9) 694 [2024-09-28; online 2024-09-28]
Global Proteomics and Proteogenomics [Service]
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NiO thin films fabricated using spray-pyrolysis technique: structural and optical characterization and ultrafast charge dynamics studies
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J. Phys. D: Appl. Phys. 57 (38) 385303 [2024-09-27; online 2024-07-02]
Integrated Microscopy Technologies Umeå [Service]
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Multiomic biomarkers after cardiac arrest.
Stopa V, Lileikyte G, Bakochi A, ..., Nielsen N, Devaux Y
Intensive Care Med Exp 12 (1) 83 [2024-09-27; online 2024-09-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Maity R, Zhang X, Liberati FR, ..., Aínsa JA, Sancho J
Elife 13 (-) - [2024-09-27; online 2024-09-27]
Chemical Proteomics [Collaborative]
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Thorsson H, Henningsson R, Puente-Moncada N, ..., Lilljebjörn H, Fioretos T
Blood 144 (13) 1399-1411 [2024-09-26; online 2024-07-05]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Dudek M, López-Pacios L, Sabouri N, ..., Martinez-Fernandez L, Deiana M
J Phys Chem Lett 15 (38) 9757-9765 [2024-09-26; online 2024-09-17]
Chemical Biology Consortium Sweden (CBCS) [Service]
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CDK4 is co-amplified with either TP53 promoter gene fusions or MDM2 through distinct mechanisms in osteosarcoma.
Saba KH, Difilippo V, Styring E, ..., Baumhoer D, Nord KH
npj Genom. Med. 9 (1) 42 [2024-09-25; online 2024-09-25]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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J. Am. Chem. Soc. 146 (38) 25902-25906 [2024-09-25; online 2024-09-11]
Integrated Microscopy Technologies Gothenburg [Service]
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Hematopoietic cells emerging from hemogenic endothelium exhibit lineage-specific oxidative stress responses.
Biezeman H, Nubiè M, Oburoglu L
J. Biol. Chem. 300 (11) 107815 [2024-09-24; online 2024-09-24]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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A Versatile and Upgraded Version of the LundTax Classification Algorithm Applied to Independent Cohorts.
Cotillas EA, Bernardo C, Veerla S, ..., Sjödahl G, Eriksson P
J Mol Diagn - (-) - [2024-09-24; online 2024-09-24]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Ringlander J, Strömberg LG, Stenbäck JB, ..., Rydell GE, Lindh M
J. Infect. Dis. 230 (3) e684-e693 [2024-09-23; online 2024-01-25]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Elife 12 (-) - [2024-09-20; online 2024-09-20]
Integrated Microscopy Technologies Gothenburg [Service]
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Multi-omics analysis of aggregative multicellularity.
Edelbroek B, Westholm JO, Bergquist J, Söderbom F
iScience 27 (9) 110659 [2024-09-20; online 2024-08-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Cancer associated variant enrichment CAVE, a gene agnostic approach to identify low burden variants in chronic lymphocytic leukemia.
Yaacov A, Lazarian G, Pandzic T, ..., Rosenberg S, Soussi T
Sci Rep 14 (1) 21962 [2024-09-20; online 2024-09-20]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Crystal structure validation of verinurad via proton-detected ultra-fast MAS NMR and machine learning.
Torodii D, Holmes JB, Moutzouri P, ..., Schantz S, Emsley L
Faraday Discuss. - (-) - [2024-09-19; online 2024-09-19]
Swedish NMR Centre (SNC) [Technology development]
PubMed DOI Crossref
Cooperative folding as a molecular switch in an evolved antibody binder.
Jönsson M, Mushtaq AU, Nagy TM, ..., Wolf-Watz M, Hober S
J. Biol. Chem. 300 (11) 107795 [2024-09-19; online 2024-09-19]
Swedish NMR Centre (SNC) [Service]
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Metabolic Phenotyping from Whole-Blood Responses to a Standardized Exercise Test May Discriminate for Physiological, Performance, and Illness Outcomes: A Pilot Study in Highly-Trained Cross-Country Skiers.
Karlsson Ø, Govus AD, McGawley K, Hanstock HG
Sports Med Open 10 (1) 99 [2024-09-18; online 2024-09-18]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Claustrum and dorsal endopiriform cortex complex cell-identity is determined by Nurr1 and regulates hallucinogenic-like states in mice.
Mantas I, Flais I, Masarapu Y, ..., Perlmann T, Svenningsson P
Nat Commun 15 (1) 8176 [2024-09-18; online 2024-09-18]
NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Monitoring SARS-CoV-2 IgA, IgM and IgG antibodies in dried blood and saliva samples using antibody proximity extension assays (AbPEA).
Wang M, Kamali-Moghaddam M, Löf L, ..., Landegren U, Zhao H
Sci Rep 14 (1) 21655 [2024-09-17; online 2024-09-17]
Affinity Proteomics Uppsala [Technology development]
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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- - (-) - [2024-09-14; online 2024-09-14]
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Affinity Proteomics Stockholm [Service] Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Hemasphere 8 (9) e70006 [2024-09-00; online 2024-09-26]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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BioImage Informatics [Service] Bioinformatics (NBIS) [Service] Spatial Proteomics [Technology development]
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Integrated Microscopy Technologies Gothenburg [Service]
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PLoS ONE 19 (8) e0308521 [2024-08-29; online 2024-08-29]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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- 78 (8) 446-458 [2024-08-27; online 2024-07-05]
Swedish NMR Centre (SNC) [Service]
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Identifying metabotypes of insulin resistance severity in children with metabolic syndrome.
González-Domínguez Á, Domínguez-Riscart J, Savolainen O, ..., Landberg R, González-Domínguez R
Cardiovasc Diabetol 23 (1) 315 [2024-08-27; online 2024-08-27]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Single-cell transcriptomics reveal transcriptional programs underlying male and female cell fate during Plasmodium falciparum gametocytogenesis.
Mohammed M, Dziedziech A, Macedo D, ..., Henriksson J, Ankarklev J
Nat Commun 15 (1) 7177 [2024-08-26; online 2024-08-26]
Bioinformatics Support for Computational Resources [Service]
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Intensified, Kilogram-Scaled, and Environment-Friendly: Chemoenzymatic Synthesis of Bio-Based Acylated Hydroxystyrenes.
Petermeier P, Domínguez de María P, Byström E, Kara S
ACS Sustainable Chem. Eng. 12 (34) 12869-12878 [2024-08-26; online 2024-08-15]
Swedish NMR Centre (SNC) [Service]
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Urban J, Joeres R, Thomès L, Thomsson KA, Bojar D
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BaTwa populations from Zambia retain ancestry of past hunter-gatherer groups.
Breton G, Barham L, Mudenda G, ..., Schlebusch CM, Jakobsson M
Nat Commun 15 (1) 7307 [2024-08-24; online 2024-08-24]
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ΔNp63 bookmarks and creates an accessible epigenetic environment for TGFβ-induced cancer cell stemness and invasiveness.
Vasilaki E, Bai Y, Ali MM, ..., Moustakas A, Heldin CH
Cell Commun Signal 22 (1) 411 [2024-08-23; online 2024-08-23]
Global Proteomics and Proteogenomics [Service]
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Oral nicotinamide provides robust, dose-dependent structural and metabolic neuroprotection of retinal ganglion cells in experimental glaucoma.
Cimaglia G, Tribble JR, Votruba M, Williams PA, Morgan JE
Acta Neuropathol Commun 12 (1) 137 [2024-08-23; online 2024-08-23]
Swedish Metabolomics Centre (SMC) [Service]
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Massively parallel analysis of single-molecule dynamics on next-generation sequencing chips.
Aguirre Rivera J, Mao G, Sabantsev A, ..., Jinek M, Deindl S
Science 385 (6711) 892-898 [2024-08-23; online 2024-08-22]
NGI Short read [Technology development] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]
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CDK8 of the mediator kinase module connects leaf development to the establishment of correct stomata patterning by regulating the levels of the transcription factor SPEECHLESS (SPCH).
Hermida-Carrera C, Vergara A, Cervela-Cardona L, ..., Björklund S, Strand Å
Plant Cell Environ. - (-) - [2024-08-23; online 2024-08-23]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Dos Reis GS, Conrad S, Lima EC, ..., Dotto GL, Grimm A
Nanomaterials (Basel) 14 (16) - [2024-08-22; online 2024-08-22]
Integrated Microscopy Technologies Umeå [Service]
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Structural basis for lipid transfer by the ATG2A-ATG9A complex.
Wang Y, Dahmane S, Ti R, ..., Carlson LA, Stjepanovic G
Nat. Struct. Mol. Biol. - (-) - [2024-08-22; online 2024-08-22]
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Spatial Mass Spectrometry [Technology development]
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Heavy-atom-free π-twisted photosensitizers for fluorescence bioimaging and photodynamic therapy.
Sánchez DP, Morice K, Mutovska MG, ..., Cabanetos C, Deiana M
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Chemical Biology Consortium Sweden (CBCS) [Service]
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Karlsson A, Alarcón LA, Piñeiro-Iglesias B, ..., Jin T, Karlsson R
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Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Glycoproteomics and MS Proteomics [Service]
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Song J, Li Z, Zhou L, ..., Rasmussen LJ, Dai F
Nat Commun 15 (1) 7144 [2024-08-21; online 2024-08-21]
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Sychta K, Słomka A, Shariatgorji R, ..., Göransson U, Slazak B
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Spatial Mass Spectrometry [Collaborative]
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Gel-Assisted Proteome Position Integral Shift Assay Returns Molecular Weight to Shotgun Proteomics and Identifies Caspase 3 Substrates.
Meng Z, Saei AA, Gharibi H, ..., Gaetani M, Zubarev RA
Anal. Chem. 96 (33) 13533-13541 [2024-08-20; online 2024-08-07]
Chemical Proteomics [Technology development]
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The evolutionarily ancient FOXA transcription factors shape the murine gut microbiome via control of epithelial glycosylation.
Swisa A, Kieckhaefer J, Daniel SG, ..., Bittinger K, Kaestner KH
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Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Type I Interferon Autoantibodies Correlate With Cellular Immune Alterations in Severe COVID-19.
Strunz B, Maucourant C, Mehta A, ..., Björkström NK, Karolinska KI/K COVID-19 Study Group
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Autoimmunity and Serology Profiling [Service]
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Sonavane S, Hassan S, Chatterjee U, ..., Reimegård J, Rising A
Sci Adv 10 (33) eadn0597 [2024-08-16; online 2024-08-14]
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Nat Commun 15 (1) 7065 [2024-08-16; online 2024-08-16]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Glycogen synthase kinase 3 inhibition controls Mycobacterium tuberculosis infection.
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iScience 27 (8) 110555 [2024-08-16; online 2024-07-20]
Chemical Biology Consortium Sweden (CBCS) [Service]
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Schaus SR, Vasconcelos Pereira G, Luis AS, ..., Hansson GC, Martens EC
MBio 15 (8) e0003924 [2024-08-14; online 2024-07-08]
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Immunological characterization of IgG subclass deficiency reveals decreased Tregs and increased circulating costimulatory and regulatory immune checkpoints.
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Affinity Proteomics Uppsala [Service]
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FEMS Microbes 5 (-) xtae024 [2024-08-14; online 2024-08-14]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Breaking barriers: pCF10 type 4 secretion system relies on a self-regulating muramidase to modulate the cell wall.
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Strand D, Nylander E, Höglund A, ..., Martin JW, Karlsson O
Cell Biol. Toxicol. 40 (1) 69 [2024-08-13; online 2024-08-13]
Drug Discovery and Development (DDD) [Collaborative]
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Decrease due to pollution in the rhizosphere microbial diversity can be amended by supplementation from adapted plants of another species.
Fetsiukh A, Pall T, Timmusk S
Sci Rep 14 (1) 18806 [2024-08-13; online 2024-08-13]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Blending Samples to Increase Accuracy and Precision of 1H NMR Urine Metabolomics.
Bay Nord A, Lindqvist H, Rådjursöga M, ..., Karlsson BG, Malmodin D
Anal. Chem. 96 (32) 13078-13085 [2024-08-13; online 2024-07-31]
Swedish NMR Centre (SNC) [Technology development]
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Commun Chem 7 (1) 179 [2024-08-13; online 2024-08-13]
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Alaçamlı E, Naidoo T, Güler MN, ..., Malmström H, Günther T
Genome Biol. 25 (1) 216 [2024-08-12; online 2024-08-12]
Ancient DNA [Technology development] Bioinformatics Support for Computational Resources [Service]
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Reprogramming Yarrowia lipolytica metabolism for efficient synthesis of itaconic acid from flask to semipilot scale.
Fu J, Zaghen S, Lu H, ..., Di Bartolomeo F, Kerkhoven EJ
Sci Adv 10 (32) eadn0414 [2024-08-09; online 2024-08-09]
Chalmers Mass Spectrometry Infrastructure [Service]
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Multifaceted Proteome Analysis at Solubility, Redox, and Expression Dimensions for Target Identification.
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Chemical Proteomics [Technology development]
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Magnesium induced structural reorganization in the active site of adenylate kinase.
Nam K, Thodika ARA, Tischlik S, ..., Sauer-Eriksson AE, Wolf-Watz M
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Swedish NMR Centre (SNC) [Service]
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Long-term ambient air pollution exposure and renal function and biomarkers of renal disease.
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Environ Health 23 (1) 67 [2024-08-09; online 2024-08-09]
Affinity Proteomics Uppsala [Service]
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AlphaFold accelerated discovery of psychotropic agonists targeting the trace amine-associated receptor 1.
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Drug Discovery and Development (DDD) [Service]
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Micro-costing of genetic diagnostics in acute leukemia in Sweden: from standard-of-care to whole-genome sequencing.
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Clinical Genomics [Service] Clinical Genomics Lund [Service] Clinical Genomics Stockholm [Service] Clinical Genomics Uppsala [Collaborative]
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Autoimmunity and Serology Profiling [Service]
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Sigurðardóttir H, Ablondi M, Kristjansson T, Lindgren G, Eriksson S
BMC Genomics 25 (1) 772 [2024-08-08; online 2024-08-08]
Bioinformatics (NBIS) [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Gong T, Karlsson R, Yao S, ..., Fall T, Almqvist C
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Hypoxic-Ischemic Insult Alters Polyamine and Neurotransmitter Abundance in the Specific Neonatal Rat Brain Subregions.
Mácha H, Luptáková D, Juránek I, Andrén PE, Havlíček V
ACS Chem Neurosci 15 (15) 2811-2821 [2024-08-07; online 2024-07-26]
Spatial Mass Spectrometry [Collaborative]
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Wang Y, Ge F, Aspelund T, ..., Song H, Valdimarsdóttir UA
BMC Med 22 (1) 319 [2024-08-07; online 2024-08-07]
Bioinformatics Support for Computational Resources [Service]
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Vallianatou T, Angerer TB, Kaya I, ..., Svenningsson P, Andrén PE
ACS Chem Neurosci 15 (15) 2822-2829 [2024-08-07; online 2024-07-29]
Spatial Mass Spectrometry [Collaborative]
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Salgkamis D, Sifakis EG, Agartz S, ..., Matikas A, Zerdes I
Sci Rep 14 (1) 18275 [2024-08-06; online 2024-08-06]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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BMC Genomics 25 (1) 764 [2024-08-06; online 2024-08-06]
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Bioinformatics (NBIS) [Technology development] Bioinformatics Support and Infrastructure [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
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Unemo M, Sánchez-Busó L, Golparian D, ..., Wi T, Lahra MM
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Bioinformatics Support for Computational Resources [Service]
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Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Ecological genomics in the Northern krill uncovers loci for local adaptation across ocean basins.
Unneberg P, Larsson M, Olsson A, ..., Meyer B, Wallberg A
Nat Commun 15 (1) 6297 [2024-08-01; online 2024-08-01]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]
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Why we thrive beneath a northern sky - genomic signals of selection in apple for adaptation to northern Sweden.
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Heredity (Edinb) 133 (2) 67-77 [2024-08-00; online 2024-06-04]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Bioinformatics (NBIS) [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Spatiotemporal Release of Singlet Oxygen in Low Molecular Weight Organo-Gels Upon Thermal or Photochemical External Stimuli.
Sandelin E, Schilling L, Saha E, ..., Sundén H, Wallentin CJ
Small 20 (35) e2400827 [2024-08-00; online 2024-04-25]
Swedish NMR Centre (SNC) [Service]
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Journal of Food Composition and Analysis 132 (-) 106354 [2024-08-00; online 2024-08-00]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Selection against domestication alleles in introduced rabbit populations.
Andrade P, Alves JM, Pereira P, ..., Andersson L, Carneiro M
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Chemical Biology Consortium Sweden (CBCS) [Service]
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Schneider K, Steward RA, Celorio-Mancera MdlP, ..., Wheat CW, Nylin S
Mol. Ecol. 33 (16) e17479 [2024-08-00; online 2024-07-22]
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I Fernández-Avila A, Gutiérrez-Ibanes E, Martín de Miguel I, ..., Correa R, Bermejo J
Int J Cardiol Heart Vasc 53 (-) 101438 [2024-08-00; online 2024-06-04]
Affinity Proteomics Stockholm [Service]
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Bojmar L, Zambirinis CP, Hernandez JM, ..., Jarnagin WR, Lyden D
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Mucosal Immunol 17 (4) 509-523 [2024-08-00; online 2024-03-15]
Integrated Microscopy Technologies Gothenburg [Service]
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Affinity Proteomics Uppsala [Service]
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Eur J Nutr 63 (5) 1819-1833 [2024-08-00; online 2024-04-17]
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Effects of livestock on arthropod biodiversity in Iberian holm oak savannas revealed by metabarcoding.
Canelo T, Marquina D, Chozas S, ..., Pérez-Izquierdo C, Bonal R
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Bioinformatics Support for Computational Resources [Service]
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Duan T, Zhang Z, Genete M, ..., Castric V, Vekemans X
Evolution Letters 8 (4) 550-560 [2024-08-00; online 2024-03-17]
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Detection of transcriptome-wide microRNA-target interactions in single cells with agoTRIBE.
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Nat. Biotechnol. 42 (8) 1296-1302 [2024-08-00; online 2023-09-21]
Bioinformatics Support for Computational Resources [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Coupling of twelve putative chromosomal inversions maintains a strong barrier to gene flow between snail ecotypes.
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Lysenkova Wiklander M, Arvidsson G, Bunikis I, ..., Ameur A, Nordlund J
Life Sci. Alliance 7 (8) - [2024-08-00; online 2024-05-22]
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Ruiz M, Devkota R, Bergh PO, ..., Borén J, Pilon M
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Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
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PubMed DOI Crossref
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Bioinformatics Support for Computational Resources [Service]
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Comparative Genomic Analysis of the Pattern of Evolution of Male and Female Reproductive Proteins in Seed Beetles.
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Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service]
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Unravelling reference bias in ancient DNA datasets.
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Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Affinity Proteomics Uppsala [Service] Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] Spatial Mass Spectrometry [Collaborative]
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Affinity Proteomics Uppsala [Service]
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Chromosome-level genome assembly and annotation of the social amoeba Dictyostelium firmibasis.
Edelbroek B, Kjellin J, Jerlström-Hultqvist J, Koskiniemi S, Söderbom F
Sci Data 11 (1) 678 [2024-06-22; online 2024-06-22]
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Lokhande L, Nilsson D, de Matos Rodrigues J, ..., Jerkeman M, Ek S
Cancers (Basel) 16 (13) - [2024-06-21; online 2024-06-21]
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Glycoproteomics and MS Proteomics [Collaborative]
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Cell Death Dis 15 (6) 436 [2024-06-20; online 2024-06-20]
Swedish Metabolomics Centre (SMC) [Service]
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Sci Rep 14 (1) 14118 [2024-06-19; online 2024-06-19]
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BMC Microbiol. 24 (1) 215 [2024-06-19; online 2024-06-19]
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Ghasemi S, Shamsabadi M, Olesund A, ..., Dreos A, Moth-Poulsen K
Chemistry 30 (34) e202400322 [2024-06-17; online 2024-05-22]
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Int J Mol Sci 25 (12) - [2024-06-17; online 2024-06-17]
Clinical Genomics [Technology development] Clinical Genomics Uppsala [Technology development]
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Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
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Curr. Biol. 34 (12) 2702-2711.e6 [2024-06-17; online 2024-05-21]
Bioinformatics Support for Computational Resources [Service]
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Food Chem 443 (-) 138612 [2024-06-15; online 2024-01-28]
Swedish Metabolomics Centre (SMC) [Service]
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Intra-Individual Variations in How Insulin Sensitivity Responds to Long-Term Exercise: Predictions by Machine Learning Based on Large-Scale Serum Proteomics.
Viken JK, Olsen T, Drevon CA, ..., Norheim F, Lee-Ødegård S
Metabolites 14 (6) - [2024-06-15; online 2024-06-15]
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Herring M, Persson A, Potter R, ..., Särndahl E, Ejdebäck M
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Integrated Microscopy Technologies Gothenburg [Service]
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Casselbrant A, Elias E, Hallersund P, ..., Fändriks L, Wallenius V
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Integrated Microscopy Technologies Gothenburg [Service]
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Öfverholm I, Wallander K, Haglund C, ..., Lin Y, Haglund de Flon F
Clin. Cancer Res. 30 (12) 2647-2658 [2024-06-14; online 2024-04-04]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Minerals 14 (6) 608 [2024-06-13; online 2024-06-13]
Integrated Microscopy Technologies Umeå [Service]
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Nat Commun 15 (1) 4941 [2024-06-12; online 2024-06-12]
Integrated Microscopy Technologies Stockholm [Technology development]
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Lobo V, Shcherbinina E, Westholm JO, ..., Anastasakis DG, Sarshad AA
Sci Data 11 (1) 617 [2024-06-12; online 2024-06-12]
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Masarapu Y, Cekanaviciute E, Andrusivova Z, ..., Costes SV, Giacomello S
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Appleton E, Khosousi S, Ta M, ..., Iwaki H, Svenningsson P
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Affinity Proteomics Stockholm [Service]
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Zhang Y, Xie G, Lee JE, ..., Ge K, Kutateladze TG
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Swedish NMR Centre (SNC) [Collaborative]
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Deconwolf enables high-performance deconvolution of widefield fluorescence microscopy images.
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G3 (Bethesda) 14 (6) - [2024-06-05; online 2024-04-24]
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Gulati A, Kokane S, Perez-Boerema A, ..., Matsuoka R, Drew D
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Swedish NMR Centre (SNC) [Service]
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Affinity Proteomics Stockholm [Collaborative]
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Swedish NMR Centre (SNC) [Collaborative]
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Recktenwald CV, Karlsson G, Garcia-Bonete MJ, ..., Hansson GC, Trillo-Muyo S
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Swedish NMR Centre (SNC) [Collaborative]
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Species-specific dynamics may cause deviations from general biogeographical predictions - evidence from a population genomics study of a New Guinean endemic passerine bird family (Melampittidae).
Müller IA, Thörn F, Rajan S, ..., Jønsson KA, Irestedt M
PLoS ONE 19 (5) e0293715 [2024-05-23; online 2024-05-23]
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Sci Rep 14 (1) 11706 [2024-05-22; online 2024-05-22]
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The Gly82Ser polymorphism in the receptor for advanced glycation endproducts increases the risk for coronary events in the general population.
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Affinity Proteomics Uppsala [Service]
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Cryo-EM [Service]
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Talanta 272 (-) 125743 [2024-05-15; online 2024-02-03]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Affinity Proteomics Uppsala [Service]
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Ou JH, Rönneburg T, Carlborg Ö, ..., Siegel PB, Rubin CJ
PLoS ONE 19 (5) e0295109 [2024-05-13; online 2024-05-13]
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BMC Genomics 25 (1) 459 [2024-05-10; online 2024-05-10]
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BMC Biol. 22 (1) 103 [2024-05-03; online 2024-05-03]
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Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Clin Transl Immunology 13 (5) e1508 [2024-05-02; online 2024-05-02]
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PubMed DOI Crossref
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Item response theory analysis of daytime sleepiness as a symptom of obstructive sleep apnea.
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In situ seasonal patterns of root auxin concentrations and meristem length in an arctic sedge.
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Noerman S, Johansson A, Shi L, ..., Brunius C, Landberg R
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Bioinformatics Support for Computational Resources [Service]
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Glycoproteomics and MS Proteomics [Service]
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Bioinformatics Support for Computational Resources [Service]
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Affinity Proteomics Uppsala [Service]
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Swedish NMR Centre (SNC) [Service]
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Bioinformatics Support for Computational Resources [Service]
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- - (-) - [2024-04-17; online 2024-04-17]
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Bioinformatics Support for Computational Resources [Service]
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J. Mol. Biol. 436 (6) 168490 [2024-03-15; online 2024-02-13]
Bioinformatics Support for Computational Resources [Service]
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Comparison of SARS-CoV-2 spike-specific IgA and IgG in nasal secretions, saliva and serum.
Bladh O, Aguilera K, Marking U, ..., Thålin C, Åberg M
Front Immunol 15 (-) 1346749 [2024-03-15; online 2024-03-15]
Affinity Proteomics Uppsala [Technology development]
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Biochemical analysis of the endoribonuclease activity of the human mitochondrial topoisomerase 1
Bader CPJ, Kasho E, Forslund JME, Wessels M, Wanrooij PH
- - (-) - [2024-03-15; online 2024-03-15]
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Söderqvist S, Viljamaa A, Geyer N, ..., Moro CF, Gerling M
- - (-) - [2024-03-15; online 2024-03-15]
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Petermeier P, Bittner JP, Jonsson T, ..., Byström E, Kara S
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Swedish NMR Centre (SNC) [Service]
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Dimitriou M, Mortera-Blanco T, Tobiasson M, ..., Woll PS, Jacobsen SEW
Blood 143 (11) 953-966 [2024-03-14; online 2023-12-14]
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Saldova R, Thomsson KA, Wilkinson H, ..., Karlsson NG, Knaus UG
PLoS ONE 19 (3) e0297292 [2024-03-14; online 2024-03-14]
Glycoproteomics and MS Proteomics [Collaborative]
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Cell-Mediated Proteomics, and Serological and Mucosal Humoral Immune Responses after Seasonal Influenza Immunization: Characterization of Serological Responders and Non-Responders.
Carlsson H, Brudin L, Serrander L, Hinkula J, Tjernberg I
Vaccines (Basel) 12 (3) - [2024-03-14; online 2024-03-14]
Affinity Proteomics Uppsala [Service]
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Gençer EB, Lor YK, Abomaray F, ..., Walther-Jallow L, Götherström C
Stem Cell Res Ther 15 (1) 77 [2024-03-13; online 2024-03-13]
Global Proteomics and Proteogenomics [Service]
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Neutralizing IFN-γ autoantibodies are rare and pathogenic in HLA-DRB1*15:02 or 16:02 individuals.
Peel JN, Yang R, Le Voyer T, ..., Ku CL, Casanova JL
J. Clin. Invest. 134 (8) - [2024-03-12; online 2024-03-12]
Autoimmunity and Serology Profiling [Service]
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Complete reference genomes of two ceftriaxone-resistant Neisseria gonorrhoeae strains identified in routine surveillance in Bangkok, Thailand, using Nanopore Q20+ chemistry, VolTRAX V2b, and Illumina sequencing.
Sangprasert P, Golparian D, Paopang P, ..., Kittiyaowanarn R, Unemo M
Microbiol Resour Announc 13 (3) e0123123 [2024-03-12; online 2024-02-01]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Biofilm colonization and succession in a full-scale partial nitritation-anammox moving bed biofilm reactor.
Suarez C, Rosenqvist T, Dimitrova I, ..., Hermansson M, Persson F
Microbiome 12 (1) 51 [2024-03-12; online 2024-03-12]
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Cardiac biopsies reveal differences in transcriptomics between left and right ventricle in patients with or without diagnostic signs of heart failure.
Frisk C, Das S, Eriksson MJ, ..., Linde C, Persson B
Sci Rep 14 (1) 5811 [2024-03-09; online 2024-03-09]
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Nuclear RNAi Modulates Influenza A Virus Infectivity By Downregulating Type-I Interferon Response
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- - (-) - [2024-03-07; online 2024-03-07]
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Identification of microbial pathogens in Neolithic Scandinavian humans.
Bergfeldt N, Kırdök E, Oskolkov N, ..., Storå J, Götherström A
Sci Rep 14 (1) 5630 [2024-03-07; online 2024-03-07]
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AutonoMS: Automated Ion Mobility Metabolomic Fingerprinting.
Reder GK, Bjurström EY, Brunnsåker D, ..., McLean JA, King RD
J. Am. Soc. Mass Spectrom. 35 (3) 542-550 [2024-03-06; online 2024-02-04]
Chalmers Mass Spectrometry Infrastructure [Technology development]
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The serological immunogenicity of the third and fourth doses of COVID-19 vaccine in patients with inflammatory rheumatic diseases on different biologic or targeted DMARDs: a Swedish nationwide study (COVID-19-REUMA).
Frodlund M, Nived P, Chatzidionysiou K, ..., Klareskog L, Kapetanovic M
Microbiol Spectr - (-) e0298123 [2024-03-05; online 2024-03-05]
Autoimmunity and Serology Profiling [Service]
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Loss of chromosome Y in regulatory T cells.
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BMC Genomics 25 (1) 243 [2024-03-05; online 2024-03-05]
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Genomic ancestry and social dynamics of the last hunter-gatherers of Atlantic France.
Simões LG, Peyroteo-Stjerna R, Marchand G, ..., Günther T, Jakobsson M
Proc. Natl. Acad. Sci. U.S.A. 121 (10) e2310545121 [2024-03-05; online 2024-02-26]
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Biohybrid Energy Storage Circuits Based on Electronically Functionalized Plant Roots.
Parker D, Dar AM, Armada-Moreira A, ..., Mantione D, Stavrinidou E
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Nat Commun 15 (1) 1950 [2024-03-02; online 2024-03-02]
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Swedish NMR Centre (SNC) [Service]
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High-Quality Genome Assemblies of 4 Members of the Podospora anserina Species Complex.
Ament-Velásquez SL, Vogan AA, Wallerman O, ..., Giraud T, Johannesson H
Genome Biol Evol 16 (3) - [2024-03-02; online 2024-02-22]
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Barmpatsalou V, Tjakra M, Li L, ..., Pedersen Lomstein B, Bergström CAS
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Aberrant MNX1 expression associated with t(7;12)(q36;p13) pediatric acute myeloid leukemia induces the disease through altering histone methylation.
Waraky A, Östlund A, Nilsson T, ..., Plass C, Palmqvist L
Haematologica 109 (3) 725-739 [2024-03-01; online 2024-03-01]
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The regulation of methylation on the Z chromosome and the identification of multiple novel Male Hyper-Methylated regions in the chicken.
Höglund A, Henriksen R, Churcher AM, ..., Jensen P, Wright D
PLoS Genet. 20 (3) e1010719 [2024-03-00; online 2024-03-08]
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Grassmann F, Mälarstig A, Dahl L, ..., Schwenk JM, Czene K
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Affinity Proteomics Stockholm [Collaborative] Bioinformatics Support for Computational Resources [Service]
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The astrocyte-produced growth factor HB-EGF limits autoimmune CNS pathology.
Linnerbauer M, Lößlein L, Vandrey O, ..., Quintana FJ, Rothhammer V
Nat. Immunol. 25 (3) 432-447 [2024-03-00; online 2024-02-26]
Bioinformatics Support for Computational Resources [Service]
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Temporal stability of fecal metabolomic profiles in irritable bowel syndrome.
Iribarren C, Savolainen O, Sapnara M, ..., Magnusson MK, Öhman L
Neurogastroenterol. Motil. 36 (3) e14741 [2024-03-00; online 2024-01-19]
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Papoutsoglou P, Pineau R, Leroux R, ..., Aubry M, Coulouarn C
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Subcutaneous Marzeptacog Alfa (Activated) for On-Demand Treatment of Bleeding Events in Subjects With Hemophilia A or B With Inhibitors.
Faraj A, Nyberg J, Blouse GE, Knudsen T, Simonsson USH
Clin. Pharmacol. Ther. 115 (3) 498-505 [2024-03-00; online 2024-01-16]
Bioinformatics Support for Computational Resources [Service]
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Sorption of pharmaceuticals to foam and aerobic granular sludge with different morphologies
Burzio C, Mohammadi AS, Smith S, ..., Persson F, Wilén BM
Resources, Environment and Sustainability 15 (-) 100149 [2024-03-00; online 2024-03-00]
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Rare coding variants in NOX4 link high ROS levels to psoriatic arthritis mutilans.
Wang S, Nikamo P, Laasonen L, ..., Ståhle M, Tapia-Paez I
EMBO Mol Med 16 (3) 596-615 [2024-03-00; online 2024-02-20]
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Aguilera K, Bladh O, Marking U, ..., Alm JJ, Thålin C
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Jedal JYB, Malmendal A, Ramløv H
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Swedish NMR Centre (SNC) [Service]
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Machine learning predicts system-wide metabolic flux control in cyanobacteria.
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Bioinformatics Support for Computational Resources [Service]
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Kupffer cells dictate hepatic responses to the atherogenic dyslipidemic insult.
Di Nunzio G, Hellberg S, Zhang Y, ..., Olofsson PS, Malin SG
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Human PRH1, PRH2 susceptibility and resistance and Streptococcus mutans virulence phenotypes specify different microbial profiles in caries.
Sheng N, Mårell L, Sitaram RT, ..., Westerlund A, Strömberg N
EBioMedicine 101 (-) 105001 [2024-03-00; online 2024-02-15]
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Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]
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Heredity (Edinb) 132 (3) 142-155 [2024-03-00; online 2024-01-30]
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Enhancer mutations modulate the severity of chemotherapy-induced myelosuppression.
Zhigulev A, Norberg Z, Cordier J, ..., Gréen H, Sahlén P
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Fuentes-Pardo AP, Stanley R, Bourne C, ..., Andersson L, Ruzzante DE
Evol Appl 17 (3) e13675 [2024-03-00; online 2024-03-14]
Bioinformatics Support for Computational Resources [Service]
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Whole genome case-control study of central nervous system toxicity due to antimicrobial drugs.
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PLoS ONE 19 (2) e0299075 [2024-02-29; online 2024-02-29]
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Rengefors K, Annenkova N, Wallenius J, ..., Kremp A, Ahrén D
Sci Rep 14 (1) 4986 [2024-02-29; online 2024-02-29]
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Sele C, Krupinska E, Andersson Rasmussen A, ..., Fisher SZ, Knecht W
Nucleosides Nucleotides Nucleic Acids - (-) 1-15 [2024-02-29; online 2024-02-29]
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The FASEB Journal 38 (4) - [2024-02-29; online 2024-02-26]
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BMC Plant Biol. 24 (1) 144 [2024-02-28; online 2024-02-28]
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Subcellular protein turnover in human neural progenitor cells revealed by correlative electron microscopy and nanoscale secondary ion mass spectrometry imaging.
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Fonseca NM, Maurice-Dror C, Herberts C, ..., Chi KN, Wyatt AW
Nat Commun 15 (1) 1828 [2024-02-28; online 2024-02-28]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Chen JP, Diekmann C, Wu H, ..., Bienko M, Crosetto N
Nat Commun 15 (1) 1768 [2024-02-27; online 2024-02-27]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Tumor Predisposing Post-Zygotic Chromosomal Alterations in Bladder Cancer-Insights from Histologically Normal Urothelium.
Stańkowska W, Sarkisyan D, Bruhn-Olszewska B, ..., Filipowicz N, Dumanski JP
Cancers (Basel) 16 (5) - [2024-02-27; online 2024-02-27]
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Kinsolving J, Bous J, Kozielewicz P, ..., Dong M, Schulte G
Cell Rep 43 (2) 113727 [2024-02-27; online 2024-02-02]
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Primary cilia promote the differentiation of human neurons through the WNT signaling pathway.
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Gene flow and an anomaly zone complicate phylogenomic inference in a rapidly radiated avian family (Prunellidae).
Jiang Z, Zang W, Ericson PGP, ..., Lei F, Qu Y
BMC Biol. 22 (1) 49 [2024-02-27; online 2024-02-27]
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Equine enteroid-derived monolayers recapitulate key features of parasitic intestinal nematode infection.
Hellman S, Martin F, Tydén E, ..., Svedberg P, Fossum C
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Integrated Microscopy Technologies Umeå [Service]
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Epigenome-wide analysis of frailty: Results from two European twin cohorts.
Mak JKL, Skovgaard AC, Nygaard M, ..., Soerensen M, Jylhävä J
Aging Cell - (-) e14135 [2024-02-27; online 2024-02-27]
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Intestinal stroma guides monocyte differentiation to macrophages through GM-CSF.
Kvedaraite E, Lourda M, Mouratidou N, ..., Henter JI, Svensson M
Nat Commun 15 (1) 1752 [2024-02-26; online 2024-02-26]
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Xu T, Novotny A, Zamora-Terol S, Hambäck PA, Winder M
Microb. Ecol. 87 (1) 48 [2024-02-26; online 2024-02-26]
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Associations of the placental metabolome with immune maturation up to one year of age in the Swedish NICE-cohort.
Hartvigsson O, Barman M, Rabe H, ..., Brunius C, Sandberg A
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UV-Induced Spectral and Morphological Changes in Bacterial Spores for Inactivation Assessment.
Öberg R, Sil TB, Johansson AC, ..., Andersson M, Andersson PO
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Integrated Microscopy Technologies Umeå [Service]
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No link between type I interferon autoantibody positivity and adverse reactions to COVID-19 vaccines.
Yalcinkaya A, Cavalli M, Cederholm A, ..., Wadelius M, Landegren N
NPJ Vaccines 9 (1) 42 [2024-02-22; online 2024-02-22]
Autoimmunity and Serology Profiling [Service]
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The effect of nitrogen source and levels on hybrid aspen tree physiology and wood formation.
Renström A, Choudhary S, Gandla ML, ..., Jämtgård S, Tuominen H
Physiol Plantarum 176 (1) e14219 [2024-02-21; online 2024-02-21]
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Spatial Neurolipidomics at the Single Amyloid-β Plaque Level in Postmortem Human Alzheimer's Disease Brain.
Michno W, Bowman A, Jha D, ..., Heeren RMA, Hanrieder J
ACS Chem Neurosci 15 (4) 877-888 [2024-02-21; online 2024-02-01]
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Omega-3 and -6 Fatty Acids Alter the Membrane Lipid Composition and Vesicle Size to Regulate Exocytosis and Storage of Catecholamines.
Gu C, Philipsen MH, Ewing AG
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Inhibition of Insulin-Regulated Aminopeptidase by Imidazo [1,5-α]pyridines-Synthesis and Evaluation.
Engen K, Lundbäck T, Yadav A, ..., Hallberg M, Larhed M
Int J Mol Sci 25 (5) - [2024-02-21; online 2024-02-21]
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Xiong Y, Kullberg S, Garman L, ..., Padyukov L, Rivera NV
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PubMed DOI Crossref
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PubMed DOI Crossref
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Grujčić V, Saarenpää S, Sundh J, ..., Foster RA, Andersson AF
PLoS ONE 19 (1) e0296672 [2024-01-19; online 2024-01-19]
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Clouard C, Nettelblad C
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Kırdök E, Kashuba N, Damlien H, ..., Aravena A, Götherström A
Sci Rep 13 (1) 22125 [2024-01-18; online 2024-01-18]
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Microb. Ecol. 87 (1) 33 [2024-01-18; online 2024-01-18]
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Leo F, Lood R, Thomsson KA, ..., Svensäter G, Wickström C
Front Microbiol 15 (-) 1340109 [2024-01-18; online 2024-01-18]
Glycoproteomics and MS Proteomics [Collaborative]
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J Clin Immunol 44 (2) 50 [2024-01-17; online 2024-01-17]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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PubMed DOI Crossref
OMICs Signatures Linking Persistent Organic Pollutants to Cardiovascular Disease in the Swedish Mammography Cohort.
Schillemans T, Yan Y, Ribbenstedt A, ..., Åkesson A, Brunius C
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- - (-) - [2024-01-16; online 2024-01-16]
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Erythroid Differentiation Enhances RNA Mis-Splicing in SF3B1-Mutant Myelodysplastic Syndromes with Ring Sideroblasts.
Moura PL, Mortera-Blanco T, Hofman IJ, ..., Jacobsen SEW, Hellström-Lindberg E
Cancer Res. 84 (2) 211-225 [2024-01-16; online 2023-11-03]
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Angew. Chem. Int. Ed. Engl. 63 (3) e202316488 [2024-01-15; online 2023-12-07]
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Drexhage LZ, Zhang S, Dupont M, ..., Karaji N, Sattentau QJ
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ACS Sustainable Chem. Eng. - (-) - [2024-01-12; online 2024-01-12]
Swedish NMR Centre (SNC) [Service]
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Ozerov MY, Noreikiene K, Kahar S, ..., Gross R, Vasemägi A
Comp Biochem Physiol B Biochem Mol Biol 271 (-) 110941 [2024-01-11; online 2024-01-11]
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Elife 12 (-) - [2024-01-08; online 2024-01-08]
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Integrated Microscopy Technologies Umeå [Service]
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Bouyssié D, Altıner P, Capella-Gutierrez S, ..., Winkelhardt D, Schwämmle V
J. Proteome Res. 23 (1) 418-429 [2024-01-05; online 2023-12-01]
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Genome Biol Evol 16 (1) - [2024-01-05; online 2023-12-29]
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Braune EB, Geist F, Tang X, ..., Wienke D, Lendahl U
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Hunt G, Vaid R, Pirogov S, ..., Reimegård J, Mannervik M
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Functional annotation of a divergent genome using sequence and structure-based similarity.
Svedberg D, Winiger RR, Berg A, ..., Vossbrinck CR, Barandun J
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Metastasis and recurrence patterns in the molecular subtypes of urothelial bladder cancer.
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Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Global Transcriptome Analysis Reveals Distinct Phases of the Endothelial Response to TNF.
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Astrocytic Regulation of Endocannabinoid-Dependent Synaptic Plasticity in the Dorsolateral Striatum.
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Integrated Microscopy Technologies Gothenburg [Service]
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Hoyer A, Chakraborty S, Lilienthal I, ..., Katayama S, Söderhäll C
Immun Inflamm Dis 12 (1) e1162 [2024-01-00; online 2024-01-25]
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Barde S, Aguila J, Zhong W, ..., Hedlund E, Hökfelt T
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PubMed DOI Crossref
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Bioinformatics Support for Computational Resources [Service]
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Kurland S, Saha A, Keehnen N, ..., Ryman N, Laikre L
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre (SMC) [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Birth Weight, Childhood and Young Adult Overweight, and the Risk of Coronary Heart Disease in Men.
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Feng M, Zhang A, Nguyen V, ..., Carlsbecker A, Melnyk CW
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- - (-) - [2024-00-00; online 2024-00-00]
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Dinh VM, Khokarale SG, May PO, ..., Irgum K, Mikkola JP
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A surface passivated fluorinated polymer nanocomposite for carbon monoxide resistant plasmonic hydrogen sensing
Östergren I, Darmadi I, Lerch S, ..., Langhammer C, Müller C
J. Mater. Chem. A 12 (13) 7906-7915 [2024-00-00; online 2024-00-00]
Integrated Microscopy Technologies Gothenburg [Service]
DOI Crossref
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Genetics in Medicine Open 2 (-) 101863 [2024-00-00; online 2024-00-00]
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Proteomic profiles associated with postsurgical progression in non-functioning pituitary adenomas.
Hallén T, Johannsson G, Thorsell A, ..., Bergquist J, Skoglund T
J. Clin. Endocrinol. Metab. - (-) - [2023-12-29; online 2023-12-29]
Glycoproteomics and MS Proteomics [Collaborative]
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Casas PG, Rossini M, Påvénius L, ..., Pizzo P, Filadi R
- - (-) - [2023-12-28; online 2023-12-28]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Kolonelou C, Bräutigam L, Edwards S, ..., Andersson O, Teixeira AI
- - (-) - [2023-12-23; online 2023-12-23]
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Ray S, Narayanan A, Vesterbacka J, ..., Sönnerborg A, Nowak P
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Berggren H, Nordahl O, Yıldırım Y, ..., Tibblin P, Forsman A
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Anal. Chem. 95 (50) 18352-18360 [2023-12-19; online 2023-12-07]
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Brismar H, Senftleben M, Bajor A, Hirata E, Abrahamsson S
- - (-) - [2023-12-19; online 2023-12-19]
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Hafstað V, Häkkinen J, Larsson M, ..., Vallon-Christersson J, Persson H
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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- - (-) - [2023-12-18; online 2023-12-18]
Cryo-EM [Service]
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Nat Commun 14 (1) 8410 [2023-12-18; online 2023-12-18]
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J Comput Aided Mol Des 38 (1) 5 [2023-12-16; online 2023-12-16]
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- 38 (4) 619-631 [2023-12-15; online 2023-09-26]
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Akuwudike P, López-Riego M, Marczyk M, ..., Wojcik A, Lundholm L
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Abadikhah M, Liu M, Persson F, ..., Sun J, Modin O
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Arnqvist G, Westerberg I, Galbraith J, ..., Ewels P, Suh A
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Bioinformatics Support for Computational Resources [Service]
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Affinity Proteomics Stockholm [Service] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Circ Genom Precis Med 16 (6) e004233 [2023-12-00; online 2023-11-28]
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Swedish NMR Centre (SNC) [Service]
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Mol. Cell Proteomics 22 (12) 100684 [2023-12-00; online 2023-11-21]
Glycoproteomics and MS Proteomics [Collaborative]
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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- - (-) - [2023-11-30; online 2023-11-30]
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Identification of constrained sequence elements across 239 primate genomes.
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Pathogenic DDX41 variants, possible response predictors to low-dose melphalan in hypo- and normocellular MDS and AML.
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Cell Rep 42 (11) 113372 [2023-11-28; online 2023-11-08]
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- - (-) - [2023-11-27; online 2023-11-27]
Bioinformatics Support for Computational Resources [Service]
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Metabolomic profiles of intact tissues reflect clinically relevant prostate cancer subtypes.
Dudka I, Lundquist K, Wikström P, Bergh A, Gröbner G
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Swedish NMR Centre (SNC) [Collaborative]
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Infants' looking preferences for social versus non-social objects reflect genetic variation.
Portugal AM, Viktorsson C, Taylor MJ, ..., Ronald A, Falck-Ytter T
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DNA elements tether canonical Polycomb Repressive Complex 1 to human genes.
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NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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RecView: an interactive R application for locating recombination positions using pedigree data.
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Sci Rep 13 (1) 20648 [2023-11-24; online 2023-11-24]
Drug Discovery and Development (DDD) [Collaborative]
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Evaluation of circulating plasma proteins in breast cancer using Mendelian randomisation.
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Swedish NMR Centre (SNC) [Collaborative]
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The heat shock protein LarA activates the Lon protease in response to proteotoxic stress.
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Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Clinical, genetic and structural delineation of RPL13-related spondyloepimetaphyseal dysplasia suggest extra-ribosomal functions of eL13.
Jacob P, Lindelöf H, Rustad CF, ..., Girisha KM, Grigelioniene G
npj Genom. Med. 8 (1) 39 [2023-11-22; online 2023-11-22]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Changes in cell wall composition due to a pectin biosynthesis enzyme GAUT10 impact root growth.
Dash L, Swaminathan S, Šimura J, ..., Zabotina OA, Kelley DR
Plant Physiol. 193 (4) 2480-2497 [2023-11-22; online 2023-08-22]
Swedish Metabolomics Centre (SMC) [Service]
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Neves A, Cuesta I, Hjerde E, ..., Waheed Z, Blomberg N
Front Public Health 11 (-) - [2023-11-21; online 2023-11-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Elucidation of the Binding Orientation in α2,3- and α2,6-Linked Neu5Ac-Gal Epitopes toward a Hydrophilic Molecularly Imprinted Monolith.
Huynh CM, Mavliutova L, Sparrman T, Sellergren B, Irgum K
ACS Omega 8 (46) 44238-44249 [2023-11-21; online 2023-11-06]
Swedish NMR Centre (SNC) [Collaborative]
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Complex norovirus transmission dynamics at hospital wards revealed by deep sequencing.
Widström J, Andersson ME, Westin J, ..., Lindh M, Rydell GE
J. Clin. Microbiol. 61 (11) e0060823 [2023-11-21; online 2023-10-27]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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González-López A, Larsson DSD, Koripella RK, ..., Sanyal S, Selmer M
- - (-) - [2023-11-20; online 2023-11-20]
Cryo-EM [Service]
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Molecular view of ER membrane remodeling by the Sec61/TRAP translocon.
Karki S, Javanainen M, Rehan S, ..., Happonen L, Paavilainen V
EMBO Rep. - (-) e57910 [2023-11-20; online 2023-11-20]
Structural Proteomics [Collaborative]
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Stråvik M, Hartvigsson O, Noerman S, ..., Barman M, Sandberg AS
- - (-) - [2023-11-20; online 2023-11-20]
Chalmers Mass Spectrometry Infrastructure [Service]
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Mahdi A, Zhao A, Fredengren E, ..., Pernow J, Ståhlberg M
Sci Rep 13 (1) 20230 [2023-11-19; online 2023-11-19]
Affinity Proteomics Uppsala [Service] NGI Proteomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Rodríguez-Gijón A, Hampel JJ, Dharamshi J, Bertilsson S, Garcia SL
Sci Data 10 (1) 810 [2023-11-17; online 2023-11-17]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Serum DHEA and Testosterone Levels Associate Inversely With Coronary Artery Calcification in Elderly Men.
Ohlsson C, Nethander M, Norlén A, ..., Gudnason V, Tivesten Å
J. Clin. Endocrinol. Metab. 108 (12) 3272-3279 [2023-11-17; online 2023-07-01]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
Patient-derived xenografts and single-cell sequencing identifies three subtypes of tumor-reactive lymphocytes in uveal melanoma metastases
Karlsson J, Sah VR, Olofsson R, ..., Nilsson LM, Nilsson JA
eLife - (-) - [2023-11-16]
Spatial Proteomics [Service]
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Structure and function of the S. pombe III-IV-cyt c supercomplex.
Moe A, Dimogkioka AR, Rapaport D, Öjemyr LN, Brzezinski P
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Lopes-Rodrigues V, Nyantakyi SA, Lun X, ..., Senger DL, Ibáñez CF
- - (-) - [2023-11-14; online 2023-11-14]
Chemical Biology Consortium Sweden (CBCS) [Service]
Following the herd: Population genetics of European sheep in time and space
Morell Miranda P
Digital Comprehensive Summaries of Uppsala Dissertations from the Faculty of Science and Technology - (-) - [2023-11-14; online 2023-11-14]
Ancient DNA [Service]
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Development and validation of a quantitative Proximity Extension Assay instrument with 21 proteins associated with cardiovascular risk (CVD-21).
Siegbahn A, Eriksson N, Assarsson E, ..., Åberg M, Wallentin L
PLoS ONE 18 (11) e0293465 [2023-11-14; online 2023-11-14]
Affinity Proteomics Uppsala [Collaborative]
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Hedberg Alm Y, Halvarsson P, Martin F, ..., Törngren V, Tydén E
International Journal for Parasitology: Drugs and Drug Resistance 23 (-) 78-86 [2023-11-14; online 2023-11-14]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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SNP-based high-resolution typing of Chlamydia psittaci from humans and wild birds in Sweden: circulation of the Mat116 genotype reveals the transmission mode to humans.
Herrmann B, Aaziz R, Kaden R, ..., Sandelin LL, Laroucau K
Microbes Infect 26 (3) 105251 [2023-11-11; online 2023-11-11]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Whole-genome resequencing facilitates the development of a 50K single nucleotide polymorphism genotyping array for Scots pine (Pinus sylvestris L.) and its transferability to other pine species.
Estravis Barcala M, van der Valk T, Chen Z, ..., Nilsson O, Wu HX
Plant J. - (-) - [2023-11-10; online 2023-11-10]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
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A Gradual Transition Toward Anaplasia in Wilms Tumor Through Tolerance to Genetic Damage.
Uno K, Rastegar B, Jansson C, ..., Mengelbier LH, Gisselsson D
Mod. Pathol. 37 (1) 100382 [2023-11-10; online 2023-11-10]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Vogt EC, Bratland E, Berland S, ..., Husebye E, Øksnes M
Hum. Reprod. - (-) - [2023-11-09; online 2023-11-09]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Single-cell transcriptomics of human traumatic brain injury reveals activation of endogenous retroviruses in oligodendroglia.
Garza R, Sharma Y, Atacho DAM, ..., Jakobsson J, Marklund N
Cell Rep - (-) 113395 [2023-11-08; online 2023-11-08]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Quatela AS, Cangren P, Jafari F, ..., de Boer H, Oxelman B
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Eurasian back-migration into Northeast Africa was a complex and multifaceted process.
Hammarén R, Goldstein ST, Schlebusch CM
PLoS ONE 18 (11) e0290423 [2023-11-08; online 2023-11-08]
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Activity and Stability of Nanoconfined Alpha-Amylase in Mesoporous Silica
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Swedish NMR Centre (SNC) [Collaborative]
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TGF-β induces matrisome pathological alterations and EMT in patient-derived prostate cancer tumoroids.
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Willink B, Tunström K, Nilén S, ..., Svensson EI, Wheat CW
Nat Ecol Evol - (-) - [2023-11-06; online 2023-11-06]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Regulation of the general stress response sigma factor σT by Lon-mediated proteolysis.
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Wu J, Ling Z, Franco LR, ..., Anthopoulos TD, Wang E
Angew. Chem. Int. Ed. Engl. 62 (45) e202302888 [2023-11-06; online 2023-07-18]
Swedish NMR Centre (SNC) [Service]
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Unger L, Skoluda S, Backman E, ..., Naglik JR, Urban CF
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Nucleic Acids Res. - (-) - [2023-11-06; online 2023-11-06]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Antigen-presenting autoreactive B cells activate regulatory T cells and suppress autoimmune arthritis in mice.
Aoun M, Coelho A, Krämer A, ..., Burkhardt H, Holmdahl R
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Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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LINE-1 retrotransposons drive human neuronal transcriptome complexity and functional diversification.
Garza R, Atacho DAM, Adami A, ..., Douse CH, Jakobsson J
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Clinical Genomics [Service] Clinical Genomics Lund [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Chiaro J, Antignani G, Feola S, ..., Lehtiö J, Cerullo V
Nat Commun 14 (1) 7056 [2023-11-03; online 2023-11-03]
Global Proteomics and Proteogenomics [Technology development]
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Scandinavian Journal of Urology 57 (1-6) 2-9 [2023-11-02; online 2022-12-20]
Clinical Genomics [Collaborative] Clinical Genomics Lund [Collaborative]
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NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Novel PNKP mutations associated with reduced DNA single-strand break repair and severe microcephaly, seizures, and developmental delay.
Thuresson A, Brazina J, Akram T, ..., Soussi Zander C, Caldecott KW
Mol Genet Genomic Med - (-) e2295 [2023-11-02; online 2023-11-02]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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- - (-) - [2023-11-02; online 2023-11-02]
Cryo-EM [Service]
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Structure and dynamics of differential ligand binding in the human ρ-type GABAA receptor.
Cowgill J, Fan C, Haloi N, ..., Howard RJ, Lindahl E
Neuron 111 (21) 3450-3464.e5 [2023-11-01; online 2023-09-01]
Cryo-EM [Service]
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Fracasso I, Zaccone C, Oskolkov N, ..., Ventura M, Borruso L
Sci. Total Environ. 908 (-) 168159 [2023-11-01; online 2023-11-01]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Evidence of Site-Specific and Male-Biased Germline Mutation Rate in a Wild Songbird.
Zhang H, Lundberg M, Tarka M, Hasselquist D, Hansson B
Genome Biol Evol 15 (11) - [2023-11-01; online 2023-10-04]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Demographic reconstruction of the Western sheep expansion from whole-genome sequences.
Morell Miranda P, Soares AER, Günther T
G3 (Bethesda) 13 (11) - [2023-11-01; online 2023-09-07]
Bioinformatics Support for Computational Resources [Service]
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The intracellular helical bundle of human glucose transporter GLUT4 is important for complex formation with ASPL.
Huang P, Åbacka H, Varela D, ..., André I, Lindkvist-Petersson K
FEBS Open Bio 13 (11) 2094-2107 [2023-11-00; online 2023-09-28]
Structural Proteomics [Collaborative]
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Targeting oxidation sites on boreal acid sulfate soil macropore surfaces mitigates acid and metal release to recipient water streams
Högfors-Rönnholm E, Stén P, Christel S, ..., Dopson M, Engblom S
Applied Geochemistry 158 (-) 105779 [2023-11-00; online 2023-11-00]
Bioinformatics Support for Computational Resources [Service]
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Structure and electromechanical coupling of a voltage-gated Na+/H+ exchanger.
Yeo H, Mehta V, Gulati A, Drew D
Nature 623 (7985) 193-201 [2023-11-00; online 2023-10-25]
Cryo-EM [Service]
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Smoking affects epigenetic ageing of lung bronchoalveolar lavage cells in Multiple Sclerosis.
Klose D, Needhamsen M, Ringh MV, ..., Jagodic M, Kular L
Mult Scler Relat Disord 79 (-) 104991 [2023-11-00; online 2023-09-09]
Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Sheward DJ, Yang Y, Westerberg M, ..., Albert J, Murrell B
Lancet Infect Dis 23 (11) e462-e463 [2023-11-00; online 2023-09-27]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Protein profiling in plasma for biomarkers of seizure.
Akel S, Banote RK, Asztely F, Zelano J
Epilepsy Res 197 (-) 107241 [2023-11-00; online 2023-10-11]
Affinity Proteomics Stockholm [Service]
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Preanalytic handling of clinical blood samples in assessing immunological proteins - Role of storage duration.
Eren F, Schwieler L, Orhan F, ..., Engberg G, Erhardt S
Brain, Behavior, and Immunity 114 (-) 163-164 [2023-11-00; online 2023-08-16]
Affinity Proteomics Stockholm [Service]
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Physical activity in childhood and later risk of inflammatory bowel disease: A Scandinavian birth cohort study.
Lerchova T, Östensson M, Sigvardsson I, ..., Mårild K, Ludvigsson J
United European Gastroenterol J 11 (9) 874-883 [2023-11-00; online 2023-10-04]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Nutrient availability and grazing influence the strength of priority effects during freshwater bacterial community coalescence.
Lumpi T, Guo X, Lindström ES
Environ. Microbiol. 25 (11) 2289-2302 [2023-11-00; online 2023-06-28]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Long-Term Pollution Does Not Inhibit Denitrification and DNRA by Adapted Benthic Microbial Communities.
Broman E, Abdelgadir M, Bonaglia S, ..., Nascimento FJA, Sjöling S
Microb. Ecol. 86 (4) 2357-2372 [2023-11-00; online 2023-05-24]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Intramammary infections and risk factors in freshly calved heifers in Swedish dairy herds.
Persson Waller K, Lundberg Å, Börjesson S, Nyman AK
J Dairy Sci 106 (11) 7893-7907 [2023-11-00; online 2023-05-18]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Inclusion body myositis with early onset: a population-based study.
Lindgren U, Hedberg-Oldfors C, Pullerits R, Lindberg C, Oldfors A
J. Neurol. 270 (11) 5483-5492 [2023-11-00; online 2023-07-27]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Host Phylogeny Structures the Gut Bacterial Community Within Galerucella Leaf Beetles.
An Y, Braga MP, Garcia SL, Grudzinska-Sterno M, Hambäck PA
Microb. Ecol. 86 (4) 2477-2487 [2023-11-00; online 2023-06-14]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Graphene Oxide Attenuates Toxicity of Amyloid‐β Aggregates in Yeast by Promoting Disassembly and Boosting Cellular Stress Response
Chen X, Pandit S, Shi L, ..., Petranovic D, Mijakovic I
Adv Funct Materials 33 (45) - [2023-11-00; online 2023-07-07]
Integrated Microscopy Technologies Gothenburg [Service]
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Global blood miRNA profiling unravels early signatures of immunogenicity of Ebola vaccine rVSVΔG-ZEBOV-GP
Vianello E, Persson J, Andersson B, ..., Ottenhoff THM, Harandi AM
iScience - (-) 108574 [2023-11-00; online 2023-11-00]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Genotypic characterization of Staphylococcus chromogenes and Staphylococcus simulans from Swedish cases of bovine subclinical mastitis.
Persson Waller K, Myrenås M, Börjesson S, ..., Östlund E, Cha W
J Dairy Sci 106 (11) 7991-8004 [2023-11-00; online 2023-08-23]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Comprehensive analyses of circulating cardiometabolic proteins and objective measures of fat mass.
Titova OE, Brunius C, Warensjö Lemming E, ..., Michaëlsson K, Larsson SC
Int J Obes (Lond) 47 (11) 1043-1049 [2023-11-00; online 2023-08-07]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service]
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CGG toolkit: Software components for computational genomics.
Vasileiou D, Karapiperis C, Baltsavia I, ..., Enright AJ, Ouzounis CA
PLoS Comput. Biol. 19 (11) e1011498 [2023-11-00; online 2023-11-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Body Mass Index and the Risk of Rheumatic Disease: Linear and Nonlinear Mendelian Randomization Analyses.
Karlsson T, Hadizadeh F, Rask-Andersen M, Johansson Å, Ek WE
Arthritis & rheumatology (Hoboken, N.J.) 75 (11) 2027-2035 [2023-11-00; online 2023-09-28]
Bioinformatics Support for Computational Resources [Service]
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Autoantibodies against type I IFNs in humans with alternative NF-κB pathway deficiency.
Le Voyer T, Parent AV, Liu X, ..., Casanova JL, Puel A
Nature 623 (7988) 803-813 [2023-11-00; online 2023-11-08]
Autoimmunity and Serology Profiling [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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An atlas of genetic determinants of forearm fracture.
Nethander M, Movérare-Skrtic S, Kämpe A, ..., Richards JB, Ohlsson C
Nat. Genet. 55 (11) 1820-1830 [2023-11-00; online 2023-11-02]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Synthesis of Metal–Organic Frameworks through Enzymatically Recycled Polyethylene Terephthalate
Cao Z, Fu X, Li H, ..., Zelezniak A, Mijakovic I
ACS Sustainable Chem. Eng. 11 (43) 15506-15512 [2023-10-30; online 2023-09-21]
Swedish NMR Centre (SNC) [Service]
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Structural and biophysical analysis of a Haemophilus influenzae tripartite ATP-independent periplasmic (TRAP) transporter
Currie MJ, Davies JS, Scalise M, ..., Dobson RCJ, North RA
- - (-) - [2023-10-30; online 2023-10-30]
Cryo-EM [Service]
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Proteomics reveal biomarkers for diagnosis, disease activity and long-term disability outcomes in multiple sclerosis.
Åkesson J, Hojjati S, Hellberg S, ..., Ernerudh J, Gustafsson M
Nat Commun 14 (1) 6903 [2023-10-30; online 2023-10-30]
Affinity Proteomics Uppsala [Service] NGI Proteomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Reduction of body weight by increased loading is associated with activation of norepinephrine neurones in the medial nucleus of the solitary tract.
Zlatkovic J, Dalmau Gasull A, Hägg D, ..., Anesten F, Jansson JO
J Neuroendocrinol - (-) e13352 [2023-10-26; online 2023-10-26]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Mucosal and Serum Antibodies 3 Weeks after Symptomatic BA.2.86 Infection.
Bladh O, Greilert-Norin N, Havervall S, ..., Klingström J, Thålin C
N. Engl. J. Med. 389 (17) 1626-1628 [2023-10-26; online 2023-10-27]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
Translatome analysis of tuberous sclerosis complex 1 patient-derived neural progenitor cells reveals rapamycin-dependent and independent alterations.
Aksoylu IS, Martin P, Robert F, ..., Larsson O, Ramesh V
Mol Autism 14 (1) 39 [2023-10-25; online 2023-10-25]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
The Release and Spread of Basidiospores of Red-Listed Wood-Decay Fungus Fistulina hepatica in Oak Stands
Marčiulynas A, Menkis A
Diversity 15 (11) 1110 [2023-10-25; online 2023-10-25]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Quantifying fluorescence lifetime responsiveness of environment sensitive probes for membrane fluidity measurements
Ragaller F, Sjule E, Urem YB, ..., Blom H, Sezgin E
- - (-) - [2023-10-25; online 2023-10-25]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Complete Mitochondrial DNA Genome Variation in the Swedish Population.
Sturk-Andreaggi K, Bodner M, Ring JD, ..., Marshall C, Allen M
Genes 14 (11) - [2023-10-25; online 2023-10-25]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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aMeta: an accurate and memory-efficient ancient metagenomic profiling workflow.
Pochon Z, Bergfeldt N, Kırdök E, ..., Unneberg P, Oskolkov N
Genome Biol. 24 (1) 242 [2023-10-23; online 2023-10-23]
Ancient DNA [Technology development] Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Polymorphic parasitic larvae cooperate to build swimming colonies luring hosts.
Krupenko D, Miroliubov A, Kryukov E, ..., Kastriti ME, Adameyko I
Curr. Biol. 33 (20) 4524-4531.e4 [2023-10-23; online 2023-09-22]
Ancient DNA [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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LPMO-supported saccharification of biomass: effects of continuous aeration of reaction mixtures with variable fractions of water-insoluble solids and cellulolytic enzymes.
Tang C, Gandla ML, Jönsson LJ
Biotechnol Biofuels Bioprod 16 (1) 156 [2023-10-21; online 2023-10-21]
Integrated Microscopy Technologies Umeå [Service] Swedish NMR Centre (SNC) [Service]
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Structural foundation for the role of enterococcal PrgB in conjugation, biofilm formation, and virulence.
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Global Proteomics and Proteogenomics [Collaborative]
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Range-wide and temporal genomic analyses reveal the consequences of near-extinction in Swedish moose.
Dussex N, Kurland S, Olsen RA, ..., Dalén L, Laikre L
Commun Biol 6 (1) 1035 [2023-10-17; online 2023-10-17]
Bioinformatics Support for Computational Resources [Service] NGI Other [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Label-Free Quantitative Thermal Proteome Profiling Reveals Target Transcription Factors with Activities Modulated by MC3R Signaling.
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Forests 14 (10) 2077 [2023-10-17; online 2023-10-17]
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Modified N-acyl-L-homoserine lactone compounds abrogate Las-dependent quorum-sensing response in human pathogen Pseudomonas aeruginosa.
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Front Mol Biosci 10 (-) 1264773 [2023-10-16; online 2023-10-16]
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Endothelial VEGFR2-PLCγ signaling regulates vascular permeability and antitumor immunity through eNOS/Src.
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Hueting D, Schriever K, Sun R, ..., Andréll J, Syrén PO
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Sun L, Höjer A, Johansson M, ..., Dicksved J, Lundh Å
Foods 12 (20) - [2023-10-16; online 2023-10-16]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Deficiency of the Heterogeneous Nuclear Ribonucleoprotein U locus leads to delayed hindbrain neurogenesis.
Mastropasqua F, Oksanen M, Soldini C, ..., Bölte S, Tammimies K
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Nat Commun 14 (1) 6500 [2023-10-14; online 2023-10-14]
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Single-Cell RNA Analysis Reveals Cell-Intrinsic Functions of CAR T Cells Correlating with Response in a Phase II Study of Lymphoma Patients.
Sarén T, Ramachandran M, Gammelgård G, ..., Enblad G, Essand M
Clin. Cancer Res. 29 (20) 4139-4152 [2023-10-13; online 2023-08-04]
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Chakraborty C, Nissen I, Vincent CA, ..., Hörnblad A, Remeseiro S
Nat Commun 14 (1) 6446 [2023-10-13; online 2023-10-13]
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Integrated Genomic and Transcriptomic Analysis Improves Disease Classification and Risk Stratification of MDS with Ring Sideroblasts.
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Clin. Cancer Res. 29 (20) 4256-4267 [2023-10-13; online 2023-07-27]
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Genome-wide DNA methylation profiling in Lyme neuroborreliosis reveals altered methylation patterns of HLA genes.
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Multivalent antigen display on nanoparticle immunogens increases B cell clonotype diversity and neutralization breadth to pneumoviruses.
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Immunity 56 (10) 2425-2441.e14 [2023-10-10; online 2023-09-08]
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Genomic, transcriptomic and epigenomic sequencing data of the B-cell leukemia cell line REH.
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BMC Res Notes 16 (1) 265 [2023-10-10; online 2023-10-10]
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In Situ Sequencing (ISS) [Service]
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Basic Clin Pharmacol Toxicol - (-) - [2023-10-09; online 2023-10-09]
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Swedish NMR Centre (SNC) [Service]
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Mol. Biol. Evol. 40 (12) msad224 [2023-10-06; online 2023-10-06]
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Mitochondrial heteroplasmic shifts reveal a positive selection of breast cancer.
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Proteomic profiling identifies novel inflammation-related plasma proteins associated with ischemic stroke outcome.
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J Neuroinflammation 20 (1) 224 [2023-10-04; online 2023-10-04]
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Copy number variations and their effect on the plasma proteome.
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Genetics - (-) - [2023-10-04; online 2023-10-04]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Mol. Cancer 22 (1) 162 [2023-10-03; online 2023-10-03]
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Chemical Biology Consortium Sweden (CBCS) [Collaborative] Swedish Metabolomics Centre (SMC) [Service]
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Clinical and genetic analyses of a Swedish patient series diagnosed with ataxia.
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Clinical Genomics [Service] Clinical Genomics Lund [Service]
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The long non-coding RNA LINC00707 interacts with Smad proteins to regulate TGFβ signaling and cancer cell invasion.
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Cell Commun Signal 21 (1) 271 [2023-10-02; online 2023-10-02]
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A T cell receptor targeting a recurrent driver mutation in FLT3 mediates elimination of primary human acute myeloid leukemia in vivo.
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Nat Cancer - (-) - [2023-10-02; online 2023-10-02]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Elevated Adipocyte Membrane Phospholipid Saturation Does Not Compromise Insulin Signaling.
Palmgren H, Petkevicius K, Bartesaghi S, ..., Peng XR, Pilon M
Diabetes 72 (10) 1350-1363 [2023-10-01; online 2022-12-30]
Integrated Microscopy Technologies Gothenburg [Service]
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The dynamics of touch-responsive gene expression in cereals.
Darwish E, Ghosh R, Bentzer J, ..., Sirijovski N, Van Aken O
Plant J. 116 (1) 282-302 [2023-10-00; online 2023-06-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The disease-causing mutation p.F907I reveals a novel pathogenic mechanism for POLγ-related diseases.
Erdinc D, Macao B, Valenzuela S, ..., Wredenberg A, Falkenberg M
Biochim Biophys Acta Mol Basis Dis 1869 (7) 166786 [2023-10-00; online 2023-06-10]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Similarity in milk microbiota in replicates.
Dahlberg J, Pelve E, Dicksved J
Microbiologyopen 12 (5) e1383 [2023-10-00; online 2023-10-25]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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SARS-CoV-2-related mortality decrease in nursing home residents given multiple COVID-19 boosters.
Blom K, Fjällström P, Molnár C, ..., Forsell MNE, Johansson AF
Lancet Infect Dis 23 (10) e393-e394 [2023-10-00; online 2023-09-13]
Affinity Proteomics Uppsala [Collaborative]
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Quantification of proteomic profile changes in the hemolymph of crayfish during in vitro coagulation.
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Dev. Comp. Immunol. 147 (-) 104760 [2023-10-00; online 2023-06-16]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Precision medicine in rare diseases: What is next?
Tesi B, Boileau C, Boycott KM, ..., Nordgren A, Lindstrand A
J. Intern. Med. 294 (4) 397-412 [2023-10-00; online 2023-06-01]
Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative]
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Precision cancer medicine: Concepts, current practice, and future developments.
Edsjö A, Holmquist L, Geoerger B, ..., Siu LL, Stenzinger A
J. Intern. Med. 294 (4) 455-481 [2023-10-00; online 2023-08-28]
Global Proteomics and Proteogenomics [Technology development]
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Origin matters: Using a local reference genome improves measures in population genomics.
Thorburn DJ, Sagonas K, Binzer-Panchal M, ..., Lenz TL, Eizaguirre C
Mol Ecol Resour 23 (7) 1706-1723 [2023-10-00; online 2023-07-25]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Lowering of Circulating Sclerostin May Increase Risk of Atherosclerosis and Its Risk Factors: Evidence From a Genome-Wide Association Meta-Analysis Followed by Mendelian Randomization.
Zheng J, Wheeler E, Pietzner M, ..., Davey Smith G, Tobias JH
Arthritis & rheumatology (Hoboken, N.J.) 75 (10) 1781-1792 [2023-10-00; online 2023-08-03]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Increased MYB alternative promoter usage is associated with relapse in acute lymphoblastic leukemia.
Fehr A, Arvidsson G, Nordlund J, ..., Stenman G, Andersson MK
Genes Chromosomes Cancer 62 (10) 597-606 [2023-10-00; online 2023-05-23]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Durability of antireflective SiO2 coatings with closed pore structure
Zäll E, Karlsson S, Järn M, ..., Lundberg P, Wågberg T
Solar Energy Materials and Solar Cells 261 (-) 112521 [2023-10-00; online 2023-10-00]
Integrated Microscopy Technologies Umeå [Service]
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Decontamination of biofilm-contaminated implant surfaces: An in vitro evaluation.
Ichioka Y, Virto L, Nuevo P, ..., Sanz M, Berglundh T
Clin Oral Implants Res 34 (10) 1058-1072 [2023-10-00; online 2023-07-20]
Integrated Microscopy Technologies Gothenburg [Service]
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Circulating soluble IL-6 receptor associates with plaque inflammation but not with atherosclerosis severity and cardiovascular risk.
Edsfeldt A, Gonçalves I, Vigren I, ..., Khan F, Nilsson J
Vascul Pharmacol 152 (-) 107214 [2023-10-00; online 2023-08-25]
Affinity Proteomics Uppsala [Service]
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B cell polygenic risk scores associate with anti-dsDNA antibodies and nephritis in systemic lupus erythematosus.
Hedenstedt A, Reid S, Sayadi A, ..., Sandling JK, Leonard D
Lupus Sci Med 10 (2) - [2023-10-00; online 2023-10-17]
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Alterations in the Serum Proteome Following Electroconvulsive Therapy for a Major Depressive Episode: A Longitudinal Multicenter Study.
Göteson A, Clements CC, Juréus A, ..., Pålsson E, Landén M
Biol Psychiatry Glob Open Sci 3 (4) 884-892 [2023-10-00; online 2022-12-12]
Affinity Proteomics Uppsala [Service]
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APP-BACE1 Interaction and Intracellular Localization Regulate Aβ Production in iPSC-Derived Cortical Neurons.
Roselli S, Satir TM, Camacho R, ..., Zetterberg H, Agholme L
Cell Mol Neurobiol 43 (7) 3653-3668 [2023-10-00; online 2023-06-24]
Integrated Microscopy Technologies Gothenburg [Service]
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A glycomic workflow for LC-MS/MS analysis of urine glycosaminoglycan biomarkers in mucopolysaccharidoses.
Nilsson J, Persson A, Vorontsov E, ..., Larson G, Blomqvist M
Glycoconj J 40 (5) 523-540 [2023-10-00; online 2023-07-18]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Whole genome sequence of the deep-sea sponge Geodia barretti (Metazoa, Porifera, Demospongiae).
Steffen K, Proux-Wéra E, Soler L, ..., Sundh J, Cárdenas P
G3 (Bethesda) 13 (10) - [2023-09-30; online 2023-08-25]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Inflammatory Gene Profile and Particle Presence in Peri-Implant Mucosa: a Pilot Study on 9 Patients.
Olander J, Barkarmo S, Hammarström Johansson P, Wennerberg A, Stenport VF
J Oral Maxillofac Res 14 (3) e2 [2023-09-30; online 2023-09-30]
Integrated Microscopy Technologies Gothenburg [Service]
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Targeting Toll-like receptor-driven systemic inflammation by engineering an innate structural fold into drugs.
Petruk G, Puthia M, Samsudin F, ..., Lindstedt S, Schmidtchen A
Nat Commun 14 (1) 6097 [2023-09-29; online 2023-09-29]
Clinical Genomics [Service] Clinical Genomics Lund [Service] Structural Proteomics [Collaborative]
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Community-wide genome sequencing reveals 30 years of Darwin's finch evolution.
Enbody ED, Sendell-Price AT, Sprehn CG, ..., Grant PR, Andersson L
Science 381 (6665) eadf6218 [2023-09-29; online 2023-09-29]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Oral fungal profiling and risk of nasopharyngeal carcinoma: a population-based case-control study.
Chen Y, Li W, Chang ET, ..., Zhang Z, Ye W
EBioMedicine 96 (-) 104813 [2023-09-28; online 2023-09-28]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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The relative impact of parental and current environment on plant transcriptomes depends on type of stress and genotype.
Earley TS, Feiner N, Alvarez MF, Coolon JD, Sultan SE
Proc. Biol. Sci. 290 (2007) 20230824 [2023-09-27; online 2023-09-27]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Single-cell transcriptomics delineates the immune cell landscape in equine lower airways and reveals upregulation of FKBP5 in horses with asthma.
Riihimäki M, Fegraeus K, Nordlund J, ..., Hellman L, Raine A
Sci Rep 13 (1) 16261 [2023-09-27; online 2023-09-27]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Collaborative] NGI Single cell [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Prevalence of SARS-CoV-2 Omicron Sublineages and Spike Protein Mutations Conferring Resistance against Monoclonal Antibodies in a Swedish Cohort during 2022-2023.
Haars J, Palanisamy N, Wallin F, ..., Kaden R, Lennerstrand J
Microorganisms 11 (10) - [2023-09-27; online 2023-09-27]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Exploiting solid-state dynamic nuclear polarization NMR spectroscopy to establish the spatial distribution of polymorphic phases in a solid material.
Cousin SF, Hughes CE, Ziarelli F, ..., Pinon AC, Thureau P
Chem. Sci. 14 (37) 10121-10128 [2023-09-27; online 2023-06-23]
Swedish NMR Centre (SNC) [Technology development]
PubMed DOI Crossref
CO2 Mineralization by MgO Nanocubes in Nanometric Water Films.
Luong NT, Veyret N, Boily JF
ACS Appl Mater Interfaces 15 (38) 45055-45063 [2023-09-27; online 2023-09-14]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Unraveling mucolipidosis type III gamma through whole genome sequencing in late-onset retinitis pigmentosa: a case report.
De Geer K, Mascianica K, Naess K, ..., Lindstrand A, Björck E
BMC Ophthalmol 23 (1) 394 [2023-09-26; online 2023-09-26]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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The draft genome of the microscopic Nemertoderma westbladi sheds light on the evolution of Acoelomorpha genomes.
Abalde S, Tellgren-Roth C, Heintz J, Vinnere Pettersson O, Jondelius U
Front Genet 14 (-) 1244493 [2023-09-26; online 2023-09-26]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Single-cell multiomics of human fetal hematopoiesis define a developmental-specific population and a fetal signature.
Sommarin MNE, Olofzon R, Palo S, ..., Karlsson G, Böiers C
Blood Adv 7 (18) 5325-5340 [2023-09-26; online 2023-06-28]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Combined GLUT1 and OXPHOS inhibition eliminates acute myeloid leukemia cells by restraining their metabolic plasticity.
Rodriguez-Zabala M, Ramakrishnan R, Reinbach K, ..., Woods NB, Järås M
Blood Adv 7 (18) 5382-5395 [2023-09-26; online 2023-07-28]
Clinical Genomics [Service] Clinical Genomics Lund [Service] Swedish Metabolomics Centre (SMC) [Service]
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Molecular anatomy of adult mouse leptomeninges.
Pietilä R, Del Gaudio F, He L, ..., Andrae J, Betsholtz C
Neuron - (-) - [2023-09-25; online 2023-09-25]
Bioinformatics Support for Computational Resources [Service]
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Fast and sensitive validation of fusion transcripts in whole-genome sequencing data.
Hafstað V, Häkkinen J, Persson H
BMC Bioinformatics 24 (1) 359 [2023-09-23; online 2023-09-23]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
A subset of type-II collagen-binding antibodies prevents experimental arthritis by inhibiting FCGR3 signaling in neutrophils.
Xu Z, Xu B, Lundström SL, ..., Zubarev RA, Holmdahl R
Nat Commun 14 (1) 5949 [2023-09-23; online 2023-09-23]
Drug Discovery and Development (DDD) [Collaborative]
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The microbial biodiversity at the archeological site of Tel Megiddo (Israel).
Zhang Y, Ruff SE, Oskolkov N, ..., Mason CE, Elhaik E
Front Microbiol 14 (-) 1253371 [2023-09-22; online 2023-09-22]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Multivalent design of the monoclonal SynO2 antibody improves binding strength to soluble α-Synuclein aggregates.
Petersen I, Ali MI, Petrovic A, ..., Bondza S, Hultqvist G
MAbs 15 (1) 2256668 [2023-09-22; online 2023-09-22]
Drug Discovery and Development (DDD) [Collaborative]
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Comprehensive proteomics and meta-analysis of COVID-19 host response.
Babačić H, Christ W, Araújo JE, ..., Klingström J, Pernemalm M
Nat Commun 14 (1) 5921 [2023-09-22; online 2023-09-22]
Global Proteomics and Proteogenomics [Collaborative]
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Selected β-glucans act as immune-training agents by improving anti-mycobacterial activity in human macrophages - a pilot study.
Braian C, Karlsson L, Das J, Lerm M
J Innate Immun 15 (1) 751-764 [2023-09-21; online 2023-09-21]
Clinical Genomics [Collaborative] Clinical Genomics Linköping [Collaborative]
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Non-classical HLA-E restricted CMV 15-mer peptides are recognized by adaptive NK cells and induce memory responses.
Martín Almazán N, Sala BM, Sandalova T, ..., Achour A, Sarhan D
Front Immunol 14 (-) 1230718 [2023-09-21; online 2023-09-21]
Global Proteomics and Proteogenomics [Service]
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Imaging of fibrogenesis in the liver by [18F]TZ-Z09591, an Affibody molecule targeting platelet derived growth factor receptor β.
Wegrzyniak O, Zhang B, Rokka J, ..., Eriksson J, Eriksson O
EJNMMI Radiopharm Chem 8 (1) 23 [2023-09-21; online 2023-09-21]
Drug Discovery and Development (DDD) [Collaborative]
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Strict self-isolation did not protect Swedish cancer patients on active treatment from the risk of becoming seropositive for SARS-CoV-2.
Ginman B, Pahnke S, Freyhult E, ..., Enblad G, Glimelius I
Acta Oncol - (-) 1-9 [2023-09-20; online 2023-09-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Identification of Novel Glycans in the Mucus Layer of Shark and Skate Skin.
Bachar-Wikstrom E, Thomsson KA, Sihlbom C, ..., Lindén SK, Wikstrom JD
Int J Mol Sci 24 (18) - [2023-09-20; online 2023-09-20]
Glycoproteomics and MS Proteomics [Collaborative]
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Single-cell sequencing of tumor-associated macrophages in a Drosophila model.
Khalili D, Mohammed M, Kunc M, ..., Ankarklev J, Theopold U
Front Immunol 14 (-) 1243797 [2023-09-19; online 2023-09-19]
Bioinformatics Support for Computational Resources [Service] Microbial Single Cell Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Prosaposin maintains lipid homeostasis in dopamine neurons and counteracts experimental parkinsonism in rodents.
He Y, Kaya I, Shariatgorji R, ..., Andren PE, Svenningsson P
Nat Commun 14 (1) 5804 [2023-09-19; online 2023-09-19]
Spatial Mass Spectrometry [Collaborative]
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Self-Assembly of RGD-Functionalized Recombinant Spider Silk Protein into Microspheres in Physiological Buffer and in the Presence of Hyaluronic Acid.
Ornithopoulou E, Åstrand C, Gustafsson L, Crouzier T, Hedhammar M
ACS Appl Bio Mater 6 (9) 3696-3705 [2023-09-18; online 2023-08-14]
Integrated Microscopy Technologies Umeå [Service]
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Ecogenomics and cultivation reveal distinctive viral-bacterial communities in the surface microlayer of a Baltic Sea slick.
Rahlff J, Wietz M, Giebel HA, ..., Antson A, Holmfeldt K
ISME COMMUN. 3 (1) 97 [2023-09-18; online 2023-09-18]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Novel pathological variants of NHP2 affect N-terminal domain flexibility, protein stability, H/ACA Ribonucleoprotein (RNP) complex formation and telomerase activity.
Maliński B, Vertemara J, Faustini E, ..., Cammenga J, Lottersberger F
Hum. Mol. Genet. 32 (19) 2901-2912 [2023-09-16; online 2023-07-13]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Plasma type I collagen α1 chain in relation to coronary artery disease: findings from a prospective population-based cohort and an acute myocardial infarction prospective cohort in Sweden.
Hammaréus F, Nilsson L, Ong KL, ..., Holm Nielsen S, Jonasson L
BMJ Open 13 (9) e073561 [2023-09-15; online 2023-09-15]
Affinity Proteomics Uppsala [Service]
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Ki67 and prostate specific antigen are prognostic in metastatic hormone naïve prostate cancer.
Spyratou V, Freyhult E, Bergh A, ..., Welén K, Josefsson A
Acta Oncol - (-) 1-9 [2023-09-15; online 2023-09-15]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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In vivo gene expression profile of Haemophilus influenzae during human pneumonia.
Polland L, Rydén H, Su Y, Paulsson M
Microbiol Spectr 11 (5) e0163923 [2023-09-14; online 2023-09-14]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Genetic atlas of hygro-and thermosensory cells in the vinegar fly Drosophila melanogaster.
Corthals K, Andersson V, Churcher A, Reimegård J, Enjin A
Sci Rep 13 (1) 15202 [2023-09-14; online 2023-09-14]
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Dissecting the genetic basis of drought responses in common bean using natural variation.
Labastida D, Ingvarsson PK, Rendón-Anaya M
Front Plant Sci 14 (-) 1143873 [2023-09-14; online 2023-09-14]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Identification of motif-based interactions between SARS-CoV-2 protein domains and human peptide ligands pinpoint antiviral targets.
Mihalič F, Benz C, Kassa E, ..., Jemth P, Ivarsson Y
Nat Commun 14 (1) 5636 [2023-09-13; online 2023-09-13]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Cerebrospinal Fluid Metabolomics Identified Ongoing Analgesic Medication in Neuropathic Pain Patients.
Bäckryd E, Thordeman K, Gerdle B, Ghafouri B
Biomedicines 11 (9) - [2023-09-13; online 2023-09-13]
Swedish NMR Centre (SNC) [Service]
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Sustained and intermittent hypoxia differentially modulate primary monocyte immunothrombotic responses to IL-1β stimulation.
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Front Immunol 14 (-) 1240597 [2023-09-11; online 2023-09-11]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Impact of estrogen on IgG glycosylation and serum protein glycosylation in a murine model of healthy postmenopause.
Gupta P, Sághy T, Nordqvist J, ..., Henning P, Engdahl C
Front Endocrinol (Lausanne) 14 (-) 1243942 [2023-09-11; online 2023-09-11]
Glycoproteomics and MS Proteomics [Service]
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Ectomycorrhizal fungi integrate nitrogen mobilisation and mineral weathering in boreal forest soil.
Mahmood S, Fahad Z, Bolou-Bi EB, ..., Ekblad A, Finlay RD
New Phytol. - (-) - [2023-09-11; online 2023-09-11]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A novel kleptoplastidic symbiosis revealed in the marine centrohelid Meringosphaera with evidence of genetic integration.
Sørensen MES, Zlatogursky VV, Onuţ-Brännström I, ..., Foster RA, Burki F
Curr. Biol. 33 (17) 3571-3584.e6 [2023-09-11; online 2023-08-02]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Pyrroloquinoline quinone drives ATP synthesis in vitro and in vivo and provides retinal ganglion cell neuroprotection.
Canovai A, Tribble JR, Jöe M, ..., Dal Monte M, Williams PA
Acta Neuropathol Commun 11 (1) 146 [2023-09-08; online 2023-09-08]
Swedish Metabolomics Centre (SMC) [Service]
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Estrogen receptor activation remodelsTEAD1gene expression to alleviate nonalcoholic fatty liver disease
Sommerauer C, Gallardo-Dodd CJ, Savva C, ..., Williams C, Kutter C
- - (-) - [2023-09-08; online 2023-09-08]
Integrated Microscopy Technologies Stockholm [Service]
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PLK1 as a cooperating partner for BCL2-mediated antiapoptotic program in leukemia.
Shah K, Nasimian A, Ahmed M, ..., Lock RB, Kazi JU
Blood Cancer J 13 (1) 139 [2023-09-07; online 2023-09-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Epigenetic modifications appear in the human placenta following anxiety and depression during pregnancy.
Martinez CA, Marteinsdottir I, Josefsson A, ..., Theodorsson E, Rodriguez-Martinez H
Placenta 140 (-) 72-79 [2023-09-07; online 2023-08-01]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Transforming growth factor-β2 is associated with atherosclerotic plaque stability and lower risk for cardiovascular events.
Edsfeldt A, Singh P, Matthes F, ..., Sun J, Gonçalves I
Cardiovasc. Res. 119 (11) 2061-2073 [2023-09-05; online 2023-05-18]
Affinity Proteomics Uppsala [Service]
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Placental growth factor exerts a dual function for cardiomyogenesis and vasculogenesis during heart development.
Witman N, Zhou C, Häneke T, ..., Chien KR, Sahara M
Nat Commun 14 (1) 5435 [2023-09-05; online 2023-09-05]
Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Spatial multimodal analysis of transcriptomes and metabolomes in tissues.
Vicari M, Mirzazadeh R, Nilsson A, ..., Andrén PE, Lundeberg J
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In Situ Sequencing (ISS) [Collaborative] Spatial Mass Spectrometry [Collaborative]
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Seasonal and age-related changes in sperm quality of farmed arctic charr (Salvelinus alpinus).
Kurta K, Jeuthe H, Naboulsi R, de Koning DJ, Palaiokostas C
BMC Genomics 24 (1) 519 [2023-09-04; online 2023-09-04]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Large-scale proximity extension assay reveals CSF midkine and DOPA decarboxylase as supportive diagnostic biomarkers for Parkinson's disease.
Paslawski W, Khosousi S, Hertz E, ..., Boxer A, Svenningsson P
Transl Neurodegener 12 (1) 42 [2023-09-04; online 2023-09-04]
Affinity Proteomics Stockholm [Service]
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The interplay between dietary fatty acids and gut microbiota influences host metabolism and hepatic steatosis.
Schoeler M, Ellero-Simatos S, Birkner T, ..., Burcelin R, Caesar R
Nat Commun 14 (1) 5329 [2023-09-01; online 2023-09-01]
Chalmers Mass Spectrometry Infrastructure [Service]
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The Genomic Basis of Adaptation to High Elevations in Africanized Honey Bees.
Everitt T, Wallberg A, Christmas MJ, ..., Neumann P, Webster MT
Genome Biol Evol 15 (9) - [2023-09-01; online 2023-08-26]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Stratified genetic analysis reveals sex differences in MPO-ANCA-associated vasculitis.
Ekman D, Sennblad B, Knight A, ..., Lindblad-Toh K, Dahlqvist J
Rheumatology (Oxford) 62 (9) 3213-3218 [2023-09-01; online 2023-04-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI SNP genotyping [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Pseudomonas ability to utilize different carbon substrates and adaptation influenced by protozoan grazing.
Ramasamy KP, Brugel S, Eriksson KIA, Andersson A
Environ. Res. 232 (-) 116419 [2023-09-01; online 2023-06-14]
Integrated Microscopy Technologies Umeå [Service]
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Inhibiting metabotropic glutamate receptor 5 after stroke restores brain function and connectivity.
Hakon J, Quattromani MJ, Sjölund C, ..., Bauer AQ, Wieloch T
Brain - (-) - [2023-09-01; online 2023-09-01]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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IBS randomized study: FODMAPs alter bile acids, phenolic- and tryptophan metabolites, while gluten modifies lipids.
Nordin E, Hellström PM, Vuong E, ..., Brunius C, Landberg R
Am. J. Physiol. Regul. Integr. Comp. Physiol. 325 (3) R248-R259 [2023-09-01; online 2023-07-03]
Bioinformatics Support for Computational Resources [Service] Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
Verticillium longisporum phospholipase VlsPLA2 is a virulence factor that targets host nuclei and modulates plant immunity.
Rafiei V, Vélëz H, Piombo E, Dubey M, Tzelepis G
Mol. Plant Pathol. 24 (9) 1078-1092 [2023-09-00; online 2023-05-12]
Global Proteomics and Proteogenomics [Service] Swedish Metabolomics Centre (SMC) [Service]
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Tuning of lattice thermal conductivity of amorphous Fe0.85Zr0.15 by nanostructured voids, pressure and temperature
Gürbüz E, Sanyal B
Journal of Non-Crystalline Solids 616 (-) 122430 [2023-09-00; online 2023-09-00]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Trends in invasive bacterial diseases during the first 2 years of the COVID-19 pandemic: analyses of prospective surveillance data from 30 countries and territories in the IRIS Consortium.
Shaw D, Abad R, Amin-Chowdhury Z, ..., Zhou F, Brueggemann AB
Lancet Digit Health 5 (9) e582-e593 [2023-09-00; online 2023-07-27]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Transcriptome network analysis links perinatal Staphylococcus epidermidis infection to microglia reprogramming in the immature hippocampus.
Gravina G, Ardalan M, Chumak T, ..., Ek CJ, Mallard C
Glia 71 (9) 2234-2249 [2023-09-00; online 2023-05-29]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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The role of NLRP3 in regulating gingival epithelial cell responses evoked by Aggregatibacter actinomycetemcomitans.
Jayaprakash Demirel K, Wu R, Neves Guimaraes A, Demirel I
Cytokine 169 (-) 156316 [2023-09-00; online 2023-08-02]
Affinity Proteomics Uppsala [Service]
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Structure and dynamics of the mitochondrial DNA-compaction factor Abf2 from S. cerevisiae.
Lidman J, Sallova Y, Matečko-Burmann I, Burmann BM
J. Struct. Biol. 215 (3) 108008 [2023-09-00; online 2023-08-03]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Quantification of chondroitin sulfate, hyaluronic acid and N-glycans in synovial fluid - A technical performance study.
Andersson E, Tykesson E, Lohmander LS, ..., Swärd P, Struglics A
Osteoarthr Cartil Open 5 (3) 100380 [2023-09-00; online 2023-06-10]
Glycoproteomics and MS Proteomics [Collaborative]
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Mosaic Loss of Chromosome Y Is Associated With Functional Outcome After Ischemic Stroke.
Dorvall M, Pedersen A, Dumanski JP, ..., Stanne TM, Jern C
Stroke 54 (9) 2434-2437 [2023-09-00; online 2023-07-19]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Milder Autumns May Increase Risk for Infection of Crops with Turnip Yellows Virus.
Puthanveed V, Singh K, Poimenopoulou E, ..., Siddique AB, Kvarnheden A
Phytopathology 113 (9) 1788-1798 [2023-09-00; online 2023-11-01]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Methane Producing and Oxidizing Microorganisms Display a High Resilience to Drought in a Swedish Hemi‐Boreal Mire
White JD, Ahrén D, Ström L, ..., Keane B, Parmentier FJW
JGR Biogeosciences 128 (9) - [2023-09-00; online 2023-09-08]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Increased plasma levels of soluble programmed death ligand 1 (sPD-L1) and fibroblast growth factor 23 (FGF-23) in patients with Graves' ophthalmopathy in comparison to hyperthyroid patients without Graves' ophthalmopathy.
Khamisi S, Anders Karlsson F, Ljunggren Ö, Thulin M, Larsson A
Cytokine 169 (-) 156269 [2023-09-00; online 2023-06-10]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Fine-tuning of p-coumaric acid synthesis to increase (2S)-naringenin production in yeast.
Mao J, Mohedano MT, Fu J, ..., Siewers V, Chen Y
Metab. Eng. 79 (-) 192-202 [2023-09-00; online 2023-08-22]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Contrasting genomic consequences of anthropogenic reintroduction and natural recolonization in high-arctic wild reindeer.
Burnett HA, Bieker VC, Le Moullec M, ..., Hansen BB, Martin MD
Evol Appl 16 (9) 1531-1548 [2023-09-00; online 2023-08-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Chromatin accessibility, not 5mC methylation covaries with partial dosage compensation in crows.
Catalán A, Merondun J, Knief U, Wolf JBW
PLoS Genet. 19 (9) e1010901 [2023-09-00; online 2023-09-25]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Breast Milk Oligosaccharides Contain Immunomodulatory Glucuronic Acid and LacdiNAc.
Jin C, Lundstrøm J, Korhonen E, Luis AS, Bojar D
Mol. Cell Proteomics 22 (9) 100635 [2023-09-00; online 2023-08-18]
Glycoproteomics and MS Proteomics [Collaborative]
DOI Crossref
Antimicrobial susceptibilities and genomic epidemiology of Neisseria gonorrhoeae in Stockholm, Sweden
Vestberg N, Bhattarai KH, Fang H
Eur J Clin Microbiol Infect Dis 42 (9) 1073-1079 [2023-09-00; online 2023-07-13]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
An mTRAN-mRNA interaction mediates mitochondrial translation initiation in plants.
Tran HC, Schmitt V, Lama S, ..., Delannoy E, Van Aken O
Science 381 (6661) eadg0995 [2023-09-00; online 2023-09-01]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
A metabarcoding analysis of the wrackbed microbiome indicates a phylogeographic break along the North Sea-Baltic Sea transition zone.
Berdan EL, Roger F, Wellenreuther M, ..., Butlin RK, André C
Environ. Microbiol. 25 (9) 1659-1673 [2023-09-00; online 2023-04-09]
Bioinformatics Support for Computational Resources [Service]
DOI Crossref
Trunk neural crest gene MOXD1 affects embryonic development
Fredlund E, Andersson S, Ferreira M, Mohlin S
- - (-) - [2023-08-31; online 2023-08-31]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
The Chlamydia effector CpoS modulates the inclusion microenvironment and restricts the interferon response by acting on Rab35.
Meier K, Jachmann LH, Türköz G, ..., Kroemer G, Sixt BS
MBio 14 (4) e0319022 [2023-08-31; online 2023-08-02]
Chemical Biology Consortium Sweden (CBCS) [Service]
DOI Crossref
De novoassembled single-cell transcriptomes from aquatic phytoflagellates reveal a metabolically distinct cell population
Florenza J, Jeevannavar A, Divne AM, Tamminen M, Bertilsson S
- - (-) - [2023-08-31; online 2023-08-31]
Microbial Single Cell Genomics [Technology development]
PubMed DOI Crossref
Public and patient involvement: a survey on knowledge, experience and opinions among researchers within a precision oncology European project.
Mosconi P, Colombo C, Paletta P, ..., Brunelli C, CEE_DART Consortium
BMC Cancer 23 (1) 814 [2023-08-30; online 2023-08-30]
Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Apilactobacillus kunkeei releases RNA-associated membrane vesicles and proteinaceous nanoparticles.
Seeger C, Dyrhage K, Näslund K, Andersson SGE
Microlife 4 (-) uqad037 [2023-08-29; online 2023-08-29]
Cryo-EM [Service]
PubMed DOI Crossref
The yeast guanine nucleotide exchange factor Sec7 is a bottleneck in spatial protein quality control and detoxifies neurological disease proteins.
Babazadeh R, Schneider KL, Fischbach A, ..., Liu B, Nystrom T
Sci Rep 13 (1) 14068 [2023-08-28; online 2023-08-28]
Integrated Microscopy Technologies Gothenburg [Service]
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Kraft cooking of birch wood chips: differences between the dissolved organic material in pore and bulk liquor
Kron L, Marion de Godoy C, Hasani M, Theliander H
- 77 (8) 598-609 [2023-08-28; online 2023-07-07]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Deciphering the Role of p60AmotL2 in Epithelial Extrusion and Cell Detachment.
Cui W, Subramani A, Fonseca P, ..., Lundqvist A, Holmgren L
Cells 12 (17) - [2023-08-28; online 2023-08-28]
Global Proteomics and Proteogenomics [Service]
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Chemogenetic inhibition of IST1-CHMP1B interaction impairs endosomal recycling and promotes unconventional LC3 lipidation at stalled endosomes
Knyazeva A, Li S, Corkery DP, ..., Waldmann H, Wu YW
- - (-) - [2023-08-28; online 2023-08-28]
Chemical Proteomics [Collaborative]
PubMed DOI Crossref
O304 ameliorates hyperglycemia in mice by dually promoting muscle glucose effectiveness and preserving β-cell function.
Norlin S, Axelsson J, Ericsson M, Edlund H
Commun Biol 6 (1) 877 [2023-08-25; online 2023-08-25]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Long-read whole-genome analysis of human single cells.
Hård J, Mold JE, Eisfeldt J, ..., Michaëlsson J, Ameur A
Nat Commun 14 (1) 5164 [2023-08-24; online 2023-08-24]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Technology development] NGI Single cell [Technology development] NGI Stockholm (Genomics Applications) [Collaborative] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Highly multiplexed targeted sequencing strategy for infectious disease surveillance.
Hernández-Neuta I, Magoulopoulou A, Pineiro F, ..., Gulberg M, Nilsson M
BMC Biotechnol. 23 (1) 31 [2023-08-23; online 2023-08-23]
Bioinformatics (NBIS) [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Atomic-level structure determination of amorphous molecular solids by NMR.
Cordova M, Moutzouri P, Nilsson Lill SO, ..., Schantz S, Emsley L
Nat Commun 14 (1) 5138 [2023-08-23; online 2023-08-23]
Swedish NMR Centre (SNC) [Collaborative]
DOI Crossref
Mass Transport in “Water-in-Polymer Salt” Electrolytes
Khan Z, Martinelli A, Franco LR, ..., Araujo CM, Crispin X
Chem. Mater. 35 (16) 6382-6395 [2023-08-22; online 2023-07-31]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Inhibition of high level E2F in a RB1 proficient MYCN overexpressing chicken retinoblastoma model normalizes neoplastic behaviour.
Zhang H, Konjusha D, Rafati N, Tararuk T, Hallböök F
Cell Oncol (Dordr) - (-) - [2023-08-22; online 2023-08-22]
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Contrasting response of microeukaryotic and bacterial communities to the interplay of seasonality and local stressors in shallow soda lakes.
Márton Z, Csitári B, Felföldi T, ..., Szabó A, Székely AJ
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- - (-) - [2023-08-21; online 2023-08-21]
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Multiplexed Guide RNA Expression Leads to Increased Mutation Frequency in Targeted Window Using a CRISPR-Guided Error-Prone DNA Polymerase in Saccharomyces cerevisiae.
Gossing M, Limeta A, Skrekas C, ..., Siewers V, David F
ACS Synth Biol 12 (8) 2271-2277 [2023-08-18; online 2023-07-24]
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Mi J, Liu KC, Andersson O
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Fontaine L, Pin L, Savio D, ..., Farnleitner AH, Eiler A
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Gianecini RA, Poklepovich T, Golparian D, ..., Campos J, Galarza P
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- - (-) - [2023-08-14; online 2023-08-14]
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GATA2 mitotic bookmarking is required for definitive haematopoiesis.
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Dev. Cell - (-) - [2023-08-13; online 2023-08-13]
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Graded expression of the chemokine receptor CX3CR1 marks differentiation states of human and murine T cells and enables cross-species interpretation.
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Johansson J, Lidéus S, Höijer I, ..., Bondeson ML, Wilbe M
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Y-Linked Copy Number Polymorphism of Target of Rapamycin Is Associated with Sexual Size Dimorphism in Seed Beetles.
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The development of blood protein profiles in extremely preterm infants follows a stereotypic evolution pattern.
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Lundtoft C, Eriksson D, Bianchi M, ..., Rönnblom L, Kämpe O
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Multiphoton characterization and live cell imaging using fluorescent adenine analogue 2CNqA.
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Surface decontamination of explanted peri-implantitis-affected implants.
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Solid-phase capture and profiling of open chromatin by spatial ATAC.
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Swedish NMR Centre (SNC) [Service]
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N-terminal proteoforms may engage in different protein complexes.
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Historical RNA expression profiles from the extinct Tasmanian tiger.
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Direct additive genetics and maternal effect contribute to the risk of Tourette disorder.
Mahjani B, Klei L, Buxbaum Grice AS, ..., Buxbaum JD, Grice DE
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Differential DNA Methylation of MicroRNA-Encoding Genes in Psoriatic Epidermis Highlights the Wnt Pathway.
Verma D, Kasic NK, Jeppsson F, ..., Das J, Enerbäck C
J. Invest. Dermatol. 143 (8) 1594-1597.e14 [2023-08-00; online 2023-02-27]
Clinical Genomics [Collaborative] Clinical Genomics Linköping [Collaborative]
PubMed DOI Crossref
Clones on the run: The genomics of a recently expanded partially clonal species.
Pereyra RT, Rafajlović M, De Wit P, ..., Töpel M, Johannesson K
Mol. Ecol. 32 (15) 4209-4223 [2023-08-00; online 2023-05-18]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Characterisation of a low methane emission rice cultivar suitable for cultivation in high latitude light and temperature conditions.
Hu J, Bettembourg M, Moreno S, ..., Sundström J, Jin Y
Environ Sci Pollut Res 30 (40) 92950-92962 [2023-08-00; online 2023-07-27]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A genomic platform for surveillance and antigen discovery in Plasmodium spp. using long-read amplicon sequencing
Plaza DF, Zerebinski J, Broumou I, ..., Sundling C, Färnert A
Cell Reports Methods - (-) 100574 [2023-08-00; online 2023-08-00]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Observation of defect density dependent elastic modulus of graphene
Li H, Gürbüz E, Haldar S, ..., Sanyal B, Leifer K
- 123 (5) - [2023-07-31; online 2023-08-02]
Bioinformatics Support for Computational Resources [Service]
DOI Crossref
Cell Membranes Sustain Phospholipid Imbalance Via Cholesterol Asymmetry
Doktorova M, Symons JL, Zhang X, ..., Levental KR, Levental I
- - (-) - [2023-07-31; online 2023-07-31]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Transposable element insertions in 1000 Swedish individuals.
Bilgrav Saether K, Nilsson D, Thonberg H, ..., Eisfeldt J, Lindstrand A
PLoS ONE 18 (7) e0289346 [2023-07-28; online 2023-07-28]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Register-based and genetic studies of Prader-Willi syndrome show a high frequency of gonadal tumors and a possible mechanism for tumorigenesis through imprinting relaxation.
Maya-González C, Wessman S, Lagerstedt-Robinson K, ..., Skarin Nordenvall A, Nordgren A
Front Med (Lausanne) 10 (-) 1172565 [2023-07-28; online 2023-07-28]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
scDual-Seq of Toxoplasma gondii-infected mouse BMDCs reveals heterogeneity and differential infection dynamics.
Hildebrandt F, Mohammed M, Dziedziech A, ..., Henriksson J, Ankarklev J
Front Immunol 14 (-) 1224591 [2023-07-27; online 2023-07-27]
Bioinformatics Support for Computational Resources [Service] Microbial Single Cell Genomics [Technology development] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
PVT1 interacts with polycomb repressive complex 2 to suppress genomic regions with pro-apoptotic and tumour suppressor functions in multiple myeloma.
Nylund P, Garrido-Zabala B, Párraga AA, ..., Kalushkova A, Wiklund HJ
Haematologica - (-) - [2023-07-27; online 2023-07-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
DOI Crossref
Nucleobase catalysts for the enzymatic activation of 8-oxoguanine DNA glycosylase 1
Hank EC, D'Arcy-Evans N, Wallner O, ..., de Vega M, Michel M
- - (-) - [2023-07-27; online 2023-07-27]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Spatial lipidomics reveals brain region-specific changes of sulfatides in an experimental MPTP Parkinson's disease primate model.
Kaya I, Nilsson A, Luptáková D, ..., Bezard E, Andrén PE
NPJ Parkinsons Dis 9 (1) 118 [2023-07-26; online 2023-07-26]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Cutaneous squamous cell carcinoma-derived extracellular vesicles exert an oncogenic role by activating cancer-associated fibroblasts.
Li C, Sun C, Lohcharoenkal W, ..., Sonkoly E, Pivarcsi A
Cell Death Discov 9 (1) 260 [2023-07-26; online 2023-07-26]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Ciclopirox Ethanolamine Preserves the Immature State of Human HSCs by Mediating Intracellular Iron Content.
Safaee Talkhoncheh M, Baudet A, Ek F, ..., Will B, Larsson J
Blood Adv - (-) - [2023-07-24; online 2023-07-24]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
An Okinawan-Based Nordic Diet Leads to Profound Effects on Gut Microbiota and Plasma Metabolites Linked to Glucose and Lipid Metabolism.
Manoharan L, Roth B, Bang C, Stenlund H, Ohlsson B
Nutrients 15 (14) - [2023-07-24; online 2023-07-24]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
Multiyear analysis uncovers coordinated seasonality in stocks and composition of the planktonic food web in the Baltic Sea proper.
Fridolfsson E, Bunse C, Lindehoff E, ..., Legrand C, Hylander S
Sci Rep 13 (1) 11865 [2023-07-22; online 2023-07-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Vegetation, topography, and soil depth drive microbial community structure in two Swedish grasslands.
Guasconi D, Juhanson J, Clemmensen KE, ..., Roth N, Fransson P
FEMS Microbiol. Ecol. 99 (8) - [2023-07-21; online 2023-07-21]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transplantation of gut microbiota from old mice into young healthy mice reduces lean mass but not bone mass.
Lawenius L, Cowardin C, Grahnemo L, ..., Sjögren K, Ohlsson C
Gut Microbes 15 (1) 2236755 [2023-07-21; online 2023-07-21]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Thumb-domain dynamics modulate the functional repertoire of DNA-Polymerase IV (DinB).
Okeke DC, Lidman J, Matečko-Burmann I, Burmann BM
Nucleic Acids Res. 51 (13) 7036-7052 [2023-07-21; online 2023-06-01]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Survivin prevents the polycomb repressor complex 2 from methylating histone 3 lysine 27.
Jensen M, Chandrasekaran V, García-Bonete MJ, ..., Bokarewa I M, Katona G
iScience 26 (7) 106976 [2023-07-21; online 2023-05-29]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Proteomics identifies lipocalin-2 in neonatal inflammation associated with cerebrovascular alteration in mice and preterm infants.
Gravina G, Ardalan M, Chumak T, ..., Hellström A, Mallard C
iScience 26 (7) 107217 [2023-07-21; online 2023-06-27]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Iron age genomic data from Althiburos - Tunisia renew the debate on the origins of African taurine cattle.
Ginja C, Guimarães S, da Fonseca RR, ..., Pires AE, Valenzuela-Lamas S
iScience 26 (7) 107196 [2023-07-21; online 2023-06-24]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A machine learning based approach to identify carotid subclinical atherosclerosis endotypes.
Chen QS, Bergman O, Ziegler L, ..., Gigante B, IMPROVE study group
Cardiovasc. Res. - (-) - [2023-07-21; online 2023-07-21]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
FAVIS: Fast and versatile protocol for non-destructive metabarcoding of bulk insect samples.
Iwaszkiewicz-Eggebrecht E, Łukasik P, Buczek M, ..., Ronquist F, Miraldo A
PLoS ONE 18 (7) e0286272 [2023-07-19; online 2023-07-19]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Endophytic Beauveria bassiana induces biosynthesis of flavonoids in oilseed rape following both seed inoculation and natural colonization.
Muola A, Birge T, Helander M, ..., Saikkonen K, Fuchs B
Pest Manag Sci - (-) - [2023-07-19; online 2023-07-19]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Salicylic acid metabolism and signalling coordinate senescence initiation in aspen in nature.
Lihavainen J, Šimura J, Bag P, ..., Ljung K, Jansson S
Nat Commun 14 (1) 4288 [2023-07-18; online 2023-07-18]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre (SMC) [Service]
DOI Crossref
ReprogrammingYarrowia lipolyticametabolism for efficient synthesis of itaconic acid from flask to semi-pilot scale
Fu J, Zaghen S, Lu H, ..., Di Bartolomeo F, Kerkhoven EJ
- - (-) - [2023-07-18; online 2023-07-18]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Phospholipid Removal for Enhanced Chemical Exposomics in Human Plasma
Sdougkou K, Xie H, Papazian S, ..., Bergdahl IA, Martin JW
Environ. Sci. Technol. 57 (28) 10173-10184 [2023-07-18; online 2023-07-03]
Exposomics [Technology development]
PubMed DOI Crossref
Next generation pan-cancer blood proteome profiling using proximity extension assay.
Álvez MB, Edfors F, von Feilitzen K, ..., Fagerberg L, Uhlén M
Nat Commun 14 (1) 4308 [2023-07-18; online 2023-07-18]
Affinity Proteomics Uppsala [Collaborative] Bioinformatics Support for Computational Resources [Service] NGI Proteomics [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Comparative transcriptome profiling provides insights into the growth promotion activity of Pseudomonas fluorescens strain SLU99 in tomato and potato plants.
Hanifah NASB, Ghadamgahi F, Ghosh S, ..., Vetukuri RR, Kalyandurg PB
Front Plant Sci 14 (-) 1141692 [2023-07-18; online 2023-07-18]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Serum proteome profiles in patients treated with targeted temperature management after out-of-hospital cardiac arrest.
Lileikyte G, Bakochi A, Ali A, ..., Malmström J, Nielsen N
Intensive Care Med Exp 11 (1) 43 [2023-07-17; online 2023-07-17]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Impact of xylan on field productivity and wood saccharification properties in aspen.
Derba-Maceluch M, Sivan P, Donev EN, ..., Jönsson LJ, Mellerowicz EJ
Front Plant Sci 14 (-) 1218302 [2023-07-17; online 2023-07-17]
Swedish Metabolomics Centre (SMC) [Service]
DOI Crossref
Biosensor-Assisted Laboratory Evolution of Malonyl-CoA production inSaccharomyces cerevisiae
Ferreira R, Hedin KA, Nielsen J, David F
- - (-) - [2023-07-17; online 2023-07-17]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Restoring tumor immunogenicity with dendritic cell reprogramming.
Zimmermannova O, Ferreira AG, Ascic E, ..., Svane IM, Pereira CF
Sci Immunol 8 (85) eadd4817 [2023-07-14; online 2023-07-07]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Resolving the Pathogenesis of Anaplastic Wilms Tumors through Spatial Mapping of Cancer Cell Evolution.
Rastegar B, Andersson N, Petersson A, ..., Holmquist Mengelbier L, Gisselsson D
Clin. Cancer Res. 29 (14) 2668-2677 [2023-07-14; online 2023-05-04]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Absence of gut microbiota reduces neonatal survival and exacerbates liver disease in Cyp2c70-deficient mice with a human-like bile acid composition.
Sjöland W, Wahlström A, Makki K, ..., Bäckhed F, Marschall HU
Clin Sci (Lond) 137 (13) 995-1011 [2023-07-14; online 2023-06-29]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Irradiation and lithium treatment alter the global DNA methylation pattern and gene expression underlying a shift from gliogenesis towards neurogenesis in human neural progenitors.
Neofytou C, Backlund A, Blomgren K, Hermanson O
Transl Psychiatry 13 (1) 258 [2023-07-13; online 2023-07-13]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Quantitative Nanoscale Secondary Ion Mass Spectrometry (NanoSIMS) Imaging of Individual Vesicles to Investigate the Relation between Fraction of Chemical Release and Vesicle Size.
Nguyen TDK, Rabasco S, Lork AA, Toit AD, Ewing AG
Angew. Chem. Int. Ed. Engl. 62 (28) e202304098 [2023-07-10; online 2023-06-05]
Integrated Microscopy Technologies Gothenburg [Technology development]
DOI Crossref
Giant spin-splitting and tunable spin-momentum locked transport in room temperature collinear antiferromagnetic semimetallic CrO monolayer
Chen X, Wang D, Li L, Sanyal B
- 123 (2) - [2023-07-10; online 2023-07-11]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Autologous hematopoietic stem cell transplantation significantly alters circulating ceramides in peripheral blood of relapsing-remitting multiple sclerosis patients.
Vaivade A, Wiberg A, Khoonsari PE, ..., Burman J, Kultima K
Lipids Health Dis 22 (1) 97 [2023-07-07; online 2023-07-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
A new G-quadruplex-specific photosensitizer inducing genome instability in cancer cells by triggering oxidative DNA damage and impeding replication fork progression.
Deiana M, Andrés Castán JM, Josse P, ..., Cabanetos C, Sabouri N
Nucleic Acids Res. 51 (12) 6264-6285 [2023-07-07; online 2023-05-16]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
High-level in vitro resistance to gentamicin acquired in a stepwise manner in Neisseria gonorrhoeae.
Golparian D, Jacobsson S, Holley CL, Shafer WM, Unemo M
J. Antimicrob. Chemother. 78 (7) 1769-1778 [2023-07-05; online 2023-05-30]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Effects of FODMAPs and Gluten on Gut Microbiota and Their Association with the Metabolome in Irritable Bowel Syndrome: A Double-Blind, Randomized, Cross-Over Intervention Study.
Nordin E, Hellström PM, Dicksved J, ..., Landberg R, Brunius C
Nutrients 15 (13) - [2023-07-05; online 2023-07-05]
Bioinformatics Support for Computational Resources [Service] Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
Breeze 2.0: an interactive web-tool for visual analysis and comparison of drug response data.
Potdar S, Ianevski F, Ianevski A, ..., Aittokallio T, Saarela J
Nucleic Acids Res. 51 (W1) W57-W61 [2023-07-05; online 2023-05-14]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
A chromosome-level genome assembly for the Rock Ptarmigan (Lagopus muta).
Squires TE, Rödin-Mörch P, Formenti G, ..., Höglund J, Magnússon KP
G3 (Bethesda) 13 (7) - [2023-07-05; online 2023-05-04]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Vascular endothelial growth factor-D plasma levels and VEGFD genetic variants are independently associated with outcomes in patients with cardiovascular disease.
Davidsson P, Eketjäll S, Eriksson N, ..., White H, Wallentin L
Cardiovasc. Res. 119 (7) 1596-1605 [2023-07-04; online 2023-03-05]
Affinity Proteomics Uppsala [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cardiomyocyte-specific PCSK9 deficiency compromises mitochondrial bioenergetics and heart function.
Laudette M, Lindbom M, Arif M, ..., Levin MC, Borén J
Cardiovasc. Res. 119 (7) 1537-1552 [2023-07-04; online 2023-03-08]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Bone mineral density loci specific to the skull portray potential pleiotropic effects on craniosynostosis.
Medina-Gomez C, Mullin BH, Chesi A, ..., Kague E, Rivadeneira F
Commun Biol 6 (1) 691 [2023-07-04; online 2023-07-04]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Physical Activity, Sedentary Behavior, and Type 2 Diabetes: Mendelian Randomization Analysis.
Yuan S, Li X, Liu Q, ..., Burgess S, Larsson SC
J Endocr Soc 7 (8) bvad090 [2023-07-03; online 2023-06-26]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Loss of ctnnd2b affects neuronal differentiation and behavior in zebrafish.
Vaz R, Edwards S, Dueñas-Rey A, Hofmeister W, Lindstrand A
Front. Neurosci. 17 (-) 1205653 [2023-07-03; online 2023-07-03]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Incidence and Characteristics in Children with Post-COVID-19 Condition in Sweden.
Bygdell M, Kindblom JM, Martikainen J, Li H, Nyberg F
JAMA Netw Open 6 (7) e2324246 [2023-07-03; online 2023-07-03]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Domain landscapes of somatic NF1 mutations in pheochromocytoma and paraganglioma.
Tabebi M, Frikha F, Volpe M, Gimm O, Söderkvist P
Gene 872 (-) 147432 [2023-07-01; online 2023-04-14]
Clinical Genomics [Collaborative] Clinical Genomics Linköping [Collaborative]
PubMed DOI Crossref
Arabinoxylan supplemented bread: From extraction of fibers to effect of baking, digestion, and fermentation.
Zhang D, Rudjito RC, Pietiäinen S, ..., Vilaplana F, Jiménez-Quero A
Food Chem 413 (-) 135660 [2023-07-01; online 2023-02-10]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Whole exome sequencing of FFPE samples-expanding the horizon of forensic molecular autopsies.
Adolfsson E, Kling D, Gunnarsson C, ..., Gréen H, Gréen A
Int J Legal Med 137 (4) 1215-1234 [2023-07-00; online 2022-11-08]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Urodrill - a novel MRI-guided endoscopic biopsy technique to sample and molecularly classify muscle-invasive bladder cancer without fractionating the specimen during transurethral resection.
Eriksson P, Berg J, Bernardo C, ..., Zackrisson S, Liedberg F
Eur Urol Open Sci 53 (-) 78-82 [2023-07-00; online 2023-06-02]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
The organization of double-stranded RNA in the chikungunya virus replication organelle.
Laurent T, Carlson L
PLoS Negl Trop Dis 17 (7) e0011404 [2023-07-00; online 2023-07-05]
Cryo-EM [Service]
DOI Crossref
The influence of the capping ligands on the optoelectronic performance, morphology, and ion liberation of CsPbBr3 perovskite quantum dots
Liu Y, Tang S, Gao Z, ..., Edman L, Wang J
Nano Res. 16 (7) 10626-10633 [2023-07-00; online 2023-04-19]
Integrated Microscopy Technologies Umeå [Service]
DOI Crossref
Role of the supports during phosphorus poisoning of diesel oxidation catalysts
Ho PH, Shao J, Yao D, ..., Creaser D, Olsson L
Chemical Engineering Journal 468 (-) 143548 [2023-07-00; online 2023-07-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Proteomic and transcriptomic screening demonstrates increased mast cell-derived CCL23 in systemic mastocytosis.
Söderlund S, Boey D, van Midden W, ..., Dahlin JS, Ungerstedt J
J. Allergy Clin. Immunol. 152 (1) 205-213 [2023-07-00; online 2023-02-21]
NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Plasma levels of per- and polyfluoroalkyl substances (PFAS) are associated with altered levels of proteins previously linked to inflammation, metabolism and cardiovascular disease.
Dunder L, Salihovic S, Lind PM, Elmståhl S, Lind L
Environ Int 177 (-) 107979 [2023-07-00; online 2023-05-24]
Affinity Proteomics Uppsala [Service]
DOI Crossref
N-Arylation of primary and tertiary sulfonimidamides (SIAs) with benzyne precursors under transition metal-free conditions
Ambala S, Govender KB, Rajbongshi KK, ..., Naicker T, Arvidsson PI
Tetrahedron Letters 124 (-) 154583 [2023-07-00; online 2023-07-00]
Drug Discovery and Development (DDD) [Technology development]
PubMed DOI Crossref
Multiplex protein analysis and ensemble machine learning methods of fine needle aspirates from prostate cancer patients reveal potential diagnostic signatures associated with tumour grade.
Röbeck P, Franzén B, Cantera-Ahlman R, ..., Häggman M, Ladjevardi S
Cytopathology 34 (4) 286-294 [2023-07-00; online 2023-03-20]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Mucosal immune responses following a fourth SARS-CoV-2 vaccine dose.
Bladh O, Marking U, Havervall S, ..., Klingström J, Thålin C
Lancet Microbe 4 (7) e488 [2023-07-00; online 2023-04-20]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
Metabolic profiles reflect weight loss maintenance and the composition of diet after very-low-energy diet.
Näätänen M, Kårlund A, Mikkonen S, ..., Hanhineva K, Kolehmainen M
Clin Nutr 42 (7) 1126-1141 [2023-07-00; online 2023-05-17]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
Individualised human phenotype ontology gene panels improve clinical whole exome and genome sequencing analytical efficacy in a cohort of developmental and epileptic encephalopathies.
Henry OJ, Stödberg T, Båtelson S, ..., Stranneheim H, Wedell A
Mol Genet Genomic Med 11 (7) e2167 [2023-07-00; online 2023-03-26]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Immunological protein profiling of first-episode psychosis patients identifies CSF and blood biomarkers correlating with disease severity.
Eren F, Schwieler L, Orhan F, ..., Engberg G, Erhardt S
Brain, Behavior, and Immunity 111 (-) 376-385 [2023-07-00; online 2023-05-04]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Human resident liver myeloid cells protect against metabolic stress in obesity.
Barreby E, Strunz B, Nock S, ..., Chen P, Aouadi M
Nat Metab 5 (7) 1188-1203 [2023-07-00; online 2023-07-06]
Spatial Proteomics [Service]
DOI Crossref
High temperature interactions between K-rich biomass ash and MgO-based refractories
Wagri NK, Carlborg M, Eriksson M, ..., Broström M, Andersson BM
Journal of the European Ceramic Society 43 (8) 3770-3777 [2023-07-00; online 2023-07-00]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Forest Fire Influence on Tomicus piniperda-Associated Fungal Communities and Phloem Nutrient Availability of Colonized Pinus sylvestris.
Kluting K, Strid Y, Six D, Rosling A
Microb. Ecol. 86 (1) 224-239 [2023-07-00; online 2022-07-13]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Forensic prediction of sex, age, height, body mass index, hip-to-waist ratio, smoking status and lipid lowering drugs using epigenetic markers and plasma proteins.
Llobet MO, Johansson Å, Gyllensten U, Allen M, Enroth S
Forensic Sci Int Genet 65 (-) 102871 [2023-07-00; online 2023-04-07]
Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Expanding the phenotype of Seckel syndrome associated with biallelic loss-of-function variants in CEP63.
Pekkola Pacheco N, Pettersson M, Lindstrand A, Grigelioniene G
Am. J. Med. Genet. A 191 (7) 1929-1934 [2023-07-00; online 2023-04-05]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Esr1+ hypothalamic-habenula neurons shape aversive states.
Calvigioni D, Fuzik J, Le Merre P, ..., Carlén M, Meletis K
Nat. Neurosci. 26 (7) 1245-1255 [2023-07-00; online 2023-06-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Environmental stress during larval development induces DNA methylation shifts in the migratory painted lady butterfly (Vanessa cardui).
Boman J, Zhu Y, Höök L, ..., Talavera G, Backström N
Mol. Ecol. 32 (13) 3513-3523 [2023-07-00; online 2023-04-23]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Core genome multilocus sequence typing (cgMLST) confirms systemic spread of avian pathogenic Escherichia coli (APEC) in broilers with cellulitis.
Jonare L, Östlund E, Söderlund R, ..., Aspán A, Jansson DS
Vet. Microbiol. 282 (-) 109755 [2023-07-00; online 2023-04-24]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Complex life cycles drive community assembly through immigration and adaptive diversification.
Saltini M, Vasconcelos P, Rueffler C
Ecol. Lett. 26 (7) 1084-1094 [2023-07-00; online 2023-05-01]
Bioinformatics Support for Computational Resources [Service]
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Actionable cancer vulnerability due to translational arrest, p53 aggregation and ribosome biogenesis stress evoked by the disulfiram metabolite CuET.
Kanellis DC, Zisi A, Skrott Z, ..., Lindström MS, Bartek J
Cell Death Differ. 30 (7) 1666-1678 [2023-07-00; online 2023-05-04]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A phase I prospective, non-randomized trial of autologous dendritic cell-based cryoimmunotherapy in patients with metastatic castration-resistant prostate cancer.
Thomsen LCV, Honoré A, Reisæter LAR, ..., Kalland KH, Beisland C
Cancer Immunol. Immunother. 72 (7) 2357-2373 [2023-07-00; online 2023-03-20]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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A model of photosynthetic CO2 assimilation in C3 leaves accounting for respiration and energy recycling by the plastidial oxidative pentose phosphate pathway.
Wieloch T, Augusti A, Schleucher J
New Phytol. 239 (2) 518-532 [2023-07-00; online 2023-05-23]
Swedish NMR Centre (SNC) [Collaborative]
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Transport Properties of Protic Ionic Liquids Based on Triazolium and Imidazolium: Development of an Air-Free Conductivity Setup.
Morais EM, Idström A, Evenäs L, Martinelli A
Molecules 28 (13) - [2023-06-30; online 2023-06-30]
Swedish NMR Centre (SNC) [Service]
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Single cell-resolutionin situsequencing elucidates spatial dynamics of multiple sclerosis lesion and disease evolution
Langseth CM, Kukanja P, Rubio Rodríguez-Kirby LA, ..., Nilsson M, Castelo-Branco G
- - (-) - [2023-06-30; online 2023-06-30]
Bioinformatics Support for Computational Resources [Service] In Situ Sequencing (ISS) [Service]
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Elevated levels of MMP12 sourced from macrophages are associated with poor prognosis in urothelial bladder cancer.
Kerzeli IK, Kostakis A, Türker P, ..., Lord M, Mangsbo SM
BMC Cancer 23 (1) 605 [2023-06-30; online 2023-06-30]
Affinity Proteomics Uppsala [Service]
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Combined effects of isolation temperature and pH on functionality and beany flavor of pea protein isolates for meat analogue applications.
Sajib M, Forghani B, Kumar Vate N, Abdollahi M
Food Chem 412 (-) 135585 [2023-06-30; online 2023-01-27]
Chalmers Mass Spectrometry Infrastructure [Service]
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Screening autism-associated environmental factors in differentiating human neural progenitors with fractional factorial design-based transcriptomics.
Arora A, Becker M, Marques C, ..., Lanekoff I, Tammimies K
Sci Rep 13 (1) 10519 [2023-06-29; online 2023-06-29]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Quantification of metabolic niche occupancy dynamics in a Baltic Sea bacterial community.
Massing JC, Fahimipour AK, Bunse C, Pinhassi J, Gross T
mSystems 8 (3) e0002823 [2023-06-29; online 2023-05-31]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genetic markers associated with bone composition in Rhode Island Red laying hens.
Sallam M, Wilson PW, Andersson B, ..., De Koning DJ, Johnsson M
Genet. Sel. Evol. 55 (1) 44 [2023-06-29; online 2023-06-29]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Restricting Promiscuity of Plant Flavonoid 3'-Hydroxylase and 4'-O-Methyltransferase Improves the Biosynthesis of (2S)-Hesperetin in E. coli.
Liu J, Xiao Z, Zhang S, ..., Chen Y, Shan Y
J. Agric. Food Chem. 71 (25) 9826-9835 [2023-06-28; online 2023-06-13]
Chalmers Mass Spectrometry Infrastructure [Service]
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BTK and PLCG2 remain unmutated in one-third of patients with CLL relapsing on ibrutinib.
Bonfiglio S, Sutton LA, Ljungström V, ..., Rosenquist R, Ghia P
Blood Adv 7 (12) 2794-2806 [2023-06-27; online 2023-01-26]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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A Highly Substituted Ring-Fused 2-Pyridone Compound Targeting PrfA and the Efflux Regulator BrtA in Listeria monocytogenes.
Tükenmez H, Singh P, Sarkar S, ..., Almqvist F, Johansson J
MBio 14 (3) e0044923 [2023-06-27; online 2023-04-25]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Identification of potential biomarkers in active Lyme borreliosis.
Tjernberg I, Lager M, Furset Jensen G, ..., Brudin L, Henningsson AJ
PLoS ONE 18 (6) e0287586 [2023-06-26; online 2023-06-26]
Affinity Proteomics Uppsala [Service]
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Fluorometric Quantification of Total Cell-Free DNA as a Prognostic Biomarker in Non-Small-Cell Lung Cancer Patients Treated with Immune Checkpoint Blockade.
Oliver J, Onieva JL, Garrido-Barros M, ..., Rueda-Domínguez A, Barragán I
Cancers (Basel) 15 (13) - [2023-06-26; online 2023-06-26]
Bioinformatics Support for Computational Resources [Service]
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Ancient Sheep Genomes reveal four Millennia of North European Short-Tailed Sheep in the Baltic Sea region
Larsson MN, Miranda PM, Pan L, ..., Storå J, Günther T
bioRxiv - (-) - [2023-06-26; online 2023-06-26]
Ancient DNA [Service] Bioinformatics Support for Computational Resources [Service]
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MgO nanocube hydroxylation by nanometric water films.
Luong NT, Holmboe M, Boily JF
Nanoscale 15 (24) 10286-10294 [2023-06-23; online 2023-06-23]
Integrated Microscopy Technologies Umeå [Service]
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Case report: Extending the spectrum of clinical and molecular findings in FOXC1 haploinsufficiency syndrome.
Garza Flores A, Nordgren I, Pettersson M, ..., Nishimura G, Grigelioniene G
Front Genet 14 (-) 1174046 [2023-06-23; online 2023-06-23]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Unmodified rabies mRNA vaccine elicits high cross-neutralizing antibody titers and diverse B cell memory responses.
Hellgren F, Cagigi A, Arcoverde Cerveira R, ..., Petsch B, Loré K
Nat Commun 14 (1) 3713 [2023-06-22; online 2023-06-22]
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Thiobacillus as a key player for biofilm formation in oligotrophic groundwaters of the Fennoscandian Shield.
Lopez-Fernandez M, Westmeijer G, Turner S, ..., Bertilsson S, Dopson M
NPJ Biofilms Microbiomes 9 (1) 41 [2023-06-22; online 2023-06-22]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Dietary biomarkers and food records indicate compliance to study diets in the ADIRA (Anti-inflammatory Diet In Rheumatoid Arthritis) trial.
Wadell AT, Bärebring L, Hulander E, ..., Lindqvist H, Winkvist A
Front Nutr 10 (-) 1209787 [2023-06-22; online 2023-06-22]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Expanding the stdpopsim species catalog, and lessons learned for realistic genome simulations.
Lauterbur ME, Cavassim MIA, Gladstein AL, ..., Schrider DR, Gronau I
Elife 12 (-) - [2023-06-21; online 2023-06-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Microbial Profiling of Amniotic Fluid, Umbilical Blood and Placenta of the Foaling Mare.
Hemberg E, Niazi A, Guo Y, ..., Morrell JM, Kútvölgyi G
Animals (Basel) 13 (12) - [2023-06-18; online 2023-06-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Rapid Construction of a Chloromethyl-Substituted Duocarmycin-like Prodrug.
Bengtsson C, Gravenfors Y
Molecules 28 (12) - [2023-06-16; online 2023-06-16]
Drug Discovery and Development (DDD) [Collaborative]
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Disease phenotype prediction in multiple sclerosis.
Herman S, Arvidsson McShane S, Zjukovskaja C, ..., Spjuth O, Kultima K
iScience 26 (6) 106906 [2023-06-16; online 2023-05-19]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Investigation of cellulose dissolution in morpholinium-based solvents: impact of solvent structural features on cellulose dissolution.
Naserifar S, Koschella A, Heinze T, Bernin D, Hasani M
RSC Adv. 13 (27) 18639-18650 [2023-06-15; online 2023-06-20]
Swedish NMR Centre (SNC) [Service]
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Gene expression of S100a8/a9 predicts Staphylococcus aureus-induced septic arthritis in mice.
Deshmukh M, Subhash S, Hu Z, ..., Jin T, Kopparapu PK
Front Microbiol 14 (-) 1146694 [2023-06-15; online 2023-06-15]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Deciphering the contribution of microbial biomass to the properties of dissolved and particulate organic matter in anaerobic digestates.
Fernández-Domínguez D, Yekta SS, Hedenström M, Patureau D, Jimenez J
Sci. Total Environ. 877 (-) 162882 [2023-06-15; online 2023-03-17]
Swedish NMR Centre (SNC) [Collaborative]
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Human skin-resident CD8+ T cells require RUNX2 and RUNX3 for induction of cytotoxicity and expression of the integrin CD49a.
Zitti B, Hoffer E, Zheng W, ..., Eidsmo L, Bryceson YT
Immunity 56 (6) 1285-1302.e7 [2023-06-13; online 2023-06-02]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A large-scale sORF screen identifies putative microproteins and provides insights into their interaction partners, localisation and function
Schlesinger D, Dirks C, Luzon CN, ..., Eirich J, Elsässer SJ
- - (-) - [2023-06-13; online 2023-06-13]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service]
DOI Crossref
A Base‐Free, Low Temperature Click and Release Reaction for the In Situ Generation of Diazomethane
Schembri LS, Olaniran E, Söderström M, Skillinghaug B, Odell LR
Adv. Synth. Catal. 365 (11) 1839-1845 [2023-06-13; online 2023-05-23]
Spatial Mass Spectrometry [Service]
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Tailoring vascular phenotype through AAV therapy promotes anti-tumor immunity in glioma.
Ramachandran M, Vaccaro A, van de Walle T, ..., Essand M, Dimberg A
Cancer Cell 41 (6) 1134-1151.e10 [2023-06-12; online 2023-05-11]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service]
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Scalablein-vitroimmunostimulation of human blood for in-depth profiling of acute immune response effects
Reitzner SM, Brodin P, Mikeš J
- - (-) - [2023-06-11; online 2023-06-11]
Cellular Immunomonitoring [Collaborative]
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Production and Characterization of Poly(3-hydroxybutyrate) from Halomonas boliviensis LC1 Cultivated in Hydrolysates of Quinoa Stalks
Miranda DA, Marín K, Sundman O, ..., Carrasco C, Martín C
Fermentation 9 (6) 556 [2023-06-10; online 2023-06-10]
Integrated Microscopy Technologies Umeå [Service] Swedish NMR Centre (SNC) [Collaborative]
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Mutations in the CYP27B1 gene cause vitamin D dependent rickets in pugs.
Rohdin C, Wang C, Brander G, ..., Ljungvall I, Lindblad-Toh K
J. Vet. Intern. Med. 37 (4) 1507-1513 [2023-06-09; online 2023-06-09]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Adipokines and risk of rheumatoid arthritis: A two-sample multivariable Mendelian randomisation study.
Vasileiadis GK, Sayols S, Zhao SS, Fatima T, Maglio C
PLoS ONE 18 (6) e0286981 [2023-06-09; online 2023-06-09]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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The clinical picture of ERCC6L2 disease: from bone marrow failure to acute leukemia.
Hakkarainen M, Kaaja I, Douglas SPM, ..., Kilpivaara O, Wartiovaara-Kautto U
Blood 141 (23) 2853-2866 [2023-06-08; online 2023-03-24]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Molecular Pixelation: Single cell spatial proteomics by sequencing
Karlsson F, Kallas T, Thiagarajan D, ..., Barrio AM, Fredriksson S
- - (-) - [2023-06-08; online 2023-06-08]
Cellular Immunomonitoring [Collaborative]
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Epidemiology, validation, and clinical characteristics of inflammatory bowel disease: the ABIS birth cohort study.
Östensson M, Björkqvist O, Guo A, ..., Mårild K, Ludvigsson J
BMC Gastroenterol 23 (1) 199 [2023-06-08; online 2023-06-08]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Engineering Yeast to Improve Heterologous Abscisic Acid Production
Otto M, Gossing M, David F, Siewers V
- - (-) - [2023-06-08; online 2023-06-08]
Chalmers Mass Spectrometry Infrastructure [Service]
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Absence of changes in the milk microbiota during Escherichia coli endotoxin induced experimental bovine mastitis.
Dahlberg J, Johnzon CF, Sun L, ..., Östensson K, Dicksved J
Vet Res 54 (1) 46 [2023-06-08; online 2023-06-08]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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One, Two Three - Phosphaalkene Decoration Tailoring Solubility and Electronic Properties of Truxene-Based Electron Acceptors.
Shameem MA, Wells JAL, Gupta AK, Orthaber A
Chemistry 29 (32) e202300563 [2023-06-07; online 2023-04-25]
Bioinformatics Support for Computational Resources [Service]
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Mating modifies the expression of crucial oxidative-reductive transcripts in the pig oviductal sperm reservoir: is the female ensuring sperm survival?
Álvarez-Rodríguez M, Roca J, Martínez EA, Rodríguez-Martínez H
Front Endocrinol (Lausanne) 14 (-) 1042176 [2023-06-07; online 2023-06-07]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Challenges in supplying empirical proof for predictions derived from Species Distribution Models (SDMs): the case of an invasive cyanobacterium.
Meriggi C, Mehrshad M, Johnson RK, Laugen AT, Drakare S
ISME COMMUN. 3 (1) 56 [2023-06-06; online 2023-06-06]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Ablation of ZC3H11A causes early embryonic lethality and dysregulation of metabolic processes.
Younis S, Jouneau A, Larsson M, ..., Brochard V, Andersson L
Proc. Natl. Acad. Sci. U.S.A. 120 (23) e2216799120 [2023-06-06; online 2023-05-30]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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RegiSTORM: channel registration for multi-color stochastic optical reconstruction microscopy.
Øvrebø Ø, Ojansivu M, Kartasalo K, ..., Holme MN, Stevens MM
BMC Bioinformatics 24 (1) 237 [2023-06-05; online 2023-06-05]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Dysregulated peripheral proteome reveals NASH-specific signatures identifying patient subgroups with distinct liver biology.
Stiglund N, Hagström H, Stål P, Cornillet M, Björkström NK
Front Immunol 14 (-) 1186097 [2023-06-05; online 2023-06-05]
Affinity Proteomics Uppsala [Service]
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Investigation of enzalutamide, docetaxel, and cabazitaxel resistance in the castration resistant prostate cancer cell line C4 using genome-wide CRISPR/Cas9 screening.
Haldrup J, Weiss S, Schmidt L, Sørensen KD
Sci Rep 13 (1) 9043 [2023-06-03; online 2023-06-03]
CRISPR Functional Genomics [Service]
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Flavodiiron-mediated O2 photoreduction at photosystem I acceptor-side provides photoprotection to conifer thylakoids in early spring.
Bag P, Shutova T, Shevela D, ..., Messinger J, Jansson S
Nat Commun 14 (1) 3210 [2023-06-03; online 2023-06-03]
Swedish Metabolomics Centre (SMC) [Service]
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Small molecule-mediated disruption of ribosome biogenesis synergizes with FGFR inhibitors to suppress glioma cell growth
Zisi A, Kanellis DC, Moussaud S, ..., Bartek J, Lindström MS
Neuro-oncology 25 (6) 1058-1072 [2023-06-02; online 2022-12-30]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Creation of distinctive Bax-lipid complexes at mitochondrial membrane surfaces drives pore formation to initiate apoptosis.
Clifton LA, Wacklin-Knecht HP, Ådén J, ..., Sparrman T, Gröbner G
Sci Adv 9 (22) eadg7940 [2023-06-02; online 2023-06-02]
Swedish NMR Centre (SNC) [Collaborative]
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Role of myeloid cells in system-level immunometabolic dysregulation during prolonged successful HIV-1 treatment.
Svensson Akusjärvi S, Krishnan S, Ambikan AT, ..., Sönnerborg A, Neogi U
AIDS 37 (7) 1023-1033 [2023-06-01; online 2023-03-21]
Swedish Metabolomics Centre (SMC) [Service]
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Phenotypic and transcriptomic acclimation of the green microalga Raphidocelis subcapitata to high environmental levels of the herbicide diflufenican.
Gómez-Martínez D, Bengtson J, Nilsson AK, ..., Kristiansson E, Corcoll N
Sci. Total Environ. 875 (-) 162604 [2023-06-01; online 2023-03-05]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Chromosome-level genome assembly of Lilford's wall lizard, Podarcis lilfordi (Günther, 1874) from the Balearic Islands (Spain).
Gomez-Garrido J, Cruz F, Alioto TS, ..., Otalora Acevedo KE, Baldo L
DNA Res. 30 (3) - [2023-06-01; online 2023-05-04]
NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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An annotated chromosome-scale reference genome for Eastern black-eared wheatear (Oenanthe melanoleuca).
Peona V, Palacios-Gimenez OM, Lutgen D, ..., Suh A, Burri R
G3 (Bethesda) 13 (6) - [2023-06-01; online 2023-04-25]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Transcriptome and metabolome profiling identify factors potentially involved in pro-vitamin A accumulation in cassava landraces.
Olayide P, Alexandersson E, Tzfadia O, ..., Gisel A, Stavolone L
Plant Physiol Biochem 199 (-) 107713 [2023-06-00; online 2023-04-24]
Swedish Metabolomics Centre (SMC) [Service]
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The genomic basis and environmental correlates of local adaptation in the Atlantic horse mackerel (Trachurus trachurus).
Fuentes-Pardo AP, Farrell ED, Pettersson ME, Sprehn CG, Andersson L
Evol Appl 16 (6) 1201-1219 [2023-06-00; online 2023-06-06]
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The evolutionary maintenance of ancient recombining sex chromosomes in the ostrich.
Yazdi HP, Olito C, Kawakami T, ..., Hansson B, Cornwallis CK
PLoS Genet. 19 (6) e1010801 [2023-06-00; online 2023-06-30]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The BioLymph study - implementing precision medicine approaches in lymphoma diagnostics, treatment and follow-up: feasibility and first results.
Smedby KE, Wästerlid T, Tham E, ..., Sonnevi K, Rosenquist R
Acta Oncol 62 (6) 560-564 [2023-06-00; online 2023-07-06]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Retention of essential fatty acids in fish differs by species, habitat use and nutritional quality of prey.
Bandara T, Brugel S, Andersson A, Lau DCP
Ecol Evol 13 (6) e10158 [2023-06-00; online 2023-06-01]
Swedish Metabolomics Centre (SMC) [Service]
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Rehydration Post-orientation: Investigating Field-Induced Structural Changes via Computational Rehydration.
Brodmerkel MN, De Santis E, Caleman C, Marklund EG
Protein J 42 (3) 205-218 [2023-06-00; online 2023-04-08]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Proteomic analysis reveals microvesicles containing NAMPT as mediators of radioresistance in glioma.
Panizza E, Regalado BD, Wang F, ..., Cerione RA, Antonyak MA
Life Sci. Alliance 6 (6) - [2023-06-00; online 2023-04-10]
Global Proteomics and Proteogenomics [Service]
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Persistent immunosuppressive effects of dibutyl phthalate exposure in adult male mice
Pierozan P, Källsten L, Theodoropoulou E, Almamoun R, Karlsson O
Science of The Total Environment 878 (-) 162741 [2023-06-00; online 2023-06-00]
Affinity Proteomics Stockholm [Service]
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Pathogenic antibody response to glucose-6-phosphate isomerase targets a modified epitope uniquely exposed on joint cartilage.
Li T, Ge C, Krämer A, ..., Gjertsson I, Holmdahl R
Ann. Rheum. Dis. 82 (6) 799-808 [2023-06-00; online 2023-03-01]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Northwest African Neolithic initiated by migrants from Iberia and Levant.
Simões LG, Günther T, Martínez-Sánchez RM, ..., Valdiosera C, Jakobsson M
Nature 618 (7965) 550-556 [2023-06-00; online 2023-06-07]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Multimodal chromatin profiling using nanobody-based single-cell CUT&Tag.
Bartosovic M, Castelo-Branco G
Nat. Biotechnol. 41 (6) 794-805 [2023-06-00; online 2022-12-19]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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High temperature interactions between coal ash and MgO-based refractories in lime kiln conditions
Wagri NK, Carlborg M, Eriksson M, ..., Broström M, Andersson BM
Fuel 342 (-) 127711 [2023-06-00; online 2023-06-00]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Genome-wide association study and functional characterization identifies candidate genes for insulin-stimulated glucose uptake.
Williamson A, Norris DM, Yin X, ..., Fazakerley DJ, Langenberg C
Nat. Genet. 55 (6) 973-983 [2023-06-00; online 2023-06-08]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Diagnostic Yield From a Nationwide Implementation of Precision Medicine for all Children With Cancer.
Wadensten E, Wessman S, Abel F, ..., Gisselsson D, Genomic Medicine Sweden Childhood Cancer Working Group
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Short read [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
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Correlative Chemical Imaging Identifies Amyloid Peptide Signatures of Neuritic Plaques and Dystrophy in Human Sporadic Alzheimer's Disease.
Koutarapu S, Ge J, Jha D, ..., Michno W, Hanrieder J
Brain Connect 13 (5) 297-306 [2023-06-00; online 2022-10-07]
Integrated Microscopy Technologies Gothenburg [Service]
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Contrasting plant-soil-microbial feedbacks stabilize vegetation types and uncouple topsoil C and N stocks across a subarctic-alpine landscape.
Castaño C, Hallin S, Egelkraut D, ..., Olofsson J, Clemmensen KE
New Phytol. 238 (6) 2621-2633 [2023-06-00; online 2022-12-29]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Climate change-related warming reduces thermal sensitivity and modifies metabolic activity of coastal benthic bacterial communities.
Seidel L, Broman E, Nilsson E, ..., Forsman A, Dopson M
ISME J 17 (6) 855-869 [2023-06-00; online 2023-03-28]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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CO2 hydrogenation to light olefins using In2O3 and SSZ-13 catalyst − Understanding the role of zeolite acidity in olefin production
Di W, Ho PH, Achour A, ..., Olsson L, Creaser D
Journal of CO2 Utilization 72 (-) 102512 [2023-06-00; online 2023-06-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Atlas of mRNA translation and decay for bacteria.
Huch S, Nersisyan L, Ropat M, ..., Engstrand L, Pelechano V
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Swedish NMR Centre (SNC) [Service]
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Structural, vibrational, elastic, electronic, and piezoelectric properties of binary <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML">γ<mml:mtext>−</mml:mtext><mml:mrow>GeX</mml:mrow></mml:math> and ternary <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML">γ<mml:mtext>−</mml:mtext><mml:mrow><mml:msub>Ge2</mml:msub>X<mml:msup>X′</mml:msup></mml:mrow></mml:math> monolayers ( <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML">X</mml:math> , <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"><mml:msup>X′</mml:msup>=<mml:mi mathvariant="normal">S</mml:math> , Se, and Te)
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Parasit Vectors 16 (1) 156 [2023-05-01; online 2023-05-01]
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Melanocortin-4 receptors on neurons in the parabrachial nucleus mediate inflammation-induced suppression of food-seeking behavior.
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Functional genome annotation and transcriptome analysis of Pseudozyma hubeiensis BOT-O, an oleaginous yeast that utilizes glucose and xylose at equal rates.
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- - (-) - [2023-04-10; online 2023-04-10]
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Swedish NMR Centre (SNC) [Collaborative]
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Swedish NMR Centre (SNC) [Collaborative]
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Affinity Proteomics Stockholm [Collaborative]
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Red clover root-associated microbiota is shaped by geographic location and choice of farming system.
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Immune-interacting lymphatic endothelial subtype at capillary terminals drives lymphatic malformation.
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PubMed DOI Crossref
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J. Cell Biol. 222 (4) - [2023-04-03; online 2023-02-02]
Integrated Microscopy Technologies Stockholm [Service]
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Nat Commun 14 (1) 1833 [2023-04-01; online 2023-04-01]
Glycoproteomics and MS Proteomics [Collaborative]
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Hasselbalch RB, Kristensen JH, Strandkjær N, ..., Malmendal A, Iversen KK
Metabolomics 19 (4) 33 [2023-04-01; online 2023-04-01]
Swedish NMR Centre (SNC) [Service]
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Xylan glucuronic acid side chains fix suberin-like aliphatic compounds to wood cell walls.
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Swedish NMR Centre (SNC) [Collaborative]
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Pappas F, Kurta K, Vanhala T, ..., Beirão J, Palaiokostas C
Evol Appl 16 (4) 797-813 [2023-04-00; online 2023-02-27]
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Hensvold A, Horuluoglu B, Sahlström P, ..., Malmström V, Grönwall C
J. Autoimmun. 136 (-) 103022 [2023-04-00; online 2023-03-29]
NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Lung macrophages utilize unique cathepsin K-dependent phagosomal machinery to degrade intracellular collagen.
Fabrik I, Bilkei-Gorzo O, Öberg M, ..., Göransson M, Härtlova A
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Interleukin-6 trans-signaling induced laminin switch contributes to reduced trans-endothelial migration of granulocytic cells.
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Atherosclerosis 371 (-) 41-53 [2023-04-00; online 2023-03-22]
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Imputed genomes and haplotype-based analyses of the Picts of early medieval Scotland reveal fine-scale relatedness between Iron Age, early medieval and the modern people of the UK.
Morez A, Britton K, Noble G, ..., Donald C, Girdland-Flink L
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Ahlberg E, Martí M, Govindaraj D, ..., Jenmalm MC, Tingö L
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Ojalehto E, Zhan Y, Jylhävä J, ..., Dahl Aslan AK, Karlsson IK
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Formate overflow drives toxic folate trapping in MTHFD1 inhibited cancer cells.
Green AC, Marttila P, Kiweler N, ..., Henriksson M, Meiser J
Nat Metab 5 (4) 642-659 [2023-04-00; online 2023-04-03]
Drug Discovery and Development (DDD) [Collaborative] Swedish Metabolomics Centre (SMC) [Collaborative]
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Epigenetic changes in the CYP2D6 gene are related to severity of suicide attempt: A cross-sectional study of suicide attempters.
Boström AED, Jamshidi E, Manu DM, ..., Åsberg M, Jokinen J
J Psychiatr Res 160 (-) 217-224 [2023-04-00; online 2023-02-24]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Effect of alkalinity on the diffusion of solvent-fractionated lignin through cellulose membranes
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Cellulose 30 (6) 3685-3698 [2023-04-00; online 2023-02-28]
Swedish NMR Centre (SNC) [Service]
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Cardiac Plin5 interacts with SERCA2 and promotes calcium handling and cardiomyocyte contractility.
Cinato M, Mardani I, Miljanovic A, ..., Borén J, Levin MC
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Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
A Room-Temperature Spin-Valve with van der Waals Ferromagnet Fe5 GeTe2 /Graphene Heterostructure.
Zhao B, Ngaloy R, Ghosh S, ..., Sanyal B, Dash SP
Adv Mater 35 (16) e2209113 [2023-04-00; online 2023-03-08]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Distinct cervical tissue-adherent and luminal microbiome communities correlate with mucosal host gene expression and protein levels in Kenyan sex workers.
Edfeldt G, Kaldhusdal V, Czarnewski P, ..., Kwon DS, Broliden K
Microbiome 11 (1) 67 [2023-03-31; online 2023-03-31]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
C-type lectin receptor agonists elicit functional IL21-expressing Tfh cells and induce primary B cell responses in neonates.
Vono M, Mastelic-Gavillet B, Mohr E, ..., Lambert P, Siegrist C
Front Immunol 14 (-) 1155200 [2023-03-31; online 2023-03-31]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Lindberg FA, Nordenankar K, Forsberg EC, Fredriksson R
Genes 14 (4) - [2023-03-30; online 2023-03-30]
NGI Short read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre (SMC) [Service]
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Zhang J, Abdollahi M, Ström A, Undeland I
Food Chem X 17 (-) 100592 [2023-03-30; online 2023-02-04]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
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Rönnberg E, Ravindran A, Mazzurana L, ..., Mjösberg J, Nilsson G
Front Immunol 14 (-) 1151754 [2023-03-30; online 2023-03-30]
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PubMed DOI Crossref
Novel Insights into the Molecular Mechanisms Underlying Robustness and Stability in Probiotic Bifidobacteria.
Schöpping M, Goel A, Jensen K, ..., Franzén CJ, Zeidan AA
Appl. Environ. Microbiol. 89 (3) e0008223 [2023-03-29; online 2023-02-21]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
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Seidel L, Sachpazidou V, Ketzer M, ..., Forsman A, Dopson M
Front Microbiol 14 (-) 1099445 [2023-03-29; online 2023-03-29]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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- 77 (3) 159-169 [2023-03-28; online 2023-01-26]
Swedish NMR Centre (SNC) [Service]
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Trimethylamine N-Oxide (TMAO) Mediates Increased Inflammation and Colonization of Bladder Epithelial Cells during a Uropathogenic E. coli Infection In Vitro.
Wu R, Kumawat AK, Demirel I
Pathogens 12 (4) - [2023-03-27; online 2023-03-27]
Affinity Proteomics Uppsala [Service]
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Preselection of QTL markers enhances accuracy of genomic selection in Norway spruce.
Chen ZQ, Klingberg A, Hallingbäck HR, Wu HX
BMC Genomics 24 (1) 147 [2023-03-27; online 2023-03-27]
Bioinformatics (NBIS) [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Rodríguez-Gijón A, Buck M, Andersson AF, ..., Nascimento FJA, Garcia SL
ISME COMMUN. 3 (1) 25 [2023-03-27; online 2023-03-27]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Swedish NMR Centre (SNC) [Service]
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Unnersjö-Jess D, Butt L, Höhne M, ..., Bozek K, Benzing T
Kidney Int. - (-) - [2023-03-27; online 2023-03-27]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Wehrli PM, Ge J, Michno W, ..., Blennow K, Hanrieder J
JACS Au 3 (3) 762-774 [2023-03-27; online 2023-03-07]
Integrated Microscopy Technologies Gothenburg [Service]
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A small noncoding RNA links ribosome recovery and translation control to dedifferentiation during salamander limb regeneration.
Subramanian E, Elewa A, Brito G, ..., Andersson O, Simon A
Dev. Cell 58 (6) 450-460.e6 [2023-03-27; online 2023-03-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Simultaneous Ultra-Sensitive Detection of Structural and Single Nucleotide Variants Using Multiplex Droplet Digital PCR in Liquid Biopsies from Children with Medulloblastoma.
Arthur C, Jylhä C, de Ståhl TD, ..., Sandvik U, Tham E
Cancers (Basel) 15 (7) - [2023-03-25; online 2023-03-25]
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Woodward EL, Yang M, Moura-Castro LH, ..., Foijer F, Paulsson K
Nat Commun 14 (1) 1658 [2023-03-25; online 2023-03-25]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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RNA silencing proteins and small RNAs in oomycete plant pathogens and biocontrol agents.
Piombo E, Kelbessa BG, Sundararajan P, ..., Vetukuri RR, Dubey M
Front Microbiol 14 (-) 1076522 [2023-03-24; online 2023-03-24]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Trac QT, Pawitan Y, Mou T, ..., Kallioniemi O, Vu TN
NPJ Precis Oncol 7 (1) 32 [2023-03-24; online 2023-03-24]
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PubMed DOI Crossref
Intranasal trimeric sherpabody inhibits SARS-CoV-2 including recent immunoevasive Omicron subvariants.
Mäkelä AR, Uğurlu H, Hannula L, ..., Rissanen I, Saksela K
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New Dual Inhibitors of Bacterial Topoisomerases with Broad-Spectrum Antibacterial Activity and In Vivo Efficacy against Vancomycin-Intermediate Staphylococcus aureus.
Durcik M, Cotman AE, Toplak Ž, ..., Tomašič T, Peterlin Mašič L
J. Med. Chem. 66 (6) 3968-3994 [2023-03-23; online 2023-03-06]
Drug Discovery and Development (DDD) [Service]
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Neutralizing Carbapenem Resistance by Co-Administering Meropenem with Novel β-Lactam-Metallo-β-Lactamase Inhibitors.
Reddy N, Girdhari L, Shungube M, ..., Govender T, Naicker T
Antibiotics (Basel) 12 (4) - [2023-03-23; online 2023-03-23]
Drug Discovery and Development (DDD) [Collaborative]
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Exposure to nonanoic acid alters small intestinal neuroendocrine tumor phenotype.
Almobarak B, Amlani V, Inge L, ..., Arvidsson Y, Elias E
BMC Cancer 23 (1) 267 [2023-03-23; online 2023-03-23]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Evidence for a single, ancient origin of a genus-wide alternative life history strategy.
Tunström K, Woronik A, Hanly JJ, ..., Martin A, Wheat CW
Sci Adv 9 (12) eabq3713 [2023-03-22; online 2023-03-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Correlates of protection and viral load trajectories in omicron breakthrough infections in triple vaccinated healthcare workers.
Marking U, Havervall S, Norin NG, ..., Klingström J, Thålin C
Nat Commun 14 (1) 1577 [2023-03-22; online 2023-03-22]
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Serum immuno-oncology markers carry independent prognostic information in patients with newly diagnosed metastatic breast cancer, from a prospective observational study.
Gunnarsdottir FB, Bendahl PO, Johansson A, ..., Bergenfelz C, Larsson AM
Breast Cancer Res. 25 (1) 29 [2023-03-21; online 2023-03-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Erickson A, Motta A, Kastriti ME, ..., Bonanomi D, Adameyko I
- - (-) - [2023-03-18; online 2023-03-18]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Complete Reference Genome Sequence of the Clinical Neisseria gonorrhoeae Strain H035, with Resistance to the Novel Antimicrobial Zoliflodacin, Identified in Japan in 2000.
Golparian D, Jacobsson S, Ohnishi M, Unemo M
Microbiol Resour Announc 12 (3) e0113022 [2023-03-16; online 2023-02-28]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Rapid and accurate determination of protein content in North Atlantic seaweed by NIR and FTIR spectroscopies.
Niemi C, Mortensen AM, Rautenberger R, ..., Gorzsás A, Gentili FG
Food Chem 404 (Pt B) 134700 [2023-03-15; online 2022-10-19]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Autoantibodies against PIP4K2B and AKT3 Are Associated with Skin and Lung Fibrosis in Patients with Systemic Sclerosis.
Geroldinger-Simić M, Bayati S, Pohjanen E, ..., Nilsson P, Pin E
Int J Mol Sci 24 (6) - [2023-03-15; online 2023-03-15]
Autoimmunity and Serology Profiling [Collaborative]
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An integrated single cell and spatial transcriptomic map of human white adipose tissue.
Massier L, Jalkanen J, Elmastas M, ..., Rydén M, Mejhert N
Nat Commun 14 (1) 1438 [2023-03-15; online 2023-03-15]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A proinsulin-dependent interaction between ENPL-1 and ASNA-1 in neurons is required to maintain insulin secretion in C. elegans.
Podraza-Farhanieh A, Raj D, Kao G, Naredi P
Development 150 (6) - [2023-03-15; online 2023-03-20]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service]
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Tetramodal Chemical Imaging Delineates the Lipid-Amyloid Peptide Interplay at Single Plaques in Transgenic Alzheimer's Disease Models.
Ge J, Koutarapu S, Jha D, ..., Blennow K, Hanrieder J
Anal. Chem. 95 (10) 4692-4702 [2023-03-14; online 2023-03-01]
Integrated Microscopy Technologies Gothenburg [Service]
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A MITE insertion abolishes the AP3-3 self-maintenance regulatory loop in apetalous flowers of Nigella damascena.
Conde E Silva N, Leguilloux M, Bellec A, ..., Berges H, Deveaux Y
J. Exp. Bot. 74 (5) 1448-1459 [2023-03-13; online 2022-12-14]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Real-time single-molecule 3D tracking in E. coli based on cross-entropy minimization.
Amselem E, Broadwater B, Hävermark T, Johansson M, Elf J
Nat Commun 14 (1) 1336 [2023-03-11; online 2023-03-11]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Proteome integral solubility alteration high-throughput proteomics assay identifies Collectin-12 as a non-apoptotic microglial caspase-3 substrate.
Grabert K, Engskog-Vlachos P, Škandík M, ..., Joseph B, Cheray M
Cell Death Dis 14 (3) 192 [2023-03-11; online 2023-03-11]
Chemical Proteomics [Collaborative]
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In Vitro and In Vivo Development of a β-Lactam-Metallo-β-Lactamase Inhibitor: Targeting Carbapenem-Resistant Enterobacterales.
Peters BK, Reddy N, Shungube M, ..., Naicker T, Govender T
ACS Infect Dis 9 (3) 486-496 [2023-03-10; online 2023-02-14]
Drug Discovery and Development (DDD) [Collaborative]
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Enhanced glycerol assimilation and lipid production in Rhodotorula toruloides CBS14 upon addition of hemicellulose primarily correlates with early transcription of energy-metabolism-related genes.
Martín-Hernández GC, Chmielarz M, Müller B, ..., Hölzer M, Passoth V
Biotechnol Biofuels Bioprod 16 (1) 42 [2023-03-10; online 2023-03-10]
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One Health surveillance-A cross-sectoral detection, characterization, and notification of foodborne pathogens.
Tast Lahti E, Karamehmedovic N, Riedel H, ..., Zajac M, Jernberg C
Front Public Health 11 (-) 1129083 [2023-03-08; online 2023-03-08]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Comprehensive transcriptome analysis of different potato cultivars provides insight into early blight disease caused by Alternaria solani.
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Melatonin Prescription in Children and Adolescents in Relation to Body Weight and Age.
Kimland EE, Dahlén E, Martikainen J, Célind J, Kindblom JM
Pharmaceuticals (Basel) 16 (3) - [2023-03-06; online 2023-03-06]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Identification of phenotypically, functionally, and anatomically distinct stromal niche populations in human bone marrow based on single-cell RNA sequencing.
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Elife 12 (-) - [2023-03-06; online 2023-03-06]
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Venetoclax-Resistant T-ALL Cells Display Distinct Cancer Stem Cell Signatures and Enrichment of Cytokine Signaling.
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Int J Mol Sci 24 (5) - [2023-03-05; online 2023-03-05]
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miRNome and Proteome Profiling of Human Keratinocytes and Adipose Derived Stem Cells Proposed miRNA-Mediated Regulations of Epidermal Growth Factor and Interleukin 1-Alpha.
Shahin H, Abdallah S, Das J, ..., Elmasry M, El-Serafi AT
Int J Mol Sci 24 (5) - [2023-03-04; online 2023-03-04]
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Biotechnol Biofuels Bioprod 16 (1) 37 [2023-03-04; online 2023-03-04]
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Short term starvation potentiates the efficacy of chemotherapy in triple negative breast cancer via metabolic reprogramming.
Pateras IS, Williams C, Gianniou DD, ..., Gilthorpe JD, Frisan T
J Transl Med 21 (1) 169 [2023-03-03; online 2023-03-03]
Swedish Metabolomics Centre (SMC) [Service]
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Rickettsia felis DNA recovered from a child who lived in southern Africa 2000 years ago.
Rifkin RF, Vikram S, Alcorta J, ..., Schlebusch CM, Lombard M
Commun Biol 6 (1) 240 [2023-03-03; online 2023-03-03]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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ARF suppression by MYC but not MYCN confers increased malignancy of aggressive pediatric brain tumors.
Mainwaring OJ, Weishaupt H, Zhao M, ..., Hutter S, Swartling FJ
Nat Commun 14 (1) 1221 [2023-03-03; online 2023-03-03]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Onuț-Brännström I, Stairs CW, Campos KIA, ..., Bass D, Burki F
Genome Biol Evol 15 (3) - [2023-03-03; online 2023-02-16]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Genome-wide analysis identifies genetic effects on reproductive success and ongoing natural selection at the FADS locus.
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Front Virol 3 (-) 1128253 [2023-03-01; online 2023-04-13]
Structural Proteomics [Collaborative]
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Clonal relationships of memory B cell subsets in autoimmune mice.
Aranburu A, Engström E, Gerasimcik N, ..., Grimsholm O, Mårtensson IL
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Noborn F, Thomsen C, Vorontsov E, ..., Oldfors A, Larson G
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Structural basis of mitochondrial membrane bending by the I-II-III2-IV2 supercomplex.
Mühleip A, Flygaard RK, Baradaran R, ..., Sharma V, Amunts A
Nature 615 (7954) 934-938 [2023-03-00; online 2023-03-22]
Cryo-EM [Service]
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Striking membrane defects in AdipoR-deficient cells.
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Integrated Microscopy Technologies Gothenburg [Service]
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Rapid adaptations of Legionella pneumophila to the human host.
Leenheer D, Moreno AB, Paranjape K, ..., Ginevra C, Guy L
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Proteogenomic analysis of acute myeloid leukemia associates relapsed disease with reprogrammed energy metabolism both in adults and children.
Stratmann S, Vesterlund M, Umer HM, ..., Lehtiö J, Holmfeldt L
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Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Collaborative]
PubMed DOI Crossref
Population structure and hybridisation in a population of Hawaiian feral chickens.
Martin Cerezo ML, López S, van Dorp L, ..., Henriksen R, Wright D
Heredity (Edinb) 130 (3) 154-162 [2023-03-00; online 2023-02-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Occupational inhalable agents constitute major risk factors for rheumatoid arthritis, particularly in the context of genetic predisposition and smoking.
Tang B, Liu Q, Ilar A, ..., Alfredsson L, Jiang X
Ann. Rheum. Dis. 82 (3) 316-323 [2023-03-00; online 2022-12-06]
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Multiple introgressions shape mitochondrial evolutionary history in Drosophila paulistorum and the Drosophila willistoni group.
Baião GC, Schneider DI, Miller WJ, Klasson L
Mol. Phylogenet. Evol. 180 (-) 107683 [2023-03-00; online 2022-12-24]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Multidrug-resistant Neisseria gonorrhoeae isolate SE690: mosaic penA-60.001 gene causing ceftriaxone resistance internationally has spread to the more antimicrobial-susceptible genomic lineage, Sweden, September 2022.
Golparian D, Vestberg N, Södersten W, ..., Bhattarai KH, Unemo M
Euro Surveill. 28 (10) - [2023-03-00; online 2023-03-10]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Multi-ancestry genome-wide association analyses improve resolution of genes and pathways influencing lung function and chronic obstructive pulmonary disease risk.
Shrine N, Izquierdo AG, Chen J, ..., Hall IP, Tobin MD
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Isobaric labeling-based quantitative proteomics of FACS-purified immune cells and epithelial cells from the intestine of Crohn's disease patients reveals proteome changes of potential importance in disease pathogenesis.
Alfredsson J, Fabrik I, Gorreja F, ..., Lindskog EB, Wick MJ
Proteomics 23 (5) e2200366 [2023-03-00; online 2022-12-25]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Increasing Complexity of the N-Glycome During Caenorhabditis Development.
Wilson IBH, Yan S, Jin C, ..., Schnabel R, Paschinger K
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Glycoproteomics and MS Proteomics [Collaborative]
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Häggström G, Karl Hannl T, Holmgren P, ..., Skoglund N, Öhman M
Fuel 335 (-) 127059 [2023-03-00; online 2023-03-00]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Fast three-dimensional image generation for healthy brain aging using diffeomorphic registration.
Fu J, Tzortzakakis A, Barroso J, ..., Moreno R, Alzheimer's Disease Neuroimaging Initiative
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AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
DOI Crossref
Ectomycorrhizal fungi with hydrophobic mycelia and rhizomorphs dominate in young pine trees surviving experimental drought stress
Castaño C, Suarez-Vidal E, Zas R, ..., Oliva J, Sampedro L
Soil Biology and Biochemistry 178 (-) 108932 [2023-03-00; online 2023-03-00]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Comprehensive characterization of complex glycosphingolipids in human pancreatic cancer tissues.
Hořejší K, Jin C, Vaňková Z, ..., Teneberg S, Holčapek M
J. Biol. Chem. 299 (3) 102923 [2023-03-00; online 2023-01-19]
Glycoproteomics and MS Proteomics [Collaborative]
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Cardiovascular disease-linked plasma proteins are mainly associated with lung volume.
Rydell A, Nerpin E, Zhou X, ..., Ärnlöv J, Malinovschi A
ERJ Open Res 9 (2) - [2023-03-00; online 2023-03-27]
Affinity Proteomics Uppsala [Service]
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Birchenough GMH, Schroeder BO, Sharba S, ..., Bäckhed F, Hansson GC
Cell Rep 42 (2) 112084 [2023-02-28; online 2023-02-06]
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BMC Biol. 21 (1) 47 [2023-02-28; online 2023-02-28]
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ACS Nano 17 (4) 3430-3441 [2023-02-28; online 2023-02-16]
Swedish Metabolomics Centre (SMC) [Collaborative]
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Davies JS, Currie MJ, North RA, ..., Mace PD, Dobson RCJ
Nat Commun 14 (1) 1120 [2023-02-27; online 2023-02-27]
Cryo-EM [Collaborative]
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Microbiol Spectr 11 (2) e0367122 [2023-02-27; online 2023-02-27]
Bioinformatics Support for Computational Resources [Service] Microbial Single Cell Genomics [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Palma Medina LM, Babačić H, Dzidic M, ..., Strålin K, Norrby-Teglund A
Respir. Res. 24 (1) 62 [2023-02-24; online 2023-02-24]
Affinity Proteomics Stockholm [Service]
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Reproducing extracellular matrix adverse remodelling of non-ST myocardial infarction in a large animal model.
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Nat Commun 14 (1) 995 [2023-02-22; online 2023-02-22]
Glycoproteomics and MS Proteomics [Collaborative]
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Jun S, Toosi H, Mold J, ..., Roth A, Lagergren J
Nat Commun 14 (1) 982 [2023-02-22; online 2023-02-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Sorini C, Tripathi KP, Wu S, ..., Du J, Villablanca EJ
JCI Insight 8 (4) - [2023-02-22; online 2023-02-22]
Bioinformatics Support for Computational Resources [Service]
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Accelerated epigenetic aging in women with emotionally unstable personality disorder and a history of suicide attempts.
Boström ADE, Andersson P, Jamshidi E, ..., Åsberg M, Jokinen J
Transl Psychiatry 13 (1) 66 [2023-02-22; online 2023-02-22]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Sjödin KS, Sjödin A, Ruszczyński M, ..., Szajewska H, West CE
BMC Biol. 21 (1) 38 [2023-02-20; online 2023-02-20]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre (SMC) [Service]
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Endosperm cellularization failure induces a dehydration-stress response leading to embryo arrest.
Xu W, Sato H, Bente H, Santos-González J, Köhler C
Plant Cell 35 (2) 874-888 [2023-02-20; online 2022-11-26]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre (SMC) [Service]
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Lilja S, Li X, Smelik M, ..., Wang H, Benson M
Cell Reports Medicine - (-) 100956 [2023-02-17; online 2023-02-17]
Affinity Proteomics Stockholm [Service]
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Differential regulation of mRNA stability modulates transcriptional memory and facilitates environmental adaptation.
Li B, Zeis P, Zhang Y, ..., Steinmetz LM, Pelechano V
Nat Commun 14 (1) 910 [2023-02-17; online 2023-02-17]
Bioinformatics Support for Computational Resources [Service]
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Antibiotic thermorubin tethers ribosomal subunits and impedes A-site interactions to perturb protein synthesis in bacteria.
Parajuli NP, Emmerich A, Mandava CS, Pavlov MY, Sanyal S
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Cryo-EM [Service]
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Abolishing storage lipids induces protein misfolding and stress responses in Yarrowia lipolytica.
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J Ind Microbiol Biotechnol 50 (1) - [2023-02-17; online 2023-09-24]
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Cryo-EM structure and function of S. pombe complex IV with bound respiratory supercomplex factor.
Moe A, Ädelroth P, Brzezinski P, Näsvik Öjemyr L
Commun Chem 6 (1) 32 [2023-02-16; online 2023-02-16]
Cryo-EM [Service]
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Int J Mol Sci 24 (4) - [2023-02-16; online 2023-02-16]
Swedish NMR Centre (SNC) [Service]
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Boron-Mediated Regioselective Aromatic C-H Functionalization via an Aryl BF2 Complex.
Shinde GH, Sundén H
Chemistry 29 (10) e202203505 [2023-02-16; online 2022-12-23]
Swedish NMR Centre (SNC) [Service]
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Prognostic importance of biomarkers associated with haemostatic, vascular and endothelial disturbances in acute coronary syndrome patients in relation to kidney function.
Mörtberg J, Salzinger B, Lundwall K, ..., Lindahl B, Spaak J
Int. J. Cardiol. 373 (-) 64-71 [2023-02-15; online 2022-12-05]
Affinity Proteomics Uppsala [Service]
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Sun Y, Jia T, Barker ED, ..., Schumann G, Desrivières S
Biol. Psychiatry 93 (4) 342-351 [2023-02-15; online 2022-06-22]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Hardege I, Morud J, Courtney A, Schafer WR
J. Neurosci. 43 (7) 1111-1124 [2023-02-15; online 2023-01-05]
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- - (-) - [2023-02-14; online 2023-02-14]
In Situ Sequencing (ISS) [Technology development]
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Methods Mol. Biol. 2628 (-) 535-553 [2023-02-14; online 2023-02-14]
Autoimmunity and Serology Profiling [Technology development]
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Olof S, Lorraine E, Berhane A I, ..., Paula M, Susanne J
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Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative]
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DNA methylation changes and increased mRNA expression of coagulation proteins, factor V and thrombomodulin in Fuchs endothelial corneal dystrophy.
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Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Genomic architecture of migration timing in a long-distance migratory songbird.
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Sci Rep 13 (1) 2437 [2023-02-10; online 2023-02-10]
Bioinformatics Support for Computational Resources [Service] NGI Other [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure
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Anim Microbiome 5 (1) 9 [2023-02-10; online 2023-02-10]
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Front Microbiol 13 (-) 1089140 [2023-02-09; online 2023-02-09]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Glycoproteomics and MS Proteomics [Service]
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Dutta N, Rohlin A, Eklund EA, ..., Hallqvist A, Raghavan S
Front Oncol 12 (-) 1073457 [2023-02-09; online 2023-02-09]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Bahnan W, Happonen L, Khakzad H, ..., Malmström J, Nordenfelt P
EMBO Mol Med 15 (2) e16208 [2023-02-08; online 2022-12-12]
Structural Proteomics [Collaborative]
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Adv Healthc Mater - (-) e2202564 [2023-02-07; online 2023-02-07]
Affinity Proteomics Stockholm [Collaborative]
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Generation and analysis of context-specific genome-scale metabolic models derived from single-cell RNA-Seq data.
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
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Sarhan MS, Wurst C, Tzankov A, ..., Zink A, Maixner F
BMC Biol. 21 (1) 9 [2023-02-07; online 2023-02-07]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
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The anti-leprosy drug clofazimine reduces polyQ toxicity through activation of PPAR
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- - (-) - [2023-02-06; online 2023-02-06]
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Bodén S, Harbs J, Sundkvist A, ..., Harlid S, Van Guelpen B
Cancer Prev Res (Phila) 16 (2) 75-87 [2023-02-06; online 2022-11-12]
Clinical Genomics [Collaborative] Clinical Genomics Umeå [Collaborative]
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Cohort profile: The Clinical and Multi-omic (CAMO) cohort, part of the Norwegian Women and Cancer (NOWAC) study.
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PLoS ONE 18 (2) e0281218 [2023-02-06; online 2023-02-06]
Swedish Metabolomics Centre (SMC) [Service]
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Larval transcriptomes reflect the evolutionary history of plant-insect associations.
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Evolution 77 (2) 519-533 [2023-02-04; online 2023-01-11]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Cryo-EM structure supports a role of AQP7 as a junction protein.
Huang P, Venskutonytė R, Prasad RB, ..., Artner I, Lindkvist-Petersson K
Nat Commun 14 (1) 600 [2023-02-03; online 2023-02-03]
Cryo-EM [Service]
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Proteomic Analysis of Mucosal and Systemic Responses to SARS-CoV-2 Antigen.
Martinson N, Gordhan B, Petkov S, ..., Kana B, Herrera C
Vaccines (Basel) 11 (2) - [2023-02-02; online 2023-02-02]
Affinity Proteomics Stockholm [Service]
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Proteogenomics decodes the evolution of human ipsilateral breast cancer.
De Marchi T, Pyl PT, Sjöström M, ..., Malmstöm J, Niméus E
Commun Biol 6 (1) 139 [2023-02-02; online 2023-02-02]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Survival Outcomes, Digital TILs, and On-treatment PET/CT During Neoadjuvant Therapy for HER2-positive Breast Cancer: Results from the Randomized PREDIX HER2 Trial.
Matikas A, Johansson H, Grybäck P, ..., Hatschek T, Foukakis T
Clin. Cancer Res. 29 (3) 532-540 [2023-02-01; online 2022-12-01]
Bioinformatics Support for Computational Resources [Service]
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Population genomics of the island thrush elucidates one of earth's great archipelagic radiations.
Reeve AH, Gower G, Pujolar JM, ..., Racimo F, Jønsson KA
Evolution Letters 7 (1) 24-36 [2023-02-01; online 2023-01-31]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Immune-Activated B Cells Are Dominant in Prostate Cancer.
Saudi A, Banday V, Zirakzadeh AA, ..., Winqvist O, Sherif A
Cancers (Basel) 15 (3) - [2023-02-01; online 2023-02-01]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Umeå [Service]
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Anaerobic mercury methylators inhabit sinking particles of oxic water columns.
Capo E, Cosio C, Gascón Díez E, ..., Franzenburg S, Bravo AG
Water Res. 229 (-) 119368 [2023-02-01; online 2022-11-16]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Tissue-Specific Isolation of Tagged Arabidopsis Plastids.
Boussardon C, Keech O
Curr Protoc 3 (2) e673 [2023-02-00; online 2023-02-18]
Integrated Microscopy Technologies Umeå [Service]
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Ten years of marine evolutionary biology-Challenges and achievements of a multidisciplinary research initiative.
Johannesson K, Leder EH, André C, ..., Thorndyke M, Blomberg A
Evol Appl 16 (2) 530-541 [2023-02-00; online 2023-01-07]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Simultaneous membrane and RNA binding by tick-borne encephalitis virus capsid protein.
Pulkkinen LIA, Barrass SV, Lindgren M, ..., Lundmark R, Butcher SJ
PLoS Pathog. 19 (2) e1011125 [2023-02-00; online 2023-02-14]
Swedish Metabolomics Centre (SMC) [Service]
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Plasma levels of CCL21, but not CCL19, independently predict future coronary events in a prospective population-based cohort.
Katra P, Hennings V, Nilsson J, ..., Bengtsson E, Björkbacka H
Atherosclerosis 366 (-) 1-7 [2023-02-00; online 2023-01-12]
Affinity Proteomics Uppsala [Service]
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Migratory behaviour is positively associated with genetic diversity in butterflies.
García-Berro A, Talla V, Vila R, ..., Backström N, Talavera G
Mol. Ecol. 32 (3) 560-574 [2023-02-00; online 2022-11-23]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Inactivation of RB1, CDKN2A, and TP53 have distinct effects on genomic stability at side-by-side comparison in karyotypically normal cells.
Andersson N, Saba KH, Magnusson L, ..., Nord KH, Gisselsson D
Genes Chromosomes Cancer 62 (2) 93-100 [2023-02-00; online 2022-09-30]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Immune gene expression in the mosquito vector Culex quinquefasciatus during an avian malaria infection
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Mol Ecol 32 (4) 904-919 [2023-02-00; online 2022-12-14]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Identification of metabotypes in complex biological data using tensor decomposition
Skantze V, Wallman M, Sandberg AS, ..., Jirstrand M, Brunius C
Chemometrics and Intelligent Laboratory Systems 233 (-) 104733 [2023-02-00; online 2023-02-00]
Chalmers Mass Spectrometry Infrastructure [Service]
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Identification of biomarkers and outcomes of endocrine disruption in human ovarian cortex using In Vitro Models.
Li T, Vazakidou P, Leonards PEG, ..., van Duursen M, Damdimopoulou P
Toxicology 485 (-) 153425 [2023-02-00; online 2023-01-05]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Hypercomplex Low Rank Reconstruction for NMR Spectroscopy
Guo Y, Zhan J, Tu Z, ..., Qu X, Guo D
Signal Processing 203 (-) 108809 [2023-02-00; online 2023-02-00]
Swedish NMR Centre (SNC) [Collaborative]
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High-content analysis shows synergistic effects of low perfluorooctanoic acid (PFOS) and perfluorooctane sulfonic acid (PFOA) mixture concentrations on human breast epithelial cell carcinogenesis.
Pierozan P, Kosnik M, Karlsson O
Environ Int 172 (-) 107746 [2023-02-00; online 2023-01-12]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service] Bioinformatics Support for Computational Resources [Service]
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Evaluation of kraft and hydrolysis lignin hydroconversion over unsupported NiMoS catalyst
Achour A, Bernin D, Creaser D, Olsson L
Chemical Engineering Journal 453 (-) 139829 [2023-02-00; online 2023-02-00]
Swedish NMR Centre (SNC) [Service]
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Distinct T cell subsets in adipose tissue are associated with obesity.
Haugstøyl ME, Cornillet M, Strand K, ..., Fernø J, Björkström NK
Eur. J. Immunol. 53 (2) e2249990 [2023-02-00; online 2022-12-13]
Bioinformatics Support for Computational Resources [Service]
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Diseased thyroid tissue classification in OCT images using deep learning: Towards surgical decision support.
Tampu IE, Eklund A, Johansson K, Gimm O, Haj-Hosseini N
J. Biophotonics 16 (2) e202200227 [2023-02-00; online 2022-11-11]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Chemical composition and species identification of microalgal biomass grown at pilot-scale with municipal wastewater and CO2 from flue gases.
Lage S, Gentili FG
Chemosphere 313 (-) 137344 [2023-02-00; online 2022-11-26]
Swedish Metabolomics Centre (SMC) [Service]
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Carbon substrate selects for different lineages of N2O reducing communities in soils under anoxic conditions
Maheshwari A, Jones CM, Tiemann M, Hallin S
Soil Biology and Biochemistry 177 (-) 108909 [2023-02-00; online 2023-02-00]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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An annotated high-content fluorescence microscopy dataset with Hoechst 33342-stained nuclei and manually labelled outlines.
Arvidsson M, Rashed SK, Aits S
Data Brief 46 (-) 108769 [2023-02-00; online 2022-11-21]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
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An allozyme polymorphism is associated with a large chromosomal inversion in the marine snail Littorina fabalis.
Le Moan A, Panova M, De Jode A, ..., Butlin R, Johannesson K
Evol Appl 16 (2) 279-292 [2023-02-00; online 2022-06-26]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A topographic atlas defines developmental origins of cell heterogeneity in the human embryonic lung.
Sountoulidis A, Marco Salas S, Braun E, ..., Nilsson M, Samakovlis C
Nat Cell Biol 25 (2) 351-365 [2023-02-00; online 2023-01-16]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] In Situ Sequencing (ISS) [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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7-month duration of SARS-CoV-2 mucosal immunoglobulin-A responses and protection.
Marking U, Bladh O, Havervall S, ..., Klingström J, Thålin C
Lancet Infect Dis 23 (2) 150-152 [2023-02-00; online 2023-01-11]
Affinity Proteomics Uppsala [Collaborative]
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6α-hydroxylated bile acids mediate TGR5 signalling to improve glucose metabolism upon dietary fiber supplementation in mice.
Makki K, Brolin H, Petersen N, ..., Marschall HU, Bäckhed F
Gut 72 (2) 314-324 [2023-02-00; online 2022-06-13]
Bioinformatics Support for Computational Resources [Service]
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Stochastic nuclear organization and host-dependent allele contribution in Rhizophagus irregularis.
van Creij J, Auxier B, An J, ..., Pan Z, Limpens E
BMC Genomics 24 (1) 53 [2023-01-28; online 2023-01-28]
Microbial Single Cell Genomics [Service]
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The motor system is exceptionally vulnerable to absence of the ubiquitously expressed superoxide dismutase-1.
Park JH, Nordström U, Tsiakas K, ..., Marklund SL, Andersen PM
Brain Commun 5 (1) fcad017 [2023-01-27; online 2023-01-27]
Swedish Metabolomics Centre (SMC) [Service]
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Inversions maintain differences between migratory phenotypes of a songbird.
Lundberg M, Mackintosh A, Petri A, Bensch S
Nat Commun 14 (1) 452 [2023-01-27; online 2023-01-27]
Bioinformatics Support for Computational Resources [Service] NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]
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Discovery and Hit-to-Lead Optimization of Benzothiazole Scaffold-Based DNA Gyrase Inhibitors with Potent Activity against Acinetobacter baumannii and Pseudomonas aeruginosa.
Cotman AE, Durcik M, Benedetto Tiz D, ..., Sterk GJ, Kikelj D
J. Med. Chem. 66 (2) 1380-1425 [2023-01-26; online 2023-01-12]
Drug Discovery and Development (DDD) [Service]
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Starch intake, amylase gene copy number variation, plasma proteins, and risk of cardiovascular disease and mortality.
Li H, Borné Y, Wang Y, Sonestedt E
BMC Med 21 (1) 27 [2023-01-24; online 2023-01-24]
Affinity Proteomics Uppsala [Service]
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Rahimi S, van Leeuwen D, Roshanzamir F, ..., Esbjörner EK, Mijakovic I
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Swedish Metabolomics Centre (SMC) [Service]
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Höök L, Näsvall K, Vila R, Wiklund C, Backström N
Chromosome Res. 31 (1) 2 [2023-01-20; online 2023-01-20]
Bioinformatics Support for Computational Resources [Service] NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Sylvén C, Wärdell E, Månsson-Broberg A, ..., Björklund Å, Giacomello S
iScience 26 (1) 105857 [2023-01-20; online 2022-12-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
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Bauer S, Chen CY, Jonson M, ..., Magadi SS, Jackson WS
Acta Neuropathol Commun 11 (1) 17 [2023-01-20; online 2023-01-20]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Shemirani MI, Tilevik D, Tilevik A, ..., Enroth H, Pernestig AK
BMC Infect. Dis. 23 (1) 39 [2023-01-20; online 2023-01-20]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Single-cell analysis of myeloid cells in HPV+ tonsillar cancer.
Jimenez DG, Altunbulakli C, Swoboda S, ..., Greiff L, Lindstedt M
Front Immunol 13 (-) 1087843 [2023-01-19; online 2023-01-19]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics [Service] Clinical Genomics Lund [Service]
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- - (-) - [2023-01-19; online 2023-01-19]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Highly differentiated loci resolve phylogenetic relationships in the Bean Goose complex.
Ottenburghs J, Honka J, Heikkinen ME, ..., Müskens GJDM, Ellegren H
BMC Ecol Evol 23 (1) 2 [2023-01-19; online 2023-01-19]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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- - (-) - [2023-01-18; online 2023-01-18]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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A chemical screen underscores the essential role of STAT1-dependent IFNγ signaling to regulate HLA-I expression in cancer cells.
Barz M, Porebski B, Panshikar P, ..., Hühn D, Fernandez-Capetillo O
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Chemical Biology Consortium Sweden (CBCS) [Service]
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Zero-Degree Celsius Capillary Electrophoresis Electrospray Ionization for Hydrogen Exchange Mass Spectrometry.
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Anal. Chem. 95 (2) 1149-1158 [2023-01-17; online 2022-12-22]
Spatial Mass Spectrometry [Collaborative]
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Suarez C, Hackl T, Wilen BM, ..., Jetten MSM, Dalcin Martins P
FEMS Microbiol. Lett. 370 (-) - [2023-01-17; online 2023-06-09]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Fluorogenic properties of 4-dimethylaminocinnamaldehyde (DMACA) enable high resolution imaging of cell-wall-bound proanthocyanidins in plant root tissues.
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Front Plant Sci 13 (-) 1060804 [2023-01-16; online 2023-01-16]
Swedish Metabolomics Centre (SMC) [Service]
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Wang B, Hu H, Bishop K, ..., Bertilsson S, Bravo AG
J Hazard Mater 442 (-) 130057 [2023-01-15; online 2022-09-23]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Methylmercury formation in biofilms of Geobacter sulfurreducens.
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Integrated Microscopy Technologies Umeå [Service]
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PIK3CA is recurrently mutated in canine mammary tumors, similarly to in human mammary neoplasia.
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Sci Rep 13 (1) 632 [2023-01-12; online 2023-01-12]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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HGG Adv 4 (1) 100148 [2023-01-12; online 2022-10-04]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Stem Cell Reports 18 (1) 337-353 [2023-01-10; online 2022-11-17]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Immunoglobulin germline gene polymorphisms influence the function of SARS-CoV-2 neutralizing antibodies.
Pushparaj P, Nicoletto A, Sheward DJ, ..., Corcoran M, Karlsson Hedestam GB
Immunity 56 (1) 193-206.e7 [2023-01-10; online 2022-12-12]
Structural Proteomics [Collaborative]
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Krstic A, Rezayee F, Saft L, ..., Svenberg P, Barbany G
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Antibiotic perseverance increases the risk of resistance development.
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Bioinformatics Support for Computational Resources [Service]
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Spatial and temporal heterogeneity in human mobility patterns in Holocene Southwest Asia and the East Mediterranean.
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Curr. Biol. 33 (1) 41-57.e15 [2023-01-09; online 2022-12-08]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Hases L, Stepanauskaite L, Birgersson M, ..., Engstrand L, Williams C
Commun Biol 6 (1) 20 [2023-01-09; online 2023-01-09]
Bioinformatics Support for Computational Resources [Service]
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The effect of side chain variations on quinazoline-pyrimidine G-quadruplex DNA ligands.
Bhuma N, Chand K, Andréasson M, ..., Öhlund D, Chorell E
Eur J Med Chem 248 (-) 115103 [2023-01-08; online 2023-01-08]
Swedish NMR Centre (SNC) [Service]
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Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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Deep Learning on Ultrasound Images Visualizes the Femoral Nerve with Good Precision.
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AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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GotEnzymes: an extensive database of enzyme parameter predictions.
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Drug Discovery and Development (DDD) [Service]
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Experimental Life History Evolution Results in Sex-specific Evolution of Gene Expression in Seed Beetles.
Immonen E, Sayadi A, Stojković B, ..., Wiberg RAW, Arnqvist G
Genome Biol Evol 15 (1) - [2023-01-04; online 2022-12-22]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Alaei Kakhki N, Schweizer M, Lutgen D, ..., Schielzeth H, Burri R
Mol. Biol. Evol. 40 (1) - [2023-01-04; online 2022-12-30]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Optimization of N-Piperidinyl-Benzimidazolone Derivatives as Potent and Selective Inhibitors of 8-Oxo-Guanine DNA Glycosylase 1.
Wallner O, Cázares-Körner A, Scaletti ER, ..., Helleday T, Michel M
ChemMedChem 18 (1) e202200310 [2023-01-03; online 2022-10-13]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Lidström T, Cumming J, Gaur R, ..., Patthey C, Öhlund D
Cancer Immunol Res 11 (1) 72-92 [2023-01-03; online 2022-12-09]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Umeå [Service]
PubMed DOI Crossref
Breast cancer patient-derived whole-tumor cell culture model for efficient drug profiling and treatment response prediction.
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Proc. Natl. Acad. Sci. U.S.A. 120 (1) e2209856120 [2023-01-03; online 2022-12-27]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Service]
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Allesøe RL, Lundgaard AT, Hernández Medina R, ..., Brunak S, IMI DIRECT Consortium
Nat. Biotechnol. - (-) - [2023-01-02; online 2023-01-02]
Affinity Proteomics Stockholm [Collaborative]
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Cytokinin signaling regulates two-stage inflorescence arrest in Arabidopsis.
Walker CH, Ware A, Šimura J, ..., Wilson Z, Bennett T
Plant Physiol. 191 (1) 479-495 [2023-01-02; online 2022-11-05]
Swedish Metabolomics Centre (SMC) [Service]
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The path to immortalization of cells starts by managing stress through gene duplications.
Lewerentz J, Johansson AM, Stenberg P
Exp. Cell Res. 422 (1) 113431 [2023-01-01; online 2022-11-21]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Kha M, Krawczyk K, Choong OK, ..., Swärd K, Johansson ME
Am. J. Physiol. Renal Physiol. 324 (1) F75-F90 [2023-01-01; online 2022-12-01]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Clinical Genomics Lund [Service]
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Tabebi M, Söderkvist P, Gimm O
Endocr. Relat. Cancer 30 (1) - [2023-01-01; online 2022-12-08]
Clinical Genomics [Collaborative] Clinical Genomics Linköping [Collaborative]
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Associations of PFAS-related plasma metabolites with cholesterol and triglyceride concentrations.
Schillemans T, Bergdahl IA, Hanhineva K, ..., Åkesson A, Brunius C
Environ. Res. 216 (Pt 2) 114570 [2023-01-01; online 2022-10-13]
Bioinformatics Support for Computational Resources [Service] Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Widespread CNS pathology in amyotrophic lateral sclerosis homozygous for the D90A SOD1 mutation
Forsberg KM, Graffmo KS, Stenvall E, ..., Brännström T, Andersen PM
Acta Neuropathol 145 (1) 13-28 [2023-01-00; online 2022-11-16]
Integrated Microscopy Technologies Umeå [Service]
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Three Adult Cases of STAT1 Gain-of-Function with Chronic Mucocutaneous Candidiasis Treated with JAK Inhibitors.
Borgström EW, Edvinsson M, Pérez LP, ..., Brodin P, Bergman P
J Clin Immunol 43 (1) 136-150 [2023-01-00; online 2022-09-02]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Collaborative] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Rare tandem repeat expansions associate with genes involved in synaptic and neuronal signaling functions in schizophrenia.
Wen J, Trost B, Engchuan W, ..., Yuen RKC, Szatkiewicz JP
Mol. Psychiatry 28 (1) 475-482 [2023-01-00; online 2022-11-16]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Palmoplantar keratoderma and digital clubbing in 2 sisters with hypertrophic osteoarthropathy.
Eriksson D, Gyll D, Virtanen M, ..., Klar J, Stattin EL
JAAD Case Rep 31 (-) 133-136 [2023-01-00; online 2022-12-01]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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NMR spectrum reconstruction as a pattern recognition problem.
Jahangiri A, Han X, Lesovoy D, ..., Achour A, Orekhov V
J Magn Reson 346 (-) 107342 [2023-01-00; online 2022-11-24]
Swedish NMR Centre (SNC) [Technology development]
PubMed DOI Crossref
Multienzyme deep learning models improve peptide de novo sequencing by mass spectrometry proteomics.
Gueto-Tettay C, Tang D, Happonen L, ..., Malmström J, Malmström L
PLoS Comput. Biol. 19 (1) e1010457 [2023-01-00; online 2023-01-20]
Structural Proteomics [Technology development]
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Graphene oxide elicits microbiome-dependent type 2 immune responses via the aryl hydrocarbon receptor.
Peng G, Sinkko HM, Alenius H, ..., Bräutigam L, Fadeel B
Nat Nanotechnol 18 (1) 42-48 [2023-01-00; online 2022-12-12]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genotype-first approach to identify associations between CDH1 germline variants and cancer phenotypes: a multicentre study by the European Reference Network on Genetic Tumour Risk Syndromes.
Garcia-Pelaez J, Barbosa-Matos R, Lobo S, ..., Hoogerbrugge N, Oliveira C
Lancet Oncol 24 (1) 91-106 [2023-01-00; online 2022-11-24]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Gene gain facilitated endosymbiotic evolution of Chlamydiae.
Dharamshi JE, Köstlbacher S, Schön ME, ..., Ettema TJG, Horn M
Nat Microbiol 8 (1) 40-54 [2023-01-00; online 2023-01-05]
Bioinformatics Support for Computational Resources [Service]
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Enantioselective CE-MS analysis of ketamine metabolites in urine.
Sandbaumhüter FA, Aerts JT, Theurillat R, ..., Thormann W, Jansson ET
Electrophoresis 44 (1-2) 125-134 [2023-01-00; online 2022-12-09]
Spatial Mass Spectrometry [Collaborative]
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Cerebral small vessel disease: Recent advances and future directions.
Markus HS, de Leeuw FE
Int J Stroke 18 (1) 4-14 [2023-01-00; online 2022-12-29]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Bayesian mixed model analysis uncovered 21 risk loci for chronic kidney disease in boxer dogs.
Lingaas F, Tengvall K, Jansen JH, ..., Lindblad-Toh K, Wang C
PLoS Genet. 19 (1) e1010599 [2023-01-00; online 2023-01-24]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Automatic Time-Resolved Cardiovascular Segmentation of 4D Flow MRI Using Deep Learning.
Bustamante M, Viola F, Engvall J, Carlhäll CJ, Ebbers T
J Magn Reson Imaging 57 (1) 191-203 [2023-01-00; online 2022-05-04]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Aerosol-based deposition of broadband antireflective silica coating with closed mesoporous structure
Zäll E, Järn M, Karlsson S, ..., Sundin M, Wågberg T
Solar Energy Materials and Solar Cells 250 (-) 112078 [2023-01-00; online 2023-01-00]
Integrated Microscopy Technologies Umeå [Service]
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A comprehensive characterization of patients diagnosed with post-COVID-19 condition in Sweden 16 months after the introduction of the International Classification of Diseases Tenth Revision diagnosis code (U09.9): a population-based cohort study.
Bygdell M, Leach S, Lundberg L, ..., Gisslén M, Nyberg F
Int J Infect Dis 126 (-) 104-113 [2023-01-00; online 2022-11-21]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Visualization and quality control tools for large-scale multiplex tissue analysis in TissUUmaps3
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Biol. Imaging 3 (-) - [2023-00-00; online 2023-02-20]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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Systematics of the avian family Alaudidae using multilocus and genomic data
Alström P, Mohammadi Z, Enbody ED, ..., Donald PF, Stervander M
Avian Research 14 (-) 100095 [2023-00-00; online 2023-00-00]
Bioinformatics Support for Computational Resources [Service]
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Sequential extraction of hemicelluloses by subcritical water improves saccharification of hybrid aspen wood grown in greenhouse and field conditions
Sivan P, Heinonen E, Latha Gandla M, ..., Mellerowicz EJ, Vilaplana F
Green Chem. 25 (14) 5634-5646 [2023-00-00; online 2023-00-00]
Integrated Microscopy Technologies Umeå [Service]
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Paulsen Thoresen P, Fahrni J, Lange H, ..., Christakopoulos P, Matsakas L
Sustainable Energy Fuels 7 (22) 5361-5373 [2023-00-00; online 2023-00-00]
Swedish NMR Centre (SNC) [Service]
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Metabolomics-based analysis in Daphnia magna after exposure to low environmental concentrations of polystyrene nanoparticles
Kelpsiene E, Cedervall T, Malmendal A
Environ. Sci.: Nano 10 (7) 1858-1866 [2023-00-00; online 2023-00-00]
Swedish NMR Centre (SNC) [Service]
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Fluorescent carbon dots from birch leaves for sustainable electroluminescent devices
Tang S, Liu Y, Opoku H, ..., Edman L, Wang J
Green Chem. 25 (23) 9884-9895 [2023-00-00; online 2023-00-00]
Integrated Microscopy Technologies Umeå [Service]
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Ghasemi S, Ornago L, Liasi Z, ..., Lara-Avila S, Moth-Poulsen K
J. Mater. Chem. C 11 (44) 15412-15418 [2023-00-00; online 2023-00-00]
Swedish NMR Centre (SNC) [Service]
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Drug repurposing screens identify compounds that inhibit α-synuclein oligomers' membrane disruption and block antibody interactions
Somavarapu AK, Kleijwegt G, Nagaraj M, ..., Nielsen J, Otzen DE
Chem. Sci. 14 (11) 3030-3047 [2023-00-00; online 2023-00-00]
Chemical Biology Consortium Sweden (CBCS) [Service]
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Edsjö A, Lindstrand A, Gisselsson D, ..., Fioretos T, Rosenquist R
Camb. prisms Precis. med. 1 (-) - [2023-00-00; online 2023-02-27]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Branched polyesters from radical ring-opening polymerization of cyclic ketene acetals: synthesis, chemical hydrolysis and biodegradation
Mousa M, Jonsson M, Wilson O, ..., Larsson Kron A, Malmström E
Polym. Chem. 14 (47) 5154-5165 [2023-00-00; online 2023-00-00]
Drug Discovery and Development (DDD) [Collaborative]
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Affinity-Purification Combined with Crosslinking Mass Spectrometry for Identification and Structural Modeling of Host–Pathogen Protein–Protein Complexes
Happonen LJ
Methods Mol. Biol. 2674 (-) 181-200 [2023-00-00; online 2023-06-01]
Structural Proteomics [Technology development]
DOI Crossref
A novel biorefinery concept based on marginally used halophyte biomass
Monção M, Thoresen PP, Wretborn T, ..., Christakopoulos P, Matsakas L
Sustainable Energy Fuels 7 (16) 3902-3918 [2023-00-00; online 2023-00-00]
Swedish NMR Centre (SNC) [Service]
DOI Crossref
A crowd-sourced genomic project to assess hybrid content in a rare avian vagrant (Azure Tit Cyanistes cyanus (Pallas, 1770))
Irestedt M, Thörn F, Ericson PGP, ..., Johansson F, Nylander JAA
Avian Research 14 (-) 100130 [2023-00-00; online 2023-00-00]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Metataxonomic and metaproteomic profiling of the oral microbiome in oral lichen planus - a pilot study.
Bankvall M, Carda-Diéguez M, Mira A, ..., Karlsson R, Robledo-Sierra J
Journal of Oral Microbiology 15 (1) 2161726 [2022-12-28; online 2022-12-28]
Glycoproteomics and MS Proteomics [Service]
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Implicating genes, pleiotropy, and sexual dimorphism at blood lipid loci through multi-ancestry meta-analysis
Kanoni S, Graham SE, Wang Y, ..., Assimes TL, Peloso GM
Genome Biol. 23 (1) 268 [2022-12-27; online 2022-12-27]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Developmental cues license megakaryocyte priming in murine hematopoietic stem cells.
Kristiansen TA, Zhang Q, Vergani S, ..., Ungerbäck J, Yuan J
Blood Adv 6 (24) 6228-6241 [2022-12-27; online 2022-05-19]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Leukocyte DNA methylation in Alzheimer´s disease associated genes: replication of findings from neuronal cells.
Karlsson IK, Ploner A, Wang Y, ..., Pedersen NL, Hägg S
Epigenetics - (-) 1-5 [2022-12-26; online 2022-12-26]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Microfluidic Device for Patient-Centric Multiplexed Assays with Readout in Centralized Laboratories.
Hauser J, Dale M, Beck O, ..., Fredolini C, Roxhed N
Anal. Chem. - (-) - [2022-12-22; online 2022-12-22]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Matched Analyses of Brain Metastases versus Primary Non-Small Cell Lung Cancer Reveal a Unique microRNA Signature.
Tsakonas G, Koulouris A, Kazmierczak D, ..., Hydbring P, Ekman S
Int J Mol Sci 24 (1) - [2022-12-22; online 2022-12-22]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
A protein signature associated with active tuberculosis identified by plasma profiling and network-based analysis.
Mousavian Z, Folkesson E, Fröberg G, ..., Källenius G, Sundling C
iScience 25 (12) 105652 [2022-12-22; online 2022-11-22]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Investigation of the Virome and Characterization of Issyk-Kul Virus from Swedish Myotis brandtii Bats.
Cholleti H, de Jong J, Blomström AL, Berg M
Pathogens 12 (1) - [2022-12-21; online 2022-12-21]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exhaled phospholipid transfer protein and hepatocyte growth factor receptor in lung adenocarcinoma.
Andreasson J, Bodén E, Fakhro M, ..., Hallgren O, Lindstedt S
Respir. Res. 23 (1) 369 [2022-12-21; online 2022-12-21]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
An investigation of metabolome in blood in patients with chronic peripheral, posttraumatic/postsurgical neuropathic pain.
Ghafouri B, Thordeman K, Hadjikani R, ..., Gerdle B, Bäckryd E
Sci Rep 12 (1) 21714 [2022-12-15; online 2022-12-15]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Loss of Y in leukocytes as a risk factor for critical COVID-19 in men
Bruhn-Olszewska B, Davies H, Sarkisyan D, ..., Frithiof R, Dumanski JP
Genome Med 14 (1) 139 [2022-12-14; online 2022-12-14]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Upper gut heat shock proteins HSP70 and GRP78 promote insulin resistance, hyperglycemia, and non-alcoholic steatohepatitis.
Angelini G, Castagneto-Gissey L, Salinari S, ..., Tremaroli V, Mingrone G
Nat Commun 13 (1) 7715 [2022-12-13; online 2022-12-13]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Metabolic reprogramming and membrane glycan remodeling as potential drivers of zebrafish heart regeneration.
Spelat R, Ferro F, Contessotto P, ..., Kilcoyne M, Pandit A
Commun Biol 5 (1) 1365 [2022-12-13; online 2022-12-13]
In Situ Sequencing (ISS) [Service]
PubMed DOI Crossref
Structural mechanism of signal transduction in a phytochrome histidine kinase.
Wahlgren WY, Claesson E, Tuure I, ..., Takala H, Westenhoff S
Nat Commun 13 (1) 7673 [2022-12-12; online 2022-12-12]
Cryo-EM [Service]
PubMed DOI Crossref
Gene Networks and Pathways Involved in LPS-Induced Proliferative Response of Bovine Endometrial Epithelial Cells.
Najafi M, Guo Y, Andersson G, Humblot P, Bongcam-Rudloff E
Genes 13 (12) - [2022-12-12; online 2022-12-12]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Plasma Concentrations of Short-Chain Fatty Acids in Active and Recovered Anorexia Nervosa.
Xu J, Landberg R, Lavebratt C, ..., Landén M, Nilsson IAK
Nutrients 14 (24) - [2022-12-09; online 2022-12-09]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
Monitoring drug-target interactions through target engagement-mediated amplification on arrays and in situ.
Al-Amin RA, Johansson L, Abdurakhmanov E, ..., Lundbäck T, Landegren U
Nucleic Acids Res. 50 (22) e129 [2022-12-09; online 2022-10-04]
Autoimmunity and Serology Profiling [Service] Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Endoreplication mediates cell size control via mechanochemical signaling from cell wall.
Ma Y, Jonsson K, Aryal B, ..., Hamant O, Bhalerao RP
Sci Adv 8 (49) eabq2047 [2022-12-09; online 2022-12-09]
Cryo-EM [Service]
PubMed DOI Crossref
Conformational Change of Transcription Factors from Search to Specific Binding: A lac Repressor Case Study.
Lüking M, Elf J, Levy Y
J. Phys. Chem. B 126 (48) 9971-9984 [2022-12-08; online 2022-11-23]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Bayesian model and selection signature analyses reveal risk factors for canine atopic dermatitis.
Tengvall K, Sundström E, Wang C, ..., Andersson G, Lindblad-Toh K
Commun Biol 5 (1) 1348 [2022-12-08; online 2022-12-08]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
A third dose of the unmodified COVID-19 mRNA vaccine CVnCoV enhances quality and quantity of immune responses.
Lenart K, Hellgren F, Ols S, ..., Petsch B, Loré K
Mol Ther Methods Clin Dev 27 (-) 309-323 [2022-12-08; online 2022-10-06]
Affinity Proteomics Stockholm [Service] Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Fecal Luminal Factors from Patients with Gastrointestinal Diseases Alter Gene Expression Profiles in Caco-2 Cells and Colonoids.
Holst LM, Iribarren C, Sapnara M, ..., Magnusson MK, Öhman L
Int J Mol Sci 23 (24) - [2022-12-07; online 2022-12-07]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
Adopting transfer learning for neuroimaging: a comparative analysis with a custom 3D convolution neural network model.
Soliman A, Chang JR, Etminani K, ..., Alzheimer’s Disease Neuroimaging Initiative , Ochoa-Figueroa M
BMC Med Inform Decis Mak 22 (Suppl 6) 318 [2022-12-07; online 2022-12-07]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
PubMed DOI Crossref
V. cholerae MakA is a cholesterol-binding pore-forming toxin that induces non-canonical autophagy.
Jia X, Knyazeva A, Zhang Y, ..., Corkery DP, Wu YW
J. Cell Biol. 221 (12) - [2022-12-05; online 2022-10-04]
Cryo-EM [Service]
PubMed DOI Crossref
Early fate bias in neuroepithelial progenitors of hippocampal neurogenesis.
von Berlin L, Westholm JO, Ratz M, Frisén J
Hippocampus - (-) - [2022-12-05; online 2022-12-05]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Blue Turns to Gray: Paleogenomic Insights into the Evolutionary History and Extinction of the Blue Antelope (Hippotragus leucophaeus).
Hempel E, Bibi F, Faith JT, ..., Hofreiter M, Westbury MV
Mol. Biol. Evol. 39 (12) - [2022-12-05; online 2022-11-03]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
An extension to the NK fitness landscape model to study pleiotropy, epistasis, and ruggedness independently
Mehra P, Hintze A
- - (-) - [2022-12-04; online 2022-12-04]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Autoantigenic properties of the aminoacyl tRNA synthetase family in idiopathic inflammatory myopathies.
Preger C, Notarnicola A, Hellström C, ..., Gräslund S, Jakobsson P
J. Autoimmun. 134 (-) 102951 [2022-12-02; online 2022-12-02]
Autoimmunity and Serology Profiling [Service] Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
The structure of cellulose nanofibril networks at low concentrations and their stabilizing action on colloidal particles.
Nordenström M, Benselfelt T, Hollertz R, ..., Söderberg D, Wågberg L
Carbohydr Polym 297 (-) 120046 [2022-12-01; online 2022-09-01]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
The genetic diagnosis of rare endocrine disorders of sex development and maturation: a survey among Endo-ERN centres.
Persani L, Cools M, Ioakim S, ..., Vezzoli V, Rossetti R
Endocr Connect 11 (12) - [2022-12-01; online 2022-11-14]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Genetics of tibia bone properties of crossbred commercial laying hens in different housing systems.
Johnsson M, Wall H, Lopes Pinto FA, ..., Kindmark A, de Koning DJ
G3 (Bethesda) - (-) - [2022-12-01; online 2022-12-01]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Gallionella and Sulfuricella populations are dominant during the transition of boreal potential to actual acid sulfate soils
Högfors-Rönnholm E, Lundin D, Brambilla D, ..., Österholm P, Dopson M
Commun Earth Environ 3 (1) - [2022-12-01; online 2022-12-01]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Functional responses of key marine bacteria to environmental change - toward genetic counselling for coastal waters.
Pinhassi J, Farnelid H, García SM, ..., Labrenz M, Riemann L
Front Microbiol 13 (-) 869093 [2022-12-01; online 2022-12-01]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Extracellular vesicle DNA from human melanoma tissues contains cancer-specific mutations.
Crescitelli R, Filges S, Karimi N, ..., Lässer C, Olofsson Bagge R
Front Cell Dev Biol 10 (-) 1028854 [2022-12-01; online 2022-12-01]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
The role of inputs of marine wrack and carrion in sandy-beach ecosystems: a global review.
Hyndes GA, Berdan EL, Duarte C, ..., Olds A, Schlacher TA
Biol Rev Camb Philos Soc 97 (6) 2127-2161 [2022-12-00; online 2022-08-11]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
The landscape of tumor cell states and spatial organization in H3-K27M mutant diffuse midline glioma across age and location.
Liu I, Jiang L, Samuelsson ER, ..., Nilsson M, Filbin MG
Nat. Genet. 54 (12) 1881-1894 [2022-12-00; online 2022-12-05]
In Situ Sequencing (ISS) [Collaborative]
PubMed DOI Crossref
The emerging landscape of spatial profiling technologies.
Moffitt JR, Lundberg E, Heyn H
Nat. Rev. Genet. 23 (12) 741-759 [2022-12-00; online 2022-07-20]
Spatial Proteomics [Service]
PubMed DOI Crossref
Species composition of shoreline wolf spider communities vary with salinity, but their diets vary with wrack inflow.
Hambäck PA, Cirtwill AR, Grudzinska-Sterno M, ..., Langbak M, Åhlén D
Ecol Evol 12 (12) e9701 [2022-12-00; online 2022-12-28]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatial and temporal heterogeneity in the lineage progression of fine oligodendrocyte subtypes
Hilscher MM, Langseth CM, Kukanja P, ..., Nilsson M, Castelo-Branco G
BMC Biol. 20 (1) 122 [2022-12-00; online 2022-05-25]
In Situ Sequencing (ISS) [Collaborative]
PubMed DOI Crossref
Seroprevalence of SARS-CoV-2 antibodies among public transport workers in Sweden.
Sjörs Dahlman A, Anund A
Journal of Transport & Health 27 (-) 101508 [2022-12-00; online 2022-09-28]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
Sequence-based genotyping of extra-intestinal pathogenic Escherichia coli isolates from patients with suspected community-onset sepsis, Sweden.
Tilevik D, Pernestig AK, Fagerlind M, ..., Johansson M, Enroth H
Microb Pathog 173 (Pt A) 105836 [2022-12-00; online 2022-10-17]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Screening patients with autoimmune endocrine disorders for cytokine autoantibodies reveals monogenic immune deficiencies.
Sjøgren T, Bratland E, Røyrvik EC, ..., Husebye ES, Wolff ASB
J. Autoimmun. 133 (-) 102917 [2022-12-00; online 2022-09-30]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Resistance of subarctic soil fungal and invertebrate communities to disruption of below‐ground carbon supply
Parker TC, Chomel M, Clemmensen KE, ..., Subke J, Wookey PA
J Ecol 110 (12) 2883-2897 [2022-12-00; online 2022-10-17]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Quantitative image analysis of protein foam microstructure and its correlation with rheological properties: Egg white foam
Bonilla JC, Sørensen JL, Warming AS, Clausen MP
Food Hydrocolloids 133 (-) 108010 [2022-12-00; online 2022-12-00]
Integrated Microscopy Technologies Gothenburg [Collaborative]
PubMed DOI Crossref
Lower plasma concentrations of short-chain fatty acids (SCFAs) in patients with ADHD.
Yang LL, Stiernborg M, Skott E, ..., Giacobini M, Lavebratt C
J Psychiatr Res 156 (-) 36-43 [2022-12-00; online 2022-09-28]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
DOI Crossref
Long-term ley and manure managements have consistent effects on microbial functional profiles and organic C groups across soils from a latitudinal gradient
Shi A, Nunan N, Figueira J, Herrmann AM, Wetterlind J
Agron. Sustain. Dev. 42 (6) - [2022-12-00; online 2022-11-03]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Isolation and characterization of a main porin from the outer membrane of Salinibacter ruber.
Farci D, Cocco E, Tanas M, ..., Schröder WP, Piano D
J Bioenerg Biomembr 54 (5-6) 273-281 [2022-12-00; online 2022-10-13]
Cryo-EM [Service]
PubMed DOI Crossref
Genomic Profiling Identifies Putative Pathogenic Alterations in NSCLC Brain Metastases.
Nicoś M, Harbers L, Patrucco E, ..., Ambrogio C, Crosetto N
JTO Clin Res Rep 3 (12) 100435 [2022-12-00; online 2022-11-11]
Spatial Proteomics [Service]
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Genome-wide association and Mendelian randomization study of fibroblast growth factor 21 reveals causal associations with hyperlipidemia and possibly NASH.
Larsson SC, Michaëlsson K, Mola-Caminal M, Höijer J, Mantzoros CS
Metabolism 137 (-) 155329 [2022-12-00; online 2022-10-05]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Fusion transcript analysis reveals slower response kinetics than multiparameter flow cytometry in childhood acute myeloid leukaemia.
Karlsson L, Nyvold CG, Soboli A, ..., Abrahamsson J, Fogelstrand L
Int J Lab Hematol 44 (6) 1094-1101 [2022-12-00; online 2022-08-02]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Effects of conventionally treated and ozonated wastewater on the damselfly larva oxylipidome in response to on-site exposure.
Späth J, Brodin T, Falås P, ..., Fick J, Nording M
Chemosphere 309 (Pt 1) 136604 [2022-12-00; online 2022-09-27]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Cone-setting in spruce is regulated by conserved elements of the age-dependent flowering pathway.
Akhter S, Westrin KJ, Zivi N, ..., Emanuelsson O, Sundström JF
New Phytol. 236 (5) 1951-1963 [2022-12-00; online 2022-09-16]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Comparison of ROS1-rearrangement detection methods in a cohort of surgically resected non-small cell lung carcinomas.
Thurfjell V, Micke P, Yu H, ..., Goldmann T, Mattsson JSM
Transl Lung Cancer Res 11 (12) 2477-2494 [2022-12-00; online 2023-01-14]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Characterization of a Clostridioides difficile outbreak caused by PCR ribotype 046, associated with increased mortality.
Magnusson C, Mernelius S, Bengnér M, ..., Forshell S, Matussek A
Emerg Microbes Infect 11 (1) 850-859 [2022-12-00; online 2022-03-05]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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An overlooked subset of Cx3cr1wt/wt microglia in the Cx3cr1CreER-Eyfp/wt mouse has a repopulation advantage over Cx3cr1CreER-Eyfp/wt microglia following microglial depletion
Zhou K, Han J, Lund H, ..., Harris RA, Blomgren K
J Neuroinflammation 19 (1) 20 [2022-12-00; online 2022-01-21]
Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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<i>Aeromonas salmonicida</i> binds α2-6 linked sialic acid, which is absent among the glycosphingolipid repertoires from skin, gill, stomach, pyloric caecum, and intestine.
Benktander J, Sundh H, Sharba S, Teneberg S, Lindén SK
Virulence 13 (1) 1741-1751 [2022-12-00; online 2022-10-08]
Glycoproteomics and MS Proteomics [Service]
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Dynamic patterns of blood lipids and DNA methylation in response to statin therapy.
Qin X, Wang Y, Pedersen NL, Tang B, Hägg S
Clin Epigenetics 14 (1) 153 [2022-11-28; online 2022-11-28]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Deep mutational scan of a drug efflux pump reveals its structure-function landscape.
Meier G, Thavarasah S, Ehrenbolger K, ..., Barandun J, Seeger MA
Nat. Chem. Biol. - (-) - [2022-11-28; online 2022-11-28]
Cryo-EM [Service]
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Anti-citrullinated protein antibody specificities and pulmonary fibrosis in relation to genetic loci in early rheumatoid arthritis.
Brink M, Ljung L, Hansson M, ..., Klareskog L, Rantapää-Dahlqvist S
Rheumatology (Oxford) 61 (12) 4985-4990 [2022-11-28; online 2022-05-10]
Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Plasma protein biomarker profiling reveals major differences between acute leukaemia, lymphoma patients and controls.
Abu Sabaa A, Shen Q, Lennmyr EB, ..., Enblad G, Eriksson A
N Biotechnol 71 (-) 21-29 [2022-11-25; online 2022-06-29]
Affinity Proteomics Uppsala [Service] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Mucosal IgA against SARS-CoV-2 Omicron Infection. Reply.
Åberg M, Smed-Sörensen A, Thålin C
N. Engl. J. Med. 387 (21) e55 [2022-11-24; online 2022-11-24]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
The mechanical regulation of RNA binding protein hnRNPC in the failing heart.
Martino F, Varadarajan NM, Perestrelo AR, ..., Pagliari S, Forte G
Sci Transl Med 14 (672) eabo5715 [2022-11-23; online 2022-11-23]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Choice of High-Throughput Proteomics Method Affects Data Integration with Transcriptomics and the Potential Use in Biomarker Discovery.
Mosquim Junior S, Siino V, Rydén L, Vallon-Christersson J, Levander F
Cancers (Basel) 14 (23) - [2022-11-23; online 2022-11-23]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Sphingosine 1-phosphate mediates adiponectin receptor signaling essential for lipid homeostasis and embryogenesis.
Ruiz M, Devkota R, Panagaki D, ..., Borén J, Pilon M
Nat Commun 13 (1) 7162 [2022-11-22; online 2022-11-22]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Short and long-term associations between serum proteins linked to cardiovascular disease and particle exposure among constructions workers.
Gliga AR, Grahn K, Gustavsson P, ..., Selander J, Broberg K
Scand J Work Environ Health - (-) - [2022-11-21; online 2022-11-21]
Affinity Proteomics Uppsala [Service]
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Macrophages support healing of ischemic injury by transdifferentiating towards mural cells and adopting functions important for vascular support
Parv K, Hidalgo CH, Xu F, ..., Christoffersson G, Phillipson M
- - (-) - [2022-11-21; online 2022-11-21]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Detection of SARS-CoV-2 antibodies in serum and dried blood spot samples of vaccinated individuals using a sensitive homogeneous proximity extension assay.
Zhao H, Wang M, Muthelo P, ..., Mei YF, Landegren U
N Biotechnol 72 (-) 139-148 [2022-11-21; online 2022-11-21]
Affinity Proteomics Uppsala [Technology development]
PubMed DOI Crossref
Plasma proteins from several components of the immune system differentiate chronic widespread pain patients from healthy controls - an exploratory case-control study combining targeted and non-targeted protein identification.
Gerdle B, Wåhlén K, Gordh T, ..., Carlsson A, Ghafouri B
Medicine 101 (46) e31013 [2022-11-18; online 2022-11-20]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Organochemical Characterization of Peat Reveals Decomposition of Specific Hemicellulose Structures as the Main Cause of Organic Matter Loss in the Acrotelm.
Serk H, Nilsson MB, Figueira J, ..., Alewell C, Schleucher J
Environ. Sci. Technol. - (-) - [2022-11-18; online 2022-11-18]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Hyaluronan nanoscale clustering and Hyaluronan synthase 2 expression are linked to the invasion of child fibroblasts and infantile fibrosarcoma in vitro and in vivo.
Tonge JJ, Notley SV, Dunning MJ, ..., Panoutsos G, Gad AKB
Sci Rep 12 (1) 19835 [2022-11-18; online 2022-11-18]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Self-reported symptom severity, general health, and impairment in post-acute phases of COVID-19: retrospective cohort study of Swedish public employees.
Larsson SB, von Feilitzen GS, Andersson ME, ..., Nilsson S, Sigström R
Sci Rep 12 (1) 19818 [2022-11-17; online 2022-11-17]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Integration of small RNAs from plasma and cerebrospinal fluid for classification of multiple sclerosis.
Needhamsen M, Khoonsari PE, Zheleznyakova GY, ..., Ekman D, Jagodic M
Front Genet 13 (-) 1042483 [2022-11-17; online 2022-11-17]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Divergent gene expression responses in two Baltic Sea heterotrophic model bacteria to dinoflagellate dissolved organic matter.
Osbeck CMG, Lundin D, Karlsson C, ..., Moran MA, Pinhassi J
PLoS ONE 17 (11) e0243406 [2022-11-17; online 2022-11-17]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Stage-specific transposon activity in the life cycle of the fairy-ring mushroom <i>Marasmius oreades</i>.
Hiltunen M, Ament-Velásquez SL, Ryberg M, Johannesson H
Proc. Natl. Acad. Sci. U.S.A. 119 (46) e2208575119 [2022-11-16; online 2022-11-07]
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Jespersen N, Ehrenbolger K, Winiger RR, ..., Vossbrinck CR, Barandun J
Nat Commun 13 (1) 6962 [2022-11-15; online 2022-11-15]
Cryo-EM [Service]
PubMed DOI Crossref
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Strom NI, Smit DJA, Silzer T, ..., Mataix-Cols D, Cath D
Transl Psychiatry 12 (1) 479 [2022-11-15; online 2022-11-15]
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PubMed DOI Crossref
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Kantzer CG, Yang W, Grommisch D, ..., Shirokova V, Genander M
Development 149 (22) - [2022-11-15; online 2022-11-16]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
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Cockerill CA, Hasselgren M, Dussex N, ..., Sokolova N, Norén K
Genes 13 (11) - [2022-11-15; online 2022-11-15]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Hedberg-Oldfors C, Elíasdóttir Ó, Geijer M, Lindberg C, Oldfors A
BMC Neurol 22 (1) 428 [2022-11-15; online 2022-11-15]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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CRISPR Functional Genomics [Service]
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Leyhr J, Waldmann L, Filipek-Górniok B, ..., Allalou A, Haitina T
Elife 11 (-) - [2022-11-15; online 2022-11-15]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service]
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Razaghi A, Szakos A, Alouda M, ..., Björnstedt M, Szekely L
Diagnostics 12 (11) 2789 [2022-11-14; online 2022-11-14]
Affinity Proteomics Stockholm [Service]
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Jakobsen I, Sundkvist M, Björn N, Gréen H, Lotfi K
BMC Genomics 23 (1) 752 [2022-11-14; online 2022-11-14]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Maurya DK, Berghard A, Bohm S
Nat Commun 13 (1) 6889 [2022-11-12; online 2022-11-12]
Integrated Microscopy Technologies Umeå [Service]
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Liu L, Khan A, Sanchez-Rodriguez E, ..., Gharavi AG, Kiryluk K
Nat Commun 13 (1) 6859 [2022-11-11; online 2022-11-11]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Martin WP, Nair M, Chuah YHD, ..., le Roux CW, Docherty NG
Clin Sci (Lond) 136 (21) 1485-1511 [2022-11-11; online 2022-10-20]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] Swedish NMR Centre (SNC) [Collaborative]
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von Seth J, van der Valk T, Lord E, ..., Robertson BC, Dussex N
BMC Genomics 23 (1) 747 [2022-11-10; online 2022-11-10]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Marčiulynas A, Marčiulynienė D, Lynikienė J, Bakys R, Menkis A
Microorganisms 10 (11) - [2022-11-10; online 2022-11-10]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Zambanini G, Nordin A, Jonasson M, Pagella P, Cantù C
Development - (-) - [2022-11-10; online 2022-11-10]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Lundström C, Lindvall M
J Digit Imaging - (-) - [2022-11-09; online 2022-11-09]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Systems Biology in ELIXIR: modelling in the spotlight.
Martins Dos Santos V, Anton M, Szomolay B, ..., Evelo CT, Hancock JM
F1000Res 11 (-) 1265 [2022-11-07; online 2022-11-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Kabedev A, Zhuo X, Leng D, ..., Bergström CAS, Löbmann K
Mol. Pharm. 19 (11) 3922-3933 [2022-11-07; online 2022-09-22]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Read-Based Phasing and Analysis of Phased Variants with WhatsHap.
Martin M, Ebert P, Marschall T
Methods Mol. Biol. 2590 (-) 127-138 [2022-11-07; online 2022-11-07]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Vallera RD, Ding Y, Hatanpaa KJ, ..., Dahia PLM, Ghayee HK
Front Endocrinol (Lausanne) 13 (-) 1024108 [2022-11-07; online 2022-11-07]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Mota A, Berezicki S, Wernersson E, ..., Crosetto N, Bienko M
Nat Commun 13 (1) 6680 [2022-11-05; online 2022-11-05]
Spatial Proteomics [Collaborative]
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Verma A, Åberg-Zingmark E, Sparrman T, ..., Sauer-Eriksson E, Wolf-Watz M
Sci Adv 8 (44) eabm4089 [2022-11-04; online 2022-11-04]
Swedish NMR Centre (SNC) [Collaborative]
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Dyrhage K, Garcia-Montaner A, Tamarit D, ..., Webster MT, Andersson SGE
Genome Biol Evol 14 (11) - [2022-11-04; online 2022-10-21]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Altınışık NE, Kazancı DD, Aydoğan A, ..., Erim Özdoğan A, Somel M
Sci Adv 8 (44) eabo3609 [2022-11-04; online 2022-11-04]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Landgren V, Raanan Soltis Z, Svensson E, ..., Landgren M, Knez R
Neuropsychiatr Dis Treat 18 (-) 2559-2574 [2022-11-03; online 2022-11-03]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Ament-Velásquez SL, Gilchrist C, Rêgo A, ..., Rafati N, Stelkens R
Mol. Biol. Evol. 39 (11) - [2022-11-03; online 2022-11-06]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Lord E, Marangoni A, Baca M, ..., Fedorov VB, Dalén L
BMC Ecol Evol 22 (1) 126 [2022-11-03; online 2022-11-03]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Michell CT, Pohjoismäki JLO, Spong G, Thulin CG
Sci Data 9 (1) 667 [2022-11-03; online 2022-11-03]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mushtaq AU, Ådén J, Ali K, Gröbner G
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Swedish NMR Centre (SNC) [Collaborative]
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Alfayez E, Veschini L, Dettin M, ..., Coward T, Di Silvio L
Biomolecules 12 (11) 1619 [2022-11-02; online 2022-11-02]
Chemical Proteomics [Collaborative]
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Proteomics-Compatible Fourier Transform Isotopic Ratio Mass Spectrometry of Polypeptides.
Gharibi H, Chernobrovkin AL, Saei AA, ..., Makarov AA, Zubarev RA
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Chemical Proteomics [Technology development]
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Deland L, Keane S, Bontell TO, ..., Sabel M, Abel F
Cancer Genomics Proteomics 19 (6) 711-726 [2022-11-01; online 2022-11-01]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Gaur D, Kumar N, Ghosh A, ..., Nystrom T, Sharma D
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Sahraei SE, Sánchez-García M, Montoliu-Nerin M, ..., Rosendahl S, Rosling A
Mycorrhiza 32 (5-6) 361-371 [2022-11-00; online 2022-09-26]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] Microbial Single Cell Genomics [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Schneider KL, Ahmadpour D, Keuenhof KS, ..., Nyström T, Widlund PO
J. Biol. Chem. 298 (11) 102476 [2022-11-00; online 2022-09-09]
Integrated Microscopy Technologies Gothenburg [Service]
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Bauer S, Dittrich L, Kaczmarczyk L, ..., Benfeitas R, Jackson WS
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Lundtoft C, Sjöwall C, Rantapää-Dahlqvist S, ..., Leonard D, Rönnblom L
Arthritis & rheumatology (Hoboken, N.J.) 74 (11) 1842-1850 [2022-11-00; online 2022-10-07]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Mishra A, Malik R, Hachiya T, ..., Dichgans M, Debette S
Nature 611 (7934) 115-123 [2022-11-00; online 2022-09-30]
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Spatial genomics maps the structure, nature and evolution of cancer clones.
Lomakin A, Svedlund J, Strell C, ..., Nilsson M, Yates LR
Nature 611 (7936) 594-602 [2022-11-00; online 2022-11-09]
In Situ Sequencing (ISS) [Service]
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Sheward DJ, Kim C, Fischbach J, ..., Peacock TP, Murrell B
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Murach KA, Liu Z, Jude B, ..., Vechetti IJ, von Walden F
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Koistinen VM, Hedberg M, Shi L, ..., Hanhineva K, Landberg R
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Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Yavuz S, Pucholt P, Sandling JK, ..., Lindblad-Toh K, Rönnblom L
Lupus Sci Med 9 (1) - [2022-11-00; online 2022-11-05]
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Shipilina D, Näsvall K, Höök L, ..., Talavera G, Backström N
Genomics 114 (6) 110481 [2022-11-00; online 2022-09-14]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Lindstrand A, Ek M, Kvarnung M, ..., Pettersson M, Nordgren A
Genet Med 24 (11) 2296-2307 [2022-11-00; online 2022-09-06]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Abolhassani H, Delavari S, Landegren N, ..., Hammarström L, Pan-Hammarström Q
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Autoimmunity and Serology Profiling [Service]
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NGI Short read [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Gineste C, Youhanna S, Vorrink SU, ..., Lauschke VM, Westerblad H
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Swedish NMR Centre (SNC) [Collaborative]
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Michno W, Koutarapu S, Camacho R, ..., Lashley T, Hanrieder J
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Integrated Microscopy Technologies Gothenburg [Collaborative]
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Banijamali M, Höjer P, Nagy A, ..., Viktorsson K, Ahmadian A
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Scicluna P, Caramuta S, Kjellin H, ..., Lui WO, Larsson C
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Global Proteomics and Proteogenomics [Collaborative]
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Chahal G, Padra M, Erhardsson M, ..., Karlsson NG, Lindén SK
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Glycoproteomics and MS Proteomics [Collaborative]
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Golparian D, Jacobsson S, Sánchez-Busó L, ..., Ohnishi M, Unemo M
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Mañas A, Aaltonen K, Andersson N, ..., Gisselsson D, Bexell D
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Changes in Chemical Properties and Fungal Communities of Mineral Soil after Clear-Cutting and Reforestation of Scots Pine (Pinus sylvestris L.) Sites
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Forests 13 (11) 1780 [2022-10-27; online 2022-10-27]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Devi P, Engdahl K, Punga T, Bergqvist A
Viruses 14 (11) - [2022-10-26; online 2022-10-26]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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Wieske LHE, Atilaw Y, Poongavanam V, Erdélyi M, Kihlberg J
Chemistry - (-) - [2022-10-26; online 2022-10-26]
Swedish NMR Centre (SNC) [Service]
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ZEB2 haploinsufficient Mowat-Wilson syndrome induced pluripotent stem cells show disrupted GABAergic transcriptional regulation and function.
Schuster J, Klar J, Khalfallah A, ..., Birnir B, Dahl N
Front Mol Neurosci 15 (-) 988993 [2022-10-24; online 2022-10-24]
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Genomic analyses of the Linum distyly supergene reveal convergent evolution at the molecular level.
Gutiérrez-Valencia J, Fracassetti M, Berdan EL, ..., Arroyo J, Slotte T
Curr. Biol. 32 (20) 4360-4371.e6 [2022-10-24; online 2022-09-09]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Single-cell sequencing deconvolutes cellular responses to exercise in human skeletal muscle.
Lovrić A, Rassolie A, Alam S, ..., Gustafsson T, Rullman E
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Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Marčiulynienė D, Marčiulynas A, Mischerikova V, ..., Franic I, Menkis A
JoF 8 (10) - [2022-10-21; online 2022-10-21]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Kandavalli V, Karempudi P, Larsson J, Elf J
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Proteogenomics refines the molecular classification of chronic lymphocytic leukemia
Herbst SA, Vesterlund M, Helmboldt AJ, ..., Lehtiö J, Dietrich S
Nat Commun 13 (1) 6226 [2022-10-20; online 2022-10-20]
Global Proteomics and Proteogenomics [Technology development]
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Laurent T, Kumar P, Liese S, ..., Carlson A, Carlson LA
Elife 11 (-) - [2022-10-19; online 2022-10-19]
Cryo-EM [Service]
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SARS-CoV-2 variants of concern and spike protein mutational dynamics in a Swedish cohort during 2021, studied by Nanopore sequencing.
Mannsverk S, Bergholm J, Palanisamy N, ..., Lindh J, Lennerstrand J
Virol J 19 (1) 164 [2022-10-18; online 2022-10-18]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Front Med (Lausanne) 9 (-) 952827 [2022-10-18; online 2022-10-18]
Glycoproteomics and MS Proteomics [Service]
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Assessment of the genetic and clinical determinants of hip fracture risk: Genome-wide association and Mendelian randomization study.
Nethander M, Coward E, Reimann E, ..., Hveem K, Ohlsson C
Cell Reports Medicine 3 (10) 100776 [2022-10-18; online 2022-10-20]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Structure of a mitochondrial ribosome with fragmented rRNA in complex with membrane-targeting elements.
Tobiasson V, Berzina I, Amunts A
Nat Commun 13 (1) 6132 [2022-10-17; online 2022-10-17]
Cryo-EM [Service]
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Targeting Myd88 using peptide-loaded mesenchymal stem cell membrane-derived synthetic vesicles to treat systemic inflammation.
Park KS, Bergqvist M, Lässer C, Lötvall J
J Nanobiotechnology 20 (1) 451 [2022-10-15; online 2022-10-15]
Glycoproteomics and MS Proteomics [Service]
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Glucocorticoids and glucolipotoxicity alter the DNA methylome and function of human EndoC-βH1 cells.
Dos Santos C, Karagiannopoulos A, Rafacho A, ..., Ling C, Bacos K
Life Sciences 307 (-) 120854 [2022-10-15; online 2022-07-30]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Comparative genome analysis of mycobacteria focusing on tRNA and non-coding RNA.
Behra PRK, Pettersson BMF, Ramesh M, ..., Dasgupta S, Kirsebom LA
BMC Genomics 23 (1) 704 [2022-10-15; online 2022-10-15]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Cellulose interactions with CO2 in NaOH(aq): The (un)expected coagulation creates potential in cellulose technology.
Kozlowski AM, Hasani M
Carbohydr Polym 294 (-) 119771 [2022-10-15; online 2022-06-26]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
TLCD1 and TLCD2 regulate cellular phosphatidylethanolamine composition and promote the progression of non-alcoholic steatohepatitis
Petkevicius K, Palmgren H, Glover MS, ..., Maresca M, Peng XR
Nat Commun 13 (1) 6020 [2022-10-14; online 2022-10-14]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Soil Microbiome Influences on Seedling Establishment and Growth of Prosopis chilensis and Prosopis tamarugo from Northern Chile.
Castro D, Concha C, Jamett F, Ibáñez C, Hurry V
Plants (Basel) 11 (20) - [2022-10-14; online 2022-10-14]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
IPT9, a cis-zeatin cytokinin biosynthesis gene, promotes root growth.
Antoniadi I, Mateo-Bonmatí E, Pernisová M, ..., Ljung K, Novák O
Front Plant Sci 13 (-) 932008 [2022-10-14; online 2022-10-14]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
The Expression of the Immunoproteasome Subunit PSMB9 Is Related to Distinct Molecular Subtypes of Uterine Leiomyosarcoma.
Maia Falcão R, Kokaraki G, De Wispelaere W, ..., Carlson JW, Petta TB
Cancers (Basel) 14 (20) - [2022-10-13; online 2022-10-13]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Tackling the translational challenges of multi-omics research in the realm of European personalised medicine: A workshop report.
Oldoni E, Saunders G, Bietrix F, ..., Andreu AL, van Gool AJ
Front Mol Biosci 9 (-) 974799 [2022-10-13; online 2022-10-13]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Spatiotemporal variations in retrovirus-host interactions among Darwin's finches.
Hill J, Lillie M, Pettersson ME, ..., Andersson L, Jern P
Nat Commun 13 (1) 6033 [2022-10-13; online 2022-10-13]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Pax3 loss of function delays tumour progression in kRAS-induced zebrafish rhabdomyosarcoma models.
Kahsay A, Rodriguez-Marquez E, López-Pérez A, Hörnblad A, von Hofsten J
Sci Rep 12 (1) 17149 [2022-10-13; online 2022-10-13]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Manganese-driven CoQ deficiency.
Diessl J, Berndtsson J, Broeskamp F, ..., Ott M, Büttner S
Nat Commun 13 (1) 6061 [2022-10-13; online 2022-10-13]
Global Proteomics and Proteogenomics [Service]
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Engineering human mini-bones for the standardized modeling of healthy hematopoiesis, leukemia, and solid tumor metastasis.
Grigoryan A, Zacharaki D, Balhuizen A, ..., Bexell D, Bourgine PE
Sci Transl Med 14 (666) eabm6391 [2022-10-12; online 2022-10-12]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
SPACA9 is a lumenal protein of human ciliary singlet and doublet microtubules.
Gui M, Croft JT, Zabeo D, ..., Höög JL, Brown A
Proc. Natl. Acad. Sci. U.S.A. 119 (41) e2207605119 [2022-10-11; online 2022-10-03]
Cryo-EM [Service]
PubMed DOI Crossref
Dormant SOX9-positive cells facilitate MYC-driven recurrence of medulloblastoma.
Borgenvik A, Holmberg KO, Bolin S, ..., Weishaupt H, Swartling FJ
Cancer Res. - (-) - [2022-10-11; online 2022-10-11]
Bioinformatics Support for Computational Resources [Service] NGI Single cell [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Membrane-assisted assembly and selective secretory autophagy of enteroviruses.
Dahmane S, Kerviel A, Morado DR, ..., Altan-Bonnet N, Carlson LA
Nat Commun 13 (1) 5986 [2022-10-10; online 2022-10-10]
Cryo-EM [Service]
PubMed DOI Crossref
DNA promoter hypermethylation of melanocyte lineage genes determines melanoma phenotype.
Sanna A, Phung B, Mitra S, ..., Pietras K, Jönsson G
JCI Insight 7 (19) - [2022-10-10; online 2022-10-10]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Liver Graft Proteomics Reveals Potential Incipient Mechanisms behind Early Renal Dysfunction after Liver Transplantation.
Norén Å, Oltean M, Friman S, ..., Herlenius G, Thorsell A
Int J Mol Sci 23 (19) - [2022-10-08; online 2022-10-08]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Differences in Metabolite Composition of Aloe barbadensis Mill. Extracts Lead to Differential Effects on Human Blood T Cell Activity In Vitro.
Ahluwalia B, Magnusson MK, Larsson F, ..., Ross AB, Öhman L
Molecules 27 (19) - [2022-10-06; online 2022-10-06]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Calcium and magnesium in drinking water and risk of myocardial infarction and stroke-a population-based cohort study.
Helte E, Säve-Söderbergh M, Larsson SC, Åkesson A
Am. J. Clin. Nutr. 116 (4) 1091-1100 [2022-10-06; online 2022-07-12]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Anti-Spike Mucosal IgA Protection against SARS-CoV-2 Omicron Infection.
Havervall S, Marking U, Svensson J, ..., Smed-Sörensen A, Thålin C
N. Engl. J. Med. 387 (14) 1333-1336 [2022-10-06; online 2022-09-14]
Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
DOI Crossref
House crickets (Othroptera: Gryllidae: <i>Acheta domesticus</i>) reared in small-scale laboratory conditions harbour limited viral flora
Cholleti H, Vaga M, Jansson A, Blomström AL, Berg M
Journal of Insects as Food and Feed 8 (10) 1149-1155 [2022-10-04; online 2022-10-04]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Absence of oxygen effect on microbial structure and methane production during drying and rewetting events.
Liu T, Li X, Yekta SS, ..., Schnürer A, Enrich-Prast A
Sci Rep 12 (1) 16570 [2022-10-04; online 2022-10-04]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Biomarkers of demyelination and axonal damage are decreased after autologous hematopoietic stem cell transplantation for multiple sclerosis.
Zjukovskaja C, Larsson A, Cherif H, Kultima K, Burman J
Mult Scler Relat Disord 68 (-) 104210 [2022-10-03; online 2022-10-03]
Affinity Proteomics Uppsala [Service]
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The oncogenic transcription factor FOXQ1 is a differential regulator of Wnt target genes.
Pizzolato G, Moparthi L, Söderholm S, Cantù C, Koch S
J. Cell. Sci. 135 (19) - [2022-10-01; online 2022-10-10]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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The effects of pH on the production of volatile fatty acids and microbial dynamics in long-term reactor operation.
Atasoy M, Cetecioglu Z
J Environ Manage 319 (-) 115700 [2022-10-01; online 2022-07-20]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Proteome Integral Solubility Alteration (PISA) for High-Throughput Ligand Target Deconvolution with Increased Statistical Significance and Reduced Sample Amount.
Gaetani M, Zubarev RA
Methods Mol. Biol. 2554 (-) 91-106 [2022-10-01; online 2022-10-01]
Chemical Proteomics [Technology development]
DOI Crossref
Mycobiota Associated with Symptomatic and Asymptomatic Fraxinus excelsior in Post-Dieback Forest Stands
Bakys R, Pliūra A, Bajerkevičienė G, ..., Lynikienė J, Menkis A
Forests 13 (10) 1609 [2022-10-01; online 2022-10-01]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Modest Conformity Between Self-Reporting of Bristol Stool Form and Fecal Consistency Measured by Stool Water Content in Irritable Bowel Syndrome and a FODMAP and Gluten Trial.
Nordin E, Hellström PM, Brunius C, Landberg R
Am J Gastroenterol 117 (10) 1668-1674 [2022-10-01; online 2022-08-12]
Bioinformatics Support for Computational Resources [Service] Chalmers Mass Spectrometry Infrastructure [Collaborative]
DOI Crossref
iP &amp; OEIP – Cytokinin Micro Application Modulates Root Development with High Spatial Resolution
Pařízková B, Antoniadi I, Poxson DJ, ..., Novák O, Ljung K
Adv Materials Technologies 7 (10) 2101664 [2022-10-00; online 2022-04-28]
Swedish Metabolomics Centre (SMC) [Service]
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The dark side of foetal bovine serum in extracellular vesicle studies.
Urzì O, Bagge RO, Crescitelli R
J Extracell Vesicles 11 (10) e12271 [2022-10-00; online 2022-10-11]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Target-enriched nanopore sequencing and de novo assembly reveals co-occurrences of complex on-target genomic rearrangements induced by CRISPR-Cas9 in human cells.
Geng K, Merino LG, Wedemann L, ..., White RJ, Kutter C
Genome Res. 32 (10) 1876-1891 [2022-10-00; online 2022-09-30]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Salinity induces discontinuous protoxylem via a DELLA-dependent mechanism promoting salt tolerance in Arabidopsis seedlings.
Augstein F, Carlsbecker A
New Phytol. 236 (1) 195-209 [2022-10-00; online 2022-07-12]
Bioinformatics Support for Computational Resources [Service]
DOI Crossref
Reproductive homing and fine‐scaled genetic structuring of anadromous Baltic Sea perch ( <i>Perca fluviatilis</i> )
Hall M, Koch‐Schmidt P, Larsson P, ..., Yıldırım Y, Sunde J
Fisheries Management Eco 29 (5) 586-596 [2022-10-00; online 2022-03-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Rapid bacterioplankton transcription cascades regulate organic matter utilization during phytoplankton bloom progression in a coastal upwelling system.
Pontiller B, Martínez-García S, Joglar V, ..., Teira E, Pinhassi J
ISME J 16 (10) 2360-2372 [2022-10-00; online 2022-07-08]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Prostate cancer disease recurrence after radical prostatectomy is associated with HLA type and local cytomegalovirus immunity.
Classon J, Zamboni M, Engblom C, ..., Mold J, Frisén J
Mol Oncol 16 (19) 3452-3464 [2022-10-00; online 2022-08-31]
Bioinformatics Support for Computational Resources [Service]
PubMed
Pediatric Hip Disease Increases the Risk for Opioid Use in Adulthood: Long-term Burden of Pain and Depression.
Wadström MG, Hailer YD
Pain Physician 25 (7) E1153-E1160 [2022-10-00; online 2022-10-27]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Patterns of community composition and diversity in latent fungi of living Quercus serrata trunks across a range of oak wilt prevalence and climate variables in Japan
Fukasawa Y, Matsukura K, Stephan JG, ..., Yamashita S, Ushio M
Fungal Ecology 59 (-) 101095 [2022-10-00; online 2022-10-00]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Parvimonas micra is associated with tumour immune profiles in molecular subtypes of colorectal cancer.
Löwenmark T, Li X, Löfgren-Burström A, ..., Edin S, Palmqvist R
Cancer Immunol. Immunother. 71 (10) 2565-2575 [2022-10-00; online 2022-03-17]
Affinity Proteomics Uppsala [Service] Clinical Genomics [Service] Clinical Genomics Umeå [Service]
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Osteoclasts directly influence castration-resistant prostate cancer cells.
Huang J, Freyhult E, Buckland R, ..., Damber JE, Welén K
Clin Exp Metastasis 39 (5) 801-814 [2022-10-00; online 2022-08-16]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
New regulators of the tetracycline‐inducible gene expression system identified by chemical and genetic screens
Colicchia V, Häggblad M, Sirozh O, ..., Hühn D, Fernandez‐Capetillo O
FEBS Open Bio 12 (10) 1896-1908 [2022-10-00; online 2022-09-11]
CRISPR Functional Genomics [Service] Chemical Biology Consortium Sweden (CBCS) [Service]
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Laccaria bicolor pectin methylesterases are involved in ectomycorrhiza development with Populus tremula × Populus tremuloides.
Chowdhury J, Kemppainen M, Delhomme N, ..., Pardo AG, Lundberg-Felten J
New Phytol. 236 (2) 639-655 [2022-10-00; online 2022-07-27]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Implementing precision medicine in a regionally organized healthcare system in Sweden.
Fioretos T, Wirta V, Cavelier L, ..., Edsjö A, Rosenquist R
Nat. Med. 28 (10) 1980-1982 [2022-10-00; online 2022-09-20]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] Clinical Genomics Linköping [Service] Clinical Genomics Stockholm [Collaborative] Clinical Genomics Umeå [Service] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Global patterns and rates of habitat transitions across the eukaryotic tree of life.
Jamy M, Biwer C, Vaulot D, ..., Massana R, Burki F
Nat Ecol Evol 6 (10) 1458-1470 [2022-10-00; online 2022-08-04]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide association study of liver enzyme elevation in an extended cohort of rheumatoid arthritis patients starting low-dose methotrexate.
Cavalli M, Eriksson N, Sundbaum JK, ..., Hallberg P, Wadelius M
Pharmacogenomics 23 (15) 813-820 [2022-10-00; online 2022-09-07]
Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Generation of Human iPSC-Derived Astrocytes with a mature star-shaped phenotype for CNS modeling.
Voulgaris D, Nikolakopoulou P, Herland A
Stem Cell Rev Rep 18 (7) 2494-2512 [2022-10-00; online 2022-04-30]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Fecal luminal factors from patients with irritable bowel syndrome induce distinct gene expression of colonoids.
Iribarren C, Nordlander S, Sundin J, ..., Simrén M, Öhman L
Neurogastroenterol. Motil. 34 (10) e14390 [2022-10-00; online 2022-04-29]
Chalmers Mass Spectrometry Infrastructure [Service] Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Familial platelet disorder due to germline exonic deletions in RUNX1: a diagnostic challenge with distinct alterations of the transcript isoform equilibrium.
Engvall M, Karlsson Y, Kuchinskaya E, ..., Cammenga J, Baliakas P
Leuk. Lymphoma 63 (10) 2311-2320 [2022-10-00; online 2022-05-09]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
DOI Crossref
Endophytes dominate fungal communities in six-year-old veteranisation wounds in living oak trunks
Menkis A, Redr D, Bengtsson V, ..., Nordén B, Dahlberg A
Fungal Ecology 59 (-) 101020 [2022-10-00; online 2022-10-00]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Elevation and plant species identity jointly shape a diverse arbuscular mycorrhizal fungal community in the High Arctic.
Rasmussen PU, Abrego N, Roslin T, ..., Hugerth LW, Tack AJM
New Phytol. 236 (2) 671-683 [2022-10-00; online 2022-07-15]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Duplex Sequencing Uncovers Recurrent Low-frequency Cancer-associated Mutations in Infant and Childhood KMT2A-rearranged Acute Leukemia.
Pilheden M, Ahlgren L, Hyrenius-Wittsten A, ..., Gawad C, Hagström-Andersson AK
Hemasphere 6 (10) e785 [2022-10-00; online 2022-09-30]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Cytokine responses to LPS in reprogrammed monocytes are associated with the transcription factor PU.1.
Tuerxun K, Midtbö K, Särndahl E, ..., Eklund D, X-HiDE Consortium
J Leukoc Biol 112 (4) 679-692 [2022-10-00; online 2022-03-13]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Bacteraemia and infective endocarditis with Streptococcus bovis-Streptococcus equinus-complex: a retrospective cohort study.
Öberg J, Nilson B, Gilje P, Rasmussen M, Inghammar M
Infect Dis (Lond) 54 (10) 760-765 [2022-10-00; online 2022-06-22]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Assignment of IVL-Methyl side chain of the ligand-free monomeric human MALT1 paracaspase-IgL3 domain in solution.
Han X, Levkovets M, Lesovoy D, ..., Agback P, Orekhov VY
Biomol NMR Assign 16 (2) 363-371 [2022-10-00; online 2022-09-12]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
A saturated map of common genetic variants associated with human height.
Yengo L, Vedantam S, Marouli E, ..., Visscher PM, Hirschhorn JN
Nature 610 (7933) 704-712 [2022-10-00; online 2022-10-12]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A possible genomic footprint of polygenic adaptation on population divergence in seed beetles?
Arnqvist G, Sayadi A
Ecol Evol 12 (10) e9440 [2022-10-00; online 2022-10-27]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Insight into the pulmonary molecular toxicity of heated tobacco products using human bronchial and alveolar mucosa models at air-liquid interface.
Rahman M, Irmler M, Introna M, ..., Upadhyay S, Ganguly K
Sci Rep 12 (1) 16396 [2022-09-30; online 2022-09-30]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Early Mid-pregnancy Blood-Based Proteins as Possible Biomarkers of Increased Infant Birth Size in Sex-Stratified Analyses.
Lindberger E, Ahlsson F, Junus K, ..., Wikström AK, Sundström Poromaa I
Reprod Sci - (-) 1-11 [2022-09-30; online 2022-09-30]
Affinity Proteomics Uppsala [Service]
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Discovery of druggable cancer-specific pathways with application in acute myeloid leukemia.
Trac QT, Zhou T, Pawitan Y, Vu TN
Gigascience 11 (-) - [2022-09-29; online 2022-09-30]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Proteome profiling of whole plasma and plasma-derived extracellular vesicles facilitates the detection of tissue biomarkers in the non-obese diabetic mouse.
Diaz Lozano IM, Sork H, Stone VM, ..., Gabrielsson S, Flodström-Tullberg M
Front Endocrinol (Lausanne) 13 (-) 971313 [2022-09-28; online 2022-09-28]
Global Proteomics and Proteogenomics [Service]
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Loss of SNAI1 induces cellular plasticity in invasive triple-negative breast cancer cells.
Tsirigoti C, Ali MM, Maturi V, Heldin CH, Moustakas A
Cell Death Dis 13 (9) 832 [2022-09-28; online 2022-09-28]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Parasitic strongyle nemabiome communities in wild ruminants in Sweden.
Halvarsson P, Baltrušis P, Kjellander P, Höglund J
Parasit Vectors 15 (1) 341 [2022-09-27; online 2022-09-27]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Natural alleles of the abscisic acid catabolism gene ZmAbh4 modulate water use efficiency and carbon isotope discrimination in maize.
Blankenagel S, Eggels S, Frey M, ..., Schön CC, Avramova V
Plant Cell 34 (10) 3860-3872 [2022-09-27; online 2022-07-07]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of Single and Combined Serum Metabolites Associated with Food Intake.
Karlsson T, Winkvist A, Rådjursöga M, ..., Pedersen A, Lindqvist HM
Metabolites 12 (10) - [2022-09-27; online 2022-09-27]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
A novel neo-sex chromosome in Sylvietta brachyura (Macrosphenidae) adds to the extraordinary avian sex chromosome diversity among Sylvioidea songbirds.
Sigeman H, Zhang H, Ali Abed S, Hansson B
J. Evol. Biol. - (-) - [2022-09-26; online 2022-09-26]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Untargeted Metabolomics Based on Liquid Chromatography-Mass Spectrometry for the Analysis of Plasma and Erythrocyte Samples in Childhood Obesity.
González-Domínguez Á, Armeni M, Savolainen O, ..., Landberg R, González-Domínguez R
Methods Mol. Biol. 2571 (-) 115-122 [2022-09-25; online 2022-09-25]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
A chromosome-scale reference genome for Spironucleus salmonicida.
Xu F, Jiménez-González A, Kurt Z, ..., Andersson JO, Svärd SG
Sci Data 9 (1) 585 [2022-09-24; online 2022-09-24]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Meiotic drive is associated with sexual incompatibility in Neurospora.
Vogan AA, Svedberg J, Grudzinska-Sterno M, Johannesson H
Evolution - (-) - [2022-09-23; online 2022-09-23]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Hybrid immunity in immunocompromised patients with CLL after SARS-CoV-2 infection followed by booster mRNA vaccination.
Lisa B, Gao Y, Wullimann D, ..., Hansson L, Osterborg A
Blood - (-) - [2022-09-23; online 2022-09-23]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Inflation of test accuracy due to data leakage in deep learning-based classification of OCT images.
Tampu IE, Eklund A, Haj-Hosseini N
Sci Data 9 (1) 580 [2022-09-22; online 2022-09-22]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Truncated lubricin glycans in osteoarthritis stimulate the synoviocyte secretion of VEGFA, IL-8, and MIP-1α: Interplay between O-linked glycosylation and inflammatory cytokines.
Huang S, Thomsson KA, Jin C, ..., Krawetz R, Karlsson NG
Front Mol Biosci 9 (-) 942406 [2022-09-21; online 2022-09-21]
Glycoproteomics and MS Proteomics [Collaborative]
DOI Crossref
Silicone Foam for Passive Sampling and Nontarget Analysis of Air
Papazian S, Fornaroli C, Bonnefille B, ..., Xie H, Martin JW
Environ Sci Technol Lett - (-) - [2022-09-21; online 2022-09-21]
Exposomics [Technology development]
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To Modify or Not to Modify: Allele-Specific Effects of 3'UTR-KCNQ1 Single Nucleotide Polymorphisms on Clinical Phenotype in a Long QT 1 Founder Population Segregating a Dominant-Negative Mutation.
Winbo A, Diamant UB, Persson J, Jensen SM, Rydberg A
J Am Heart Assoc 11 (18) e025981 [2022-09-20; online 2022-09-14]
Clinical Genomics [Service] Clinical Genomics Umeå [Service]
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Synergistic Effects of Sanglifehrin-Based Cyclophilin Inhibitor NV651 with Cisplatin in Hepatocellular Carcinoma.
Simón Serrano S, Tavecchio M, Mallik J, ..., Hansson MJ, Massoumi R
Cancers (Basel) 14 (19) 4553 [2022-09-20; online 2022-09-20]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Expression Levels of hgcAB Genes and Mercury Availability Jointly Explain Methylmercury Formation in Stratified Brackish Waters.
Capo E, Feng C, Bravo AG, ..., Hawkes J, Björn E
Environ. Sci. Technol. 56 (18) 13119-13130 [2022-09-20; online 2022-09-07]
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Clearance of small intestinal crypts involves goblet cell mucus secretion by intracellular granule rupture and enterocyte ion transport.
Dolan B, Ermund A, Martinez-Abad B, Johansson MEV, Hansson GC
Sci Signal 15 (752) eabl5848 [2022-09-20; online 2022-09-20]
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- - (-) - [2022-09-19; online 2022-09-19]
Microbial Single Cell Genomics [Service]
PubMed DOI Crossref
Multifocal Neuroblastoma and Central Hypoventilation in An Infant with Germline ALK F1174I Mutation.
Djos A, Treis D, Fransson S, ..., Kogner P, Martinsson T
Diagnostics 12 (9) - [2022-09-19; online 2022-09-19]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Nat Commun 13 (1) 5475 [2022-09-17; online 2022-09-17]
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Stenberg H, Hellman S, Lindström L, ..., Hayer J, Malmberg M
BMC Vet Res 18 (1) 348 [2022-09-16; online 2022-09-16]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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BMJ Open 12 (9) e058168 [2022-09-15; online 2022-09-15]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Palasingh C, Nakayama K, Abik F, ..., Ström A, Nypelö T
Carbohydr Polym 292 (-) 119660 [2022-09-15; online 2022-05-27]
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Microbiol Resour Announc 11 (9) e0074422 [2022-09-15; online 2022-08-25]
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Dong Y, Li Y, Liu K, ..., Du Y, Qiu C
Alzheimers Dement - (-) - [2022-09-15; online 2022-09-15]
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- - (-) - [2022-09-14; online 2022-09-14]
Cryo-EM [Service]
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Brain 145 (9) 3035-3057 [2022-09-14; online 2021-12-23]
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Blood Adv 6 (17) 5009-5023 [2022-09-13; online 2022-06-09]
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Immunity 55 (9) 1732-1746.e5 [2022-09-13; online 2022-07-19]
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Autoantibodies targeting malondialdehyde-modifications in rheumatoid arthritis regulate osteoclasts via inducing glycolysis and lipid biosynthesis.
Sakuraba K, Krishnamurthy A, Sun J, ..., Catrina AI, Réthi B
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Bioinformatics Support for Computational Resources [Service]
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Waldmann L, Leyhr J, Zhang H, ..., Öhman-Mägi C, Haitina T
Dev. Dyn. 251 (9) 1535-1549 [2022-09-00; online 2021-07-29]
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Bioinformatics Support for Computational Resources [Service]
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JIMD Rep 63 (5) 462-467 [2022-09-00; online 2022-06-28]
Glycoproteomics and MS Proteomics [Collaborative]
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Bioinformatics Support for Computational Resources [Service]
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Osteoporos Int 33 (9) 1-8 [2022-09-00; online 2022-05-24]
Affinity Proteomics Uppsala [Service]
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Exposomics [Collaborative]
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BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
PubMed DOI Crossref
Archaic chaperone-usher pili self-secrete into superelastic zigzag springs.
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Cryo-EM [Service]
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Cryo-EM [Service]
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Dharamshi JE, Gaarslev N, Steffen K, ..., Sipkema D, Ettema TJG
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Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
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Chemical Biology Consortium Sweden (CBCS) [Collaborative] Clinical Genomics [Service] Clinical Genomics Lund [Service]
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- - (-) - [2022-08-28]
Ancient DNA [Service]
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Bieker VC, Battlay P, Petersen B, ..., Hodgins KA, Martin MD
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Sci Adv 8 (34) eabo1543 [2022-08-26; online 2022-08-26]
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Methylation associated with long- or short-term survival in glioblastoma patients from the Nordic phase 3 trial.
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Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Linköping [Service]
PubMed DOI Crossref
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Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Swedish NMR Centre (SNC) [Service]
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Life (Basel) 12 (9) - [2022-08-24; online 2022-08-24]
Bioinformatics Support for Computational Resources [Service]
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- - (-) - [2022-08-24; online 2022-08-24]
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Kular L, Klose D, Urdánoz-Casado A, ..., Needhamsen M, Jagodic M
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Bioinformatics Support for Computational Resources [Service]
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Ericson PGP, Irestedt M, Zuccon D, ..., Werdelin L, Qu Y
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Glycoproteomics and MS Proteomics [Service]
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Eisfeldt J, Schuy J, Stattin EL, ..., Feuk L, Lindstrand A
Int J Mol Sci 23 (16) - [2022-08-20; online 2022-08-20]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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van der Valk T, Dehasque M, Chacón-Duque JC, ..., Díez-Del-Molino D, Dalén L
iScience 25 (8) 104826 [2022-08-19; online 2022-08-01]
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Single cell [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Isgren A, Göteson A, Holmén-Larsson J, ..., Jakobsson J, Landén M
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Affinity Proteomics Uppsala [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Terrigenous dissolved organic matter persists in the energy-limited deep groundwaters of the Fennoscandian Shield.
Osterholz H, Turner S, Alakangas LJ, ..., Kalinowski BE, Dopson M
Nat Commun 13 (1) 4837 [2022-08-17; online 2022-08-17]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Multi-omics personalized network analyses highlight progressive disruption of central metabolism associated with COVID-19 severity.
Ambikan AT, Yang H, Krishnan S, ..., Benfeitas R, Neogi U
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Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre (SMC) [Service]
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Michel A, Minocher R, Niehoff PP, ..., Caillaud D, Guschanski K
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Learning Representations with Contrastive Self-Supervised Learning for Histopathology Applications
Stacke K, Unger J, Lundström C, Eilertsen G
Machine Learning for Biomedical Imaging 1 (August 2022 issue) - [2022-08-16; online 2022-08-16]
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Microbial functional genes are driven by gradients in sediment stoichiometry, oxygen, and salinity across the Baltic benthic ecosystem.
Broman E, Izabel-Shen D, Rodríguez-Gijón A, ..., Garcia SL, Nascimento FJA
Microbiome 10 (1) 126 [2022-08-15; online 2022-08-15]
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Feasibility and reliability of measures of bioactive lipids in human plasma and nasal mucosa.
Claeson AS, Lindberg RH, Gouveia-Figueira S, Nording ML
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Swedish Metabolomics Centre (SMC) [Service]
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Dynamical Systems Model of RNA Velocity Improves Inference of Single-cell Trajectory, Pseudo-time and Gene Regulation.
Liu R, Pisco AO, Braun E, Linnarsson S, Zou J
J. Mol. Biol. 434 (15) 167606 [2022-08-15; online 2022-04-27]
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A method for Boolean analysis of protein interactions at a molecular level.
Raykova D, Kermpatsou D, Malmqvist T, ..., Kampf C, Söderberg O
Nat Commun 13 (1) 4755 [2022-08-13; online 2022-08-13]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Staphylococcal self-loading helicases couple the staircase mechanism with inter domain high flexibility.
Qiao C, Debiasi-Anders G, Mir-Sanchis I
Nucleic Acids Res. 50 (14) 8349-8362 [2022-08-12; online 2022-07-25]
Cryo-EM [Service]
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Estimation of the impact of three different bioinformatic pipelines on sheep nemabiome analysis.
Baltrušis P, Halvarsson P, Höglund J
Parasit Vectors 15 (1) 290 [2022-08-11; online 2022-08-11]
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Single-cell multi-omics of human preimplantation embryos shows susceptibility to glucocorticoids.
Zhao C, Biondic S, Vandal K, ..., Reik W, Petropoulos S
Genome Res. 32 (9) 1627-1641 [2022-08-10; online 2022-08-10]
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Nuclear-specific gene expression in heterokaryons of the filamentous ascomycete Neurospora tetrasperma.
Meunier C, Darolti I, Reimegård J, Mank JE, Johannesson H
Proc. Biol. Sci. 289 (1980) 20220971 [2022-08-10; online 2022-08-10]
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Metatranscriptomics of Nasopharyngeal Microbiota and Host Distinguish between Pneumonia and Health.
Nannapaneni P, Sundh J, Prast-Nielsen S, ..., Naucler P, Henriques-Normark B
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Detailed Characterization of the Cell Wall Structure and Composition of Nordic Green Microalgae.
Spain O, Funk C
J. Agric. Food Chem. 70 (31) 9711-9721 [2022-08-10; online 2022-07-27]
Cryo-EM [Service] Integrated Microscopy Technologies Umeå [Service] Swedish Metabolomics Centre (SMC) [Service]
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Dahn HA, Mountcastle J, Balacco J, ..., Jarvis ED, Fedrigo O
Gigascience 11 (-) - [2022-08-10; online 2022-08-11]
NGI Long read [Technology development] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
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Ageing desexualizes the Drosophila brain transcriptome.
Malacrinò A, Brengdahl MI, Kimber CM, ..., Mirabello C, Friberg U
Proc. Biol. Sci. 289 (1980) 20221115 [2022-08-10; online 2022-08-10]
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Blood Adv 6 (15) 4439-4449 [2022-08-09; online 2022-05-03]
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Tadala L, Langenbach D, Dannborg M, ..., Cisneros DA, Puhar A
Cell Rep 40 (6) 111173 [2022-08-09; online 2022-08-11]
Integrated Microscopy Technologies Umeå [Service]
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Dhapola P, Rodhe J, Olofzon R, ..., Soneji S, Karlsson G
Nat Commun 13 (1) 4616 [2022-08-08; online 2022-08-08]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Tellgren-Roth C, Couturier M
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Rosenhahn E, O'Brien TJ, Zaki MS, ..., Maroofian R, Platzer K
Am. J. Hum. Genet. 109 (8) 1421-1435 [2022-08-04; online 2022-07-12]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Single, but not dual, attack by a biotrophic pathogen and a sap-sucking insect affects the oak leaf metabolome.
van Dijk LJA, Regazzoni EDE, Albrectsen BR, ..., Pawlowski K, Tack AJM
Front Plant Sci 13 (-) 897186 [2022-08-03; online 2022-08-03]
Swedish Metabolomics Centre (SMC) [Collaborative]
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Polymer Dots as Photoactive Membrane Vesicles for [FeFe]-Hydrogenase Self-Assembly and Solar-Driven Hydrogen Evolution.
Pavliuk MV, Lorenzi M, Morado DR, ..., Berggren G, Tian H
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Cryo-EM [Collaborative]
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Rheumatology (Oxford) 61 (8) 3461-3470 [2022-08-03; online 2021-12-11]
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Tunstrom K, Wheat CW, Parmesan C, Singer MC, Mikheyev AS
Genome Biol Evol 14 (8) - [2022-08-03; online 2022-07-26]
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Bioinformatics Support for Computational Resources [Service]
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Recessive inborn errors of type I IFN immunity in children with COVID-19 pneumonia.
Zhang Q, Matuozzo D, Le Pen J, ..., Cobat A, Casanova JL
J. Exp. Med. 219 (8) - [2022-08-01; online 2022-06-16]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Liebsch D, Juvany M, Li Z, ..., Guo H, Keech O
Plant Physiol. 189 (4) 1943-1960 [2022-08-01; online 2022-05-24]
Swedish Metabolomics Centre (SMC) [Technology development]
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Modin O, Fuad N, Abadikhah M, ..., Persson F, Wilén BM
Water Res X 16 (-) 100146 [2022-08-01; online 2022-06-16]
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Westerdahl H, Mellinger S, Sigeman H, ..., Wolf JBW, Strandh M
Mol Ecol Resour 22 (6) 2379-2395 [2022-08-00; online 2022-04-11]
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Luecken MD, Zaragosi LE, Madissoon E, ..., Meyer KB, Nawijn MC
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In Situ Sequencing (ISS) [Service]
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TCF4 trinucleotide repeat expansion in Swedish cases with Fuchs' endothelial corneal dystrophy.
Viberg A, Westin IM, Golovleva I, Byström B
Acta Ophthalmol 100 (5) 541-548 [2022-08-00; online 2021-10-13]
Clinical Genomics [Service] Clinical Genomics Umeå [Service]
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Luis AS, Baslé A, Byrne DP, ..., Martens EC, Cartmell A
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Arslan T, Pan Y, Mermelekas G, ..., Orre LM, Lehtiö J
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Global Proteomics and Proteogenomics [Technology development]
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Spatially resolved clonal copy number alterations in benign and malignant tissue.
Erickson A, He M, Berglund E, ..., Lamb AD, Lundeberg J
Nature 608 (7922) 360-367 [2022-08-00; online 2022-08-10]
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Swedish NMR Centre (SNC) [Service]
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Noborn F, Nilsson J, Larson G
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Gupta A, Sabirsh A, Wahlby C, Sintorn IM
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BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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Latz MAC, Grujcic V, Brugel S, ..., Andersson A, Andersson AF
Mol Ecol Resour 22 (6) 2304-2318 [2022-08-00; online 2022-05-06]
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Bandara T, Brugel S, Andersson A, Lau DCP
Can. J. Fish. Aquat. Sci. 79 (8) 1291-1301 [2022-08-00; online 2022-08-00]
Swedish Metabolomics Centre (SMC) [Service]
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Avella A, Idström A, Mincheva R, ..., Raquez JM, Lo Re G
Composites Part A: Applied Science and Manufacturing - (-) 107166 [2022-08-00; online 2022-08-00]
Swedish NMR Centre (SNC) [Service]
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Biochimie 199 (-) 81-91 [2022-08-00; online 2022-04-20]
Swedish NMR Centre (SNC) [Service]
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Berdan EL, Blanckaert A, Butlin RK, ..., Slotte T, Wielstra B
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Bioinformatics Support for Computational Resources [Service]
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Muurinen M, Taylan F, Tournis S, ..., Mäkitie O, Costantini A
JBMR Plus 6 (8) e10660 [2022-08-00; online 2022-07-05]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Human adaptation to arsenic in Bolivians living in the Andes.
De Loma J, Vicente M, Tirado N, ..., Schlebusch CM, Broberg K
Chemosphere 301 (-) 134764 [2022-08-00; online 2022-04-28]
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Host genotype interacts with aerial spore communities and influences the needle mycobiome of Norway spruce.
Redondo MA, Oliva J, Elfstrand M, ..., Karlsson B, Berlin A
Environ. Microbiol. 24 (8) 3640-3654 [2022-08-00; online 2022-03-22]
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Pandzic T, Ladenvall C, Engvall M, ..., Ljungström V, Baliakas P
Hemasphere 6 (8) e761 [2022-08-00; online 2022-08-02]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Glob Chall 6 (8) 2100137 [2022-08-00; online 2022-06-11]
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Lundtoft C, Pucholt P, Martin M, ..., Svenungsson E, Rönnblom L
Arthritis & rheumatology (Hoboken, N.J.) 74 (8) 1440-1450 [2022-08-00; online 2022-06-27]
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Cell Reports Medicine 3 (7) 100676 [2022-07-19; online 2022-07-21]
Affinity Proteomics Uppsala [Service]
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NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Soták M, Rajan MR, Clark M, ..., Lange S, Börgeson E
iScience 25 (7) 104602 [2022-07-15; online 2022-06-11]
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Sci. Total Environ. 830 (-) 154778 [2022-07-15; online 2022-03-24]
Swedish Metabolomics Centre (SMC) [Service]
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Kuhl H, Du K, Schartl M, ..., Stöck M, Lamatsch DK
Nat Commun 13 (1) 4092 [2022-07-14; online 2022-07-14]
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BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Single-cell transcriptional pharmacodynamics of trifluridine in a tumor-immune model.
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Sci Rep 12 (1) 11960 [2022-07-13; online 2022-07-13]
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Hardt U, Carlberg K, Af Klint E, ..., Ståhl PL, Malmström V
Sci Rep 12 (1) 11876 [2022-07-13; online 2022-07-13]
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Forests 13 (7) 1103 [2022-07-13; online 2022-07-13]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Nat Commun 13 (1) 4033 [2022-07-12; online 2022-07-12]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Piombo E, Vetukuri RR, Sundararajan P, ..., Karlsson M, Dubey M
Appl. Environ. Microbiol. 88 (13) e0064322 [2022-07-12; online 2022-06-13]
Bioinformatics Support for Computational Resources [Service]
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Ballarino R, Bouwman BAM, Agostini F, ..., Bienko M, Crosetto N
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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André D, Marcon A, Lee KC, ..., Schmid M, Nilsson O
Curr. Biol. 32 (13) 2988-2996.e4 [2022-07-11; online 2022-06-03]
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Hoffman T, Sjödin A, Öhrman C, ..., Lundkvist Å, Olsen B
Microorganisms 10 (7) 1393 [2022-07-11; online 2022-07-11]
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Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
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Bioinformatics Support for Computational Resources [Service]
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Swedish NMR Centre (SNC) [Service]
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NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Oskolkov N, Santel M, Parikh HM, ..., Pääbo S, Hansson O
Skelet Muscle 12 (1) 16 [2022-07-02; online 2022-07-02]
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Affinity Proteomics Uppsala [Service]
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Glycoproteomics and MS Proteomics [Service]
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Hafstað V, Søkilde R, Häkkinen J, ..., Rovira C, Persson H
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BMC Bioinformatics 23 (1) 261 [2022-07-01; online 2022-07-01]
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Ecol Evol 12 (7) e9078 [2022-07-00; online 2022-07-06]
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Affinity Proteomics Stockholm [Service]
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New Phytol. 235 (1) 263-275 [2022-07-00; online 2022-04-16]
Swedish Metabolomics Centre (SMC) [Service]
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Bioinformatics Support for Computational Resources [Service]
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Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
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Autophagy 18 (7) 1486-1502 [2022-07-00; online 2021-11-05]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Integrated Microscopy Technologies Stockholm [Collaborative]
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Bioinformatics Support for Computational Resources [Service]
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Tuberculosis 135 (-) 102222 [2022-07-00; online 2022-06-16]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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MBio 13 (3) e0089222 [2022-06-28; online 2022-05-09]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] Microbial Single Cell Genomics [Service]
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Sci Rep 12 (1) 10541 [2022-06-22; online 2022-06-22]
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BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Genome Engineering Zebrafish [Service]
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Affinity Proteomics Uppsala [Service]
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Bioinformatics Support for Computational Resources [Service]
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Oncogenesis 11 (1) 34 [2022-06-21; online 2022-06-21]
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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CRISPR-Cas9 treatment partially restores amyloid-β 42/40 in human fibroblasts with the Alzheimer's disease PSEN 1 M146L mutation.
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NGI Short read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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BMC Bioinformatics 23 (1) 228 [2022-06-13; online 2022-06-13]
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PubMed DOI Crossref
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Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
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PubMed DOI Crossref
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PubMed DOI Crossref
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PubMed DOI Crossref
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Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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PubMed DOI Crossref
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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- - (-) - [2022-05-29; online 2022-05-29]
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PubMed DOI Crossref
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Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
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Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Front Microbiol 13 (-) 877990 [2022-05-24; online 2022-05-24]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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Int J Mol Sci 23 (10) - [2022-05-23; online 2022-05-23]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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PubMed DOI Crossref
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Feiner N, Radersma R, Vasquez L, ..., Heijmans BT, Uller T
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
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Front Immunol 13 (-) 876321 [2022-05-18; online 2022-05-18]
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PubMed DOI Crossref
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Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
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PubMed DOI Crossref
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Lee H, Marco Salas S, Gyllborg D, Nilsson M
Sci Rep 12 (1) 7976 [2022-05-13; online 2022-05-13]
In Situ Sequencing (ISS) [Technology development]
PubMed DOI Crossref
Large differences in carbohydrate degradation and transport potential among lichen fungal symbionts.
Resl P, Bujold AR, Tagirdzhanova G, ..., Willis LM, Spribille T
Nat Commun 13 (1) 2634 [2022-05-12; online 2022-05-12]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Genome-wide association meta-analysis identifies 48 risk variants and highlights the role of the stria vascularis in hearing loss.
Trpchevska N, Freidin MB, Broer L, ..., Williams FMK, Nagtegaal AP
Am. J. Hum. Genet. 109 (6) 1077-1091 [2022-05-12; online 2022-05-12]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Competitive ability depends on mating system and ploidy level across Capsella species.
Orsucci M, Yang X, Vanikiotis T, ..., Lascoux M, Glémin S
Ann. Bot. 129 (6) 697-708 [2022-05-12; online 2022-03-25]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
The impact of digital media on children's intelligence while controlling for genetic differences in cognition and socioeconomic background.
Sauce B, Liebherr M, Judd N, Klingberg T
Sci Rep 12 (1) 7720 [2022-05-11; online 2022-05-11]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Dynamics of the normal gut microbiota: A longitudinal one-year population study in Sweden.
Olsson LM, Boulund F, Nilsson S, ..., Tremaroli V, Bäckhed F
Cell Host Microbe 30 (5) 726-739.e3 [2022-05-11; online 2022-03-28]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
The SARS-CoV-2 receptor ACE2 is expressed in mouse pericytes but not endothelial cells: Implications for COVID-19 vascular research.
Muhl L, He L, Sun Y, ..., Lendahl U, Betsholtz C
Stem Cell Reports 17 (5) 1089-1104 [2022-05-10; online 2022-04-21]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Orthotopic Transplantation of Human Paediatric High-Grade Glioma in Zebrafish Larvae.
Larsson S, Kettunen P, Carén H
Brain Sci 12 (5) - [2022-05-10; online 2022-05-10]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Hepatocyte Thorns, A Novel Drug-Induced Stress Response in Human and Mouse Liver Spheroids.
Pridgeon CS, Bolhuis DP, Milosavljević F, ..., Jukić MM, Ingelman-Sundberg M
Cells 11 (10) - [2022-05-10; online 2022-05-10]
Chemical Proteomics [Collaborative]
PubMed DOI Crossref
Concurrent stem- and lineage-affiliated chromatin programs precede hematopoietic lineage restriction.
Safi F, Dhapola P, Warsi S, ..., Thakur RK, Karlsson G
Cell Rep 39 (6) 110798 [2022-05-10; online 2022-05-12]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Speciation and population divergence in a mutualistic seed dispersing bird.
de Raad J, Päckert M, Irestedt M, ..., Neuschulz EL, Nilsson MA
Commun Biol 5 (1) 429 [2022-05-09; online 2022-05-09]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Seasonal and Spatial Variations in Synechococcus Abundance and Diversity Throughout the Gullmar Fjord, Swedish Skagerrak.
Laber CP, Pontiller B, Bunse C, ..., Pinhassi J, Farnelid H
Front Microbiol 13 (-) 828459 [2022-05-09; online 2022-05-09]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Contribution of rare whole-genome sequencing variants to plasma protein levels and the missing heritability.
Kierczak M, Rafati N, Höglund J, ..., Karlsson T, Johansson Å
Nat Commun 13 (1) 2532 [2022-05-09; online 2022-05-09]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Association between systemic inflammation and experimental pain sensitivity in subjects with pain and painless neuropathy after traumatic nerve injuries.
Miclescu AA, Granlund P, Butler S, Gordh T
Scand J Pain - (-) - [2022-05-09; online 2022-05-09]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
A randomized controlled trial of the effects of whole grains versus refined grains diets on the microbiome in pregnancy.
Sun H, Yamada P, Paetow A, ..., Dominguez-Bello MG, Young BK
Sci Rep 12 (1) 7509 [2022-05-07; online 2022-05-07]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
A Fatty Diet Induces a Jejunal Ketogenesis Which Inhibits Local SGLT1-Based Glucose Transport via an Acetylation Mechanism-Results from a Randomized Cross-Over Study between Iso-Caloric High-Fat versus High-Carbohydrate Diets in Healthy Volunteers.
Elebring E, Wallenius V, Casselbrant A, ..., Marschall HU, Fändriks L
Nutrients 14 (9) - [2022-05-07; online 2022-05-07]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Modulation of RNA stability regulates gene expression in two opposite ways: through buffering of RNA levels upon global perturbations and by supporting adapted differential expression.
Faucillion ML, Johansson AM, Larsson J
Nucleic Acids Res. 50 (8) 4372-4388 [2022-05-06; online 2022-04-08]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Evaluating metagenomic assembly approaches for biome-specific gene catalogues.
Delgado LF, Andersson AF
Microbiome 10 (1) 72 [2022-05-06; online 2022-05-06]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Birth weight and young adult body mass index for predicting the risk of developing adult heart failure in men.
Bygdell M, Ohlsson C, Lilja L, ..., Rosengren A, Kindblom JM
Eur J Prev Cardiol 29 (6) 971-978 [2022-05-06; online 2021-12-16]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Ivermectin-induced gene expression changes in adult Parascaris univalens and Caenorhabditis elegans: a comparative approach to study anthelminthic metabolism and resistance in vitro.
Dube F, Hinas A, Roy S, ..., Svärd S, Tydén E
Parasit Vectors 15 (1) 158 [2022-05-05; online 2022-05-05]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
"ON THE IMPORTANCE OF VARIATION OF ALKALISATION CONDITIONS ON CELLULOSE ETHER SYNTHESIS"
REYES FORSBERG DC, SUNDMAN O
Cellulose Chem. Technol. 56 (3-4) 227-238 [2022-05-05; online 2022-05-05]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Real-time evaluation of glioblastoma growth in patient-specific zebrafish xenografts.
Almstedt E, Rosén E, Gloger M, ..., Krona C, Nelander S
Neuro-oncology 24 (5) 726-738 [2022-05-04; online 2021-12-18]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
FOXO Dictates Initiation of B Cell Development and Myeloid Restriction in Common Lymphoid Progenitors.
Peña-Pérez L, Kharazi S, Frengen N, ..., Luc S, Månsson R
Front Immunol 13 (-) 880668 [2022-05-04; online 2022-05-04]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Comparison of methodological approaches to the study of young sex chromosomes: A case study in Poecilia.
Darolti I, Almeida P, Wright AE, Mank JE
J. Evol. Biol. 35 (12) 1646-1658 [2022-05-04; online 2022-05-04]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genomic Impact of Whaling in North Atlantic Fin Whales.
Wolf M, de Jong M, Halldórsson SD, Árnason Ú, Janke A
Mol. Biol. Evol. 39 (5) - [2022-05-03; online 2022-05-06]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic Landscape of the ACE2 Coronavirus Receptor.
Yang Z, Macdonald-Dunlop E, Chen J, ..., Wilson JF, Shen X
Circulation 145 (18) 1398-1411 [2022-05-03; online 2022-04-07]
Affinity Proteomics Stockholm [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Combined Transcriptomic and Protein Array Cytokine Profiling of Human Stem Cells from Dental Apical Papilla Modulated by Oral Bacteria.
Zymovets V, Razghonova Y, Rakhimova O, ..., Landström M, Romani Vestman N
Int J Mol Sci 23 (9) 5098 [2022-05-03; online 2022-05-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Factors Associated With Serological Response to SARS-CoV-2 Vaccination in Patients With Multiple Sclerosis Treated With Rituximab.
Tolf A, Wiberg A, Müller M, ..., Mangsbo S, Burman J
JAMA Netw Open 5 (5) e2211497 [2022-05-02; online 2022-05-02]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
The microtubule plus-end tracking protein Bik1 is required for chromosome congression.
Julner A, Abbasi M, Menéndez-Benito V
Mol. Biol. Cell 33 (5) br7 [2022-05-01; online 2022-03-02]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service]
PubMed DOI Crossref
Hepatocyte growth factor, colony-stimulating factor 1, CD40, and 11 other inflammation-related proteins are associated with pain in diabetic neuropathy: exploration and replication serum data from the Pain in Neuropathy Study.
Bäckryd E, Themistocleous A, Larsson A, ..., Bennett DL, Gerdle B
Pain 163 (5) 897-909 [2022-05-01; online 2021-08-27]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
[Correlation between intake of fish or supplements containing omega-3 fatty acids and early pregnancy plasma concentrations.].
Tryggvadottir EA, Halldorsson TI, Birgisdottir BE, ..., Hardardottir H, Gunnarsdottir I
Laeknabladid 108 (5) 238-243 [2022-05-00; online 2022-05-03]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
The proteome signature of cord blood plasma with high hematopoietic stem and progenitor cell count
Nilsson AK, Rydbeck H, Thorsell A, ..., Lundgren P, Hellström A
Stem Cell Research 61 (-) 102752 [2022-05-00; online 2022-05-00]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
The outcome of targeted NGS screening in patients with syndromic forms of sagittal and pansynostosis - IL11RA is an emerging core-gene for pansynostosis.
Topa A, Rohlin A, Andersson MK, ..., Stenman G, Kölby L
Eur J Med Genet 65 (5) 104476 [2022-05-00; online 2022-03-21]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Tetraspanins distinguish separate extracellular vesicle subpopulations in human serum and plasma - Contributions of platelet extracellular vesicles in plasma samples.
Karimi N, Dalirfardouei R, Dias T, Lötvall J, Lässer C
J Extracell Vesicles 11 (5) e12213 [2022-05-00; online 2022-05-08]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Stratification of COVID-19 patients based on quantitative immune-related gene expression in whole blood
Persson J, Andersson B, van Veen S, ..., Andersson LM, Harandi AM
Mol. Immunol. 145 (-) 17-26 [2022-05-00; online 2022-05-00]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
DOI Crossref
Soil phosphorus forms show only minor changes across a 5000-year-old boreal wildfire chronosequence
Vincent AG, Schleucher J, Giesler R, Wardle DA
Biogeochemistry 159 (1) 15-32 [2022-05-00; online 2022-02-27]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Re: Chen Dong, Sung-Lang Chen, and Wen-Wei Sung's Letter to the Editor re: Karin Welén, Ebba Rosendal, Magnus Gisslén, et al. A Phase 2 Trial of the Effect of Antiandrogen Therapy on COVID-19 Outcome: No Evidence of Benefit, Supported by Epidemiology and In Vitro Data. Eur Urol. 2022;81:285-93.
Welen K, Rosendal E, Freyhult E, ..., Överby AK, Josefsson A
Eur. Urol. 81 (5) e124-e125 [2022-05-00; online 2022-02-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Polymorphisms in alpha 7 nicotinic acetylcholine receptor gene, CHRNA7, and its partially duplicated gene, CHRFAM7A, associate with increased inflammatory response in human peripheral mononuclear cells.
Pattanaik B, Hammarlund M, Mjörnstedt F, ..., Bergström G, Johansson ME
FASEB J. 36 (5) e22271 [2022-05-00; online 2022-03-29]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Plaque Evaluation by Ultrasound and Transcriptomics Reveals BCLAF1 as a Regulator of Smooth Muscle Cell Lipid Transdifferentiation in Atherosclerosis.
Rykaczewska U, Zhao Q, Saliba-Gustafsson P, ..., Hedin U, Matic L
Arterioscler. Thromb. Vasc. Biol. 42 (5) 659-676 [2022-05-00; online 2022-03-24]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Nutrient driven transcriptional changes during phage infection in an aquatic Gammaproteobacterium.
Nilsson E, Li K, Hoetzinger M, Holmfeldt K
Environ. Microbiol. 24 (5) 2270-2281 [2022-05-00; online 2022-01-26]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Nitrate fertilization may delay autumn leaf senescence, while amino acid treatments do not.
Fataftah N, Edlund E, Lihavainen J, ..., Näsholm T, Jansson S
Physiol Plantarum 174 (3) e13690 [2022-05-00; online 2022-04-24]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Multi-omics analysis of the cervical epithelial integrity of women using depot medroxyprogesterone acetate.
Bradley F, Franzén Boger M, Kaldhusdal V, ..., Tjernlund A, Broliden K
PLoS Pathog. 18 (5) e1010494 [2022-05-00; online 2022-05-09]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
DOI Crossref
Microbial functional genes influenced by short-term experimental drought across European agricultural fields
Kozjek K, Manoharan L, Ahrén D, Hedlund K
Soil Biology and Biochemistry 168 (-) 108650 [2022-05-00; online 2022-05-00]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Metagenomic evidence of a novel family of anammox bacteria in a subsea environment.
Suarez C, Dalcin Martins P, Jetten MSM, ..., Hermansson M, Persson F
Environ. Microbiol. 24 (5) 2348-2360 [2022-05-00; online 2022-04-18]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Mechanical removal of biofilm on titanium discs: An in vitro study.
Ichioka Y, Derks J, Dahlén G, Berglundh T, Larsson L
J. Biomed. Mater. Res. Part B Appl. Biomater. 110 (5) 1044-1055 [2022-05-00; online 2021-12-13]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Interleukin-10 regulates goblet cell numbers through Notch signaling in the developing zebrafish intestine.
Morales RA, Rabahi S, Diaz OE, ..., Hernández PP, Villablanca EJ
Mucosal Immunol 15 (5) 940-951 [2022-05-00; online 2022-07-15]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Hormone-sensitive lipase is localized at synapses and is necessary for normal memory functioning in mice.
Skoug C, Holm C, Duarte JMN
J. Lipid Res. 63 (5) 100195 [2022-05-00; online 2022-03-15]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
HLA variants associated with azathioprine-induced pancreatitis in patients with Crohn's disease.
Ås J, Bertulyte I, Eriksson N, ..., Wadelius M, Hallberg P
Clin Transl Sci 15 (5) 1249-1256 [2022-05-00; online 2022-02-20]
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PubMed DOI Crossref
Evolution, geographic spreading, and demographic distribution of Enterovirus D68.
Hodcroft EB, Dyrdak R, Andrés C, ..., Neher RA, Albert J
PLoS Pathog. 18 (5) e1010515 [2022-05-00; online 2022-05-31]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Epicardium-derived cells organize through tight junctions to replenish cardiac muscle in salamanders.
Eroglu E, Yen CYT, Tsoi YL, ..., Simon A, Chien KR
Nat Cell Biol 24 (5) 645-658 [2022-05-00; online 2022-05-12]
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PubMed DOI Crossref
Author Correction: The Molecular Tumor Board Portal supports clinical decisions and automated reporting for precision oncology.
Tamborero D, Dienstmann R, Rachid MH, ..., Rodon J, Lehtiö J
Nat Cancer 3 (5) 649 [2022-05-00; online 2022-04-23]
Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
A starch- and sucrose-reduced dietary intervention in irritable bowel syndrome patients produced a shift in gut microbiota composition along with changes in phylum, genus, and amplicon sequence variant abundances, without affecting the micro-RNA levels.
Nilholm C, Manoharan L, Roth B, D'Amato M, Ohlsson B
United European Gastroenterol J 10 (4) 363-375 [2022-05-00; online 2022-04-28]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
A modeling-based proposal for safe and efficacious reintroduction of bedaquiline after dose interruption: A population pharmacokinetics study.
Keutzer L, Akhondipour Salehabad Y, Davies Forsman L, Simonsson USH
CPT Pharmacometrics Syst Pharmacol 11 (5) 628-639 [2022-05-00; online 2022-02-16]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
"Randomized phase II study of azacitidine ± lenalidomide in higher-risk myelodysplastic syndromes and acute myeloid leukemia with a karyotype including Del(5q)".
Rasmussen B, Göhring G, Bernard E, ..., Möllgård L, Hellström-Lindberg E
Leukemia 36 (5) 1436-1439 [2022-05-00; online 2022-03-11]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Satellite DNA evolution in Corvoidea inferred from short and long reads.
Peona V, Kutschera VE, Blom MPK, Irestedt M, Suh A
Mol. Ecol. - (-) - [2022-04-30; online 2022-04-30]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
RpuS/R Is a Novel Two-Component Signal Transduction System That Regulates the Expression of the Pyruvate Symporter MctP in Sinorhizobium fredii NGR234.
Ramos AL, Aquino M, García G, ..., Lupas AN, Sepulveda E
Front Microbiol 13 (-) 871077 [2022-04-29; online 2022-04-29]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Identification of four novel T cell autoantigens and personal autoreactive profiles in multiple sclerosis.
Bronge M, Högelin KA, Thomas OG, ..., Olsson T, Grönlund H
Sci Adv 8 (17) eabn1823 [2022-04-29; online 2022-04-27]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Cancer cells use self-inflicted DNA breaks to evade growth limits imposed by genotoxic stress.
Larsen BD, Benada J, Yung PYK, ..., Bartek J, Sørensen CS
Science 376 (6592) 476-483 [2022-04-29; online 2022-04-28]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Age and sex effects across the blood proteome after ionizing radiation exposure can bias biomarker screening and risk assessment.
Langen B, Vorontsov E, Spetz J, ..., Helou K, Forssell-Aronsson E
Sci Rep 12 (1) 7000 [2022-04-29; online 2022-04-29]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Findzx: an automated pipeline for detecting and visualising sex chromosomes using whole-genome sequencing data.
Sigeman H, Sinclair B, Hansson B
BMC Genomics 23 (1) 328 [2022-04-27; online 2022-04-27]
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PubMed DOI Crossref
Dual RNA Sequencing Reveals Key Events When Different Giardia Life Cycle Stages Interact With Human Intestinal Epithelial Cells In Vitro.
Rojas L, Grüttner J, Ma'ayeh S, Xu F, Svärd SG
Front. Cell. Infect. Microbiol. 12 (-) 862211 [2022-04-27; online 2022-04-27]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Wastewater effluent affects behaviour and metabolomic endpoints in damselfly larvae.
Späth J, Fick J, McCallum E, ..., Nording ML, Brodin T
Sci Rep 12 (1) 6830 [2022-04-26; online 2022-04-26]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Cell-lineage controlled epigenetic regulation in glioblastoma stem cells determines functionally distinct subgroups and predicts patient survival.
Lu X, Maturi NP, Jarvius M, ..., Uhrbom L, Chen X
Nat Commun 13 (1) 2236 [2022-04-25; online 2022-04-25]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Auxin boosts energy generation pathways to fuel pollen maturation in barley.
Amanda D, Frey FP, Neumann U, ..., Ljung K, Acosta IF
Curr. Biol. 32 (8) 1798-1811.e8 [2022-04-25; online 2022-03-21]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Auxilin is a novel susceptibility gene for congenital heart block which directly impacts fetal heart function.
Meisgen S, Hedlund M, Ambrosi A, ..., Sonesson S, Wahren-Herlenius M
Ann. Rheum. Dis. 81 (8) 1151-1161 [2022-04-25; online 2022-04-25]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Carniolan Honeybee from Slovenia-A Complete and Annotated Mitochondrial Genome with Comparisons to Closely Related Apis mellifera Subspecies.
Moškrič A, Marinč A, Ferk P, ..., Soler L, Prešern J
Insects 13 (5) 403 [2022-04-22; online 2022-04-22]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Comprehensive Target Screening and Cellular Profiling of the Cancer-Active Compound b-AP15 Indicate Abrogation of Protein Homeostasis and Organelle Dysfunction as the Primary Mechanism of Action.
Gubat J, Selvaraju K, Sjöstrand L, ..., Linder S, D'Arcy P
Front Oncol 12 (-) 852980 [2022-04-22; online 2022-04-22]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Snapshots of actin and tubulin folding inside the TRiC chaperonin.
Kelly JJ, Tranter D, Pardon E, ..., Huiskonen JT, Yue WW
Nat. Struct. Mol. Biol. - (-) - [2022-04-21; online 2022-04-21]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Characterization of the ganglioside recognition profile of Escherichia coli heat-labile enterotoxin LT-IIc.
Zalem D, Juhás M, Terrinoni M, ..., Connell TD, Teneberg S
Glycobiology 32 (5) 391-403 [2022-04-21; online 2022-01-02]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
App-based COVID-19 syndromic surveillance and prediction of hospital admissions in COVID Symptom Study Sweden.
Kennedy B, Fitipaldi H, Hammar U, ..., Franks PW, Fall T
Nat Commun 13 (1) 2110 [2022-04-21; online 2022-04-21]
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PubMed DOI Crossref
Advances in the development of new biomarkers for Alzheimer's disease.
Klyucherev TO, Olszewski P, Shalimova AA, ..., Syvänen S, Schiöth HB
Transl Neurodegener 11 (1) 25 [2022-04-21; online 2022-04-21]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Baseline Pro-Inflammatory Cytokine Levels Moderate Psychological Inflexibility in Behavioral Treatment for Chronic Pain.
Karshikoff B, Åström J, Holmström L, ..., Kemani MK, Wicksell RK
J Clin Med 11 (9) - [2022-04-20; online 2022-04-20]
Affinity Proteomics Uppsala [Service]
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Journal of Chromatography B 1195 (-) 123200 [2022-04-15; online 2022-02-28]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Front Pharmacol 13 (-) 874176 [2022-04-14; online 2022-04-14]
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Boström ADE, Andersson P, Chatzittofis A, ..., Arver S, Jokinen J
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Chemistry - (-) - [2022-04-14; online 2022-04-14]
Drug Discovery and Development (DDD) [Service]
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Svensson Akusjärvi S, Krishnan S, Jütte BB, ..., Sönnerborg A, Neogi U
Commun Biol 5 (1) 357 [2022-04-13; online 2022-04-13]
Affinity Proteomics Uppsala [Service]
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Dehasque M, Pečnerová P, Kempe Lagerholm V, ..., Vartanyan S, Dalén L
Genes 13 (4) - [2022-04-13; online 2022-04-13]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Hulme H, Fridjonsdottir E, Vallianatou T, ..., Bezard E, Andrén PE
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Syst. Biol. - (-) - [2022-04-12; online 2022-04-12]
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BMC Genomics 23 (1) 276 [2022-04-07; online 2022-04-07]
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Raine A, Lundmark A, Annett A, ..., Bergin C, Nordlund J
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Acute sleep loss alters circulating fibroblast growth factor 21 levels in humans: A randomised crossover trial.
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Swedish NMR Centre (SNC) [Collaborative]
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Autoimmunity and Serology Profiling [Collaborative] Drug Discovery and Development (DDD) [Service]
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Barriga HMG, Pence IJ, Holme MN, ..., Carroni M, Stevens MM
Adv Mater - (-) e2200839 [2022-03-31; online 2022-03-31]
Cryo-EM [Collaborative]
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Pre-Treatment Integrase Inhibitor Resistance and Natural Polymorphisms among HIV-1 Subtype C Infected Patients in Ethiopia.
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Bioinformatics Support for Computational Resources [Service]
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Affinity Proteomics Uppsala [Collaborative] NGI Proteomics [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Spatial Proteomics [Technology development]
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Sci Rep 12 (1) 5260 [2022-03-28; online 2022-03-28]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Bioinformatics Support for Computational Resources [Service]
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Structural Proteomics [Collaborative]
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Yau ACY, Globisch MA, Onyeogaziri FC, ..., Dejana E, Magnusson PU
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NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Affinity Proteomics Uppsala [Service]
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Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] Clinical Genomics Stockholm [Collaborative] Clinical Genomics Umeå [Service] Clinical Genomics Uppsala [Collaborative]
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Taxonomic and functional diversity of aquatic heterotrophs is sustained by dissolved organic matter chemodiversity
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Microbial Single Cell Genomics [Technology development]
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Near Chromosome-Level Genome Assembly and Annotation of Rhodotorula babjevae Strains Reveals High Intraspecific Divergence.
Martín-Hernández GC, Müller B, Brandt C, ..., Viehweger A, Passoth V
JoF 8 (4) - [2022-03-22; online 2022-03-22]
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Elife 11 (-) - [2022-03-22; online 2022-03-22]
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Comparative Genomics of Cyclic di-GMP Metabolism and Chemosensory Pathways in Shewanella algae Strains: Novel Bacterial Sensory Domains and Functional Insights into Lifestyle Regulation.
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mSystems - (-) e0151821 [2022-03-21; online 2022-03-21]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Small Molecule Screening of Primary Human Acute Myeloid Leukemia Using Co-culture and Multiplexed FACS Analysis.
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BIO-PROTOCOL 12 (6) e4353 [2022-03-20; online 2022-03-20]
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Periodontal Disease Augments Cardiovascular Disease Risk Biomarkers in Rheumatoid Arthritis.
Panezai J, Ghaffar A, Altamash M, ..., Larsson A, Engström PE
Biomedicines 10 (3) - [2022-03-19; online 2022-03-19]
Affinity Proteomics Uppsala [Collaborative]
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GBS-MeDIP: A protocol for parallel identification of genetic and epigenetic variation in the same reduced fraction of genomes across individuals.
Rezaei S, Uffenorde J, Gimm O, ..., Guerrero-Bosagna C, Pértille F
STAR Protoc 3 (1) 101202 [2022-03-18; online 2022-03-03]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Deficits in attention, motor control and perception childhood to age 30 years: prospective case-control study of outcome predictors.
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Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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The Molecular Chaperone CCT Sequesters Gelsolin and Protects it from Cleavage by Caspase-3.
Cuéllar J, Vallin J, Svanström A, ..., Valpuesta JM, Grantham J
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Integrated Microscopy Technologies Gothenburg [Service]
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Chaves-Arquero B, Persson C, Merino N, ..., Anguita J, Blanco FJ
Int J Mol Sci 23 (6) - [2022-03-15; online 2022-03-15]
Swedish NMR Centre (SNC) [Collaborative]
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Extracellular endosulfatase Sulf-2 harbors a chondroitin/dermatan sulfate chain that modulates its enzyme activity.
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Cell Rep 38 (11) 110516 [2022-03-15; online 2022-03-17]
Glycoproteomics and MS Proteomics [Service]
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Salivary Microbiota and Host-Inflammatory Responses in Periodontitis Affected Individuals With and Without Rheumatoid Arthritis.
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Norway spruce postglacial recolonization of Fennoscandia.
Nota K, Klaminder J, Milesi P, ..., Suyama Y, Parducci L
Nat Commun 13 (1) 1333 [2022-03-14; online 2022-03-14]
Bioinformatics Support for Computational Resources [Service]
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Five Hours Total Sleep Deprivation Does Not Affect CA1 Dendritic Length or Spine Density.
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Integrated Microscopy Technologies Stockholm [Service]
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High throughput screen in a co-culture model to uncover therapeutic strategies to potentiate the cancer-inhibiting properties of the tumor-stroma in pancreatic cancer
Mason J, Cumming J, Eriksson AU, ..., Chorell E, Öhlund D
- - (-) - [2022-03-13; online 2022-03-13]
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Mixed-mode chromatography-mass spectrometry enables targeted and untargeted screening of carboxylic acids in biological samples.
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A "spindle and thread" mechanism unblocks p53 translation by modulating N-terminal disorder.
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Swedish NMR Centre (SNC) [Service]
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Control of NK cell tolerance in MHC class I-deficiency by regulated SHP-1 localization to the activating immune synapse
Schmied L, Luu TT, Søndergaard JN, ..., Saeed MB, Höglund P
- - (-) - [2022-03-09; online 2022-03-09]
Bioinformatics Support for Computational Resources [Service] Integrated Microscopy Technologies Stockholm [Service]
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Weakened resilience of benthic microbial communities in the face of climate change
Seidel L, Ketzer M, Broman E, ..., Hylander S, Dopson M
ISME COMMUN. 2 (1) - [2022-03-08; online 2022-03-08]
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Sci Rep 12 (1) 4109 [2022-03-08; online 2022-03-08]
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Xing X, Mu N, Yuan X, ..., Neo SY, Xu D
Cancers (Basel) 14 (6) - [2022-03-08; online 2022-03-08]
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Molecules 27 (6) - [2022-03-08; online 2022-03-08]
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Swedish NMR Centre (SNC) [Service]
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Swedish NMR Centre (SNC)
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Autoimmunity and Serology Profiling [Collaborative]
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Structure 30 (3) 338-349.e3 [2022-03-03; online 2021-12-14]
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Nutrients 14 (5) - [2022-03-02; online 2022-03-02]
Swedish NMR Centre (SNC) [Service]
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ACS Omega 7 (8) 6854-6868 [2022-03-01; online 2022-02-16]
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Optimization of cerebrospinal fluid microbial DNA metagenomic sequencing diagnostics.
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Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Stenudd M, Sabelström H, Llorens-Bobadilla E, ..., Barnabé-Heider F, Frisén J
Cell Rep 38 (9) 110440 [2022-03-01; online 2022-03-03]
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BMC Med 20 (1) 76 [2022-03-01; online 2022-03-01]
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Whole-genome resequencing of temporally stratified samples reveals substantial loss of haplotype diversity in the highly inbred Scandinavian wolf population.
Viluma A, Flagstad Ø, Åkesson M, ..., Wabakken P, Ellegren H
Genome Res. 32 (3) 449-458 [2022-03-00; online 2022-02-08]
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Ernst M, Jønsson KA, Ericson PGP, Blom MPK, Irestedt M
Heredity (Edinb) 128 (3) 159-168 [2022-03-00; online 2022-01-26]
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Trends Ecol Evol 37 (3) 197-202 [2022-03-00; online 2022-01-24]
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Nat Prod Res 36 (6) 1626-1630 [2022-03-00; online 2021-03-10]
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Mahjani B, Klei L, Mattheisen M, ..., Devlin B, Grice DE
Am J Psychiatry 179 (3) 216-225 [2022-03-00; online 2021-11-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Stsiapanava A, Xu C, Nishio S, ..., Wu B, Jovine L
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Guzzi N, Muthukumar S, Cieśla M, ..., Dimitriou M, Bellodi C
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Leukemia 36 (3) 889-891 [2022-03-00; online 2021-11-01]
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Kardum Hjort C, Paris JR, Olsson P, ..., Dudaniec RY, Smith HG
Evol Appl 15 (3) 365-382 [2022-03-00; online 2022-03-14]
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Ecol Evol 12 (3) e8676 [2022-03-00; online 2022-03-08]
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Ratz M, von Berlin L, Larsson L, ..., Lundeberg J, Frisén J
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Pediatr. Res. 91 (4) 937-946 [2022-03-00; online 2021-04-24]
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Martinell M, Andersson T, Mannsverk SS, ..., Lindh J, Kaden R
Viruses 14 (3) - [2022-02-28; online 2022-02-28]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Front Microbiol 13 (-) 821006 [2022-02-25; online 2022-02-25]
Bioinformatics Support for Computational Resources [Service]
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Duration of SARS-CoV-2 Immune Responses Up to Six Months Following Homologous or Heterologous Primary Immunization with ChAdOx1 nCoV-19 and BNT162b2 mRNA Vaccines.
Marking U, Havervall S, Greilert-Norin N, ..., Åberg M, Thålin C
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Luttens A, Gullberg H, Abdurakhmanov E, ..., Danielson UH, Carlsson J
J. Am. Chem. Soc. 144 (7) 2905-2920 [2022-02-23; online 2022-02-10]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Service] Drug Discovery and Development (DDD) [Collaborative]
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Swedish NMR Centre (SNC) [Service]
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Rajer F, Sandegren L
MBio 13 (1) e0355221 [2022-02-22; online 2022-01-18]
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Pharmaceutics 14 (2) 463 [2022-02-21; online 2022-02-21]
Integrated Microscopy Technologies Gothenburg [Collaborative]
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Börjesson V, Martinez-Monleon A, Fransson S, ..., Milosevic J, López MD
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Clinical Genomics [Technology development] Clinical Genomics Gothenburg [Technology development]
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Fungal Genetics Reports 66 (1) - [2022-02-18; online 2022-02-18]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Sturk-Andreaggi K, Ring JD, Ameur A, ..., Marshall C, Allen M
Int J Mol Sci 23 (4) - [2022-02-17; online 2022-02-17]
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Populus SVL Acts in Leaves to Modulate the Timing of Growth Cessation and Bud Set.
André D, Zambrano JA, Zhang B, ..., Marcon A, Nilsson O
Front Plant Sci 13 (-) 823019 [2022-02-17; online 2022-02-17]
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Nilsson AK, Tebani A, Malmodin D, ..., Uhlén M, Hellström A
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Swedish NMR Centre (SNC) [Collaborative]
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Chambi D, Lundqvist J, Nygren E, ..., Jönsson LJ, Martín C
Fermentation 8 (2) 79 [2022-02-14; online 2022-02-14]
Swedish NMR Centre (SNC) [Collaborative]
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Hartvigsson O, Barman M, Savolainen O, ..., Sandberg AS, Brunius C
Metabolites 12 (2) 175 [2022-02-13; online 2022-02-13]
Bioinformatics Support for Computational Resources [Service] Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Parigi SM, Larsson L, Das S, ..., Lundeberg J, Villablanca EJ
Nat Commun 13 (1) 828 [2022-02-11; online 2022-02-11]
NGI Short read [Service] NGI Spatial omics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Mota A, Schweitzer M, Wernersson E, Crosetto N, Bienko M
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Spatial Proteomics [Technology development]
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Propionate attenuates atherosclerosis by immune-dependent regulation of intestinal cholesterol metabolism.
Haghikia A, Zimmermann F, Schumann P, ..., Haghikia A, Landmesser U
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Bioinformatics Support for Computational Resources [Service]
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NMR Backbone Assignment of VIM-2 and Identification of the Active Enantiomer of a Potential Inhibitor
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Swedish NMR Centre (SNC) [Service]
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Fermentable oligo-, di-, monosaccharides, and polyols (FODMAPs), but not gluten, elicit modest symptoms of irritable bowel syndrome: a double-blind, placebo-controlled, randomized three-way crossover trial.
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Am. J. Clin. Nutr. 115 (2) 344-352 [2022-02-09; online 2021-10-08]
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Acta Orthop 93 (-) 317-326 [2022-02-08; online 2022-02-08]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Nadeem A, Berg A, Pace H, ..., Uhlin BE, Wai SN
Elife 11 (-) - [2022-02-08; online 2022-02-08]
Cryo-EM [Service] Integrated Microscopy Technologies Umeå [Service] Swedish NMR Centre (SNC) [Collaborative]
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Palica K, Vorácová M, Skagseth S, ..., Andersson H, Erdélyi M
ACS Omega 7 (5) 4550-4562 [2022-02-08; online 2022-01-25]
Swedish NMR Centre (SNC)
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Glycoproteomics and MS Proteomics [Service]
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Affinity Proteomics Uppsala [Service]
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Sci Rep 12 (1) 2005 [2022-02-07; online 2022-02-07]
Affinity Proteomics Uppsala [Service]
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Ionotropic receptors in the turnip moth Agrotis segetum respond to repellent medium-chain fatty acids.
Hou XQ, Zhang DD, Powell D, ..., Andersson MN, Löfstedt C
BMC Biol. 20 (1) 34 [2022-02-07; online 2022-02-07]
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Umer HM, Audain E, Zhu Y, ..., Branca RM, Perez-Riverol Y
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Bioinformatics Support for Computational Resources [Service]
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Front Genet 12 (-) 803683 [2022-02-04; online 2022-02-04]
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Le Duc D, Velluva A, Cassatt-Johnstone M, ..., Shapiro B, Schöneberg T
Sci Adv 8 (5) eabl6496 [2022-02-04; online 2022-02-04]
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A Sparse Model-Inspired Deep Thresholding Network for Exponential Signal Reconstruction--Application in Fast Biological Spectroscopy.
Wang Z, Guo D, Tu Z, ..., Orekhov V, Qu X
IEEE Trans Neural Netw Learn Syst PP (-) - [2022-02-04; online 2022-02-04]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
The miRNome function transitions from regulating developmental genes to transposable elements during pollen maturation.
Oliver C, Annacondia ML, Wang Z, ..., Köhler C, Martinez G
Plant Cell 34 (2) 784-801 [2022-02-03; online 2021-11-11]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The involvement of cyclotides in mutual interactions of violets and the two-spotted spider mite.
Slazak B, Jędrzejska A, Badyra B, ..., Göransson U, Kiełkiewicz M
Sci Rep 12 (1) 1914 [2022-02-03; online 2022-02-03]
Spatial Mass Spectrometry [Collaborative]
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PΨFinder: a practical tool for the identification and visualization of novel pseudogenes in DNA sequencing data.
Abrahamsson S, Eiengård F, Rohlin A, Dávila López M
BMC Bioinformatics 23 (1) 59 [2022-02-03; online 2022-02-03]
Clinical Genomics [Technology development] Clinical Genomics Gothenburg [Technology development]
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Pyruvate metabolism guides definitive lineage specification during hematopoietic emergence.
Oburoglu L, Mansell E, Canals I, ..., Soneji S, Woods NB
EMBO Rep. 23 (2) e54384 [2022-02-03; online 2021-12-16]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Urinary Metabolomic Changes Accompanying Albuminuria Remission following Gastric Bypass Surgery for Type 2 Diabetic Kidney Disease.
Martin WP, Malmodin D, Pedersen A, ..., le Roux CW, Docherty NG
Metabolites 12 (2) 139 [2022-02-02; online 2022-02-22]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Comprehensive Peak Characterization (CPC) in Untargeted LC-MS Analysis.
Pirttilä K, Balgoma D, Rainer J, ..., Hedeland M, Brunius C
Metabolites 12 (2) - [2022-02-02; online 2022-02-02]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
CRISPR-Cas9 induces large structural variants at on-target and off-target sites in vivo that segregate across generations.
Höijer I, Emmanouilidou A, Östlund R, ..., den Hoed M, Ameur A
Nat Commun 13 (1) 627 [2022-02-02; online 2022-02-02]
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PplD is a de-N-acetylase of the cell wall linkage unit of streptococcal rhamnopolysaccharides.
Rush JS, Parajuli P, Ruda A, ..., Widmalm G, Korotkova N
Nat Commun 13 (1) 590 [2022-02-01; online 2022-02-01]
Swedish NMR Centre (SNC)
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ExSTED microscopy reveals contrasting functions of dopamine and somatostatin CSF-c neurons along the lamprey central canal.
Jalalvand E, Alvelid J, Coceano G, ..., Grillner S, Testa I
Elife 11 (-) - [2022-02-01; online 2022-02-01]
Integrated Microscopy Technologies Stockholm [Technology development]
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The antimicrobial drug pyrimethamine inhibits STAT3 transcriptional activity by targeting the enzyme dihydrofolate reductase.
Heppler LN, Attarha S, Persaud R, ..., Page BDG, Frank DA
J. Biol. Chem. 298 (2) 101531 [2022-02-00; online 2021-12-23]
Chemical Proteomics [Collaborative]
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The Molecular Tumor Board Portal supports clinical decisions and automated reporting for precision oncology.
Tamborero D, Dienstmann R, Rachid MH, ..., Rodon J, Lehtiö J
Nat Cancer 3 (2) 251-261 [2022-02-00; online 2022-02-24]
Global Proteomics and Proteogenomics [Technology development]
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Structure, mechanism and lipid-mediated remodeling of the mammalian Na+/H+ exchanger NHA2.
Matsuoka R, Fudim R, Jung S, ..., Beckstein O, Drew D
Nat. Struct. Mol. Biol. 29 (2) 108-120 [2022-02-00; online 2022-02-16]
Cryo-EM [Service]
PubMed DOI Crossref
Structural amyloid plaque polymorphism is associated with distinct lipid accumulations revealed by trapped ion mobility mass spectrometry imaging.
Michno W, Wehrli PM, Koutarapu S, ..., Hopf C, Hanrieder J
J. Neurochem. 160 (4) 482-498 [2022-02-00; online 2021-12-26]
Integrated Microscopy Technologies Gothenburg [Collaborative]
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Reactive astrocytes prevent maladaptive plasticity after ischemic stroke.
Aswendt M, Wilhelmsson U, Wieters F, ..., Pekna M, Pekny M
Prog Neurobiol 209 (-) 102199 [2022-02-00; online 2021-12-15]
Integrated Microscopy Technologies Gothenburg [Service]
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Quasiperiodic Van der Waals Heterostructures of Graphene and Hexagonal Boron Nitride
Bhandary S, Haldar S, Sanyal B
Physica Status Solidi (b) 259 (2) - [2022-02-00; online 2021-11-21]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Proteomic characterisation of polyglucosan bodies in skeletal muscle in RBCK1 deficiency.
Thomsen C, Malfatti E, Jovanovic A, ..., Lindberg C, Oldfors A
Neuropathol Appl Neurobiol 48 (1) e12761 [2022-02-00; online 2021-09-12]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service]
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Population genomics and geographic dispersal in Chagas disease vectors: Landscape drivers and evidence of possible adaptation to the domestic setting.
Hernandez-Castro LE, Villacís AG, Jacobs A, ..., Llewellyn MS, Grijalva MJ
PLoS Genet. 18 (2) e1010019 [2022-02-00; online 2022-02-04]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Plasma proteins elevated in severe asthma despite oral steroid use and unrelated to Type-2 inflammation
Sparreman Mikus M, Kolmert J, Andersson LI, ..., Dahlén SE, James A
Eur Respir J 59 (2) 2100142 [2022-02-00; online 2021-11-04]
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Pharmacological targeting of MTHFD2 suppresses acute myeloid leukemia by inducing thymidine depletion and replication stress.
Bonagas N, Gustafsson NMS, Henriksson M, ..., Homan EJ, Helleday T
Nat Cancer 3 (2) 156-172 [2022-02-00; online 2022-02-28]
Drug Discovery and Development (DDD) [Collaborative]
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LongITools: Dynamic longitudinal exposome trajectories in cardiovascular and metabolic noncommunicable diseases.
Ronkainen J, Nedelec R, Atehortua A, ..., Juola T, Sebert S
Environ Epidemiol 6 (1) e184 [2022-02-00; online 2021-12-28]
Chalmers Mass Spectrometry Infrastructure [Service]
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Jörgensen K, Granath G, Strengbom J, Lindahl BD
Functional Ecology 36 (2) 392-405 [2022-02-00; online 2021-12-22]
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Impaired phosphocreatine metabolism in white adipocytes promotes inflammation.
Maqdasy S, Lecoutre S, Renzi G, ..., Mejhert N, Rydén M
Nat Metab 4 (2) 190-202 [2022-02-00; online 2022-02-14]
Swedish Metabolomics Centre (SMC) [Service]
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Edvardsen RB, Wallerman O, Furmanek T, ..., Norberg B, Rubin CJ
PLoS Genet. 18 (2) e1010011 [2022-02-00; online 2022-02-08]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genomic differentiation within East Asian Helicobacter pylori.
You Y, Thorell K, He L, ..., Falush D, Zhang J
Microb Genom 8 (2) - [2022-02-00; online 2022-02-22]
Bioinformatics Support for Computational Resources [Service]
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Genetically proxied therapeutic inhibition of antihypertensive drug targets and risk of common cancers: A mendelian randomization analysis.
Yarmolinsky J, Díez-Obrero V, Richardson TG, ..., Martin RM, Moreno V
PLoS Med. 19 (2) e1003897 [2022-02-00; online 2022-02-03]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Contribution of Rare Genetic Variation to Disease Susceptibility in a Large Scandinavian Myositis Cohort.
Bianchi M, Kozyrev SV, Notarnicola A, ..., Lindblad-Toh K, Lundberg IE
Arthritis & rheumatology (Hoboken, N.J.) 74 (2) 342-352 [2022-02-00; online 2021-12-23]
Bioinformatics Support for Computational Resources [Service]
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Clinical and biological relevance of the transcriptomic-based prostate cancer metastasis subtypes MetA-C.
Thysell E, Köhn L, Semenas J, ..., Bergh A, Wikström P
Mol Oncol 16 (4) 846-859 [2022-02-00; online 2021-12-27]
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Chondroitin/dermatan sulfate glycosyltransferase genes are essential for craniofacial development.
Habicher J, Varshney GK, Waldmann L, ..., Burgess SM, Ledin J
PLoS Genet. 18 (2) e1010067 [2022-02-00; online 2022-02-22]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Autosomal recessive congenital hereditary corneal dystrophy associated with a novel SLC4A11 mutation in two consanguineous Tunisian families.
Chibani Z, Abid IZ, Söderkvist P, Feki J, Aifa MH
Br J Ophthalmol 106 (2) 281-287 [2022-02-00; online 2021-04-20]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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A genomic and morphometric analysis of alpine bumblebees: Ongoing reductions in tongue length but no clear genetic component.
Christmas MJ, Jones JC, Olsson A, ..., Miller-Struttmann NE, Webster MT
Mol. Ecol. 31 (4) 1111-1127 [2022-02-00; online 2021-12-07]
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A Verticillium longisporum pleiotropic drug transporter determines tolerance to the plant host β-pinene monoterpene.
Rafiei V, Ruffino A, Persson Hodén K, ..., Dubey M, Tzelepis G
Mol. Plant Pathol. 23 (2) 291-303 [2022-02-00; online 2021-11-26]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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In situ 13 C solid-state polarization transfer NMR to follow starch transformations in food.
Nowacka-Perrin A, Steglich T, Topgaard D, Bernin D
Magn Reson Chem - (-) - [2022-01-30; online 2022-01-30]
Swedish NMR Centre (SNC) [Service]
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Longitudinal analyses of development of the immune system during the first five years of life in relation to lifestyle.
Olin A, Acevedo N, Lakshmikanth T, ..., Scheynius A, Brodin P
Allergy - (-) - [2022-01-29; online 2022-01-29]
Cellular Immunomonitoring [Technology development]
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Substrate-bound and substrate-free outward-facing structures of a multidrug ABC exporter.
Chaptal V, Zampieri V, Wiseman B, ..., Boumendjel A, Falson P
Sci Adv 8 (4) eabg9215 [2022-01-28; online 2022-01-26]
Cryo-EM [Service]
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Spatial Statistics for Understanding Tissue Organization.
Behanova A, Klemm A, Wählby C
Front Physiol 13 (-) 832417 [2022-01-28; online 2022-01-28]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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Sequence specificity in DNA binding is mainly governed by association.
Marklund E, Mao G, Yuan J, ..., Deindl S, Elf J
Science 375 (6579) 442-445 [2022-01-28; online 2022-01-27]
Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Collaborative]
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Intramolecular carbon isotope signals reflect metabolite allocation in plants.
Wieloch T, Sharkey TD, Werner RA, Schleucher J
J. Exp. Bot. - (-) - [2022-01-27; online 2022-01-27]
Swedish NMR Centre (SNC) [Collaborative]
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16S rRNA gene sequences of Candidatus Methylumidiphilus (Methylococcales), a putative methanotrophic genus in lakes and ponds
Rissanen A, Buck M, Peura S
Aquat. Microb. Ecol. 88 (-) 25-30 [2022-01-27; online 2022-01-27]
Bioinformatics Support for Computational Resources [Service]
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Medications Activating Tubular Fatty Acid Oxidation Enhance the Protective Effects of Roux-en-Y Gastric Bypass Surgery in a Rat Model of Early Diabetic Kidney Disease.
Martin WP, Chuah YHD, Abdelaal M, ..., le Roux CW, Docherty NG
Front Endocrinol (Lausanne) 12 (-) 757228 [2022-01-26; online 2022-01-26]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] Swedish NMR Centre (SNC) [Service]
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Standards recommendations for the Earth BioGenome Project.
Lawniczak MKN, Durbin R, Flicek P, ..., Lewin HA, Richards S
Proc. Natl. Acad. Sci. U.S.A. 119 (4) - [2022-01-25; online 2022-01-20]
NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Occasional paternal inheritance of the germline-restricted chromosome in songbirds.
Pei Y, Forstmeier W, Ruiz-Ruano FJ, ..., Suh A, Kempenaers B
Proc. Natl. Acad. Sci. U.S.A. 119 (4) - [2022-01-25; online 2022-01-22]
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Method To Visualize the Intratumor Distribution and Impact of Gemcitabine in Pancreatic Ductal Adenocarcinoma by Multimodal Imaging.
Strittmatter N, Richards FM, Race AM, ..., Goodwin RJA, Jodrell DI
Anal. Chem. 94 (3) 1795-1803 [2022-01-25; online 2022-01-10]
Spatial Mass Spectrometry [Collaborative]
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Massive genome inversion drives coexistence of divergent morphs in common quails.
Sanchez-Donoso I, Ravagni S, Rodríguez-Teijeiro JD, ..., Leonard JA, Vilà C
Curr. Biol. 32 (2) 462-469.e6 [2022-01-24; online 2021-11-29]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Single-Cell Transcriptomics reveals relaxed evolutionary constraint of spermatogenesis in two passerine birds as compared to mammals
Segami JC, Semon M, Cunha C, ..., Mugal CF, Qvarnström A
- - (-) - [2022-01-23; online 2022-01-23]
Microbial Single Cell Genomics [Technology development]
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Region-Specific and Age-Dependent Multitarget Effects of Acetylcholinesterase Inhibitor Tacrine on Comprehensive Neurotransmitter Systems.
Fridjonsdottir E, Vallianatou T, Mantas I, ..., Svenningsson P, Andrén PE
ACS Chem. Biol. 17 (1) 147-158 [2022-01-21; online 2021-12-21]
Spatial Mass Spectrometry [Technology development]
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Integrative proteo-transcriptomic and immunophenotyping signatures of HIV-1 elite control phenotype: A cross-talk between glycolysis and HIF signaling.
Akusjärvi SS, Ambikan AT, Krishnan S, ..., Sönnerborg A, Neogi U
iScience 25 (1) 103607 [2022-01-21; online 2021-12-10]
Bioinformatics Support for Computational Resources [Service]
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Fish Skin Microbiomes Are Highly Variable Among Individuals and Populations but Not Within Individuals.
Berggren H, Tibblin P, Yıldırım Y, ..., Lundin D, Forsman A
Front Microbiol 12 (-) 767770 [2022-01-21; online 2022-01-21]
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Overexpression of the SARS-CoV-2 receptor angiotensin converting enzyme 2 in cardiomyocytes of failing hearts.
Vukusic K, Thorsell A, Muslimovic A, ..., Sandstedt J, Hammarsten O
Sci Rep 12 (1) 965 [2022-01-19; online 2022-01-19]
Glycoproteomics and MS Proteomics [Collaborative]
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Identification of driver genes for critical forms of COVID-19 in a deeply phenotyped young patient cohort
Carapito R, Li R, Helms J, ..., Chittenden TW, Bahram S
Sci. Transl. Med. 14 (628) eabj7521 [2022-01-19; online 2022-01-19]
Autoimmunity and Serology Profiling [Service]
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An Image-Analysis-Based Method for the Prediction of Recombinant Protein Fiber Tensile Strength.
Bäcklund FG, Schmuck B, Miranda GHB, ..., Rydén J, Rising A
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BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Cold case: The disappearance of Egypt bee virus, a fourth distinct master strain of deformed wing virus linked to honeybee mortality in 1970's Egypt.
de Miranda JR, Brettell LE, Chejanovsky N, ..., Martin SJ, Ball BV
Virol J 19 (1) 12 [2022-01-15; online 2022-01-15]
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Transcriptome Analysis of an Aedes albopictus Cell Line Single- and Dual-Infected with Lammi Virus and WNV.
Öhlund P, Delhomme N, Hayer J, Hesson JC, Blomström AL
Int J Mol Sci 23 (2) - [2022-01-14; online 2022-01-14]
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Plant Growth-Promoting Activity of Pseudomonas aeruginosa FG106 and Its Ability to Act as a Biocontrol Agent against Potato, Tomato and Taro Pathogens.
Ghadamgahi F, Tarighi S, Taheri P, ..., Ortiz R, Vetukuri RR
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3D Microvascularized Tissue Models by Laser-Based Cavitation Molding of Collagen.
Enrico A, Voulgaris D, Östmans R, ..., Herland A, Stemme G
Adv Mater - (-) e2109823 [2022-01-14; online 2022-01-14]
Integrated Microscopy Technologies Stockholm [Service]
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First National Genomic Epidemiological Study of Neisseria gonorrhoeae Strains Spreading Across Sweden in 2016.
Hadad R, Golparian D, Velicko I, ..., Engstrand L, Unemo M
Front Microbiol 12 (-) 820998 [2022-01-13; online 2022-01-13]
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Circulating proteins reveal prior use of menopausal hormonal therapy and increased risk of breast cancer.
Thomas CE, Dahl L, Byström S, ..., Schwenk JM, Gabrielson M
Transl Oncol 17 (-) 101339 [2022-01-13; online 2022-01-13]
Affinity Proteomics Stockholm [Service]
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The formation of avian montane diversity across barriers and along elevational gradients.
Pujolar JM, Blom MPK, Reeve AH, ..., Irestedt M, Jønsson KA
Nat Commun 13 (1) 268 [2022-01-12; online 2022-01-12]
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SARS-CoV-2 induces a durable and antigen specific humoral immunity after asymptomatic to mild COVID-19 infection.
Havervall S, Jernbom Falk A, Klingström J, ..., Nilsson P, Thålin C
PLoS ONE 17 (1) e0262169 [2022-01-12; online 2022-01-12]
Autoimmunity and Serology Profiling [Collaborative]
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Developmental origins of cell heterogeneity in the human lung
Sountoulidis A, Salas SM, Braun E, ..., Nilsson M, Samakovlis C
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In Situ Sequencing (ISS) [Service]
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Anaplerotic flux into the Calvin-Benson cycle: hydrogen isotope evidence for in vivo occurrence in C3 metabolism.
Wieloch T, Augusti A, Schleucher J
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Swedish NMR Centre (SNC) [Collaborative]
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Transcriptomic analysis reveals proinflammatory signatures associated with acute myeloid leukemia progression.
Stratmann S, Yones SA, Garbulowski M, ..., Komorowski J, Holmfeldt L
Blood Adv 6 (1) 152-164 [2022-01-11; online 2021-10-08]
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Trans cohort metabolic reprogramming towards glutaminolysis in long-term successfully treated HIV-infection.
Mikaeloff F, Svensson Akusjärvi S, Ikomey GM, ..., Benfeitas R, Neogi U
Commun Biol 5 (1) 27 [2022-01-11; online 2022-01-11]
Swedish Metabolomics Centre (SMC) [Service]
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Connectivity of Fennoscandian Shield terrestrial deep biosphere microbiomes with surface communities.
Westmeijer G, Mehrshad M, Turner S, ..., Bertilsson S, Dopson M
Commun Biol 5 (1) 37 [2022-01-11; online 2022-01-11]
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Canonical WNT signaling-dependent gating of MYC requires a noncanonical CTCF function at a distal binding site.
Chachoua I, Tzelepis I, Dai H, ..., Mehmood R, Göndör A
Nat Commun 13 (1) 204 [2022-01-11; online 2022-01-11]
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Characterization of surface markers on extracellular vesicles isolated from lymphatic exudate from patients with breast cancer.
Ekström K, Crescitelli R, Pétursson HI, ..., Lässer C, Olofsson Bagge R
BMC Cancer 22 (1) 50 [2022-01-10; online 2022-01-10]
Integrated Microscopy Technologies Gothenburg [Service]
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Adamo I, Dashevskaya S, Alday JG
Forests 13 (1) 88 [2022-01-08; online 2022-01-08]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Vegan Diet Is Associated With Favorable Effects on the Metabolic Performance of Intestinal Microbiota: A Cross-Sectional Multi-Omics Study.
Prochazkova M, Budinska E, Kuzma M, ..., Gojda J, Cahova M
Front Nutr 8 (-) 783302 [2022-01-07; online 2022-01-07]
Chalmers Mass Spectrometry Infrastructure [Service]
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Genomic Signatures of Sexual Selection on Pollen-Expressed Genes in Arabis alpina.
Gutiérrez-Valencia J, Fracassetti M, Horvath R, ..., Kolář F, Slotte T
Mol. Biol. Evol. 39 (1) - [2022-01-07; online 2021-12-09]
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MYC assembles and stimulates topoisomerases 1 and 2 in a "topoisome".
Das SK, Kuzin V, Cameron DP, ..., Levens D, Baranello L
Mol. Cell 82 (1) 140-158.e12 [2022-01-06; online 2021-12-09]
CRISPR Functional Genomics [Service]
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Land-use intensification differentially affects bacterial, fungal and protist communities and decreases microbiome network complexity.
Romdhane S, Spor A, Banerjee S, ..., Saghai A, Philippot L
Environ Microbiome 17 (1) 1 [2022-01-06; online 2022-01-06]
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Genetic Alterations in Mitochondrial DNA Are Complementary to Nuclear DNA Mutations in Pheochromocytomas.
Tabebi M, Łysiak M, Dutta RK, ..., Gimm O, Söderkvist P
Cancers (Basel) 14 (2) - [2022-01-06; online 2022-01-06]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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A cis-acting structural variation at the ZNF558 locus controls a gene regulatory network in human brain development.
Johansson PA, Brattås PL, Douse CH, ..., Eichler EE, Jakobsson J
Cell Stem Cell 29 (1) 52-69.e8 [2022-01-06; online 2021-10-07]
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TRAPing Ghrelin-Activated Circuits: A Novel Tool to Identify, Target and Control Hormone-Responsive Populations in TRAP2 Mice.
Stoltenborg I, Peris-Sampedro F, Schéle E, ..., Adan RAH, Dickson SL
Int J Mol Sci 23 (1) - [2022-01-05; online 2022-01-05]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Metabolic resistance to the inhibition of mitochondrial transcription revealed by CRISPR-Cas9 screen.
Mennuni M, Filograna R, Felser A, ..., Lytovchenko O, Larsson N
EMBO Rep. 23 (1) e53054 [2022-01-05; online 2021-11-15]
CRISPR Functional Genomics [Service] NGI Short read [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Loss of SDHB Induces a Metabolic Switch in the hPheo1 Cell Line toward Enhanced OXPHOS.
Tabebi M, Kumar Dutta R, Skoglund C, Söderkvist P, Gimm O
Int J Mol Sci 23 (1) - [2022-01-05; online 2022-01-05]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Backbone chemical shift assignment and dynamics of the N-terminal domain of ClpB from Francisella tularensis type VI secretion system.
Mushtaq AU, Ådén J, Alam A, Sjöstedt A, Gröbner G
Biomol NMR Assign - (-) - [2022-01-05; online 2022-01-05]
Swedish NMR Centre (SNC) [Collaborative]
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Risk of Revision After Arthroplasty Associated with Specific Gene Loci: A Genomewide Association Study of Single-Nucleotide Polymorphisms in 1,130 Twins Treated with Arthroplasty.
Brüggemann A, Eriksson N, Michaëlsson K, Hailer NP
J Bone Joint Surg Am 104 (7) 610-620 [2022-01-04; online 2022-01-04]
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In Silico-Based Experiments on Mechanistic Interactions between Several Intestinal Permeation Enhancers with a Lipid Bilayer Model.
Kneiszl R, Hossain S, Larsson P
Mol. Pharm. 19 (1) 124-137 [2022-01-03; online 2021-12-16]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
CRISPR/Cas9-Induced DNA Damage Enriches for Mutations in a p53-Linked Interactome: Implications for CRISPR-Based Therapies.
Jiang L, Ingelshed K, Shen Y, ..., Lane DP, Wermeling F
Cancer Res. 82 (1) 36-45 [2022-01-01; online 2021-11-18]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Whole-genome resequencing confirms reproductive isolation between sympatric demes of brown trout (Salmo trutta) detected with allozymes.
Saha A, Andersson A, Kurland S, ..., Ryman N, Laikre L
Mol. Ecol. 31 (2) 498-511 [2022-01-00; online 2021-11-15]
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Transcriptome sequencing of archived lymphoma specimens is feasible and clinically relevant using exome capture technology.
Skaftason A, Qu Y, Abdulla M, ..., Rosenquist R, Mansouri L
Genes Chromosomes Cancer 61 (1) 27-36 [2022-01-00; online 2021-10-23]
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The Sulawesi Thrush ( <i>Cataponera turdoides</i> ; Aves: Passeriformes) belongs to the genus <i>Turdus</i>
Reeve AH, Blom MPK, Zahl Marki P, ..., Irestedt M, Jønsson KA
Zool Scr 51 (1) 32-40 [2022-01-00; online 2021-11-04]
Bioinformatics Support for Computational Resources [Service]
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Sustained Response to Entrectinib in an Infant With a Germline ALKAL2 Variant and Refractory Metastatic Neuroblastoma With Chromosomal 2p Gain and Anaplastic Lymphoma Kinase and Tropomyosin Receptor Kinase Activation.
Treis D, Umapathy G, Fransson S, ..., Martinsson T, Kogner P
JCO Precision Oncology 6 (6) e2100271 [2022-01-00; online 2022-01-28]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Clinical Genomics Stockholm [Service]
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Super-Resolution Imaging of the Filtration Barrier Suggests a Role for Podocin R229Q in Genetic Predisposition to Glomerular Disease.
Butt L, Unnersjö-Jess D, Höhne M, ..., Schermer B, Benzing T
J. Am. Soc. Nephrol. 33 (1) 138-154 [2022-01-00; online 2021-12-01]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Salivary IgG to SARS-CoV-2 indicates seroconversion and correlates to serum neutralization in mRNA-vaccinated immunocompromised individuals
Healy K, Pin E, Chen P, ..., Aleman S, Chen MS
Med - (-) - [2022-01-00; online 2022-01-00]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Robust humoral and cellular immune responses and low risk for reinfection at least 8 months following asymptomatic to mild COVID-19.
Havervall S, Ng H, Jernbom Falk A, ..., Hober S, Thålin C
J. Intern. Med. 291 (1) 72-80 [2022-01-00; online 2021-09-27]
Affinity Proteomics Uppsala [Service] Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Proteome-scale mapping of binding sites in the unstructured regions of the human proteome.
Benz C, Ali M, Krystkowiak I, ..., Davey NE, Ivarsson Y
Mol. Syst. Biol. 18 (1) e10584 [2022-01-00; online 2022-01-20]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Prolonged estrogen deprivation triggers a broad immunosuppressive phenotype in breast cancer cells
Hühn D, Martí‐Rodrigo P, Mouron S, ..., Carreras‐Puigvert J, Fernandez‐Capetillo O
Mol Oncol 16 (1) 148-165 [2022-01-00; online 2021-08-29]
Chemical Biology Consortium Sweden (CBCS) [Service]
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Phytophthora infestans Ago1-associated miRNA promotes potato late blight disease.
Hu X, Persson Hodén K, Liao Z, Åsman A, Dixelius C
New Phytol. 233 (1) 443-457 [2022-01-00; online 2021-10-27]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Oxygen‐deficient water zones in the Baltic Sea promote uncharacterized Hg methylating microorganisms in underlying sediments
Capo E, Broman E, Bonaglia S, ..., Nascimento FJA, Björn E
Limnol Oceanogr 67 (1) 135-146 [2022-01-00; online 2021-11-18]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Novel loss-of-function variant in DENND5A impedes melanosomal cargo transport and predisposes to familial cutaneous melanoma.
Yang M, Johnsson P, Bräutigam L, ..., Cao Y, Höiom V
Genet Med 24 (1) 157-169 [2022-01-00; online 2021-11-30]
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Metabolomics reveals changes in metabolite profiles due to growth and metamorphosis during the ontogeny of the northern damselfly.
Späth J, Brodin T, McCallum E, ..., Fick J, Nording ML
J Insect Physiol 136 (-) 104341 [2022-01-00; online 2021-11-27]
Swedish Metabolomics Centre (SMC) [Service]
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Influence of lipid extraction and processing conditions on hydrothermal conversion of microalgae feedstocks – Effect on hydrochar composition, secondary char formation and phytotoxicity
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Chemical Engineering Journal 428 (-) 129559 [2022-01-00; online 2022-01-00]
Swedish Metabolomics Centre (SMC) [Service]
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Improved breast cancer histological grading using deep learning.
Wang Y, Acs B, Robertson S, ..., Hartman J, Rantalainen M
Ann. Oncol. 33 (1) 89-98 [2022-01-00; online 2021-09-29]
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PubMed DOI Crossref
Imitation of β-lactam binding enables broad-spectrum metallo-β-lactamase inhibitors.
Brem J, Panduwawala T, Hansen JU, ..., Walsh TR, Schofield CJ
Nat Chem 14 (1) 15-24 [2022-01-00; online 2021-12-13]
Drug Discovery and Development (DDD) [Service]
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Gut microbiome alterations in the crustacean Pacifastacus leniusculus exposed to environmental concentrations of antibiotics and effects on susceptibility to bacteria challenges.
Hernández-Pérez A, Zamora-Briseño JA, Söderhäll K, Söderhäll I
Dev. Comp. Immunol. 126 (-) 104181 [2022-01-00; online 2021-06-24]
Bioinformatics Support for Computational Resources [Service]
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Genes from oxidative phosphorylation complexes II-V and two dual-function subunits of complex I are transcribed in Viscum album despite absence of the entire mitochondrial holo-complex I.
Petersen G, Shyama Prasad Rao R, Anderson B, ..., Rasmusson AG, Max Møller I
Mitochondrion 62 (-) 1-12 [2022-01-00; online 2021-11-02]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Fibroblast growth factor 23 is associated with risk of intracerebral hemorrhage.
Svensson EH, Söderholm M
Eur. J. Neurol. 29 (1) 114-120 [2022-01-00; online 2021-08-31]
Affinity Proteomics Uppsala [Service]
DOI Crossref
Exploiting low-grade waste heat to produce electricity through supercapacitor containing carbon electrodes and ionic liquid electrolytes
Haque M, Abdurrokhman I, Idström A, ..., Lundgren P, Enoksson P
Electrochimica Acta 403 (-) 139640 [2022-01-00; online 2022-01-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Common, low-frequency, rare, and ultra-rare coding variants contribute to COVID-19 severity.
Fallerini C, Picchiotti N, Baldassarri M, ..., Renieri A, Furini S
Hum. Genet. 141 (1) 147-173 [2022-01-00; online 2021-12-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Cell type-specific analysis by single-cell profiling identifies a stable mammalian tRNA-mRNA interface and increased translation efficiency in neurons.
Gao W, Gallardo-Dodd CJ, Kutter C
Genome Res. 32 (1) 97-110 [2022-01-00; online 2021-12-02]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Amplification of ERBB2 (HER2) in embryonal rhabdomyosarcoma: A potential treatment target in rare cases?
Mitra S, Sydow S, Magnusson L, ..., Gisselsson D, Mertens F
Genes Chromosomes Cancer 61 (1) 5-9 [2022-01-00; online 2021-09-01]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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A genome-wide scan to locate regions associated with familial vesicoureteral reflux.
Bartik Z, Sillén U, Östensson M, ..., Sjöberg R, Martinsson T
Exp Ther Med 23 (1) 92 [2022-01-00; online 2021-11-28]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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A 3D deep learning model to predict the diagnosis of dementia with Lewy bodies, Alzheimer's disease, and mild cognitive impairment using brain 18F-FDG PET.
Etminani K, Soliman A, Davidsson A, ..., Garibotto V, Ochoa-Figueroa M
Eur J Nucl Med Mol Imaging 49 (2) 563-584 [2022-01-00; online 2021-07-30]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Vacancy assisted growth of copper tantalum sulfide nanocrystals
Haque A, Ershadrad S, Chonamada TD, ..., Sanyal B, Santra PK
J. Mater. Chem. A 10 (37) 19925-19934 [2022-00-00; online 2022-00-00]
Bioinformatics Support for Computational Resources [Service]
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Proteome Integral Solubility Alteration (PISA) Assay in Mammalian Cells for Deep, High-Confidence, and High-Throughput Target Deconvolution
Zhang X, Lytovchenko O, Lundström S, Zubarev R, Gaetani M
BIO-PROTOCOL 12 (22) - [2022-00-00; online 2022-00-00]
Chemical Proteomics [Technology development]
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Metabolomics analysis of cerebrospinal fluid suggests citric acid cycle aberrations in bipolar disorder
Smedler E, Salehi AM, Pelanis A, ..., Sparding T, Landén M
Neuroscience Applied 1 (-) 100108 [2022-00-00; online 2022-00-00]
Swedish NMR Centre (SNC) [Service]
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Design of a green chemoenzymatic cascade for scalable synthesis of bio-based styrene alternatives
Petermeier P, Bittner JP, Müller S, Byström E, Kara S
Green Chem. - (-) - [2022-00-00; online 2022-00-00]
Swedish NMR Centre (SNC) [Service]
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Batch Processing Methods in ImageJ
Klemm A, Miura K
Springer - (-) 7-27 [2022-00-00; online 2022-09-29]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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Alfa-Synuclein-induced deformation of small unilamellar vesicles
Makasewicz K, Wennmalm S, Linse S, Sparr E
QRB Discovery 3 (-) - [2022-00-00; online 2022-07-25]
Integrated Microscopy Technologies Stockholm [Collaborative]
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<i>Streptococcus bovis</i>-bacteremia: subspecies distribution and association with colorectal cancer: a retrospective cohort study
Öberg J, Rasmussen M, Buchwald P, Nilson B, Inghammar M
Epidemiol. Infect. 150 (-) - [2022-00-00; online 2021-11-26]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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<i>In situ</i> monitoring of cellulose etherification in solution: probing the impact of solvent composition on the synthesis of 3-allyloxy-2-hydroxypropyl-cellulose in aqueous hydroxide systems
Naserifar S, Kuijpers PF, Wojno S, ..., Bernin D, Hasani M
Polym. Chem. 13 (28) 4111-4123 [2022-00-00; online 2022-00-00]
Swedish NMR Centre (SNC) [Service]
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Global CO2 fertilization of Sphagnum peat mosses via suppression of photorespiration during the twentieth century.
Serk H, Nilsson MB, Bohlin E, ..., Pancotto V, Schleucher J
Sci Rep 11 (1) 24517 [2021-12-31; online 2021-12-31]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Endogenous Levels of Gamma Amino-Butyric Acid Are Correlated to Glutamic-Acid Decarboxylase Antibody Levels in Type 1 Diabetes.
Hill H, Elksnis A, Lundkvist P, ..., Carlsson PO, Espes D
Biomedicines 10 (1) - [2021-12-31; online 2021-12-31]
Affinity Proteomics Stockholm [Service]
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Biased TCR gene usage in citrullinated Tenascin C specific T-cells in rheumatoid arthritis.
Sharma RK, Boddul SV, Yoosuf N, ..., Klareskog L, Malmström V
Sci Rep 11 (1) 24512 [2021-12-31; online 2021-12-31]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Exploring bycatch diversity of organisms in whole genome sequencing of Erebidae moths (Lepidoptera).
Ghanavi HR, Twort VG, Duplouy A
Sci Rep 11 (1) 24499 [2021-12-30; online 2021-12-30]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Immunoprofiling of active and inactive systemic juvenile idiopathic arthritis reveals distinct biomarkers: a single-center study.
Qu H, Sundberg E, Aulin C, ..., Olsson M, Harris HE
Pediatr Rheumatol Online J 19 (1) 173 [2021-12-28; online 2021-12-28]
Affinity Proteomics Stockholm [Service]
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Whole-Exome Sequencing of HPV Positive Tonsillar and Base of Tongue Squamous Cell Carcinomas Reveals a Global Mutational Pattern along with Relapse-Specific Somatic Variants.
Ährlund-Richter A, Holzhauser S, Dalianis T, Näsman A, Mints M
Cancers (Basel) 14 (1) - [2021-12-24; online 2021-12-24]
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PubMed DOI Crossref
Structure and ion-release mechanism of PIB-4-type ATPases.
Grønberg C, Hu Q, Mahato DR, ..., Wang K, Gourdon P
Elife 10 (-) - [2021-12-24; online 2021-12-24]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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CD105+CD90+CD13+ identifies a clonogenic subset of adventitial lung fibroblasts.
Kadefors M, Rolandsson Enes S, Åhrman E, ..., Scheding S, Westergren-Thorsson G
Sci Rep 11 (1) 24417 [2021-12-24; online 2021-12-24]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Structural Analysis of Botulinum Neurotoxins Type B and E by Cryo-EM.
Košenina S, Martínez-Carranza M, Davies JR, Masuyer G, Stenmark P
Toxins (Basel) 14 (1) - [2021-12-23; online 2021-12-23]
Cryo-EM [Service]
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Pan-AMPK activator O304 prevents gene expression changes and remobilisation of histone marks in islets of diet-induced obese mice.
López-Pérez A, Norlin S, Steneberg P, ..., Edlund H, Hörnblad A
Sci Rep 11 (1) 24410 [2021-12-23; online 2021-12-23]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Localization and Absolute Quantification of Dopamine in Discrete Intravesicular Compartments Using NanoSIMS Imaging.
Rabasco S, Nguyen TDK, Gu C, ..., Phan NTN, Ewing AG
Int J Mol Sci 23 (1) - [2021-12-23; online 2021-12-23]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Taxon-Specific Shifts in Bacterial and Archaeal Transcription of Dissolved Organic Matter Cycling Genes in a Stratified Fjord.
Pontiller B, Pérez-Martínez C, Bunse C, ..., Lundin D, Pinhassi J
mSystems 6 (6) e0057521 [2021-12-21; online 2021-12-14]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Immune-Proteome Profiling in Classical Hodgkin Lymphoma Tumor Diagnostic Tissue.
Gholiha AR, Hollander P, Löf L, ..., Kamali-Moghaddam M, Enblad G
Cancers (Basel) 14 (1) 9 [2021-12-21; online 2021-12-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Adaptations in metabolism and protein translation give rise to the Crabtree effect in yeast.
Malina C, Yu R, Björkeroth J, Kerkhoven EJ, Nielsen J
Proc. Natl. Acad. Sci. U.S.A. 118 (51) - [2021-12-21; online 2021-12-15]
Glycoproteomics and MS Proteomics [Service]
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Chitinase 3 like 1 is a regulator of smooth muscle cell physiology and atherosclerotic lesion stability.
Tsantilas P, Lao S, Wu Z, ..., Maegdefessel L, Leeper NJ
Cardiovasc. Res. 117 (14) 2767-2780 [2021-12-17; online 2021-01-21]
Global Proteomics and Proteogenomics [Service]
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Characterization of backbone dynamics using solution NMR spectroscopy to discern the functional plasticity of structurally analogous proteins.
Kawale AA, Burmann BM
STAR Protoc 2 (4) 100919 [2021-12-17; online 2021-10-29]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
C3a Receptor Signaling Inhibits Neurodegeneration Induced by Neonatal Hypoxic-Ischemic Brain Injury.
Pozo-Rodrigálvarez A, Li Y, Stokowska A, ..., Pekny M, Pekna M
Front Immunol 12 (-) 768198 [2021-12-17; online 2021-12-17]
Integrated Microscopy Technologies Gothenburg [Service]
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Childhood Kaposi sarcoma related to hypomorphic severe combined immunodeficiency caused by a novel CORO1A mutation.
Muleviciene A, Sekine T, Zondag T, ..., Tesi B, Rascon J
Pediatr Blood Cancer - (-) e29487 [2021-12-16; online 2021-12-16]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Phytoplankton settling quality has a subtle but significant effect on sediment microeukaryotic and bacterial communities.
Albert S, Hedberg P, Motwani NH, ..., Winder M, Nascimento FJA
Sci Rep 11 (1) 24033 [2021-12-15; online 2021-12-15]
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PubMed DOI Crossref
Identification of Novel Neurocircuitry Through Which Leptin Targets Multiple Inputs to the Dopamine System to Reduce Food Reward Seeking.
Omrani A, de Vrind VAJ, Lodder B, ..., Meye FJ, Adan RAH
Biol. Psychiatry 90 (12) 843-852 [2021-12-15; online 2021-02-23]
Integrated Microscopy Technologies Gothenburg [Service]
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A Phase 2 Trial of the Effect of Antiandrogen Therapy on COVID-19 Outcome: No Evidence of Benefit, Supported by Epidemiology and In Vitro Data.
Welén K, Rosendal E, Gisslén M, ..., Överby AK, Josefsson A
Eur. Urol. - (-) - [2021-12-15; online 2021-12-15]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Rapid genome editing by CRISPR-Cas9-POLD3 fusion
Reint G, Li Z, Labun K, ..., Taipale J, Haapaniemi E
Elife 10 (-) - [2021-12-13; online 2021-12-13]
CRISPR Functional Genomics [Collaborative]
PubMed DOI Crossref
A polygenic risk score predicts mosaic loss of chromosome Y in circulating blood cells.
Riaz M, Mattisson J, Polekhina G, ..., Forsberg LA, Lacaze P
Cell Biosci 11 (1) 205 [2021-12-12; online 2021-12-12]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Structural basis of DegP protease temperature-dependent activation.
Šulskis D, Thoma J, Burmann BM
Sci Adv 7 (50) eabj1816 [2021-12-10; online 2021-12-08]
Swedish NMR Centre (SNC) [Service]
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Causal effects of inflammatory protein biomarkers on inflammatory diseases.
Ek WE, Karlsson T, Höglund J, Rask-Andersen M, Johansson Å
Sci Adv 7 (50) eabl4359 [2021-12-10; online 2021-12-08]
Affinity Proteomics Uppsala [Service]
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Unraveling complex magnetism in two-dimensional <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"><mml:msub>FeS2</mml:msub></mml:math>
Wang D, Chen X, Sanyal B
Phys. Rev. B 104 (24) - [2021-12-09; online 2021-12-09]
Bioinformatics Support for Computational Resources [Service]
Proteome Integral Solubility Alteration (PISA) for High-Throughput Ligand Target Deconvolution with Increased Statistical Significance and Reduced Sample Amount (Book chapter)
Gaetani_M_and_Zubarev_RA
Methods in Molecular Biology in press (-) - [2021-12-09]
Chemical Proteomics [Technology development]
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Plasma Metabolite Markers of Parkinson’s Disease and Atypical Parkinsonism
Pathan M, Wu J, Lakso HÅ, Forsgren L, Öhman A
Metabolites 11 (12) 860 [2021-12-09; online 2021-12-09]
Swedish NMR Centre (SNC) [Service]
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Meta-analyses identify DNA methylation associated with kidney function and damage.
Schlosser P, Tin A, Matias-Garcia PR, ..., Köttgen A, Teumer A
Nat Commun 12 (1) 7174 [2021-12-09; online 2021-12-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Epigenome-wide association study of serum urate reveals insights into urate co-regulation and the SLC2A9 locus.
Tin A, Schlosser P, Matias-Garcia PR, ..., Teumer A, Köttgen A
Nat Commun 12 (1) 7173 [2021-12-09; online 2021-12-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Structural basis for transthyretin amyloid formation in vitreous body of the eye.
Iakovleva I, Hall M, Oelker M, ..., Anan I, Sauer-Eriksson AE
Nat Commun 12 (1) 7141 [2021-12-08; online 2021-12-08]
Cryo-EM [Collaborative] Structural Proteomics [Service]
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Long-term STED imaging of membrane packing and dynamics by exchangeable polarity-sensitive dyes.
Carravilla P, Dasgupta A, Zhurgenbayeva G, ..., Sezgin E, Eggeling C
Biophysical Reports 1 (2) None [2021-12-08; online 2021-12-08]
Integrated Microscopy Technologies Stockholm [Service]
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Genome-wide spatial expression profiling in formalin-fixed tissues.
Gracia Villacampa E, Larsson L, Mirzazadeh R, ..., Carlson J, Lundeberg J
Cell Genomics 1 (3) 100065 [2021-12-08; online 2021-12-08]
NGI Short read [Service] NGI Spatial omics [Service] National Genomics Infrastructure [Service]
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Plasma Proteome Fingerprints Reveal Distinctiveness and Clinical Outcome of SARS-CoV-2 Infection
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Viruses 13 (12) 2456 [2021-12-07; online 2021-12-07]
Affinity Proteomics Stockholm [Service]
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Male-biased migration from East Africa introduced pastoralism into southern Africa.
Vicente M, Lankheet I, Russell T, ..., Jongh M, Schlebusch CM
BMC Biol. 19 (1) 259 [2021-12-07; online 2021-12-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The SEQC2 epigenomics quality control (EpiQC) study.
Foox J, Nordlund J, Lalancette C, ..., Deng Y, Mason CE
Genome Biol. 22 (1) 332 [2021-12-06; online 2021-12-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Early Pregnancy Exposure to Ambient Air Pollution among Late-Onset Preeclamptic Cases Is Associated with Placental DNA Hypomethylation of Specific Genes and Slower Placental Maturation.
Engström K, Mandakh Y, Garmire L, ..., Erlandsson L, Hansson SR
Toxics 9 (12) 338 [2021-12-06; online 2021-12-06]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Three-Dimensional Super-Resolved Imaging of Paraffin-Embedded Kidney Samples
Unnersjö-Jess D, Ramdedovic A, Höhne M, ..., Schermer B, Benzing T
Kidney360 - (-) 10.34067/KID.0005882021 [2021-12-03; online 2021-12-03]
Integrated Microscopy Technologies Stockholm [Technology development]
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Recommendations for connecting molecular sequence and biodiversity research infrastructures through ELIXIR
Waterhouse RM, Adam-Blondon AF, Agosti D, ..., Willassen NP, Lanfear J
F1000Res 10 (-) 1238 [2021-12-03; online 2021-12-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Interplay between eutrophication and climate warming on bacterial communities in coastal sediments differs depending on water depth and oxygen history.
Seidel L, Broman E, Turner S, Ståhle M, Dopson M
Sci Rep 11 (1) 23384 [2021-12-03; online 2021-12-03]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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Haytural H, Benfeitas R, Schedin-Weiss S, ..., Frykman S, Tjernberg LO
Sci Data 8 (1) 312 [2021-12-03; online 2021-12-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Improved Peripheral and Hepatic Insulin Sensitivity after Lifestyle Interventions in Type 2 Diabetes Is Associated with Specific Metabolomic and Lipidomic Signatures in Skeletal Muscle and Plasma.
Chorell E, Otten J, Stomby A, ..., Svensson M, Olsson T
Metabolites 11 (12) 834 [2021-12-03; online 2021-12-03]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Spatial Transcriptomics to define transcriptional patterns of zonation and structural components in the mouse liver.
Hildebrandt F, Andersson A, Saarenpää S, ..., Lundeberg J, Ankarklev J
Nat Commun 12 (1) 7046 [2021-12-02; online 2021-12-02]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Holistic Characterization of a Salmonella Typhimurium Infection Model Using Integrated Molecular Imaging.
Strittmatter N, Kanvatirth P, Inglese P, ..., Goodwin RJA, Mastroeni P
J. Am. Soc. Mass Spectrom. 32 (12) 2791-2802 [2021-12-01; online 2021-11-12]
Spatial Mass Spectrometry [Collaborative]
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Thaduri S, Marupakula S, Terenius O, ..., Locke B, de Miranda JR
Sci Rep 11 (1) 23214 [2021-12-01; online 2021-12-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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The power of genetic diversity in genome-wide association studies of lipids.
Graham SE, Clarke SL, Wu KH, ..., Sun YV, Willer CJ
Nature 600 (7890) 675-679 [2021-12-00; online 2021-12-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Lumbers RT, Shah S, Lin H, ..., Vasan RS, Smith JG
ESC Heart Failure 8 (6) 5531-5541 [2021-12-00; online 2021-09-03]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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TUBB3 Arg262His causes a recognizable syndrome including CFEOM3, facial palsy, joint contractures, and early-onset peripheral neuropathy
Whitman MC, Barry BJ, Robson CD, ..., Manoli I, Engle EC
Hum Genet 140 (12) 1709-1731 [2021-12-00; online 2021-10-15]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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QUAREP-LiMi: a community endeavor to advance quality assessment and reproducibility in light microscopy.
Boehm U, Nelson G, Brown CM, ..., Swedlow JR, Nitschke R
Nat. Methods 18 (12) 1423-1426 [2021-12-00; online 2021-05-23]
Integrated Microscopy Technologies Gothenburg [Collaborative]
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Pyramiding of scald resistance genes in four spring barley MAGIC populations.
Hautsalo J, Novakazi F, Jalli M, ..., Bengtsson T, PPP Barley Consortium
Theor. Appl. Genet. 134 (12) 3829-3843 [2021-12-00; online 2021-08-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Physiological properties, composition and structural profiling of porcine gastrointestinal mucus.
Barmpatsalou V, Dubbelboer IR, Rodler A, ..., Pedersen BL, Bergström CAS
Eur J Pharm Biopharm 169 (-) 156-167 [2021-12-00; online 2021-10-20]
Global Proteomics and Proteogenomics [Service] Integrated Microscopy Technologies Umeå [Service] Swedish Metabolomics Centre (SMC) [Service]
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Perfluorooctane sulfonate (PFOS) exposure of bovine oocytes affects early embryonic development at human-relevant levels in an in vitro model.
Hallberg I, Persson S, Olovsson M, ..., Rüegg J, Sjunnesson YCB
Toxicology 464 (-) 153028 [2021-12-00; online 2021-11-08]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service]
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Novel Mutation of the TGF-β 3 Protein (Loeys-Dietz Type 5) Associated With Aortic and Carotid Dissections: Case Report.
Hussein D, Olsson C, Lagerstedt-Robinson K, Moreira T
Neurol Genet 7 (6) e625 [2021-12-00; online 2021-09-14]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Multiplexed single‐cell mass cytometry reveals distinct inhibitory effects on intracellular phosphoproteins by midostaurin in combination with chemotherapy in AML cells
Rörby E, Adolfsson J, Hultin E, ..., Cammenga J, Jönsson JI
Exp Hematol Oncol 10 (1) 7 [2021-12-00; online 2021-02-02]
Cellular Immunomonitoring [Service]
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Melphalan flufenamide inhibits osteoclastogenesis by suppressing proliferation of monocytes.
Byrgazov K, Lind T, Rasmusson AJ, ..., Larsson R, Fryknäs M
Bone Rep 15 (-) 101098 [2021-12-00; online 2021-06-07]
Drug Discovery and Development (DDD)
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Lowered nutritional quality of plankton caused by global environmental changes.
Lau DCP, Jonsson A, Isles PDF, Creed IF, Bergström AK
Glob Chang Biol 27 (23) 6294-6306 [2021-12-00; online 2021-09-30]
Swedish Metabolomics Centre (SMC) [Service]
DOI Crossref
Long-term agricultural management impacts arbuscular mycorrhizal fungi more than short-term experimental drought
Kozjek K, Kundel D, Kushwaha SK, ..., Birkhofer K, Hedlund K
Applied Soil Ecology 168 (-) 104140 [2021-12-00; online 2021-12-00]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Identification of Endothelial Proteins in Plasma Associated With Cardiovascular Risk Factors.
Iglesias MJ, Kruse LD, Sanchez-Rivera L, ..., Odeberg J, Butler LM
Arterioscler. Thromb. Vasc. Biol. 41 (12) 2990-3004 [2021-12-00; online 2021-10-28]
Affinity Proteomics Stockholm [Service]
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Historical population declines prompted significant genomic erosion in the northern and southern white rhinoceros (Ceratotherium simum).
Sánchez-Barreiro F, Gopalakrishnan S, Ramos-Madrigal J, ..., Moodley Y, Gilbert MTP
Mol. Ecol. 30 (23) 6355-6369 [2021-12-00; online 2021-07-07]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Global phylogeny of Treponema pallidum lineages reveals recent expansion and spread of contemporary syphilis.
Beale MA, Marks M, Cole MJ, ..., Fifer H, Thomson NR
Nat Microbiol 6 (12) 1549-1560 [2021-12-00; online 2021-11-24]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Genetic variants at the RTP4/MASP1 locus are associated with fatigue in Scandinavian patients with primary Sjögren's syndrome.
Norheim KB, Imgenberg-Kreuz J, Alexsson A, ..., Ronnblom L, Omdal R
RMD Open 7 (3) - [2021-12-00; online 2021-12-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Expression of BCL6 in paediatric B-cell acute lymphoblastic leukaemia and association with prognosis.
Mäkinen A, Nikkilä A, Mehtonen J, ..., Paavonen T, Lohi O
Pathology 53 (7) 875-882 [2021-12-00; online 2021-05-26]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Evolutionary history of the extinct Sardinian dhole
Ciucani MM, Jensen JK, Sinding MHS, ..., Gilbert MTP, Gopalakrishnan S
Current Biology 31 (24) 5571-5579.e6 [2021-12-00; online 2021-12-00]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Differences in risk for SARS-CoV-2 infection among healthcare workers.
Elfström KM, Blomqvist J, Nilsson P, ..., Lundgren KC, Dillner J
Prev Med Rep 24 (-) 101518 [2021-12-00; online 2021-08-21]
Autoimmunity and Serology Profiling [Service]
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Differences in biomarker concentrations and predictions of long-term outcome in patients with ST-elevation and non-ST-elevation myocardial infarction.
Hjort M, Eggers KM, Lindhagen L, ..., Spaak J, Lindahl B
Clin. Biochem. 98 (-) 17-23 [2021-12-00; online 2021-09-05]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Clustered sparsity and Poisson-gap sampling.
Kasprzak P, Urbańczyk M, Kazimierczuk K
J. Biomol. NMR 75 (10-12) 401-416 [2021-12-00; online 2021-11-05]
Swedish NMR Centre (SNC) [Service]
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Cerebrospinal fluid proteomics targeted for central nervous system processes in bipolar disorder.
Göteson A, Isgren A, Jonsson L, ..., Holmén-Larsson J, Landén M
Mol. Psychiatry 26 (12) 7446-7453 [2021-12-00; online 2021-08-04]
Affinity Proteomics Uppsala [Service]
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Aqueous N,N-dimethylmorpholinium hydroxide as a novel solvent for cellulose
Naserifar S, Swensson B, Bernin D, Hasani M
European Polymer Journal 161 (-) 110822 [2021-12-00; online 2021-12-00]
Swedish NMR Centre (SNC) [Service]
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An atlas of the Norway spruce needle seasonal transcriptome.
Bag P, Lihavainen J, Delhomme N, ..., Robinson KM, Jansson S
Plant J. 108 (6) 1815-1829 [2021-12-00; online 2021-10-21]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Altered ceramide metabolism is a feature in the extracellular vesicle-mediated spread of alpha-synuclein in Lewy body disorders.
Kurzawa-Akanbi M, Tammireddy S, Fabrik I, ..., Whitfield PD, Morris CM
Acta Neuropathol. 142 (6) 961-984 [2021-12-00; online 2021-09-13]
Swedish NMR Centre (SNC) [Service]
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Adult-Onset Ataxia With Neuropathy and White Matter Abnormalities Due to a Novel SAMD9L Variant.
Paucar M, Tesi B, Eshtad S, ..., Bryceson YT, Svenningsson P
Neurol Genet 7 (6) e628 [2021-12-00; online 2021-10-28]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Multiomics and digital monitoring during lifestyle changes reveal independent dimensions of human biology and health.
Marabita F, James T, Karhu A, ..., Sallinen R, Kallioniemi O
Cell Syst - (-) - [2021-11-30; online 2021-11-30]
Autoimmunity and Serology Profiling [Service] Swedish Metabolomics Centre (SMC) [Collaborative]
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Safety and efficacy of the mRNA BNT162b2 vaccine against SARS-CoV-2 in five groups of immunocompromised patients and healthy controls in a prospective open-label clinical trial.
Bergman P, Blennow O, Hansson L, ..., Aleman S, COVAXID-collaborator group (shown separately)
EBioMedicine 74 (-) 103705 [2021-11-29; online 2021-11-29]
Autoimmunity and Serology Profiling [Collaborative]
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Changes in the Proteome in the Development of Chronic Human Papillomavirus Infection-A Prospective Study in HIV Positive and HIV Negative Rwandan Women.
Bienvenu E, Mukanyangezi MF, Rulisa S, ..., Tobin G, Giglio D
Cancers (Basel) 13 (23) - [2021-11-28; online 2021-11-28]
Glycoproteomics and MS Proteomics [Service]
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Fed-batch production assessment of a tetravalent bispecific antibody: A case study on piggyBac stably transfected HEK293 cells.
Napoleone A, Laurén I, Linkgreim T, ..., Lord M, Mangsbo S
N Biotechnol 65 (-) 9-19 [2021-11-25; online 2021-07-15]
Drug Discovery and Development (DDD) [Collaborative]
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ATR inhibition enables complete tumour regression in ALK-driven NB mouse models.
Szydzik J, Lind DE, Arefin B, ..., Hallberg B, Palmer RH
Nat Commun 12 (1) 6813 [2021-11-24; online 2021-11-24]
Glycoproteomics and MS Proteomics [Service]
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A multi-scale map of cell structure fusing protein images and interactions.
Qin Y, Huttlin EL, Winsnes CF, ..., Lundberg E, Ideker T
Nature - (-) - [2021-11-24; online 2021-11-24]
Spatial Proteomics [Service]
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THCz: Small molecules with antimicrobial activity that block cell wall lipid intermediates.
Reithuber E, Wixe T, Ludwig KC, ..., Almqvist F, Mellroth P
Proc. Natl. Acad. Sci. U.S.A. 118 (47) - [2021-11-23; online 2021-11-18]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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In vitro evaluation of chemical decontamination of titanium discs.
Ichioka Y, Derks J, Dahlén G, Berglundh T, Larsson L
Sci Rep 11 (1) 22753 [2021-11-23; online 2021-11-23]
Integrated Microscopy Technologies Gothenburg [Technology development]
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High Dimensional Immune Profiling Reveals Different Response Patterns in Active and Latent Tuberculosis Following Stimulation With Mycobacterial Glycolipids.
Silva CS, Sundling C, Folkesson E, ..., Correia-Neves M, Källenius G
Front Immunol 12 (-) 727300 [2021-11-23; online 2021-11-23]
Affinity Proteomics Stockholm [Service] Cellular Immunomonitoring [Collaborative]
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Dredging and deposition of metal sulfide rich river sediments results in rapid conversion to acid sulfate soil materials.
Johnson A, Högfors-Rönnholm E, Engblom S, ..., Åström M, Dopson M
Sci. Total Environ. - (-) 151864 [2021-11-23; online 2021-11-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A tripartite cytolytic toxin formed by Vibrio cholerae proteins with flagellum-facilitated secretion.
Nadeem A, Nagampalli R, Toh E, ..., Wai SN, Persson K
Proc. Natl. Acad. Sci. U.S.A. 118 (47) - [2021-11-23; online 2021-11-21]
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Spatial mapping of protein composition and tissue organization: a primer for multiplexed antibody-based imaging.
Hickey JW, Neumann EK, Radtke AJ, ..., Kelleher NL, Saka SK
Nat. Methods - (-) - [2021-11-22; online 2021-11-22]
Spatial Proteomics [Collaborative]
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Tracking the ATP-binding response in adenylate kinase in real time.
Orädd F, Ravishankar H, Goodman J, ..., Wolf-Watz M, Andersson M
Sci Adv 7 (47) eabi5514 [2021-11-19; online 2021-11-17]
Swedish NMR Centre (SNC) [Service]
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Interplay between copy number alterations and immune profiles in the early breast cancer Scandinavian Breast Group 2004-1 randomized phase II trial: results from a feasibility study.
Zerdes I, Simonetti M, Matikas A, ..., Crosetto N, Foukakis T
NPJ Breast Cancer 7 (1) 144 [2021-11-19; online 2021-11-19]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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In vivo Profiling of the Alk Proximitome in the Developing Drosophila Brain.
Uçkun E, Wolfstetter G, Anthonydhason V, ..., Fuchs J, Palmer RH
J. Mol. Biol. 433 (23) 167282 [2021-11-19; online 2021-10-06]
Glycoproteomics and MS Proteomics [Service]
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Genetic Characterization of Staphylococcus aureus From Subclinical Mastitis Cases in Dairy Cows in Rwanda.
Ndahetuye JB, Leijon M, Båge R, Artursson K, Persson Y
Front Vet Sci 8 (-) 751229 [2021-11-18; online 2021-11-18]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Single cell genomics reveals plastid-lacking Picozoa are close relatives of red algae.
Schön ME, Zlatogursky VV, Singh RP, ..., Wideman JG, Burki F
Nat Commun 12 (1) 6651 [2021-11-17; online 2021-11-17]
Bioinformatics Support for Computational Resources [Service] Microbial Single Cell Genomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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J Ecol - (-) - [2021-11-17; online 2021-11-17]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Exciton Delocalization Counteracts the Energy Gap: A New Pathway toward NIR-Emissive Dyes.
Cravcenco A, Yu Y, Edhborg F, ..., Albinsson B, Börjesson K
J. Am. Chem. Soc. 143 (45) 19232-19239 [2021-11-17; online 2021-11-08]
Swedish NMR Centre (SNC) [Collaborative]
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Comparison of EM-seq and PBAT methylome library methods for low-input DNA.
Han Y, Zheleznyakova GY, Marincevic-Zuniga Y, ..., Needhamsen M, Jagodic M
Epigenetics 17 (10) 1195-1204 [2021-11-17; online 2021-11-17]
NGI Short read [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Rare variant analysis in eczema identifies exonic variants in DUSP1, NOTCH4 and SLC9A4.
Grosche S, Marenholz I, Esparza-Gordillo J, ..., Xu C, Lee Y
Nat Commun 12 (1) 6618 [2021-11-16; online 2021-11-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Polyoxoniobates as molecular building blocks in thin films.
Rambaran MA, Gorzsás A, Holmboe M, Ohlin CA
Dalton Trans 50 (44) 16030-16038 [2021-11-16; online 2021-11-16]
Integrated Microscopy Technologies Umeå [Service]
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Palmdelphin Regulates Nuclear Resilience to Mechanical Stress in the Endothelium.
Sáinz-Jaspeado M, Smith RO, Plunde O, ..., Bäck M, Claesson-Welsh L
Circulation 144 (20) 1629-1645 [2021-11-16; online 2021-10-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Global Proteomics and Proteogenomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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MapToCleave: High-throughput profiling of microRNA biogenesis in living cells.
Kang W, Fromm B, Houben AJ, ..., Biryukova I, Friedländer MR
Cell Rep 37 (7) 110015 [2021-11-16; online 2021-11-18]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Engineered Human Induced Pluripotent Cells Enable Genetic Code Expansion in Brain Organoids.
van Husen LS, Katsori A, Meineke B, ..., Schedin-Weiss S, Elsässer SJ
ChemBioChem 22 (22) 3208-3213 [2021-11-16; online 2021-09-13]
Integrated Microscopy Technologies Stockholm [Service]
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Towards understanding kraft lignin depolymerisation under hydrothermal conditions
Ahlbom A, Maschietti M, Nielsen R, Hasani M, Theliander H
- 0 (0) - [2021-11-15; online 2021-11-15]
Swedish NMR Centre (SNC) [Service]
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MTH1 Inhibitor TH1579 Induces Oxidative DNA Damage and Mitotic Arrest in Acute Myeloid Leukemia.
Sanjiv K, Calderón-Montaño JM, Pham TM, ..., Helleday T, Warpman Berglund U
Cancer Res. 81 (22) 5733-5744 [2021-11-15; online 2021-09-30]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Limited benefit in patients with MDS receiving venetoclax and azacitidine as a bridge to allogeneic stem cell transplantation.
Jädersten M, Boriskina K, Lindholm C, ..., Mielke S, Tobiasson M
Leuk. Lymphoma - (-) 1-4 [2021-11-15; online 2021-11-15]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Identification and characterization of distinct cell cycle stages in cardiomyocytes using the FUCCI transgenic system.
Baniol M, Murganti F, Smialowska A, ..., Derks W, Bergmann O
Exp. Cell Res. 408 (2) 112880 [2021-11-15; online 2021-10-14]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Mitochondrial genomes of two parasitic Cuscuta species lack clear evidence of horizontal gene transfer and retain unusually fragmented ccmFC genes.
Anderson BM, Krause K, Petersen G
BMC Genomics 22 (1) 816 [2021-11-12; online 2021-11-12]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Different Responses to Neoadjuvant Chemotherapy in Urothelial Carcinoma Molecular Subtypes.
Sjödahl G, Abrahamsson J, Holmsten K, ..., Ullén A, Liedberg F
Eur. Urol. - (-) - [2021-11-12; online 2021-11-12]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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An integrative proteomics method identifies a regulator of translation during stem cell maintenance and differentiation.
Sabatier P, Beusch CM, Saei AA, ..., Rodin S, Zubarev RA
Nat Commun 12 (1) 6558 [2021-11-12; online 2021-11-12]
Chemical Proteomics [Technology development]
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A comparison of rule-based and centroid single-sample multiclass predictors for transcriptomic classification.
Eriksson P, Marzouka NA, Sjödahl G, ..., Liedberg F, Höglund M
Bioinformatics - (-) - [2021-11-12; online 2021-11-12]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Proteins associated with incident metabolic syndrome in population-based cohorts.
Lind L, Sundström J, Ärnlöv J
Diabetol Metab Syndr 13 (1) 131 [2021-11-10; online 2021-11-10]
Affinity Proteomics Uppsala [Service]
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Elevated circulating follistatin associates with an increased risk of type 2 diabetes.
Wu C, Borné Y, Gao R, ..., Groop L, De Marinis Y
Nat Commun 12 (1) 6486 [2021-11-10; online 2021-11-10]
Affinity Proteomics Stockholm [Collaborative] Affinity Proteomics Uppsala [Service]
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Whole genome and exome sequencing reference datasets from a multi-center and cross-platform benchmark study.
Zhao Y, Fang LT, Shen T, ..., Hong H, Xiao W
Sci Data 8 (1) 296 [2021-11-09; online 2021-11-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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The role of circulating galectin-1 in type 2 diabetes and chronic kidney disease: evidence from cross-sectional, longitudinal and Mendelian randomisation analyses.
Drake I, Fryk E, Strindberg L, ..., Orho-Melander M, Jansson PA
Diabetologia - (-) - [2021-11-07; online 2021-11-07]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Leaf Apoplast of Field-Grown Potato Analyzed by Quantitative Proteomics and Activity-Based Protein Profiling.
Abreha KB, Alexandersson E, Resjö S, ..., Levander F, Andreasson E
Int J Mol Sci 22 (21) - [2021-11-06; online 2021-11-06]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Tracing the evolution of aneuploid cancers by multiregional sequencing with CRUST.
Chattopadhyay S, Karlsson J, Valind A, Andersson N, Gisselsson D
Brief. Bioinformatics 22 (6) - [2021-11-05; online 2021-08-04]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Multiomics Profiling of Alzheimer's Disease Serum for the Identification of Autoantibody Biomarkers.
San Segundo-Acosta P, Montero-Calle A, Jernbom-Falk A, ..., Nilsson P, Barderas R
J. Proteome Res. 20 (11) 5115-5130 [2021-11-05; online 2021-10-10]
Autoimmunity and Serology Profiling [Collaborative]
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Selection and structural characterization of anti-TREM2 scFvs that reduce levels of shed ectodomain.
Szykowska A, Chen Y, Smith TB, ..., Burgess-Brown NA, Bullock AN
Structure 29 (11) 1241-1252.e5 [2021-11-04; online 2021-07-06]
Drug Discovery and Development (DDD) [Collaborative]
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Inherent backbone dynamics fine-tune the functional plasticity of Tudor domains.
Kawale AA, Burmann BM
Structure 29 (11) 1253-1265.e4 [2021-11-04; online 2021-06-30]
Swedish NMR Centre (SNC) [Service]
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A common polymorphism in the dopamine transporter gene predicts working memory performance and in vivo dopamine integrity in aging.
Karalija N, Köhncke Y, Düzel S, ..., Lindenberger U, Brandmaier AM
Neuroimage 245 (-) 118707 [2021-11-03; online 2021-11-03]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Platelet proteome and function in X-linked thrombocytopenia with thalassemia and in silico comparisons with gray platelet syndrome.
Bergemalm D, Ramström S, Kardeby C, ..., Palmblad J, Åström M
Haematologica 106 (11) 2947-2959 [2021-11-01; online 2021-11-01]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
cGMP-PKG dependent transcriptome in normal and degenerating retinas: Novel insights into the retinitis pigmentosa pathology.
Zhou J, Rasmussen M, Ekström P
Exp. Eye Res. 212 (-) 108752 [2021-11-00; online 2021-08-31]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Virological and immunological features of SARS-COV-2 infected children with distinct symptomatology.
Cotugno N, Ruggiero A, Pascucci GR, ..., De Rossi A, Palma P
Pediatr Allergy Immunol 32 (8) 1833-1842 [2021-11-00; online 2021-07-16]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Targeted genomic investigations in a population-based cohort of mantle cell lymphoma reveal novel clinically relevant targets.
Rodrigues JM, Porwit A, Hassan M, Ek S, Jerkeman M
Leuk. Lymphoma 62 (11) 2637-2647 [2021-11-00; online 2021-06-03]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Systemic Inflammation in Preclinical Ulcerative Colitis.
Bergemalm D, Andersson E, Hultdin J, ..., Karling P, Halfvarson J
Gastroenterology 161 (5) 1526-1539.e9 [2021-11-00; online 2021-07-21]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Risk of SARS-CoV-2 exposure among hospital healthcare workers in relation to patient contact and type of care.
Klevebro S, Bahram F, Elfström KM, ..., Dillner J, Melén E
Scand J Public Health 49 (7) 707-712 [2021-11-00; online 2021-06-19]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
Proteogenomics of non-small cell lung cancer reveals molecular subtypes associated with specific therapeutic targets and immune evasion mechanisms.
Lehtiö J, Arslan T, Siavelis I, ..., Staaf J, Orre LM
Nat Cancer 2 (11) 1224-1242 [2021-11-00; online 2021-11-22]
Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Multiplex protein screening of biomarkers associated with major bleeding in patients with atrial fibrillation treated with oral anticoagulation.
Siegbahn A, Lindbäck J, Hijazi Z, ..., Yusuf S, Wallentin L
J. Thromb. Haemost. 19 (11) 2726-2737 [2021-11-00; online 2021-08-24]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Making complex measurements of meat composition fast: Application of rapid evaporative ionisation mass spectrometry to measuring meat quality and fraud.
Ross A, Brunius C, Chevallier O, ..., Zhang R, Vanhaecke L
Meat Sci 181 (-) 108333 [2021-11-00; online 2020-10-06]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Longitudinal study of Staphylococcus aureus genotypes isolated from bovine clinical mastitis.
Leijon M, Atkins E, Persson Waller K, Artursson K
J Dairy Sci 104 (11) 11945-11954 [2021-11-00; online 2021-08-26]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Increased diagnostic sensitivity of palpation-guided thyroid nodule fine-needle aspiration cytology by BRAF V600E-mutation analysis.
Gimm O, Ivansson K, Beka E, ..., Garvin S, Söderkvist P
J Pathol Clin Res 7 (6) 556-564 [2021-11-00; online 2021-06-22]
Clinical Genomics [Collaborative] Clinical Genomics Linköping [Collaborative]
PubMed DOI Crossref
Do different growth rates of trees cause distinct habitat qualities for saproxylic assemblages?
Runnel K, Stephan JG, Jonsell M, ..., Tamm H, Ranius T
Oecologia 197 (3) 807-816 [2021-11-00; online 2021-10-17]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Community evaluation of glycoproteomics informatics solutions reveals high-performance search strategies for serum glycopeptide analysis.
Kawahara R, Chernykh A, Alagesan K, ..., Packer NH, Thaysen-Andersen M
Nat. Methods 18 (11) 1304-1316 [2021-11-00; online 2021-11-01]
Glycoproteomics and MS Proteomics [Technology development]
PubMed DOI Crossref
BMP2-induction of FN14 promotes protumorigenic signaling in gynecologic cancer cells.
Fukuda T, Fukuda R, Koinuma D, ..., Miyazono K, Heldin CH
Cell. Signal. 87 (-) 110146 [2021-11-00; online 2021-09-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Artificial Intelligence Detection of Missed Cancers at Digital Mammography That Were Detected at Digital Breast Tomosynthesis.
Dahlblom V, Andersson I, Lång K, ..., Zackrisson S, Dustler M
Radiol Artif Intell 3 (6) e200299 [2021-11-00; online 2021-09-01]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
PubMed DOI Crossref
Antibacterial activity of apramycin at acidic pH warrants wide therapeutic window in the treatment of complicated urinary tract infections and acute pyelonephritis.
Becker K, Cao S, Nilsson A, ..., Liepinsh E, Hobbie SN
EBioMedicine 73 (-) 103652 [2021-11-00; online 2021-11-02]
Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
5´XP sRNA-seq: efficient identification of transcripts with and without 5´ phosphorylation reveals evolutionary conserved small RNA.
Kugelberg U, Nätt D, Skog S, Kutter C, Öst A
RNA Biol 18 (11) 1588-1599 [2021-11-00; online 2020-12-31]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
Utredning av den initiala smittspridningen av SARS-CoV-2 till och inom Sverige
Dyrdak R, Albert J
SOU 89 (-) - [2021-10-29]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Small RNA Response to Infection of the Insect-Specific Lammi Virus and Hanko Virus in an Aedes albopictus Cell Line.
Öhlund P, Hayer J, Hesson JC, Blomström AL
Viruses 13 (11) - [2021-10-29; online 2021-10-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Microbial Plankton Community Structure and Function Responses to Vitamin B12 and B1 Amendments in an Upwelling System.
Joglar V, Pontiller B, Martínez-García S, ..., Fernández E, Teira E
Appl. Environ. Microbiol. 87 (22) e0152521 [2021-10-28; online 2021-09-08]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Massive parallel sequencing in individuals with multiple primary tumours reveals the benefit of re-analysis.
Wallander K, Thonberg H, Nilsson D, Tham E
Hered Cancer Clin Pract 19 (1) 46 [2021-10-28; online 2021-10-28]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The structure of neurofibromin isoform 2 reveals different functional states.
Naschberger A, Baradaran R, Rupp B, Carroni M
Nature - (-) - [2021-10-27; online 2021-10-27]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Monensin induces selective mast cell apoptosis through a secretory granule-mediated pathway.
Maccarana M, Liu J, Lampinen M, ..., Pejler G, Paivandy A
Allergy - (-) - [2021-10-27; online 2021-10-27]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Human AdV-20-42-42, a Promising Novel Adenoviral Vector for Gene Therapy and Vaccine Product Development.
Ballmann MZ, Raus S, Engelhart R, ..., Havenga M, Baker AH
J. Virol. 95 (22) e0038721 [2021-10-27; online 2021-09-01]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Effects of Recreational Boating on Microbial and Meiofauna Diversity in Coastal Shallow Ecosystems of the Baltic Sea.
Iburg S, Izabel-Shen D, Austin ÅN, ..., Eklöf JS, Nascimento FJA
mSphere 6 (5) e0012721 [2021-10-27; online 2021-09-01]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Adaptive Introgression Facilitates Adaptation to High Latitudes in European Aspen (Populus tremula L.).
Rendón-Anaya M, Wilson J, Sveinsson S, ..., Street NR, Ingvarsson PK
Mol. Biol. Evol. 38 (11) 5034-5050 [2021-10-27; online 2021-07-31]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A missense mutation converts the Na+,K+-ATPase into an ion channel and causes therapy-resistant epilepsy.
Ygberg S, Akkuratov EE, Howard RJ, ..., Brismar H, Aperia A
J. Biol. Chem. - (-) 101355 [2021-10-27; online 2021-10-27]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Streptococcus pyogenes Forms Serotype- and Local Environment-Dependent Interspecies Protein Complexes.
Chowdhury S, Khakzad H, Bergdahl GE, ..., Happonen L, Malmström J
mSystems 6 (5) e0027121 [2021-10-26; online 2021-09-28]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
PeptiCHIP: A Microfluidic Platform for Tumor Antigen Landscape Identification.
Feola S, Haapala M, Peltonen K, ..., Sikanen TM, Cerullo V
ACS Nano 15 (10) 15992-16010 [2021-10-26; online 2021-10-04]
Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Carbon flux around leaf-cytosolic glyceraldehyde-3-phosphate dehydrogenase introduces a 13C signal in plant glucose.
Wieloch T, Werner RA, Schleucher J
J. Exp. Bot. 72 (20) 7136-7144 [2021-10-26; online 2021-07-06]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Unambiguous Tracking of Protein Phosphorylation by Fast High-Resolution FOSY NMR*.
Lesovoy DM, Georgoulia PS, Diercks T, ..., Bermel W, Orekhov VY
Angew. Chem. Int. Ed. Engl. 60 (44) 23540-23544 [2021-10-25; online 2021-07-13]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Tonsillar Cancer with High CD8+ T-Cell Infiltration Features Increased Levels of Dendritic Cells and Transcriptional Regulation Associated with an Inflamed Tumor Microenvironment.
Jimenez DG, Sobti A, Askmyr D, ..., Greiff L, Lindstedt M
Cancers (Basel) 13 (21) - [2021-10-25; online 2021-10-25]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
The oral microbiota of wild bears in Sweden reflects the history of antibiotic use by humans.
Brealey JC, Leitão HG, Hofstede T, Kalthoff DC, Guschanski K
Curr. Biol. 31 (20) 4650-4658.e6 [2021-10-25; online 2021-08-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Lon protease temporally restricts polar cell differentiation events during the Caulobacter cell cycle.
Omnus DJ, Fink MJ, Szwedo K, Jonas K
Elife 10 (-) - [2021-10-25; online 2021-10-25]
Global Proteomics and Proteogenomics [Service]
DOI Crossref
Direct Evidence for Reaction between Cellulose and CO<sub>2</sub> from Nuclear Magnetic Resonance
Gunnarsson M, Bernin D, Hasani M, Lund M, Bialik E
ACS Sustainable Chem. Eng. 9 (42) 14006-14011 [2021-10-25; online 2021-10-12]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
X-Linked TLR7 Deficiency Underlies Critical COVID-19 Pneumonia in a Male Patient with Ataxia-Telangiectasia.
Abolhassani H, Vosughimotlagh A, Asano T, ..., Hammarström L, Pan-Hammarström Q
J Clin Immunol - (-) - [2021-10-23; online 2021-10-23]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
Milking system and premilking routines have strong effect on the microbial community in bulk tank milk.
Sun L, Lundh Å, Höjer A, ..., Saedén KH, Dicksved J
J Dairy Sci - (-) - [2021-10-22; online 2021-10-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Whole-genome Sequencing of Follicular Thyroid Carcinomas Reveal Recurrent Mutations in MicroRNA Processing Subunit DGCR8.
Paulsson JO, Rafati N, DiLorenzo S, ..., Zedenius J, Juhlin CC
J. Clin. Endocrinol. Metab. 106 (11) 3265-3282 [2021-10-21; online 2021-06-26]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
The performance of common SNP arrays in assigning African mitochondrial haplogroups.
Lankheet I, Vicente M, Barbieri C, Schlebusch C
BMC Genom Data 22 (1) 43 [2021-10-21; online 2021-10-21]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Seasonal migration patterns and the maintenance of evolutionary diversity in a cryptic bird radiation.
Tang Q, Burri R, Liu Y, ..., Heckel G, Schweizer M
Mol. Ecol. - (-) - [2021-10-21; online 2021-10-21]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SLC4A2 Deficiency Causes a New Type of Osteopetrosis.
Xue JY, Grigelioniene G, Wang Z, ..., Ikegawa S, Guo L
J. Bone Miner. Res. - (-) - [2021-10-20; online 2021-10-20]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Symptoms and oxylipins in plasma before and after exposure to rooms in which individuals have both experienced and not experienced building-related symptoms - an exploratory study.
Claeson AS, Sommar J, Liljelind I
Int J Environ Health Res - (-) 1-11 [2021-10-19; online 2021-10-19]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
De novo biosynthesis of bioactive isoflavonoids by engineered yeast cell factories.
Liu Q, Liu Y, Li G, ..., Chen Y, Nielsen J
Nat Commun 12 (1) 6085 [2021-10-19; online 2021-10-19]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Transcriptome Analysis of Potato Infected with the Necrotrophic Pathogen Alternaria solani.
Brouwer SM, Brus-Szkalej M, Saripella GV, ..., Liljeroth E, Grenville-Briggs LJ
Plants (Basel) 10 (10) - [2021-10-18; online 2021-10-18]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Frailty and the risk of dementia: is the association explained by shared environmental and genetic factors?
Bai G, Wang Y, Kuja-Halkola R, ..., Hägg S, Jylhävä J
BMC Med 19 (1) 248 [2021-10-18; online 2021-10-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Prediction and evaluation of the effect of pre-centrifugation sample management on the measurable untargeted LC-MS plasma metabolome.
Zheng R, Brunius C, Shi L, ..., Landberg R, Naluai ÅT
Anal. Chim. Acta 1182 (-) 338968 [2021-10-16; online 2021-08-19]
Chalmers Mass Spectrometry Infrastructure [Technology development]
PubMed DOI Crossref
RNA sequencing reveals metabolic and regulatory changes leading to more robust fermentation performance during short-term adaptation of Saccharomyces cerevisiae to lignocellulosic inhibitors.
van Dijk M, Rugbjerg P, Nygård Y, Olsson L
Biotechnol Biofuels 14 (1) 201 [2021-10-15; online 2021-10-15]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Glioblastoma cytotoxicity conferred through dual disruption of endolysosomal homeostasis by Vacquinol-1.
Kwak D, Hammarström LGJ, Haraldsson M, Ernfors P
Neurooncol Adv 3 (1) vdab152 [2021-10-15; online 2021-10-15]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Spatial deconvolution of HER2-positive breast cancer delineates tumor-associated cell type interactions.
Andersson A, Larsson L, Stenbeck L, ..., Engblom C, Lundeberg J
Nat Commun 12 (1) 6012 [2021-10-14; online 2021-10-14]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Imatinib protects against human beta-cell death via inhibition of mitochondrial respiration and activation of AMPK.
Elksnis A, Schiffer TA, Palm F, ..., Welsh N, Wang X
Clin Sci (Lond) 135 (19) 2243-2263 [2021-10-14; online 2021-09-28]
Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
Unraveling the Metabolic Derangements Occurring in Non-infarcted Areas of Pig Hearts With Chronic Heart Failure.
Correia C, Wang QD, Linhardt G, ..., Jennbacken K, Synnergren J
Front Cardiovasc Med 8 (-) 753470 [2021-10-13; online 2021-10-13]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Fine Tuning of Phosphorothioate Inclusion in 2'-O-Methyl Oligonucleotides Contributes to Specific Cell Targeting for Splice-Switching Modulation.
Aoki Y, Rocha CSJ, Lehto T, ..., Behlke MA, Andaloussi SE
Front Physiol 12 (-) 689179 [2021-10-13; online 2021-10-13]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Coordinated pyruvate kinase activity is crucial for metabolic adaptation and cell survival during mitochondrial dysfunction.
Zhou X, Mikaeloff F, Curbo S, ..., Neogi U, Karlsson A
Hum. Mol. Genet. 30 (21) 2012-2026 [2021-10-13; online 2021-06-26]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Cis-acting mutation affecting GJA5 transcription is underlying the Melanotic within-feather pigmentation pattern in chickens.
Li J, Lee MO, Chen J, ..., Chuong CM, Andersson L
Proc. Natl. Acad. Sci. U.S.A. 118 (41) - [2021-10-12; online 2021-10-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Potassium transporter TRH1/KUP4 contributes to distinct auxin-mediated root system architecture responses.
Templalexis D, Tsitsekian D, Liu C, ..., Hatzopoulos P, Rigas S
Plant Physiol. - (-) - [2021-10-11; online 2021-10-11]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Philippine Ayta possess the highest level of Denisovan ancestry in the world.
Larena M, McKenna J, Sanchez-Quinto F, ..., Endicott P, Jakobsson M
Curr. Biol. 31 (19) 4219-4230.e10 [2021-10-11; online 2021-08-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
HPA axis dysregulation is associated with differential methylation of CpG-sites in related genes.
Chatzittofis A, Boström ADE, Ciuculete DM, ..., Schiöth HB, Jokinen J
Sci Rep 11 (1) 20134 [2021-10-11; online 2021-10-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Deorphanization of novel biogenic amine-gated ion channels identifies a new serotonin receptor for learning.
Morud J, Hardege I, Liu H, ..., Zhang Y, Schafer WR
Curr. Biol. 31 (19) 4282-4292.e6 [2021-10-11; online 2021-08-12]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Chromosome-level genome assembly and transcriptome-based annotation of the oleaginous yeast Rhodotorula toruloides CBS 14.
Martín-Hernández GC, Müller B, Chmielarz M, ..., Viehweger A, Passoth V
Genomics 113 (6) 4022-4027 [2021-10-11; online 2021-10-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Changes in serum and urinary metabolomic profile after a dietary intervention in patients with irritable bowel syndrome.
Nybacka S, Simrén M, Störsrud S, ..., Winkvist A, Lindqvist HM
PLoS ONE 16 (10) e0257331 [2021-10-11; online 2021-10-11]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
A Glycoproteomic Approach to Identify Novel Proteoglycans.
Noborn F, Nikpour M, Persson A, ..., Nilsson J, Larson G
Methods Mol. Biol. 2303 (-) 71-85 [2021-10-10; online 2021-10-10]
Glycoproteomics and MS Proteomics [Technology development]
PubMed DOI Crossref
Comparison of sequencing data processing pipelines and application to underrepresented African human populations.
Breton G, Johansson ACV, Sjödin P, Schlebusch CM, Jakobsson M
BMC Bioinformatics 22 (1) 488 [2021-10-09; online 2021-10-09]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
A cell-free high throughput assay for assessment of SARS-CoV-2 neutralizing antibodies.
Mravinacova S, Jönsson M, Christ W, ..., Månberg A, Hober S
N Biotechnol 66 (-) 46-52 [2021-10-07; online 2021-10-07]
Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
Spinal Cord Injury Induces Permanent Reprogramming of Microglia into a Disease-Associated State Which Contributes to Functional Recovery
Hakim R, Zachariadis V, Sankavaram SR, ..., Enge M, Svensson M
J. Neurosci. 41 (40) 8441-8459 [2021-10-06; online 2021-08-20]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Proteomic and Metabolomic Characterization of Metabolically Healthy Obesity: A Descriptive Study from a Swedish Cohort.
Korduner J, Nilsson PM, Melander O, ..., Magnusson M, Ottosson F
J Obes 2021 (-) 6616983 [2021-10-06; online 2021-10-06]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Inhibition of the ubiquitin-proteasome system by an NQO1-activatable compound.
Giovannucci TA, Salomons FA, Haraldsson M, ..., Johnsen JI, Dantuma NP
Cell Death Dis 12 (10) 914 [2021-10-06; online 2021-10-06]
CRISPR Functional Genomics [Service] Chemical Biology Consortium Sweden (CBCS) [Collaborative] Global Proteomics and Proteogenomics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Metabolic Perturbation Associated With COVID-19 Disease Severity and SARS-CoV-2 Replication.
Krishnan S, Nordqvist H, Ambikan AT, ..., Treutiger CJ, Neogi U
Mol. Cell Proteomics 20 (-) 100159 [2021-10-05; online 2021-10-05]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Distinct B cell subsets in Peyer's patches convey probiotic effects by Limosilactobacillus reuteri.
Liu HY, Giraud A, Seignez C, ..., Bertilsson S, Phillipson M
Microbiome 9 (1) 198 [2021-10-03; online 2021-10-03]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide association mapping uncovers sex-associated copy number variation markers and female hemizygous regions on the W chromosome in Salix viminalis.
Hallingbäck HR, Pucholt P, Ingvarsson PK, Rönnberg-Wästljung AC, Berlin S
BMC Genomics 22 (1) 710 [2021-10-02; online 2021-10-02]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Automating classification of osteoarthritis according to Kellgren-Lawrence in the knee using deep learning in an unfiltered adult population.
Olsson S, Akbarian E, Lind A, Razavian AS, Gordon M
BMC Musculoskelet Disord 22 (1) 844 [2021-10-02; online 2021-10-02]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
PubMed DOI Crossref
Transcriptomics paving the way for improved diagnostics and precision medicine of acute leukemia.
Lilljebjörn H, Orsmark-Pietras C, Mitelman F, Hagström-Andersson A, Fioretos T
Semin. Cancer Biol. - (-) - [2021-10-01; online 2021-10-01]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Spatiotemporally flexible subnetworks reveal the quasi-cyclic nature of integration and segregation in the human brain.
Strindberg M, Fransson P, Cabral J, Ådén U
Neuroimage 239 (-) 118287 [2021-10-01; online 2021-06-18]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Predicting outcome in acute myocardial infarction: an analysis investigating 175 circulating biomarkers.
Eggers KM, Lindhagen L, Baron T, ..., Spaak J, Lindahl B
Eur Heart J Acute Cardiovasc Care 10 (7) 806-812 [2021-10-01; online 2021-06-09]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Bioaugmentation as a strategy for tailor-made volatile fatty acid production.
Atasoy M, Cetecioglu Z
J Environ Manage 295 (-) 113093 [2021-10-01; online 2021-06-23]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Urinary cytokines correlate with acute kidney injury in critically ill COVID-19 patients.
Gradin A, Andersson H, Luther T, ..., Frithiof R, Hultström M
Cytokine 146 (-) 155589 [2021-10-00; online 2021-05-24]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
The role of H3K36 methylation and associated methyltransferases in chromosome-specific gene regulation.
Lindehell H, Glotov A, Dorafshan E, Schwartz YB, Larsson J
Sci Adv 7 (40) eabh4390 [2021-10-00; online 2021-10-01]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Llàcer Navarro S, Nakayama K, Idström A, ..., Ström A, Nypelö T
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Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Sleep duration is associated with protein biomarkers for cardiometabolic health: A large-scale population study.
Theorell-Haglöw J, Hammar U, Lind L, ..., Lindberg E, Fall T
J Sleep Res 30 (5) e13284 [2021-10-00; online 2021-03-09]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Serum 25-hydroxyvitamin D is associated with fracture risk only during periods of seasonally high levels in women with a high body mass index.
Michaëlsson K, Byberg L, Svennblad B, ..., Baron JA, Melhus H
J. Bone Miner. Res. 36 (10) 1957-1966 [2021-10-00; online 2021-07-10]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Rapid evolution of sexual size dimorphism facilitated by Y-linked genetic variance.
Kaufmann P, Wolak ME, Husby A, Immonen E
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Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Proteomic analysis in diffuse large B-cell lymphoma identifies dysregulated tumor microenvironment proteins in non-GCB/ABC subtype patients.
Bram Ednersson S, Stern M, Fagman H, ..., Thorsell A, Andersson PO
Leuk. Lymphoma 62 (10) 2360-2373 [2021-10-00; online 2021-06-11]
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Olczak J, Pavlopoulos J, Prijs J, ..., Hedlund J, Gordon M
Acta Orthop 92 (5) 513-525 [2021-10-00; online 2021-05-14]
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Amiel Castro R, Kunovac Kallak T, Sundström Poromaa I, ..., Ehlert U, Skalkidou A
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Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Dussex N, van der Valk T, Morales HE, ..., Robertson BC, Dalén L
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PubMed DOI Crossref
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Ilumäe AM, Post H, Flores R, ..., Rootsi S, Villems R
Eur. J. Hum. Genet. 29 (10) 1510-1519 [2021-10-00; online 2021-05-07]
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Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
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Protein Expression and Purification 186 (-) 105919 [2021-10-00; online 2021-05-24]
Swedish NMR Centre (SNC) [Service]
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Juras A, Ehler E, Chyleński M, ..., Jakobsson M, Dabert M
Am. J. Phys. Anthropol. 176 (2) 223-236 [2021-10-00; online 2021-07-26]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Sundquist K, Memon AA, Palmér K, Sundquist J, Wang X
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Affinity Proteomics Uppsala [Service]
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Yao Mattisson I, Rattik S, Björkbacka H, ..., Nilsson J, Wigren M
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Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
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Sun J, Singh P, Österlund J, ..., Engström G, Edsfeldt A
J. Intern. Med. 290 (4) 855-865 [2021-10-00; online 2021-07-26]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
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Hammarsjö A, Pettersson M, Chitayat D, ..., Lindstrand A, Grigelioniene G
J. Hum. Genet. 66 (10) 995-1008 [2021-10-00; online 2021-04-20]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Sundbaum JK, Baecklund E, Eriksson N, ..., Wadelius M, Hallberg P
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Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Sjöqvist C, Delgado LF, Alneberg J, Andersson AF
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Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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Papapavlou G, Hellberg S, Raffetseder J, ..., Jenmalm MC, Ernerudh J
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Affinity Proteomics Uppsala [Service]
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Lagercrantz U, Billhardt A, Rousku SN, ..., Reza SH, Eklund DM
New Phytol. 232 (2) 595-609 [2021-10-00; online 2021-08-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Zeybel M, Altay O, Arif M, ..., Borén J, Mardinoglu A
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Hlebowicz J, Holm J, Lindstedt S, Goncalves I, Nilsson J
Atherosclerosis 335 (-) 47-52 [2021-10-00; online 2021-09-21]
Affinity Proteomics Uppsala [Service]
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Xu Y, Gao C, Håversen L, ..., Andréasson J, Grøtli M
Chem. Commun. (Camb.) 57 (78) 10043-10046 [2021-09-30; online 2021-09-30]
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Front. Fungal Biol. 2 (-) - [2021-09-29; online 2021-09-29]
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Chelebian E, Avenel C, Kartasalo K, ..., Lundeberg J, Wählby C
Cancers (Basel) 13 (19) - [2021-09-28; online 2021-09-28]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Hagström Å, Zweifel UL, Sundh J, ..., Müller-Karulis B, Pinhassi J
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Association between cardiovascular disease- and inflammation-related serum biomarkers and poor lung function in elderly.
Egervall K, Rosso A, Elmståhl S
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Affinity Proteomics Uppsala [Service]
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Milon B, Shulman ED, So KS, ..., Elkon R, Hertzano R
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Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Blixt L, Bogdanovic G, Buggert M, ..., Hansson L, Österborg A
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Swedish NMR Centre (SNC) [Service]
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Metabolic drift in the aging nervous system is reflected in human cerebrospinal fluid.
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Avian neo-sex chromosomes reveal dynamics of recombination suppression and W degeneration.
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Mol. Biol. Evol. 38 (12) 5275-5291 [2021-09-20; online 2021-09-20]
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Affinity Proteomics Uppsala [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Ancient and modern genomes unravel the evolutionary history of the rhinoceros family.
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Cell 184 (19) 4874-4885.e16 [2021-09-16; online 2021-08-24]
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Nontypeable Haemophilus influenzae P5 Binds Human C4b-Binding Protein, Promoting Serum Resistance.
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Limited access to antigen drives generation of early B cell memory while restraining the plasmablast response.
Glaros V, Rauschmeier R, Artemov AV, ..., Busslinger M, Kreslavsky T
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BMC Genomics 22 (1) 660 [2021-09-14; online 2021-09-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The avian W chromosome is a refugium for endogenous retroviruses with likely effects on female-biased mutational load and genetic incompatibilities.
Peona V, Palacios-Gimenez OM, Blommaert J, ..., Jern P, Suh A
Philos. Trans. R. Soc. Lond., B, Biol. Sci. 376 (1833) 20200186 [2021-09-13; online 2021-07-26]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Autoantibody profiles associated with clinical features in psychotic disorders.
Jernbom Falk A, Galletly C, Just D, ..., Månberg A, Schubert KO
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Autoimmunity and Serology Profiling [Collaborative]
PubMed
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Melkersson K, Bensing S
Neuro Endocrinol. Lett. 42 (5) 339-358 [2021-09-10; online 2021-09-10]
Autoimmunity and Serology Profiling [Service]
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Otten J, Stomby A, Waling M, ..., Holst JJ, Olsson T
Endocr Connect 10 (9) 1101-1110 [2021-09-09; online 2021-09-09]
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Nikpour M, Nilsson J, Persson A, ..., Vorontsov E, Larson G
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A highly-contiguous genome assembly of the Eurasian spruce bark beetle, Ips typographus, provides insight into a major forest pest.
Powell D, Groβe-Wilde E, Krokene P, ..., Andersson MN, Schlyter F
Commun Biol 4 (1) 1059 [2021-09-09; online 2021-09-09]
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Temporally balanced selection during development of larval Pacific oysters (Crassostrea gigas) inherently preserves genetic diversity within offspring.
Durland E, De Wit P, Langdon C
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NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Selection on accessible chromatin regions in Capsella grandiflora.
Horvath R, Josephs EB, Pesquet E, ..., Scofield D, Slotte T
Mol. Biol. Evol. - (-) - [2021-09-08; online 2021-09-08]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Spatial mapping reveals human adipocyte subpopulations with distinct sensitivities to insulin.
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NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Single-nuclei transcriptomes from human adrenal gland reveal distinct cellular identities of low and high-risk neuroblastoma tumors.
Bedoya-Reina OC, Li W, Arceo M, ..., Kogner P, Schlisio S
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Cryo-EM [Service]
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Structure and dynamics of the chromatin remodeler ALC1 bound to a PARylated nucleosome.
Bacic L, Gaullier G, Sabantsev A, ..., Boulton SJ, Deindl S
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Cryo-EM [Service]
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Transplant Cell Ther - (-) - [2021-09-06; online 2021-09-06]
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Stop codon readthrough alters the activity of a POU/Oct transcription factor during Drosophila development.
Zhao Y, Lindberg BG, Esfahani SS, ..., Piazza S, Engström Y
BMC Biol. 19 (1) 185 [2021-09-03; online 2021-09-03]
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PubMed DOI Crossref
Neuropharmacokinetic visualization of regional and subregional unbound antipsychotic drug transport across the blood-brain barrier.
Luptáková D, Vallianatou T, Nilsson A, ..., Loryan I, Andrén PE
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Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Evaluation of Spin Columns for Human Plasma Depletion to Facilitate MS-Based Proteomics Analysis of Plasma.
Cao X, Sandberg A, Araújo JE, ..., Eriksson LE, Pernemalm M
J. Proteome Res. 20 (9) 4610-4620 [2021-09-03; online 2021-07-28]
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Immunoglobulin A Autoreactivity toward Brain Enriched and Apoptosis-Regulating Proteins in Saliva of Athletes after Acute Concussion and Subconcussive Impacts.
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J. Neurotrauma 38 (17) 2373-2383 [2021-09-01; online 2021-05-24]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Genetic Variant Score and Arrhythmogenic Right Ventricular Cardiomyopathy Phenotype in Plakophilin-2 Mutation Carriers.
Svensson A, Platonov PG, Haugaa KH, ..., Svendsen JH, Gunnarsson C
Cardiology 146 (6) 763-771 [2021-09-01; online 2021-09-01]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Anorexia and Fat Aversion Induced by Vertical Sleeve Gastrectomy Is Attenuated in Neurotensin Receptor 1-Deficient Mice.
Ratner C, Shin JH, Dwibedi C, ..., Seeley RJ, Holst B
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Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Using Deep Learning to Emulate the Use of an External Contrast Agent in Cardiovascular 4D Flow MRI.
Bustamante M, Viola F, Carlhäll CJ, Ebbers T
J Magn Reson Imaging 54 (3) 777-786 [2021-09-00; online 2021-02-25]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
PubMed DOI Crossref
Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing.
Xiao W, Ren L, Chen Z, ..., Wang C, Shi L
Nat. Biotechnol. 39 (9) 1141-1150 [2021-09-00; online 2021-09-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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The microRNA response associated with methyl jasmonate-induced resistance in Norway spruce bark
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NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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The genetic consequences of dog breed formation-Accumulation of deleterious genetic variation and fixation of mutations associated with myxomatous mitral valve disease in cavalier King Charles spaniels.
Axelsson E, Ljungvall I, Bhoumik P, ..., Häggström J, Lindblad-Toh K
PLoS Genet. 17 (9) e1009726 [2021-09-00; online 2021-09-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Solving patients with rare diseases through programmatic reanalysis of genome-phenome data.
Matalonga L, Hernández-Ferrer C, Piscia D, ..., Beltran S, Solve-RD Consortia
Eur. J. Hum. Genet. 29 (9) 1337-1347 [2021-09-00; online 2021-06-01]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
DOI Crossref
Soil physico-chemical properties have a greater effect on soil fungi than host species in Mediterranean pure and mixed pine forests
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Soil Biology and Biochemistry 160 (-) 108320 [2021-09-00; online 2021-09-00]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Screening of biomarkers for prediction of multisite artery disease in patients with recent myocardial infarction.
Jönelid B, Christersson C, Hedberg P, ..., Oldgren J, Siegbahn A
Scand J Clin Lab Invest 81 (5) 353-360 [2021-09-00; online 2021-08-04]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Reindeer control over subarctic treeline alters soil fungal communities with potential consequences for soil carbon storage.
Ylänne H, Madsen RL, Castaño C, Metcalfe DB, Clemmensen KE
Glob Chang Biol 27 (18) 4254-4268 [2021-09-00; online 2021-06-14]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Regulatory T cells reduce endothelial neutral sphingomyelinase 2 to prevent T-cell migration into tumors.
Akeus P, Szeponik L, Langenes V, ..., Slusher BS, Quiding-Järbrink M
Eur. J. Immunol. 51 (9) 2317-2329 [2021-09-00; online 2021-07-29]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Q-space trajectory imaging with positivity constraints (QTI+).
Herberthson M, Boito D, Haije TD, ..., Westin CF, Özarslan E
Neuroimage 238 (-) 118198 [2021-09-00; online 2021-05-21]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Positive selection plays a major role in shaping signatures of differentiation across the genomic landscape of two independent Ficedula flycatcher species pairs.
Chase MA, Ellegren H, Mugal CF
Evolution 75 (9) 2179-2196 [2021-09-00; online 2021-05-03]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Novel genome reveals susceptibility of popular gamebird, the red-legged partridge (Alectoris rufa, Phasianidae), to climate change.
Chattopadhyay B, Forcina G, Garg KM, ..., Barbanera F, Rheindt FE
Genomics 113 (5) 3430-3438 [2021-09-00; online 2021-08-13]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mitochondrial dysfunction in adult midbrain dopamine neurons triggers an early immune response.
Filograna R, Lee S, Tiklová K, ..., Perlmann T, Larsson NG
PLoS Genet. 17 (9) e1009822 [2021-09-00; online 2021-09-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Interaction between the STAT4 rs11889341(T) risk allele and smoking confers increased risk of myocardial infarction and nephritis in patients with systemic lupus erythematosus.
Reid S, Hagberg N, Sandling JK, ..., Rönnblom L, Leonard D
Ann. Rheum. Dis. 80 (9) 1183-1189 [2021-09-00; online 2021-03-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Impact of Different Synthesis Methods on the Low-Temperature Deactivation of Cu/SAPO-34 for NH3-SCR Reaction
Woo J, Wang A, Bernin D, ..., Zammit M, Olsson L
Emiss. Control Sci. Technol. 7 (3) 198-209 [2021-09-00; online 2021-08-03]
Swedish NMR Centre (SNC) [Service]
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Genomic and transcriptomic characterization of desmoplastic small round cell tumors.
Sydow S, Versleijen-Jonkers YMH, Hansson M, ..., Flucke UE, Mertens F
Genes Chromosomes Cancer 60 (9) 595-603 [2021-09-00; online 2021-05-17]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Genetic deletion of the ghrelin receptor (GHSR) impairs growth and blunts endocrine response to fasting in Ghsr-IRES-Cre mice.
Peris-Sampedro F, Stoltenborg I, Le May MV, ..., Adan RAH, Dickson SL
Mol Metab 51 (-) 101223 [2021-09-00; online 2021-03-31]
Integrated Microscopy Technologies Gothenburg [Service]
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Evaluation of 92 cardiovascular proteins in dried blood spots collected under field-conditions: Off-the-shelf affinity-based multiplexed assays work well, allowing for simplified sample collection.
Broberg K, Svensson J, Grahn K, ..., Selander J, Enroth S
Bioessays 43 (9) e2000299 [2021-09-00; online 2021-02-15]
Affinity Proteomics Uppsala [Collaborative]
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Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing.
Fang LT, Zhu B, Zhao Y, ..., Xiao W, Somatic Mutation Working Group of Sequencing Quality Control Phase II Consortium
Nat. Biotechnol. 39 (9) 1151-1160 [2021-09-00; online 2021-09-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Efficacy of EBL-1003 (apramycin) against Acinetobacter baumannii lung infections in mice.
Becker K, Aranzana-Climent V, Cao S, ..., Hobbie SN, ENABLE consortium
Clin. Microbiol. Infect. 27 (9) 1315-1321 [2021-09-00; online 2020-12-11]
Spatial Mass Spectrometry [Collaborative]
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Drought legacy affects microbial community trait distributions related to moisture along a savannah grassland precipitation gradient
Leizeaga A, Hicks LC, Manoharan L, Hawkes CV, Rousk J
J Ecol 109 (9) 3195-3210 [2021-09-00; online 2020-11-26]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Distinct plasma biomarkers confirm the diagnosis of mastocytosis and identify increased risk of anaphylaxis.
Gülen T, Teufelberger A, Ekoff M, ..., Dahlén B, Nilsson G
J. Allergy Clin. Immunol. 148 (3) 889-894 [2021-09-00; online 2021-03-02]
Affinity Proteomics Uppsala [Service]
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Combined Metabolic Activators Accelerates Recovery in Mild-to-Moderate COVID-19.
Altay O, Arif M, Li X, ..., Uhlén M, Mardinoglu A
Adv Sci (Weinh) 8 (17) e2101222 [2021-09-00; online 2021-06-28]
Affinity Proteomics Stockholm [Service]
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Climate warming dominates over plant genotype in shaping the seasonal trajectory of foliar fungal communities on oak.
Faticov M, Abdelfattah A, Roslin T, ..., Lindahl BD, Tack AJM
New Phytol. 231 (5) 1770-1783 [2021-09-00; online 2021-06-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Calcium and pH interaction limits bloom formation and expansion of a nuisance microalga
Gollnisch R, Alling T, Stockenreiter M, ..., Grabowska M, Rengefors K
Limnol Oceanogr 66 (9) 3523-3534 [2021-09-00; online 2021-07-30]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Branched-chain amino acid metabolism is regulated by ERRα in primary human myotubes and is further impaired by glucose loading in type 2 diabetes.
Sjögren RJO, Rizo-Roca D, Chibalin AV, ..., Näslund E, Zierath JR
Diabetologia 64 (9) 2077-2091 [2021-09-00; online 2021-06-16]
Swedish Metabolomics Centre (SMC) [Service]
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A roadmap for the Human Developmental Cell Atlas.
Haniffa M, Taylor D, Linnarsson S, ..., Webb S, Human Cell Atlas Developmental Biological Network
Nature 597 (7875) 196-205 [2021-09-00; online 2021-09-08]
In Situ Sequencing (ISS) [Collaborative] Spatial Proteomics
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A novel silver(I) di-iso-butyldithiocarbamate: Unusually complicated 1-D polymeric structure, multiple ligand-supported Ag–Ag interactions and its capability to bind gold(III). Preparation, structural organisation and (13C, 15N) CP-MAS NMR of [Ag6(S2CNiBu2)6] and [Au(S2CNiBu2)2][AgCl2]
Korneeva EV, Smolentsev AI, Antzutkin ON, Ivanov AV
Inorganica Chimica Acta 525 (-) 120383 [2021-09-00; online 2021-09-00]
Swedish NMR Centre (SNC) [Service]
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A genome-wide association study with 1,126,563 individuals identifies new risk loci for Alzheimer's disease.
Wightman DP, Jansen IE, Savage JE, ..., Andreassen OA, Posthuma D
Nat. Genet. 53 (9) 1276-1282 [2021-09-00; online 2021-09-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A genome-wide association study of the frailty index highlights brain pathways in ageing.
Atkins JL, Jylhävä J, Pedersen NL, ..., Williams DM, Pilling LC
Aging Cell 20 (9) e13459 [2021-09-00; online 2021-08-25]
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A MT-TL1 variant identified by whole exome sequencing in an individual with intellectual disability, epilepsy, and spastic tetraparesis.
de Boer E, Ockeloen CW, Matalonga L, ..., Verloes A, Vissers LELM
Eur. J. Hum. Genet. 29 (9) 1359-1368 [2021-09-00; online 2021-06-01]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Light-induced in situ chemical activation of a fluorescent probe for monitoring intracellular G-quadruplex structures.
Deiana M, Mosser M, Le Bahers T, ..., Monnereau C, Guy L
Nanoscale 13 (32) 13795-13808 [2021-08-28; online 2021-08-04]
Swedish NMR Centre (SNC) [Service]
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Novel Microdialysis Technique Reveals a Dramatic Shift in Metabolite Secretion during the Early Stages of the Interaction between the Ectomycorrhizal Fungus Pisolithus microcarpus and Its Host Eucalyptus grandis.
Plett KL, Buckley S, Plett JM, ..., Lundberg-Felten J, Jämtgård S
Microorganisms 9 (9) - [2021-08-26; online 2021-08-26]
Swedish Metabolomics Centre (SMC) [Service]
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Exploring the β-tubulin gene family in a benzimidazole-resistant Parascaris univalens population.
Martin F, Halvarsson P, Delhomme N, Höglund J, Tydén E
International Journal for Parasitology: Drugs and Drug Resistance 17 (-) 84-91 [2021-08-26; online 2021-08-26]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Consistent B Cell Receptor Immunoglobulin Features Between Siblings in Familial Chronic Lymphocytic Leukemia.
Kolijn PM, Muggen AF, Ljungström V, ..., Rosenquist R, Langerak AW
Front Oncol 11 (-) 740083 [2021-08-26; online 2021-08-26]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Chromoanagenesis Event Underlies a de novo Pericentric and Multiple Paracentric Inversions in a Single Chromosome Causing Coffin-Siris Syndrome.
Grochowski CM, Krepischi ACV, Eisfeldt J, ..., Lindstrand A, Carvalho CMB
Front Genet 12 (-) 708348 [2021-08-26; online 2021-08-26]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Amnion signals are essential for mesoderm formation in primates.
Yang R, Goedel A, Kang Y, ..., Niu Y, Chien KR
Nat Commun 12 (1) 5126 [2021-08-26; online 2021-08-26]
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A genetic titration of membrane composition in Caenorhabditis elegans reveals its importance for multiple cellular and physiological traits.
Devkota R, Kaper D, Bodhicharla R, ..., Borén J, Pilon M
Genetics 219 (1) - [2021-08-26; online 2021-06-15]
Integrated Microscopy Technologies Gothenburg [Service]
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Pulmonary and blood dendritic cells from sarcoidosis patients more potently induce IFNγ-producing Th1 cells compared with monocytes.
Lepzien R, Nie M, Czarnewski P, ..., Grunewald J, Smed-Sörensen A
J Leukoc Biol - (-) - [2021-08-25; online 2021-08-25]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Interleukin 6 and Cardiovascular Outcomes in Patients With Chronic Kidney Disease and Chronic Coronary Syndrome.
Batra G, Ghukasyan Lakic T, Lindbäck J, ..., Wallentin L, STABILITY Investigators
JAMA Cardiol - (-) - [2021-08-25; online 2021-08-25]
Affinity Proteomics Uppsala [Service]
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The Amot/integrin protein complex transmits mechanical forces required for vascular expansion.
Zhang Y, Zhang Y, Kameishi S, ..., Cavallo F, Holmgren L
Cell Rep 36 (8) 109616 [2021-08-24; online 2021-08-26]
Global Proteomics and Proteogenomics [Service]
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The Accessibility of the Cell Wall in Scots Pine (Pinus sylvestris L.) Sapwood to Colloidal Fe3O4 Nanoparticles.
Garskaite E, Stoll SL, Forsberg F, ..., Liu K, Sandberg D
ACS Omega 6 (33) 21719-21729 [2021-08-24; online 2021-08-10]
Cryo-EM [Service]
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Small-scale sequencing enables quality assessment of Ribo-Seq data: an example from Arabidopsis cell culture.
Mahboubi A, Delhomme N, Häggström S, Hanson J
Plant Methods 17 (1) 92 [2021-08-24; online 2021-08-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genomic Epidemiology of Azithromycin-Nonsusceptible Neisseria gonorrhoeae, Argentina, 2005-2019.
Gianecini RA, Poklepovich T, Golparian D, ..., Galarza P, Gonococcal Antimicrobial Susceptibility Surveillance Programme—Argentina1
Emerg. Infect. Dis. 27 (9) 2369-2378 [2021-08-24; online 2021-08-24]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Comprehensive in situ mapping of human cortical transcriptomic cell types.
Langseth CM, Gyllborg D, Miller JA, ..., Hilscher MM, Nilsson M
Commun Biol 4 (1) 998 [2021-08-24; online 2021-08-24]
In Situ Sequencing (ISS) [Technology development]
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Ecological Specialization and Evolutionary Reticulation in Extant Hyaenidae.
Westbury MV, Le Duc D, Duchêne DA, ..., Schöneberg T, Hofreiter M
Mol. Biol. Evol. 38 (9) 3884-3897 [2021-08-23; online 2021-08-25]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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RqcH and RqcP catalyze processive poly-alanine synthesis in a reconstituted ribosome-associated quality control system.
Takada H, Crowe-McAuliffe C, Polte C, ..., Wilson DN, Hauryliuk V
Nucleic Acids Res. 49 (14) 8355-8369 [2021-08-20; online 2021-07-14]
Cryo-EM [Service]
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A Minimalistic Coumarin Turn-On Probe for Selective Recognition of Parallel G-Quadruplex DNA Structures.
Deiana M, Obi I, Andreasson M, ..., Chorell E, Sabouri N
ACS Chem. Biol. 16 (8) 1365-1376 [2021-08-20; online 2021-07-30]
Swedish NMR Centre (SNC) [Service]
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X-linked recessive TLR7 deficiency in ~1% of men under 60 years old with life-threatening COVID-19.
Asano T, Boisson B, Onodi F, ..., Zhang Q, Casanova JL
Sci Immunol 6 (62) - [2021-08-19; online 2021-08-21]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Transcriptomic markers of fungal growth, respiration and carbon-use efficiency.
Hasby FA, Barbi F, Manzoni S, Lindahl BD
FEMS Microbiol. Lett. 368 (15) - [2021-08-19; online 2021-08-03]
Bioinformatics Support for Computational Resources [Service]
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The broad role of Nkx3.2 in the development of the zebrafish axial skeleton.
Waldmann L, Leyhr J, Zhang H, ..., Allalou A, Haitina T
PLoS ONE 16 (8) e0255953 [2021-08-19; online 2021-08-19]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Genome Engineering Zebrafish [Service]
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Community composition of aquatic fungi across the thawing Arctic.
Kluge M, Wurzbacher C, Wauthy M, ..., Stenlid J, Peura S
Sci Data 8 (1) 221 [2021-08-19; online 2021-08-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A simple pressure-assisted method for MicroED specimen preparation.
Zhao J, Xu H, Lebrette H, ..., Högbom M, Zou X
Nat Commun 12 (1) 5036 [2021-08-19; online 2021-08-19]
Cryo-EM [Collaborative]
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(p)ppGpp controls stringent factors by exploiting antagonistic allosteric coupling between catalytic domains.
Roghanian M, Van Nerom K, Takada H, ..., Garcia-Pino A, Hauryliuk V
Mol. Cell 81 (16) 3310-3322.e6 [2021-08-19; online 2021-08-21]
Structural Proteomics [Collaborative]
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Haplotype-Specific Expression Analysis of MHC Class II Genes in Healthy Individuals and Rheumatoid Arthritis Patients.
Houtman M, Hesselberg E, Rönnblom L, ..., Malmström V, Padyukov L
Front Immunol 12 (-) 707217 [2021-08-17; online 2021-08-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Association of Variants Near the Bradykinin Receptor B2 Gene With Angioedema in Patients Taking ACE Inhibitors.
Ghouse J, Ahlberg G, Andreasen L, ..., Bundgaard H, Olesen MS
J. Am. Coll. Cardiol. 78 (7) 696-709 [2021-08-17; online 2021-08-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Microbiological Surveillance of Biogas Plants: Targeting Acetogenic Community.
Singh A, Moestedt J, Berg A, Schnürer A
Front Microbiol 12 (-) 700256 [2021-08-16; online 2021-08-16]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Metabolomics profiling predicts outcome of tocilizumab in rheumatoid arthritis: an exploratory study.
Murillo-Saich JD, Diaz-Torne C, Ortiz MA, ..., Vidal S, Guma M
Metabolomics 17 (9) 74 [2021-08-16; online 2021-08-16]
Swedish NMR Centre (SNC) [Collaborative]
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Characterization of Dynamic Regulatory Gene and Protein Networks in Wheat Roots Upon Perceiving Water Deficit Through Comparative Transcriptomics Survey.
Rahimi Y, Ingvarsson PK, Bihamta MR, ..., Taleei A, Khoshnoodi Jabar Abadi S
Front Plant Sci 12 (-) 710867 [2021-08-16; online 2021-08-16]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Prolonged estrogen deprivation triggers a broad immunosuppressive phenotype in breast cancer cells.
Hühn D, Martí-Rodrigo P, Mouron S, ..., Carreras-Puigvert J, Fernandez-Capetillo O
Mol Oncol - (-) - [2021-08-15; online 2021-08-15]
Chemical Biology Consortium Sweden (CBCS) [Service]
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Antimicrobial peptide induced colloidal transformations in bacteria-mimetic vesicles: Combining in silico tools and experimental methods.
Freire RVM, Pillco-Valencia Y, da Hora GCA, ..., Soares TA, Salentinig S
Journal of Colloid and Interface Science 596 (-) 352-363 [2021-08-15; online 2021-03-16]
Cryo-EM [Collaborative]
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Transcriptome Analysis of Post-Mortem Brain Tissue Reveals Up-Regulation of the Complement Cascade in a Subgroup of Schizophrenia Patients.
Lindholm Carlström E, Niazi A, Etemadikhah M, ..., Nilsson B, Feuk L
Genes 12 (8) - [2021-08-13; online 2021-08-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Site-Dependent Relationships Between Fungal Community Composition, Plant Genotypic Diversity and Environmental Drivers in a Salix Biomass System
Hoeber S, Baum C, Weih M, Manzoni S, Fransson P
Front. Fungal Biol. 2 (-) - [2021-08-13; online 2021-08-13]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Single-cell analysis pinpoints distinct populations of cytotoxic CD4+ T cells and an IL-10+CD109+ TH2 cell population in nasal polyps.
Ma J, Tibbitt CA, Georén SK, ..., Bachert C, Coquet JM
Sci Immunol 6 (62) - [2021-08-13; online 2021-08-15]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Expanding the Chondroitin Sulfate Glycoproteome - But How Far?
Noborn F, Nikpour M, Persson A, Nilsson J, Larson G
Front Cell Dev Biol 9 (-) 695970 [2021-08-13; online 2021-08-13]
Glycoproteomics and MS Proteomics [Collaborative]
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Candidatus Methylumidiphilus Drives Peaks in Methanotrophic Relative Abundance in Stratified Lakes and Ponds Across Northern Landscapes.
Martin G, Rissanen AJ, Garcia SL, ..., Buck M, Peura S
Front Microbiol 12 (-) 669937 [2021-08-12; online 2021-08-12]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Diffusible signal factor signaling controls bioleaching activity and niche protection in the acidophilic, mineral-oxidizing leptospirilli.
Bellenberg S, Salas B, Ganji S, ..., Dopson M, Vera M
Sci Rep 11 (1) 16275 [2021-08-11; online 2021-08-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Sensitive Measurement of Drug-Target Engagement by a Cellular Thermal Shift Assay with Multiplex Proximity Extension Readout.
Al-Amin RA, Gallant CJ, Muthelo PM, Landegren U
Anal. Chem. 93 (31) 10999-11009 [2021-08-10; online 2021-07-28]
Affinity Proteomics Uppsala [Service]
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A Super-Resolved View of the Alzheimer's Disease-Related Amyloidogenic Pathway in Hippocampal Neurons.
Yu Y, Gao Y, Winblad B, Tjernberg LO, Schedin-Weiss S
J. Alzheimers Dis. 83 (2) 833-852 [2021-08-10; online 2021-08-10]
Integrated Microscopy Technologies Stockholm [Service]
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Genome assemblies of three closely related leaf beetle species (Galerucella spp.).
Yang X, Slotte T, Dainat J, Hambäck PA
G3 (Bethesda) 11 (8) - [2021-08-07; online 2021-12-02]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Mutational patterns and clonal evolution from diagnosis to relapse in pediatric acute lymphoblastic leukemia.
Sayyab S, Lundmark A, Larsson M, ..., Nordlund J, Syvänen A
Sci Rep 11 (1) 15988 [2021-08-06; online 2021-08-06]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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High-Resolution Proteomic Profiling Shows Sexual Dimorphism in Zebrafish Heart-Associated Proteins.
Niksirat H, Siino V, Steinbach C, Levander F
J. Proteome Res. 20 (8) 4075-4088 [2021-08-06; online 2021-06-29]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Shifts in gene expression variability in the blood-stage of Plasmodium relictum.
Kalbskopf V, Ahrén D, Valkiūnas G, Palinauskas V, Hellgren O
Gene 792 (-) 145723 [2021-08-05; online 2021-05-18]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Complete Genome Sequence and Methylome of the Type Strain of Shewanella algae.
Tellgren-Roth C, Thorell K, Galperin MY, ..., Sjöling Å, Martín-Rodríguez AJ
Microbiol Resour Announc 10 (31) e0055921 [2021-08-05; online 2021-08-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Single-cell multimodal analysis in a case with reduced penetrance of Progranulin-Frontotemporal Dementia.
Natarajan K, Eisfeldt J, Hammond M, ..., Öijerstedt L, Graff C
Acta Neuropathol Commun 9 (1) 132 [2021-08-03; online 2021-08-03]
Affinity Proteomics Uppsala [Technology development] Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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PopulusPtERF85 Balances Xylem Cell Expansion and Secondary Cell Wall Formation in Hybrid Aspen.
Seyfferth C, Wessels BA, Vahala J, ..., Tuominen H, Lundberg-Felten J
Cells 10 (8) 1971 [2021-08-03; online 2021-08-03]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Persisting Salivary IgG Against SARS-CoV-2 at 9 Months After Mild COVID-19: A Complementary Approach to Population Surveys.
Alkharaan H, Bayati S, Hellström C, ..., Pin E, Sällberg Chen M
J. Infect. Dis. 224 (3) 407-414 [2021-08-02; online 2021-05-13]
Autoimmunity and Serology Profiling [Collaborative]
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Three weeks of interrupting sitting lowers fasting glucose and glycemic variability, but not glucose tolerance, in free-living women and men with obesity.
Smith JAB, Savikj M, Sethi P, ..., Zierath JR, Näslund E
Am J Physiol Endocrinol Metab 321 (2) E203-E216 [2021-08-01; online 2021-06-21]
Swedish Metabolomics Centre (SMC) [Service]
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Single-cell atlas reveals meningeal leukocyte heterogeneity in the developing mouse brain.
Zelco A, Börjesson V, de Kanter JK, ..., Holstege FCP, Wang X
Genes Dev. 35 (15-16) 1190-1207 [2021-08-01; online 2021-07-22]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Genome-wide estrogen receptor β chromatin binding in human colon cancer cells reveals its tumor suppressor activity.
Indukuri R, Jafferali MH, Song D, ..., Archer A, Williams C
Int. J. Cancer 149 (3) 692-706 [2021-08-01; online 2021-04-05]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Transcriptional study reveals a potential leptin-dependent gene regulatory network in zebrafish brain.
Ahi EP, Tsakoumis E, Brunel M, Schmitz M
Fish Physiol Biochem 47 (4) 1283-1298 [2021-08-00; online 2021-07-08]
Genome Engineering Zebrafish [Service]
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The exon-junction complex helicase eIF4A3 controls cell fate via coordinated regulation of ribosome biogenesis and translational output.
Kanellis DC, Espinoza JA, Zisi A, ..., Lindström MS, Bartek J
Sci Adv 7 (32) - [2021-08-00; online 2021-08-04]
Global Proteomics and Proteogenomics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The effects of chemical and structural factors on the enzymatic saccharification of Eucalyptus sp. samples pre-treated by various technologies
Thoresen M, Malgas S, Gandla ML, ..., Sithole B, Pletschke BI
Industrial Crops and Products 166 (-) 113449 [2021-08-00; online 2021-08-00]
Swedish NMR Centre (SNC) [Service]
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The Babytwins Study Sweden (BATSS): A Multi-Method Infant Twin Study of Genetic and Environmental Factors Influencing Infant Brain and Behavioral Development.
Falck-Ytter T, Hamrefors L, Siqueiros Sanches M, ..., Tammimies K, Ronald A
Twin Res Hum Genet 24 (4) 217-227 [2021-08-00; online 2021-09-15]
Bioinformatics Support for Computational Resources [Service]
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Terrestrial dissolved organic matter inflow drives temporal dynamics of the bacterial community of a subarctic estuary (northern Baltic Sea).
Figueroa D, Capo E, Lindh MV, ..., Pinhassi J, Andersson A
Environ. Microbiol. 23 (8) 4200-4213 [2021-08-00; online 2021-06-01]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Strong Associations Between Early Tubular Damage and Urinary Cytokine, Chemokine, and Growth Factor Levels in Elderly Males and Females.
Fellström B, Helmersson-Karlqvist J, Lind L, ..., Kultima K, Larsson A
Journal of Interferon & Cytokine Research 41 (8) 283-290 [2021-08-00; online 2021-08-20]
Affinity Proteomics Uppsala [Service]
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Serum profiling of anorexia nervosa: A 1H NMR-based metabolomics study.
Salehi M A, Nilsson IA, Figueira J, ..., Bulik CM, Landén M
Eur Neuropsychopharmacol 49 (-) 1-10 [2021-08-00; online 2021-03-18]
Swedish NMR Centre (SNC) [Collaborative]
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SFRP2 induces a mesenchymal subtype transition by suppression of SOX2 in glioblastoma.
Guo M, Goudarzi KM, Abedi S, ..., Nistér M, Hägerstrand D
Oncogene 40 (32) 5066-5080 [2021-08-00; online 2021-05-21]
Global Proteomics and Proteogenomics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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SARS-CoV-2 infections amongst personnel providing home care services for older persons in Stockholm, Sweden.
Hassan SS, Seigerud Å, Abdirahman R, ..., Conneryd Lundgren K, Dillner J
J. Intern. Med. 290 (2) 430-436 [2021-08-00; online 2021-04-12]
Autoimmunity and Serology Profiling [Service]
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Quantitative proteomic analysis to identify differentially expressed proteins in patients with epilepsy.
Banote RK, Larsson D, Berger E, Kumlien E, Zelano J
Epilepsy Res 174 (-) 106674 [2021-08-00; online 2021-05-15]
Glycoproteomics and MS Proteomics [Collaborative]
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Plasma proteome alterations by MAPK inhibitors in BRAFV600-mutated metastatic cutaneous melanoma.
Babačić H, Eriksson H, Pernemalm M
Neoplasia 23 (8) 783-791 [2021-08-00; online 2021-07-08]
Affinity Proteomics Uppsala [Service]
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Optimization of droplet digital PCR assays for the type-specific detection and quantification of five HPV genotypes, including additional data on viral loads of nine different HPV genotypes in cervical carcinomas.
Malin K, Louise BM, Gisela H, Mats KG, Gabriella L
J Virol Methods 294 (-) 114193 [2021-08-00; online 2021-05-19]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Molecular architecture of the developing mouse brain.
La Manno G, Siletti K, Furlan A, ..., Lönnerberg P, Linnarsson S
Nature 596 (7870) 92-96 [2021-08-00; online 2021-07-28]
In Situ Sequencing (ISS) [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Long- and short-read metabarcoding technologies reveal similar spatiotemporal structures in fungal communities.
Furneaux B, Bahram M, Rosling A, Yorou NS, Ryberg M
Mol Ecol Resour 21 (6) 1833-1849 [2021-08-00; online 2021-05-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Human MAIT cells endowed with HBV specificity are cytotoxic and migrate towards HBV-HCC while retaining antimicrobial functions.
Healy K, Pavesi A, Parrot T, ..., Bertoletti A, Sällberg Chen M
JHEP Rep 3 (4) 100318 [2021-08-00; online 2021-06-11]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Genomic inference of contemporary effective population size in a large island population of collared flycatchers (Ficedula albicollis).
Nadachowska-Brzyska K, Dutoit L, Smeds L, ..., Gustafsson L, Ellegren H
Mol. Ecol. 30 (16) 3965-3973 [2021-08-00; online 2021-07-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genetic insights into biological mechanisms governing human ovarian ageing.
Ruth KS, Day FR, Hussain J, ..., Roig I, Perry JRB
Nature 596 (7872) 393-397 [2021-08-00; online 2021-08-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Founder effects facilitate the use of a genotyping-based approach to molecular diagnosis in Swedish patients with familial hypercholesterolaemia.
Benedek P, Jiao H, Duvefelt K, ..., Eriksson M, Angelin B
J. Intern. Med. 290 (2) 404-415 [2021-08-00; online 2021-05-06]
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Kwong WL, Wågberg T, Messinger J
International Journal of Hydrogen Energy 46 (59) 30366-30372 [2021-08-00; online 2021-08-00]
Swedish NMR Centre (SNC) [Service]
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Dynamics of Baltic Sea phages driven by environmental changes.
Hoetzinger M, Nilsson E, Arabi R, ..., Middelboe M, Holmfeldt K
Environ. Microbiol. 23 (8) 4576-4594 [2021-08-00; online 2021-07-07]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Decidual stromal cells support tolerance at the human foetal-maternal interface by inducing regulatory M2 macrophages and regulatory T-cells.
Lindau R, Vondra S, Spreckels J, ..., Jenmalm MC, Ernerudh J
J Reprod Immunol 146 (-) 103330 [2021-08-00; online 2021-05-12]
Affinity Proteomics Uppsala [Service]
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Cystatin B-deficiency triggers ectopic histone H3 tail cleavage during neurogenesis.
Daura E, Tegelberg S, Yoshihara M, ..., Lehesjoki AE, Joensuu T
Neurobiol. Dis. 156 (-) 105418 [2021-08-00; online 2021-06-05]
Bioinformatics Support for Computational Resources [Service]
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Comparison of RNA- and DNA-based methods for measurable residual disease analysis in NPM1-mutated acute myeloid leukemia.
Pettersson L, Johansson Alm S, Almstedt A, ..., Fogelstrand L, Ehinger M
Int J Lab Hematol 43 (4) 664-674 [2021-08-00; online 2021-05-30]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Co-mutation pattern, clonal hierarchy, and clone size concur to determine disease phenotype of SRSF2P95-mutated neoplasms.
Todisco G, Creignou M, Gallì A, ..., Cazzola M, Malcovati L
Leukemia 35 (8) 2371-2381 [2021-08-00; online 2020-12-21]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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Antibody responses after a single dose of ChAdOx1 nCoV-19 vaccine in healthcare workers previously infected with SARS-CoV-2.
Havervall S, Marking U, Greilert-Norin N, ..., Åberg M, Thålin C
EBioMedicine 70 (-) 103523 [2021-08-00; online 2021-08-12]
Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
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Anti-tumor effects of rigosertib in high-risk neuroblastoma.
Radke K, Hansson K, Sjölund J, ..., Gisselsson D, Bexell D
Transl Oncol 14 (8) 101149 [2021-08-00; online 2021-06-09]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Matisse: a MATLAB-based analysis toolbox for in situ sequencing expression maps.
Marco Salas S, Gyllborg D, Mattsson Langseth C, Nilsson M
BMC Bioinformatics 22 (1) 391 [2021-07-31; online 2021-07-31]
In Situ Sequencing (ISS) [Technology development]
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High-resolution model of Arabidopsis Photosystem II reveals the structural consequences of digitonin-extraction.
Graça AT, Hall M, Persson K, Schröder WP
Sci Rep 11 (1) 15534 [2021-07-30; online 2021-07-30]
Cryo-EM [Collaborative]
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Genetic association study of childhood aggression across raters, instruments, and age.
Ip HF, van der Laan CM, Krapohl EML, ..., Nivard MG, Boomsma DI
Transl Psychiatry 11 (1) 413 [2021-07-30; online 2021-07-30]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Bacterial Composition and Metabolomics of Dental Plaque From Adolescents.
Havsed K, Stensson M, Jansson H, ..., Svensäter G, Mira A
Front. Cell. Infect. Microbiol. 11 (-) 716493 [2021-07-30; online 2021-07-30]
Swedish NMR Centre (SNC) [Collaborative]
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Neuroinflammation and Alzheimer's Disease: A Machine Learning Approach to CSF Proteomics.
Gaetani L, Bellomo G, Parnetti L, ..., Zetterberg H, Di Filippo M
Cells 10 (8) - [2021-07-29; online 2021-07-29]
Affinity Proteomics Uppsala [Service]
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Genetic Barriers to Historical Gene Flow between Cryptic Species of Alpine Bumblebees Revealed by Comparative Population Genomics.
Christmas MJ, Jones JC, Olsson A, ..., Geib JC, Webster MT
Mol. Biol. Evol. 38 (8) 3126-3143 [2021-07-29; online 2021-04-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure
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Complex population structure of the Atlantic puffin revealed by whole genome analyses.
Kersten O, Star B, Leigh DM, ..., Jakobsen KS, Boessenkool S
Commun Biol 4 (1) 922 [2021-07-29; online 2021-07-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Unraveling negative biotic interactions determining soil microbial community assembly and functioning.
Romdhane S, Spor A, Aubert J, ..., Tsiknia M, Philippot L
ISME J - (-) - [2021-07-28; online 2021-07-28]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Strong Associations between Plasma Osteopontin and Several Inflammatory Chemokines, Cytokines, and Growth Factors.
Larsson A, Helmersson-Karlqvist J, Lind L, Ärnlöv J, Feldreich TR
Biomedicines 9 (8) - [2021-07-28; online 2021-07-28]
Affinity Proteomics Uppsala [Service]
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Single-cell analysis of mosquito hemocytes identifies signatures of immune cell subtypes and cell differentiation.
Kwon H, Mohammed M, Franzén O, Ankarklev J, Smith RC
Elife 10 (-) - [2021-07-28; online 2021-07-28]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] Microbial Single Cell Genomics NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Metabolomics analysis for diagnosis and biomarker discovery of transthyretin amyloidosis.
Olsson M, Hellman U, Wixner J, Anan I
Amyloid - (-) 1-9 [2021-07-28; online 2021-07-28]
Swedish Metabolomics Centre (SMC) [Service]
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Super-resolution microscopy reveals that Na+/K+-ATPase signaling protects against glucose-induced apoptosis by deactivating Bad.
Bernhem K, Fontana JM, Svensson D, ..., Brismar H, Aperia A
Cell Death Dis 12 (8) 739 [2021-07-27; online 2021-07-27]
Integrated Microscopy Technologies Stockholm [Technology development]
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Genome-scale metabolic network reconstruction of model animals as a platform for translational research.
Wang H, Robinson JL, Kocabas P, ..., Zetterberg H, Nielsen J
Proc. Natl. Acad. Sci. U.S.A. 118 (30) e2102344118 [2021-07-27; online 2021-07-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Technology development]
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Solution Structure of the dATP-Inactivated Class I Ribonucleotide Reductase From Leeuwenhoekiella blandensis by SAXS and Cryo-Electron Microscopy.
Hasan M, Banerjee I, Rozman Grinberg I, Sjöberg BM, Logan DT
Front Mol Biosci 8 (-) 713608 [2021-07-26; online 2021-07-26]
Cryo-EM [Service]
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Mass Spectrometry Proteotyping-Based Detection and Identification of Staphylococcus aureus, Escherichia coli, and Candida albicans in Blood.
Kondori N, Kurtovic A, Piñeiro-Iglesias B, ..., Moore ERB, Karlsson R
Front. Cell. Infect. Microbiol. 11 (-) 634215 [2021-07-26; online 2021-07-26]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] Glycoproteomics and MS Proteomics [Service]
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Leukocytes with chromosome Y loss have reduced abundance of the cell surface immunoprotein CD99.
Mattisson J, Danielsson M, Hammond M, ..., Halvardson J, Forsberg LA
Sci Rep 11 (1) 15160 [2021-07-26; online 2021-07-26]
Affinity Proteomics Uppsala [Technology development] Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Genome of Peştera Muierii skull shows high diversity and low mutational load in pre-glacial Europe.
Svensson E, Günther T, Hoischen A, ..., Netea MG, Jakobsson M
Curr. Biol. 31 (14) 2973-2983.e9 [2021-07-26; online 2021-05-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Association between Cardiorespiratory Fitness and Circulating Proteins in 50-Year-Old Swedish Men and Women: a Cross-Sectional Study.
Enarsson M, Feldreich T, Byberg L, ..., Lind L, Ärnlöv J
Sports Med Open 7 (1) 52 [2021-07-26; online 2021-07-26]
Affinity Proteomics Uppsala [Service]
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The enigmatic RNase MRP of kinetoplastids.
Alm Rosenblad M, López MD, Samuelsson T
RNA Biol - (-) 1-9 [2021-07-25; online 2021-07-25]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Identification of Novel Positive Allosteric Modulators of Neurotrophin Receptors for the Treatment of Cognitive Dysfunction.
Dahlström M, Madjid N, Nordvall G, ..., Eriksdotter M, Forsell P
Cells 10 (8) - [2021-07-23; online 2021-07-23]
Chemical Biology Consortium Sweden (CBCS) [Service]
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A genome sequence resource for the genus Passiflora, the genome of the wild diploid species Passiflora organensis.
Costa ZP, Varani AM, Cauz-Santos LA, ..., Monteiro-Vitorello CB, Carneiro Vieira ML
Plant Genome - (-) e20117 [2021-07-23; online 2021-07-23]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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The Promotor and Poison Effects of the Inorganic Elements of Kraft Lignin during Hydrotreatment over NiMoS Catalyst
Sebastian J, Cheah YW, Bernin D, Creaser D, Olsson L
Catalysts 11 (8) 874 [2021-07-21; online 2021-07-21]
Swedish NMR Centre (SNC) [Service]
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Dynamic Connection between Enzymatic Catalysis and Collective Protein Motions.
Ojeda-May P, Mushtaq AU, Rogne P, ..., Wolf-Watz M, Nam K
Biochemistry 60 (28) 2246-2258 [2021-07-20; online 2021-07-12]
Swedish NMR Centre (SNC) [Service]
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A search for modifying genetic factors in CHEK2:c.1100delC breast cancer patients.
Wendt C, Muranen TA, Mielikäinen L, ..., Borg Å, Lindblom A
Sci Rep 11 (1) 14763 [2021-07-20; online 2021-07-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Systematic evaluation of SARS-CoV-2 antigens enables a highly specific and sensitive multiplex serological COVID-19 assay.
Hober S, Hellström C, Olofsson J, ..., Hedhammar M, Nilsson P
Clin Transl Immunology 10 (7) e1312 [2021-07-19; online 2021-07-19]
Autoimmunity and Serology Profiling [Technology development]
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DNA Methylation-Based Interferon Scores Associate With Sub-Phenotypes in Primary Sjögren's Syndrome.
Imgenberg-Kreuz J, Sandling JK, Norheim KB, ..., Eloranta ML, Nordmark G
Front Immunol 12 (-) 702037 [2021-07-16; online 2021-07-16]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Large-scale serum analysis identifies unique systemic biomarkers in psoriasis and hidradenitis suppurativa.
Navrazhina K, Renert-Yuval Y, Frew JW, ..., Garcet S, Krueger JG
Br J Dermatol - (-) - [2021-07-13; online 2021-07-13]
Affinity Proteomics Uppsala [Service]
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Comparative Genomics of Clinical Isolates of the Emerging Tick-Borne Pathogen Neoehrlichia mikurensis.
Grankvist A, Jaén-Luchoro D, Wass L, Sikora P, Wennerås C
Microorganisms 9 (7) - [2021-07-13; online 2021-07-13]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Energy efficiency and biological interactions define the core microbiome of deep oligotrophic groundwater.
Mehrshad M, Lopez-Fernandez M, Sundh J, ..., Bertilsson S, Dopson M
Nat Commun 12 (1) 4253 [2021-07-12; online 2021-07-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Computing the orientational-average of diffusion-weighted MRI signals: a comparison of different techniques.
Afzali M, Knutsson H, Özarslan E, Jones DK
Sci Rep 11 (1) 14345 [2021-07-12; online 2021-07-12]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Wide-Ranging Effects on the Brain Proteome in a Transgenic Mouse Model of Alzheimer's Disease Following Treatment with a Brain-Targeting Somatostatin Peptide.
Rofo F, Sandbaumhüter FA, Chourlia A, ..., Jansson ET, Hultqvist G
ACS Chem Neurosci 12 (13) 2529-2541 [2021-07-07; online 2021-06-25]
Spatial Mass Spectrometry [Collaborative]
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Therapeutic Cancer Vaccination with Immunopeptidomics-Discovered Antigens Confers Protective Antitumor Efficacy.
Peltonen K, Feola S, Umer HM, ..., Lehtiö J, Cerullo V
Cancers (Basel) 13 (14) - [2021-07-07; online 2021-07-07]
Global Proteomics and Proteogenomics [Technology development]
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Single-cell RNAseq and longitudinal proteomic analysis of a novel semi-spontaneous urothelial cancer model reveals tumor cell heterogeneity and pretumoral urine protein alterations.
Kerzeli IK, Lord M, Doroszko M, ..., Segersten U, Mangsbo SM
PLoS ONE 16 (7) e0253178 [2021-07-07; online 2021-07-07]
Affinity Proteomics Uppsala [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genomic Predictions With Nonadditive Effects Improved Estimates of Additive Effects and Predictions of Total Genetic Values in Pinus sylvestris.
Calleja-Rodriguez A, Chen Z, Suontama M, Pan J, Wu HX
Front Plant Sci 12 (-) 666820 [2021-07-07; online 2021-07-07]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Common and mutation specific phenotypes of KRAS and BRAF mutations in colorectal cancer cells revealed by integrative -omics analysis.
Kundu S, Ali MA, Handin N, ..., Globisch D, Sjöblom T
J. Exp. Clin. Cancer Res. 40 (1) 225 [2021-07-07; online 2021-07-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The Assembled and Annotated Genome of the Fairy-Ring Fungus Marasmius oreades.
Hiltunen M, Ament-Velásquez SL, Johannesson H
Genome Biol Evol 13 (7) - [2021-07-06; online 2021-05-30]
Bioinformatics Support for Computational Resources [Service]
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Pharmacological activation of p53 triggers viral mimicry response thereby abolishing tumor immune evasion and promoting anti-tumor immunity.
Zhou X, Singh M, Sanz Santos G, ..., Johnsen JI, Selivanova G
Cancer Discov - (-) - [2021-07-06; online 2021-07-06]
Cellular Immunomonitoring [Service]
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High-Quality Genome Assembly and Comprehensive Transcriptome of the Painted Lady Butterfly Vanessa cardui.
Zhang L, Steward RA, Wheat CW, Reed RD
Genome Biol Evol 13 (7) - [2021-07-06; online 2021-07-21]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Comparative Genomics Reveals Factors Associated with Phenotypic Expression of Wolbachia.
Baião GC, Janice J, Galinou M, Klasson L
Genome Biol Evol 13 (7) - [2021-07-06; online 2021-05-19]
Bioinformatics Support for Computational Resources [Service]
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Chick fetal organ spheroids as a model to study development and disease.
Dakhel S, Davies WIL, Joseph JV, ..., Remeseiro S, Gunhaga L
BMC Mol Cell Biol 22 (1) 37 [2021-07-05; online 2021-07-05]
Integrated Microscopy Technologies Umeå [Service]
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Candidate regulators and target genes of drought stress in needles and roots of Norway spruce.
Haas JC, Vergara A, Serrano AR, ..., Hurry V, Street NR
Tree Physiol 41 (7) 1230-1246 [2021-07-05; online 2021-01-09]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Metabolic Profiling of Plasma in Patients with Irritable Bowel Syndrome after a 4-Week Starch- and Sucrose-Reduced Diet.
Stenlund H, Nilholm C, Chorell E, ..., D'Amato M, Ohlsson B
Metabolites 11 (7) - [2021-07-04; online 2021-07-04]
Swedish Metabolomics Centre (SMC) [Collaborative]
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Comparative analyses of the Hymenoscyphus fraxineus and Hymenoscyphus albidus genomes reveals potentially adaptive differences in secondary metabolite and transposable element repertoires.
Elfstrand M, Chen J, Cleary M, ..., Stadler M, Durling MB
BMC Genomics 22 (1) 503 [2021-07-04; online 2021-07-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Real-world effectiveness of vedolizumab in inflammatory bowel disease: week 52 results from the Swedish prospective multicentre SVEAH study.
Eriksson C, Rundquist S, Lykiardopoulos V, ..., Halfvarson J, SWIBREG SVEAH Study Group
Therap Adv Gastroenterol 14 (-) 17562848211023386 [2021-07-03; online 2021-07-03]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Liquid biopsy as an option for predictive testing and prognosis in patients with lung cancer.
Qvick A, Stenmark B, Carlsson J, ..., Karlsson C, Helenius G
Mol. Med. 27 (1) 68 [2021-07-03; online 2021-07-03]
Clinical Genomics [Technology development] Clinical Genomics Örebro [Technology development]
PubMed DOI Crossref
Gene Regulatory Network of Human GM-CSF-Secreting T Helper Cells.
Éliás S, Schmidt A, Gomez-Cabrero D, Tegnér J
J Immunol Res 2021 (-) 8880585 [2021-07-03; online 2021-07-03]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
High Amounts of SARS-CoV-2 Precede Sickness Among Asymptomatic Health Care Workers.
Dillner J, Elfström KM, Blomqvist J, ..., Arroyo Mühr LS, Lundgren KC
J. Infect. Dis. 224 (1) 14-20 [2021-07-02; online 2021-02-14]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
TAAR1-Dependent and -Independent Actions of Tyramine in Interaction With Glutamate Underlie Central Effects of Monoamine Oxidase Inhibition.
Mantas I, Vallianatou T, Yang Y, ..., Andrén PE, Svenningsson P
Biol. Psychiatry 90 (1) 16-27 [2021-07-01; online 2020-12-19]
Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
Structural determinants of multimerization and dissociation in 2-Cys peroxiredoxin chaperone function.
Troussicot L, Burmann BM, Molin M
Structure 29 (7) 640-654 [2021-07-01; online 2021-05-03]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Whole genome sequencing reveals high differentiation, low levels of genetic diversity and short runs of homozygosity among Swedish wels catfish.
Jensen A, Lillie M, Bergström K, Larsson P, Höglund J
Heredity (Edinb) 127 (1) 79-91 [2021-07-00; online 2021-05-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Variants in BANK1 are associated with lupus nephritis of European ancestry.
Bolin K, Imgenberg-Kreuz J, Leonard D, ..., Rönnblom L, Nordmark G
Genes Immun. 22 (3) 194-202 [2021-07-00; online 2021-06-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Thermal proteome profiling identifies PIP4K2A and ZADH2 as off-targets of Polo-like kinase 1 inhibitor volasertib.
Goroshchuk O, Kolosenko I, Kunold E, ..., Jafari R, Palm-Apergi C
FASEB J. 35 (7) e21741 [2021-07-00; online 2021-06-19]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
The mitochondrial single-stranded DNA binding protein is essential for initiation of mtDNA replication.
Jiang M, Xie X, Zhu X, ..., Larsson NG, Falkenberg M
Sci Adv 7 (27) - [2021-07-00; online 2021-07-02]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
The genomics of phenotypically differentiated Asellus aquaticus cave, surface stream and lake ecotypes.
Bakovic V, Martin Cerezo ML, Höglund A, ..., Hargeby A, Wright D
Mol. Ecol. 30 (14) 3530-3547 [2021-07-00; online 2021-06-08]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The IgGFc-binding protein FCGBP is secreted with all GDPH sequences cleaved but maintained by interfragment disulfide bonds.
Ehrencrona E, van der Post S, Gallego P, ..., Hansson GC, Johansson MEV
J. Biol. Chem. 297 (1) 100871 [2021-07-00; online 2021-06-11]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Technical in-depth comparison of two massive parallel DNA-sequencing methods for formalin-fixed paraffin-embedded tissue from victims of sudden cardiac death.
Adolfsson E, Qvick A, Gréen H, ..., Jonasson J, Gréen A
Forensic Sci Int Genet 53 (-) 102522 [2021-07-00; online 2021-04-26]
Clinical Genomics [Technology development] Clinical Genomics Örebro [Technology development]
PubMed DOI Crossref
Synthetic bacterial vesicles combined with tumour extracellular vesicles as cancer immunotherapy.
Park KS, Svennerholm K, Crescitelli R, ..., Gribonika I, Lötvall J
J Extracell Vesicles 10 (9) e12120 [2021-07-00; online 2021-07-03]
Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Spatial visualization of comprehensive brain neurotransmitter systems and neuroactive substances by selective in situ chemical derivatization mass spectrometry imaging.
Shariatgorji R, Nilsson A, Fridjonsdottir E, ..., Odell LR, Andrén PE
Nat Protoc 16 (7) 3298-3321 [2021-07-00; online 2021-06-02]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Single‐cell sequencing in translational cancer research and challenges to meet clinical diagnostic needs
Pfisterer U, Bräunig J, Brattås P, ..., Karlsson G, Fioretos T
Genes Chromosomes Cancer 60 (7) 504-524 [2021-07-00; online 2021-03-15]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Single-cell CUT&Tag profiles histone modifications and transcription factors in complex tissues.
Bartosovic M, Kabbe M, Castelo-Branco G
Nat. Biotechnol. 39 (7) 825-835 [2021-07-00; online 2021-04-12]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Collaborative] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Severe COVID-19 in an APS1 patient with interferon autoantibodies treated with plasmapheresis
Lemarquis A, Campbell T, Aranda-Guillén M, ..., Berg S, Ekwall O
Journal of Allergy and Clinical Immunology 148 (1) 96-98 [2021-07-00; online 2021-07-00]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
STED and parallelized RESOLFT optical nanoscopy of the tubular endoplasmic reticulum and its mitochondrial contacts in neuronal cells
Damenti M, Coceano G, Pennacchietti F, Bodén A, Testa I
Neurobiology of Disease 155 (-) 105361 [2021-07-00; online 2021-07-00]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Quality of phytoplankton deposition structures bacterial communities at the water-sediment interface.
Izabel-Shen D, Albert S, Winder M, Farnelid H, Nascimento FJA
Mol. Ecol. 30 (14) 3515-3529 [2021-07-00; online 2021-06-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Plasma S1P (Sphingosine-1-Phosphate) Links to Hypertension and Biomarkers of Inflammation and Cardiovascular Disease: Findings From a Translational Investigation.
Jujic A, Matthes F, Vanherle L, ..., Magnusson M, Meissner A
Hypertension 78 (1) 195-209 [2021-07-00; online 2021-05-17]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
On the origin of the widespread self-compatible allotetraploid Capsella bursa-pastoris (Brassicaceae).
Bachmann JA, Tedder A, Fracassetti M, ..., Köhler C, Slotte T
Heredity (Edinb) 127 (1) 124-134 [2021-07-00; online 2021-04-19]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Non-uniform sampling for NOESY? A case study on spiramycin.
Wieske LHE, Erdélyi M
Magn Reson Chem 59 (7) 723-737 [2021-07-00; online 2021-02-02]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Nicotinamide provides neuroprotection in glaucoma by protecting against mitochondrial and metabolic dysfunction.
Tribble JR, Otmani A, Sun S, ..., Votruba M, Williams PA
Redox Biol 43 (-) 101988 [2021-07-00; online 2021-04-24]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Monocytes in sarcoidosis are potent tumour necrosis factor producers and predict disease outcome.
Lepzien R, Liu S, Czarnewski P, ..., Grunewald J, Smed-Sörensen A
Eur. Respir. J. 58 (1) 2003468 [2021-07-00; online 2021-07-22]
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PubMed DOI Crossref
Molecular evaluation of five different isolation methods for extracellular vesicles reveals different clinical applicability and subcellular origin.
Veerman RE, Teeuwen L, Czarnewski P, ..., Gabrielsson S, Eldh M
J Extracell Vesicles 10 (9) e12128 [2021-07-00; online 2021-07-22]
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PubMed DOI Crossref
Mammuthus sp. (Early and Middle Pleistocene Mammoths).
Pečnerová P, Díez-Del-Molino D, van der Valk T, ..., Götherström A, Dalén L
Trends Genet. 37 (7) 682-683 [2021-07-00; online 2021-05-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Lack of diagnostic-escape mutants of group B streptococcus in Slovenia.
Perme T, Golparian D, Unemo M, Jeverica S
Clin. Microbiol. Infect. 27 (7) 1054-1055 [2021-07-00; online 2021-02-02]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Insights into the multitrophic interactions between the biocontrol agent Bacillus subtilis MBI 600, the pathogen Botrytis cinerea and their plant host.
Samaras A, Karaoglanidis GS, Tzelepis G
Microbiol Res 248 (-) 126752 [2021-07-00; online 2021-04-02]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Human Primary Airway Basal Cells Display a Continuum of Molecular Phases from Health to Disease in Chronic Obstructive Pulmonary Disease.
Wijk SC, Prabhala P, Michaliková B, ..., Westergren-Thorsson G, Magnusson M
Am J Respir Cell Mol Biol 65 (1) 103-113 [2021-07-00; online 2021-04-01]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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High throughput shotgun sequencing of eRNA reveals taxonomic and derived functional shifts across a benthic productivity gradient.
Broman E, Bonaglia S, Norkko A, Creer S, Nascimento FJA
Mol. Ecol. 30 (13) 3023-3039 [2021-07-00; online 2020-08-19]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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HIV-Infected Individuals on ART With Impaired Immune Recovery Have Altered Plasma Metabolite Profiles.
Nyström S, Govender M, Yap SH, ..., Rajasuriar R, Larsson M
Open Forum Infect Dis 8 (7) ofab288 [2021-07-00; online 2021-06-02]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Genomic signatures of rapid adaptive divergence in a tropical montane species.
Ericson PGP, Irestedt M, She H, Qu Y
Biol. Lett. 17 (7) 20210089 [2021-07-00; online 2021-07-28]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Gene regulation of the avian malaria parasite Plasmodium relictum, during the different stages within the mosquito vector.
Sekar V, Rivero A, Pigeault R, ..., Ahren D, Hellgren O
Genomics 113 (4) 2327-2337 [2021-07-00; online 2021-05-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
FGFR1 overexpression in non-small cell lung cancer is mediated by genetic and epigenetic mechanisms and is a determinant of FGFR1 inhibitor response.
Bogatyrova O, Mattsson JSM, Ross EM, ..., Esdar C, Micke P
Eur. J. Cancer 151 (-) 136-149 [2021-07-00; online 2021-05-10]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Extreme Y chromosome polymorphism corresponds to five male reproductive morphs of a freshwater fish.
Sandkam BA, Almeida P, Darolti I, ..., Breden F, Mank JE
Nat Ecol Evol 5 (7) 939-948 [2021-07-00; online 2021-05-06]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exercise training improves mitochondrial respiration and is associated with an altered intramuscular phospholipid signature in women with obesity.
Mendham AE, Goedecke JH, Zeng Y, ..., Olsson T, Chorell E
Diabetologia 64 (7) 1642-1659 [2021-07-00; online 2021-03-26]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Bifidobacteria-mediated immune system imprinting early in life
Henrick BM, Rodriguez L, Lakshmikanth T, ..., Frese SA, Brodin P
Cell 184 (15) 3884-3898.e11 [2021-07-00; online 2021-07-00]
Affinity Proteomics Stockholm [Service] Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] Cellular Immunomonitoring [Technology development] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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An ARHGAP25 variant links aberrant Rac1 function to early-onset skeletal fragility.
Mäkitie RE, Henning P, Jiu Y, ..., Lappalainen P, Mäkitie O
JBMR Plus 5 (7) e10509 [2021-07-00; online 2021-06-07]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
A single-cell type transcriptomics map of human tissues.
Karlsson M, Zhang C, Méar L, ..., Uhlén M, Lindskog C
Sci Adv 7 (31) eabh2169 [2021-07-00; online 2021-07-28]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
A group of ectomycorrhizal fungi restricts organic matter accumulation in boreal forest.
Lindahl BD, Kyaschenko J, Varenius K, ..., Karltun E, Stendahl J
Ecol. Lett. 24 (7) 1341-1351 [2021-07-00; online 2021-05-02]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Towards Bioleaching of a Vanadium Containing Magnetite for Metal Recovery.
Bellenberg S, Turner S, Seidel L, ..., Leiviskä T, Dopson M
Front Microbiol 12 (-) 693615 [2021-06-30; online 2021-06-30]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
DNA metabarcoding reveals trophic niche diversity of micro and mesozooplankton species.
Novotny A, Zamora-Terol S, Winder M
Proc. Biol. Sci. 288 (1953) 20210908 [2021-06-30; online 2021-06-16]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Combined prenatal Lactobacillus reuteri and ω-3 supplementation synergistically modulates DNA methylation in neonatal T helper cells.
Huoman J, Martínez-Enguita D, Olsson E, ..., Gustafsson M, Jenmalm MC
Clin Epigenetics 13 (1) 135 [2021-06-30; online 2021-06-30]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Proteomic Profiling of Tissue Exosomes Indicates Continuous Release of Malignant Exosomes in Urinary Bladder Cancer Patients, Even with Pathologically Undetectable Tumour.
Eldh M, Mints M, Hiltbrunner S, ..., Sherif A, Gabrielsson S
Cancers (Basel) 13 (13) - [2021-06-29; online 2021-06-29]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Inhibition of iduronic acid biosynthesis by ebselen reduces GAG accumulation in MPS-I fibroblasts.
Maccarana M, Tykesson E, Pera EM, ..., Ghiselli G, Li J
Glycobiology - (-) - [2021-06-29; online 2021-06-29]
Chemical Biology Consortium Sweden (CBCS) [Service]
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Genomic and Phenotypic Evolution of Achromobacter xylosoxidans during Chronic Airway Infections of Patients with Cystic Fibrosis.
Khademi SMH, Gabrielaite M, Paulsson M, ..., Marvig RL, Påhlman LI
mSystems - (-) e0052321 [2021-06-29; online 2021-06-29]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Genome-wide association studies identify 137 genetic loci for DNA methylation biomarkers of aging.
McCartney DL, Min JL, Richmond RC, ..., Horvath S, Marioni RE
Genome Biol. 22 (1) 194 [2021-06-29; online 2021-06-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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An Hsp90 co-chaperone links protein folding and degradation and is part of a conserved protein quality control.
Eisele F, Eisele-Bürger AM, Hao X, ..., Liu B, Nyström T
Cell Rep 35 (13) 109328 [2021-06-29; online 2021-07-01]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
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Jhun M, Mendelson M, Wilson R, ..., Irvin MR, Assimes TL
Nat Commun 12 (1) 3987 [2021-06-28; online 2021-06-28]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Whole-Genome Metagenomic Analysis of the Gut Microbiome in HIV-1-Infected Individuals on Antiretroviral Therapy.
Bai X, Narayanan A, Nowak P, ..., Neogi U, Sönnerborg A
Front Microbiol 12 (-) 667718 [2021-06-25; online 2021-06-25]
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PubMed DOI Crossref
Structure and transport mechanism of P5B-ATPases.
Li P, Wang K, Salustros N, Grønberg C, Gourdon P
Nat Commun 12 (1) 3973 [2021-06-25; online 2021-06-25]
Cryo-EM [Service]
PubMed DOI Crossref
Methods to Identify and Study the Evolution of Pseudogenes Using a Phylogenetic Approach.
Dainat J, Pontarotti P
Methods Mol. Biol. 2324 (-) 21-34 [2021-06-25; online 2021-06-25]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Functional differences between TSHR alleles associate with variation in spawning season in Atlantic herring.
Chen J, Bi H, Pettersson ME, ..., Scheerer P, Andersson L
Commun Biol 4 (1) 795 [2021-06-25; online 2021-06-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Does Anatomical Contextual Information Improve 3D U-Net-Based Brain Tumor Segmentation?
Tampu IE, Haj-Hosseini N, Eklund A
Diagnostics 11 (7) - [2021-06-25; online 2021-06-25]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
PubMed DOI Crossref
Toll-like receptor 4 methylation grade is linked to depressive symptom severity.
Rasmusson AJ, Gallwitz M, Soltanabadi B, ..., Schiöth HB, Cunningham JL
Transl Psychiatry 11 (1) 371 [2021-06-24; online 2021-06-24]
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Profiling temporal dynamics of acetogenic communities in anaerobic digesters using next-generation sequencing and T-RFLP.
Singh A, Müller B, Schnürer A
Sci Rep 11 (1) 13298 [2021-06-24; online 2021-06-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
COVseq is a cost-effective workflow for mass-scale SARS-CoV-2 genomic surveillance.
Simonetti M, Zhang N, Harbers L, ..., Ghisetti V, Crosetto N
Nat Commun 12 (1) 3903 [2021-06-23; online 2021-06-23]
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The γ-tubulin meshwork assists in the recruitment of PCNA to chromatin in mammalian cells.
Corvaisier M, Zhou J, Malycheva D, ..., Lindström L, Alvarado-Kristensson M
Commun Biol 4 (1) 767 [2021-06-22; online 2021-06-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Characterization of Individual Projections Reveal That Neuromasts of the Zebrafish Lateral Line are Innervated by Multiple Inhibitory Efferent Cells.
Manuel R, Iglesias Gonzalez AB, Habicher J, Koning HK, Boije H
Front Neuroanat 15 (-) 666109 [2021-06-21; online 2021-06-21]
Genome Engineering Zebrafish
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A metabolomic study of Gomphrena agrestis in Brazilian Cerrado suggests drought-adaptive strategies on metabolism.
Melo GA, Abreu IN, de Oliveira MB, ..., Pimenta MAS, Moritz T
Sci Rep 11 (1) 12933 [2021-06-21; online 2021-06-21]
Swedish Metabolomics Centre (SMC) [Collaborative]
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Profiling of Extracellular Small RNAs Highlights a Strong Bias towards Non-Vesicular Secretion.
Sork H, Conceicao M, Corso G, ..., El Andaloussi S, Mäger I
Cells 10 (6) 1543 [2021-06-18; online 2021-06-18]
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PubMed DOI Crossref
Development of a PacBio Long-Read Sequencing Assay for High Throughput Detection of Fungicide Resistance in Zymoseptoria tritici.
Samils B, Andersson B, Edin E, ..., Hellin P, Kildea S
Front Microbiol 12 (-) 692845 [2021-06-18; online 2021-06-18]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Multianalyte serology in home-sampled blood enables an unbiased assessment of the immune response against SARS-CoV-2.
Roxhed N, Bendes A, Dale M, ..., Fredolini C, Schwenk JM
Nat Commun 12 (1) 3695 [2021-06-17; online 2021-06-17]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Cooperativity of α-Synuclein Binding to Lipid Membranes.
Makasewicz K, Wennmalm S, Stenqvist B, ..., Linse S, Sparr E
ACS Chem Neurosci 12 (12) 2099-2109 [2021-06-16; online 2021-06-02]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Associations of maternal and infant metabolomes with immune maturation and allergy development at 12 months in the Swedish NICE-cohort.
Hartvigsson O, Barman M, Rabe H, ..., Brunius C, Sandberg AS
Sci Rep 11 (1) 12706 [2021-06-16; online 2021-06-16]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Transcription factor FOXP2 is a flow-induced regulator of collecting lymphatic vessels.
Hernández Vásquez MN, Ulvmar MH, González-Loyola A, ..., Petrova TV, Mäkinen T
EMBO J. 40 (12) e107192 [2021-06-15; online 2021-05-02]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Differential DNA Methylation of the Genes for Amyloid Precursor Protein, Tau, and Neurofilaments in Human Traumatic Brain Injury.
Abu Hamdeh S, Ciuculete DM, Sarkisyan D, ..., Schiöth HB, Marklund N
J. Neurotrauma 38 (12) 1679-1688 [2021-06-15; online 2021-01-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cheetah-MS: a web server to model protein complexes using tandem cross-linking mass spectrometry data.
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Bioinformatics - (-) - [2021-06-15; online 2021-06-15]
Structural Proteomics [Technology development]
Guve, Ygle och Rane DNA-analyser löser frågan om släktskap
Arcini C, Hedvall R
Arkeologi i Östergötland - (1) 46-47 [2021-06-14]
Ancient DNA [Service]
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Differences in the genome, methylome, and transcriptome do not differentiate isolates of Streptococcus equi subsp. equi from horses with acute clinical signs from isolates of inapparent carriers.
Morris ERA, Boyle AG, Riihimäki M, ..., Pringle J, Cohen ND
PLoS ONE 16 (6) e0252804 [2021-06-14; online 2021-06-14]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cyclotide host-defense tailored for species and environments in violets from the Canary Islands.
Slazak B, Kaltenböck K, Steffen K, ..., Andrén PE, Göransson U
Sci Rep 11 (1) 12452 [2021-06-14; online 2021-06-14]
Spatial Mass Spectrometry [Collaborative]
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Leveraging breeding programs and genomic data in Norway spruce (Picea abies L. Karst) for GWAS analysis.
Chen ZQ, Zan Y, Milesi P, ..., Lascoux M, Wu HX
Genome Biol. 22 (1) 179 [2021-06-13; online 2021-06-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Impaired Luminal Control of Intestinal Macrophage Maturation in Patients With Ulcerative Colitis During Remission.
Maasfeh L, Härtlova A, Isaksson S, ..., Öhman L, Magnusson MK
Cellular and Molecular Gastroenterology and Hepatology 12 (4) 1415-1432 [2021-06-12; online 2021-06-12]
Chalmers Mass Spectrometry Infrastructure [Service]
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Bead-Based Assays for Validating Proteomic Profiles in Body Fluids.
Bendes A, Dale M, Mattsson C, ..., Schwenk JM, Fredolini C
Methods Mol. Biol. 2344 (-) 65-78 [2021-06-12; online 2021-06-12]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Structural basis of ABCF-mediated resistance to pleuromutilin, lincosamide, and streptogramin A antibiotics in Gram-positive pathogens.
Crowe-McAuliffe C, Murina V, Turnbull KJ, ..., Hauryliuk V, Wilson DN
Nat Commun 12 (1) 3577 [2021-06-11; online 2021-06-11]
Cryo-EM [Service]
PubMed DOI Crossref
Soil fungal communities of ectomycorrhizal dominated woodlands across West Africa.
Meidl P, Furneaux B, Tchan KI, ..., Yorou NS, Rosling A
MycoKeys 81 (-) 45-68 [2021-06-11; online 2021-06-11]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
DNA Methylation Signatures Predict Cytogenetic Subtype and Outcome in Pediatric Acute Myeloid Leukemia (AML).
Krali O, Palle J, Bäcklin CL, ..., Zeller B, Nordlund J
Genes 12 (6) 895 [2021-06-10; online 2021-06-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Cell Permeability of Isomeric Macrocycles: Predictions and NMR Studies.
Begnini F, Poongavanam V, Atilaw Y, ..., Schiesser S, Kihlberg J
ACS Med Chem Lett 12 (6) 983-990 [2021-06-10; online 2021-05-18]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
A Distinct Faecal Microbiota and Metabolite Profile Linked to Bowel Habits in Patients with Irritable Bowel Syndrome.
Ahluwalia B, Iribarren C, Magnusson MK, ..., Simrén M, Öhman L
Cells 10 (6) - [2021-06-10; online 2021-06-10]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Silica Particles Trigger the Exopolysaccharide Production of Harsh Environment Isolates of Growth-Promoting Rhizobacteria and Increase Their Ability to Enhance Wheat Biomass in Drought-Stressed Soils.
Fetsiukh A, Conrad J, Bergquist J, Timmusk S
Int J Mol Sci 22 (12) 6201 [2021-06-08; online 2021-06-08]
Cryo-EM [Collaborative]
PubMed DOI Crossref
BUTTERFLY: addressing the pooled amplification paradox with unique molecular identifiers in single-cell RNA-seq.
Gustafsson J, Robinson J, Nielsen J, Pachter L
Genome Biol. 22 (1) 174 [2021-06-08; online 2021-06-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology
PubMed DOI Crossref
Variable kinship patterns in Neolithic Anatolia revealed by ancient genomes.
Yaka R, Mapelli I, Kaptan D, ..., Özer F, Somel M
Curr. Biol. 31 (11) 2455-2468.e18 [2021-06-07; online 2021-04-14]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Reinforcing one-carbon metabolism via folic acid/Folr1 promotes β-cell differentiation.
Karampelias C, Rezanejad H, Rosko M, ..., Korbutt GS, Andersson O
Nat Commun 12 (1) 3362 [2021-06-07; online 2021-06-07]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Common variants in Alzheimer's disease and risk stratification by polygenic risk scores.
de Rojas I, Moreno-Grau S, Tesi N, ..., van der Lee SJ, Ruiz A
Nat Commun 12 (1) 3417 [2021-06-07; online 2021-06-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Osteoprotegerin predicts cardiovascular events in patients treated with hemodialysis.
Wu PH, Glerup RI, Svensson MHS, ..., Ljunggren Ö, Fellström B
Nephrol Dial Transplant - (-) - [2021-06-04; online 2021-06-04]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Machine learning for cell classification and neighborhood analysis in glioma tissue.
Solorzano L, Wik L, Olsson Bontell T, ..., Östman A, Wählby C
Cytometry A - (-) - [2021-06-04; online 2021-06-04]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
Low Energy Electron Irradiation Is a Potent Alternative to Gamma Irradiation for the Inactivation of (CAR-)NK-92 Cells in ATMP Manufacturing.
Walcher L, Kistenmacher AK, Sommer C, ..., Dünkel A, Fricke S
Front Immunol 12 (-) 684052 [2021-06-04; online 2021-06-04]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
CryoEM reveals BIN1 (isoform 8) does not bind to single actin filaments in vitro.
Wang Z, Mim C
MicroPubl Biol 2021 (-) - [2021-06-04; online 2021-06-04]
Cryo-EM [Service]
PubMed DOI Crossref
Genomic and transcriptomic analysis of the thermophilic lignocellulose-degrading fungus Thielavia terrestris LPH172.
Tõlgo M, Hüttner S, Rugbjerg P, ..., Larsbrink J, Olsson L
Biotechnol Biofuels 14 (1) 131 [2021-06-03; online 2021-06-03]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
EBF1 and PAX5 control pro-B cell expansion via opposing regulation of the Myc gene.
Somasundaram R, Jensen CT, Tingvall-Gustafsson J, ..., Ungerbäck J, Sigvardsson M
Blood 137 (22) 3037-3049 [2021-06-03; online 2021-02-24]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Atg7 deficiency in microglia drives an altered transcriptomic profile associated with an impaired neuroinflammatory response.
Friess L, Cheray M, Keane L, Grabert K, Joseph B
Mol Brain 14 (1) 87 [2021-06-03; online 2021-06-03]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
RNA atlas of human bacterial pathogens uncovers stress dynamics linked to infection.
Avican K, Aldahdooh J, Togninalli M, ..., Rhen M, Fällman M
Nat Commun 12 (1) 3282 [2021-06-02; online 2021-06-02]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Gene count from target sequence capture places three whole genome duplication events in Hibiscus L. (Malvaceae).
Eriksson JS, Bacon CD, Bennett DJ, ..., Oxelman B, Antonelli A
BMC Ecol Evol 21 (1) 107 [2021-06-02; online 2021-06-02]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
B Lymphocyte Specification Is Preceded by Extensive Epigenetic Priming in Multipotent Progenitors.
Strid T, Okuyama K, Tingvall-Gustafsson J, ..., Ungerbäck J, Sigvardsson M
J. Immunol. 206 (11) 2700-2713 [2021-06-01; online 2021-05-21]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Variation in the SERPINA6/SERPINA1 locus alters morning plasma cortisol, hepatic corticosteroid binding globulin expression, gene expression in peripheral tissues, and risk of cardiovascular disease.
Crawford AA, Bankier S, Altmaier E, ..., Walker BR, CORtisol NETwork (CORNET) consortium
J. Hum. Genet. 66 (6) 625-636 [2021-06-00; online 2021-01-20]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Urokinase, CX3CL1, CCL2, TRAIL and IL-18 induced by interferon-β treatment.
Zhukovsky C, Herman S, Wiberg A, ..., Kultima K, Burman J
Acta Neurol. Scand. 143 (6) 602-607 [2021-06-00; online 2021-02-24]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
The trans-ancestral genomic architecture of glycemic traits.
Chen J, Spracklen CN, Marenne G, ..., Barroso I, Meta-Analysis of Glucose and Insulin-related Traits Consortium (MAGIC)
Nat. Genet. 53 (6) 840-860 [2021-06-00; online 2021-05-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The chemical compound 'Heatin' stimulates hypocotyl elongation and interferes with the Arabidopsis NIT1-subfamily of nitrilases.
van der Woude L, Piotrowski M, Klaasse G, ..., Smeekens S, van Zanten M
Plant J. 106 (6) 1523-1540 [2021-06-00; online 2021-05-06]
Chemical Biology Consortium Sweden (CBCS) [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Targeting the NS2B-NS3 protease of tick-borne encephalitis virus with pan-flaviviral protease inhibitors.
Akaberi D, Båhlström A, Chinthakindi PK, ..., Lundkvist Å, Lennerstrand J
Antiviral Res. 190 (-) 105074 [2021-06-00; online 2021-04-16]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Single-cell BCR and transcriptome analysis after influenza infection reveals spatiotemporal dynamics of antigen-specific B cells
Mathew NR, Jayanthan JK, Smirnov IV, ..., Bemark M, Angeletti D
Cell Rep 35 (12) 109286 [2021-06-00; online 2021-06-00]
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DOI Crossref
Related in death? A curious case of a foetus hidden in bishop Peder Winstrup’s coffin in Lund, Sweden
Krzewińska M, Rodríguez-Varela R, Ahlström Arcini C, ..., Storå J, Götherström A
Journal of Archaeological Science: Reports 37 (-) 102939 [2021-06-00; online 2021-06-00]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
RAG1 co-expression signature identifies ETV6-RUNX1-like B-cell precursor acute lymphoblastic leukemia in children.
Chen D, Camponeschi A, Nordlund J, ..., Fogelstrand L, Mårtensson IL
Cancer Med 10 (12) 3997-4003 [2021-06-00; online 2021-05-13]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Methylome and transcriptome signature of bronchoalveolar cells from multiple sclerosis patients in relation to smoking.
Ringh MV, Hagemann-Jensen M, Needhamsen M, ..., Öckinger J, Kular L
Mult. Scler. 27 (7) 1014-1026 [2021-06-00; online 2020-07-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Loss of Arabidopsis matrix metalloproteinase-5 affects root development and root bacterial communities during drought stress.
Mishra LS, Kim SY, Caddell DF, Coleman-Derr D, Funk C
Physiol Plantarum 172 (2) 1045-1058 [2021-06-00; online 2020-12-16]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Large-scale identification of protein histidine methylation in human cells.
Kapell S, Jakobsson ME
NAR Genom Bioinform 3 (2) lqab045 [2021-06-00; online 2021-05-22]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
JAK/STAT inhibition augments soleus muscle function in a rat model of critical illness myopathy via regulation of complement C3/3R.
Addinsall AB, Cacciani N, Akkad H, ..., Kirkland JL, Larsson L
J Physiol 599 (11) 2869-2886 [2021-06-00; online 2021-05-02]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
High Sensitivity Detection of a Solubility Limiting Surface Transformation of Drug Particles by DNP SENS.
Viger-Gravel J, Pinon AC, Björgvinsdóttir S, ..., Schantz S, Emsley L
J Pharm Sci 110 (6) 2452-2456 [2021-06-00; online 2021-01-06]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Genomic and fitness consequences of inbreeding in an endangered carnivore.
Hasselgren M, Dussex N, von Seth J, ..., Dalén L, Norén K
Mol. Ecol. 30 (12) 2790-2799 [2021-06-00; online 2021-05-20]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Genomic Characterization of the Barnacle Balanus improvisus Reveals Extreme Nucleotide Diversity in Coding Regions.
Alm Rosenblad M, Abramova A, Lind U, ..., Nystedt B, Blomberg A
Mar Biotechnol (NY) 23 (3) 402-416 [2021-06-00; online 2021-05-01]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Gene-educational attainment interactions in a multi-ancestry genome-wide meta-analysis identify novel blood pressure loci.
de Las Fuentes L, Sung YJ, Noordam R, ..., Rao DC, Fornage M
Mol. Psychiatry 26 (6) 2111-2125 [2021-06-00; online 2020-05-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Following spatial Aβ aggregation dynamics in evolving Alzheimer's disease pathology by imaging stable isotope labeling kinetics.
Michno W, Stringer KM, Enzlein T, ..., Edwards FA, Hanrieder J
Sci Adv 7 (25) - [2021-06-00; online 2021-06-16]
Integrated Microscopy Technologies Gothenburg [Collaborative]
PubMed DOI Crossref
ENABLE: an engine for European antibacterial drug discovery and development.
Olliver M, Griestop L, Hughes D, ..., Vingsbo Lundberg C, Karlén A
Nat Rev Drug Discov 20 (6) 407-408 [2021-06-00; online 2021-05-06]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Deep immune profiling reveals targetable mechanisms of immune evasion in immune checkpoint inhibitor-refractory glioblastoma.
Simonds EF, Lu ED, Badillo O, ..., Weiss WA, Hellström M
J Immunother Cancer 9 (6) - [2021-06-00; online 2021-06-05]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
DNA methylation signatures of aggression and closely related constructs: A meta-analysis of epigenome-wide studies across the lifespan.
van Dongen J, Hagenbeek FA, Suderman M, ..., Bartels M, Boomsma DI
Mol. Psychiatry 26 (6) 2148-2162 [2021-06-00; online 2021-01-08]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Correction to: Deciphering the genetic and epidemiological landscape of mitochondrial DNA abundance.
Hägg S, Jylhävä J, Wang Y, Czene K, Grassmann F
Hum. Genet. 140 (6) 863 [2021-06-00; online 2021-02-07]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Combinations of dietary calcium intake and mediterranean-style diet on risk of hip fracture: A longitudinal cohort study of 82,000 women and men.
Warensjö Lemming E, Byberg L, Höijer J, ..., Wolk A, Michaëlsson K
Clin Nutr 40 (6) 4161-4170 [2021-06-00; online 2021-02-05]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Cancer diagnostics based on plasma protein biomarkers: hard times but great expectations.
Landegren U, Hammond M
Mol Oncol 15 (6) 1715-1726 [2021-06-00; online 2020-11-17]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
CO2 fertilization of Sphagnum peat mosses is modulated by water table level and other environmental factors.
Serk H, Nilsson MB, Figueira J, Wieloch T, Schleucher J
Plant Cell Environ. 44 (6) 1756-1768 [2021-06-00; online 2021-03-29]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Association between Brachyspira and irritable bowel syndrome with diarrhoea.
Jabbar KS, Dolan B, Eklund L, ..., Simren M, Hansson GC
Gut 70 (6) 1117-1129 [2021-06-00; online 2020-11-11]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Inflammation-related plasma protein levels and association with adiposity measurements in young adults.
Klevebro S, Björkander S, Ekström S, ..., Bergström A, Melén E
Sci Rep 11 (1) 11391 [2021-05-31; online 2021-05-31]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
NK cells integrate signals over large areas when building immune synapses but require local stimuli for degranulation.
Verron Q, Forslund E, Brandt L, ..., Olofsson PE, Önfelt B
Sci Signal 14 (684) eabe2740 [2021-05-25; online 2021-05-25]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Genomic basis of parallel adaptation varies with divergence in Arabidopsis and its relatives.
Bohutínská M, Vlček J, Yair S, ..., Slotte T, Kolář F
Proc. Natl. Acad. Sci. U.S.A. 118 (21) - [2021-05-25; online 2021-05-19]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Divergent clonal differentiation trajectories establish CD8+ memory T cell heterogeneity during acute viral infections in humans.
Mold JE, Modolo L, Hård J, ..., Michaëlsson J, Frisén J
Cell Rep 35 (8) 109174 [2021-05-25; online 2021-05-27]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A combined approach for single-cell mRNA and intracellular protein expression analysis.
Reimegård J, Tarbier M, Danielsson M, ..., Friedländer MR, Gallant CJ
Commun Biol 4 (1) 624 [2021-05-25; online 2021-05-25]
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PubMed DOI Crossref
Trailblazing precision medicine in Europe: A joint view by Genomic Medicine Sweden and the Centers for Personalized Medicine, ZPM, in Germany.
Stenzinger A, Edsjö A, Ploeger C, ..., Rosenquist R, GMS working groups and ZPM working groups
Semin. Cancer Biol. - (-) - [2021-05-24; online 2021-05-24]
Clinical Genomics [Service] Clinical Genomics Lund [Service] Clinical Genomics Stockholm [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Crystal structure of a homotrimeric verrucomicrobial exo-β-1,4-mannosidase active in the hindgut of the wood-feeding termite Reticulitermes flavipes.
Kalyani DC, Reichenbach T, Keskitalo MM, ..., Aspeborg H, Divne C
Journal of Structural Biology: X 5 (-) 100048 [2021-05-24; online 2021-05-24]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Adsorption of bio-organic eco-corona molecules reduces the toxic response to metallic nanoparticles in Daphnia magna.
Ekvall MT, Hedberg J, Odnevall Wallinder I, ..., Hansson LA, Cedervall T
Sci Rep 11 (1) 10784 [2021-05-24; online 2021-05-24]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Stromal Heterogeneity in the Human Proliferative Endometrium-A Single-Cell RNA Sequencing Study.
Queckbörner S, von Grothusen C, Boggavarapu NR, ..., Davies LC, Gemzell-Danielsson K
J Pers Med 11 (6) - [2021-05-22; online 2021-05-22]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Eukaryotic Single Cell Genomics (ESCG) [Service]
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Towards a bioengineered uterus: bioactive sheep uterus scaffolds are effectively recellularized by enzymatic preconditioning.
Padma AM, Carrière L, Krokström Karlsson F, ..., Brännström M, Hellström M
NPJ Regen Med 6 (1) 26 [2021-05-21; online 2021-05-21]
Integrated Microscopy Technologies Gothenburg [Service]
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Pharmacodynamic Evaluation of Dosing, Bacterial Kill, and Resistance Suppression for Zoliflodacin Against Neisseria gonorrhoeae in a Dynamic Hollow Fiber Infection Model.
Jacobsson S, Golparian D, Oxelbark J, ..., Drusano G, Unemo M
Front Pharmacol 12 (-) 682135 [2021-05-21; online 2021-05-21]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Virus Diversity and Loads in Crickets Reared for Feed: Implications for Husbandry.
de Miranda JR, Granberg F, Low M, ..., Jansson A, Berggren Å
Front Vet Sci 8 (-) 642085 [2021-05-20; online 2021-05-20]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Continent-wide genomic signatures of adaptation to urbanisation in a songbird across Europe.
Salmón P, Jacobs A, Ahrén D, ..., Visser ME, Isaksson C
Nat Commun 12 (1) 2983 [2021-05-20; online 2021-05-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Complement-Opsonized HIV Modulates Pathways Involved in Infection of Cervical Mucosal Tissues: A Transcriptomic and Proteomic Study.
Svanberg C, Ellegård R, Crisci E, ..., Shankar EM, Larsson M
Front Immunol 12 (-) 625649 [2021-05-20; online 2021-05-20]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Which image-based phenotypes are most promising for using AI to understand cellular functions and why?
Lundberg E, Funke J, Uhlmann V, ..., Carpenter A, Coehlo LP
Cell Syst 12 (5) 384-387 [2021-05-19; online 2021-05-21]
Spatial Proteomics [Technology development]
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Size Variation of the Nonrecombining Region on the Mating-Type Chromosomes in the Fungal Podospora anserina Species Complex.
Hartmann FE, Ament-Velásquez SL, Vogan AA, ..., Silar P, Giraud T
Mol. Biol. Evol. 38 (6) 2475-2492 [2021-05-19; online 2021-02-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Integration of Mass Spectrometry Imaging and Machine Learning Visualizes Region-Specific Age-Induced and Drug-Target Metabolic Perturbations in the Brain.
Vallianatou T, Shariatgorji R, Nilsson A, ..., Svenningsson P, Andrén PE
ACS Chem Neurosci 12 (10) 1811-1823 [2021-05-19; online 2021-05-03]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
X-chromosome variants are associated with aldosterone producing adenomas.
Dutta RK, Larsson M, Arnesen T, ..., Gimm O, Söderkvist P
Sci Rep 11 (1) 10562 [2021-05-18; online 2021-05-18]
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Symptoms and Functional Impairment Assessed 8 Months After Mild COVID-19 Among Health Care Workers.
Havervall S, Rosell A, Phillipson M, ..., Hober S, Thålin C
JAMA 325 (19) 2015-2016 [2021-05-18; online 2021-04-08]
Autoimmunity and Serology Profiling [Collaborative]
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Factors Affecting Detoxification of Softwood Enzymatic Hydrolysates Using Sodium Dithionite
Ilanidis D, Stagge S, Alriksson B, Jönsson LJ
Processes 9 (5) 887 [2021-05-18; online 2021-05-18]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Phage Biocontrol of Pseudomonas aeruginosa in Water.
Kauppinen A, Siponen S, Pitkänen T, ..., Torvinen E, Miettinen IT
Viruses 13 (5) 928 [2021-05-17; online 2021-05-17]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Pulmonary fibrosis in relation to genetic loci in an inception cohort of patients with early rheumatoid arthritis from northern Sweden.
Jönsson E, Ljung L, Norrman E, ..., Dahlqvist J, Dahlqvist SR
Rheumatology (Oxford) - (-) - [2021-05-16; online 2021-05-16]
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PubMed DOI Crossref
A plasma lipid signature predicts incident coronary artery disease.
Ottosson F, Emami Khoonsari P, Gerl MJ, ..., Melander O, Fernandez C
Int. J. Cardiol. 331 (-) 249-254 [2021-05-15; online 2021-02-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Comprehensive dataset of shotgun metagenomes from oxygen stratified freshwater lakes and ponds.
Buck M, Garcia SL, Fernandez L, ..., Bertilsson S, Peura S
Sci Data 8 (1) 131 [2021-05-14; online 2021-05-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Complete Multipartite Genome Sequence of the Cupriavidus basilensis Type Strain, a 2,6-Dichlorophenol-Degrading Bacterium.
Salvà-Serra F, Donoso RA, Cho KH, ..., Moore ERB, Pérez-Pantoja D
Microbiol Resour Announc 10 (19) - [2021-05-13; online 2021-05-13]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Ultralow amounts of DNA from long-term archived serum samples produce high-quality methylomes.
Wojewodzic MW, Leithaug M, Lauritzen M, ..., Grotmol T, Rounge TB
Clin Epigenetics 13 (1) 107 [2021-05-12; online 2021-05-12]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Progesterone Dampens Immune Responses in In Vitro Activated CD4+ T Cells and Affects Genes Associated With Autoimmune Diseases That Improve During Pregnancy.
Hellberg S, Raffetseder J, Rundquist O, ..., Ernerudh J, Gustafsson M
Front Immunol 12 (-) 672168 [2021-05-12; online 2021-05-12]
Affinity Proteomics Uppsala [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Highly Permeable Fluorinated Polymer Nanocomposites for Plasmonic Hydrogen Sensing.
Östergren I, Pourrahimi AM, Darmadi I, ..., Langhammer C, Müller C
ACS Appl Mater Interfaces 13 (18) 21724-21732 [2021-05-12; online 2021-04-28]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Dynamics of Auxin and Cytokinin Metabolism during Early Root and Hypocotyl Growth in Theobroma cacao.
Mboene Noah A, Casanova-Sáez R, Makondy Ango RE, ..., Niemenak N, Ljung K
Plants (Basel) 10 (5) - [2021-05-12; online 2021-05-12]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Freshwater Chlorobia Exhibit Metabolic Specialization among Cosmopolitan and Endemic Populations.
Garcia SL, Mehrshad M, Buck M, ..., Greening C, Peura S
mSystems 6 (3) - [2021-05-11; online 2021-05-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed
[Precision diagnostics and therapy in hematological malignancies].
Hellström Lindberg E, Cavelier L, Cammenga J, ..., Fioretos T, Rosenquist R
Lakartidningen 118 (-) - [2021-05-10; online 2021-05-10]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
NMR structural analysis of the yeast cytochrome c oxidase subunit Cox13 and its interaction with ATP.
Zhou S, Pettersson P, Björck ML, ..., Mäler L, Ädelroth P
BMC Biol. 19 (1) 98 [2021-05-10; online 2021-05-10]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
African and Asian leopards are highly differentiated at the genomic level.
Paijmans JLA, Barlow A, Becker MS, ..., Manica A, Hofreiter M
Curr. Biol. 31 (9) 1872-1882.e5 [2021-05-10; online 2021-04-12]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The Genomic Architecture and Evolutionary Fates of Supergenes.
Gutiérrez-Valencia J, Hughes PW, Berdan EL, Slotte T
Genome Biol Evol 13 (5) - [2021-05-07; online 2021-03-20]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
The Genetic Variation of Lactase Persistence Alleles in Sudan and South Sudan.
Hollfelder N, Babiker H, Granehäll L, Schlebusch CM, Jakobsson M
Genome Biol Evol 13 (5) - [2021-05-07; online 2021-03-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Effects of GC-Biased Gene Conversion on Patterns of Genetic Diversity among and across Butterfly Genomes.
Boman J, Mugal CF, Backström N
Genome Biol Evol 13 (5) - [2021-05-07; online 2021-03-25]
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PubMed DOI Crossref
Proteogenomic Workflow Reveals Molecular Phenotypes Related to Breast Cancer Mammographic Appearance.
De Marchi T, Pyl PT, Sjöström M, ..., Malmström L, Niméus E
J. Proteome Res. 20 (5) 2983-3001 [2021-05-07; online 2021-04-15]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Metabolic Characterization of Plasma and Cyst Fluid from Cystic Precursors to Pancreatic Cancer Patients Reveal Metabolic Signatures of Bacterial Infection.
Morgell A, Reisz JA, Ateeb Z, ..., Chen MS, D'Alessandro A
J. Proteome Res. 20 (5) 2725-2738 [2021-05-07; online 2021-03-15]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
PubMed DOI Crossref
INT-Hi-C reveals distinct chromatin architecture in endosperm and leaf tissues of Arabidopsis.
Yadav VK, Santos-González J, Köhler C
Nucleic Acids Res. 49 (8) 4371-4385 [2021-05-07; online 2021-03-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetically determined NLRP3 inflammasome activation associates with systemic inflammation and cardiovascular mortality.
Schunk SJ, Kleber ME, März W, ..., eQTLGen consortium , BIOS consortium
Eur. Heart J. 42 (18) 1742-1756 [2021-05-07; online 2021-03-23]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Chromosome Level Assembly of the Comma Butterfly (Polygonia c-album).
Celorio-Mancera MP, Rastas P, Steward RA, Nylin S, Wheat CW
Genome Biol Evol 13 (5) - [2021-05-07; online 2021-03-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Serine Protease HTRA1 as a Novel Target Antigen in Primary Membranous Nephropathy.
Al-Rabadi LF, Caza T, Trivin-Avillach C, ..., Larsen C, Beck LH
J. Am. Soc. Nephrol. 32 (7) 1666-1681 [2021-05-05; online 2021-05-05]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
Plasma Protein Profile of Carotid Artery Atherosclerosis and Atherosclerotic Outcomes: Meta-Analyses and Mendelian Randomization Analyses.
Lind L, Gigante B, Borné Y, ..., Engström G, Mälarstig A
Arterioscler. Thromb. Vasc. Biol. 41 (5) 1777-1788 [2021-05-05; online 2021-03-04]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
The Subcellular Proteome of a Planctomycetes Bacterium Shows That Newly Evolved Proteins Have Distinct Fractionation Patterns.
Seeger C, Dyrhage K, Mahajan M, ..., Lind SB, Andersson SGE
Front Microbiol 12 (-) 643045 [2021-05-04; online 2021-05-04]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
How to Make a Rodent Giant: Genomic Basis and Tradeoffs of Gigantism in the Capybara, the World's Largest Rodent.
Herrera-Álvarez S, Karlsson E, Ryder OA, Lindblad-Toh K, Crawford AJ
Mol. Biol. Evol. 38 (5) 1715-1730 [2021-05-04; online 2020-11-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Discovery of an Allosteric Ligand Binding Site in SMYD3 Lysine Methyltransferase.
Talibov VO, Fabini E, FitzGerald EA, ..., Del Rio A, Danielson UH
ChemBioChem 22 (9) 1597-1608 [2021-05-04; online 2021-02-11]
Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
False Positive Results in SARS-CoV-2 Serological Tests for Samples From Patients With Chronic Inflammatory Diseases.
Kharlamova N, Dunn N, Bedri SK, ..., Fink K, Fogdell-Hahn A
Front Immunol 12 (-) 666114 [2021-05-03; online 2021-05-03]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
Activation of endogenous retroviruses during brain development causes an inflammatory response.
Jönsson ME, Garza R, Sharma Y, ..., Jern P, Jakobsson J
EMBO J. 40 (9) e106423 [2021-05-03; online 2021-03-01]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
The transcriptome-wide landscape of molecular subtype-specific mRNA expression profiles in acute myeloid leukemia.
Mou T, Pawitan Y, Stahl M, ..., Lehtiö J, Vu TN
Am. J. Hematol. 96 (5) 580-588 [2021-05-01; online 2021-03-10]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Tissue-specific transcriptional imprinting and heterogeneity in human innate lymphoid cells revealed by full-length single-cell RNA-sequencing.
Mazzurana L, Czarnewski P, Jonsson V, ..., Almer S, Mjösberg J
Cell Res 31 (5) 554-568 [2021-05-00; online 2021-01-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The association between genetically determined ABO blood types and major depressive disorder.
Garvert L, Baune BT, Berger K, ..., Grabe HJ, Van der Auwera S
Psychiatry Res 299 (-) 113837 [2021-05-00; online 2021-02-24]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Enterprise, a massive transposon carrying Spok meiotic drive genes.
Vogan AA, Ament-Velásquez SL, Bastiaans E, ..., Suh A, Johannesson H
Genome Res. 31 (5) 789-798 [2021-05-00; online 2021-04-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Stem girdling affects the onset of autumn senescence in aspen in interaction with metabolic signals.
Lihavainen J, Edlund E, Björkén L, ..., Robinson KM, Jansson S
Physiol Plantarum 172 (1) 201-217 [2021-05-00; online 2021-01-07]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Single-cell transcriptomics of human embryos identifies multiple sympathoblast lineages with potential implications for neuroblastoma origin.
Kameneva P, Artemov AV, Kastriti ME, ..., Kharchenko PV, Adameyko I
Nat. Genet. 53 (5) 694-706 [2021-05-00; online 2021-04-08]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service]
PubMed DOI Crossref
Serum metabolomic profiling correlated with ISS and clinical outcome for multiple myeloma patients treated with high-dose melphalan and autologous stem cell transplantation.
Veskovski L, Andersson PO, Turesson I, ..., Pedersen A, Mellqvist UH
Exp Hematol 97 (-) 79-88.e8 [2021-05-00; online 2021-02-18]
Swedish NMR Centre (SNC) [Collaborative]
DOI Crossref
Self-generation of low ash carbon microspheres from the hydrothermal supernatant of anaerobic digestate: Formation insights and supercapacitor performance
Latham KG, Kozyatnyk I, Figueira J, ..., Rosenbaum E, Jansson S
Chemical Engineering Journal Advances 6 (-) 100097 [2021-05-00; online 2021-05-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Prediction of complex phenotypes using the Drosophila melanogaster metabolome.
Rohde PD, Kristensen TN, Sarup P, Muñoz J, Malmendal A
Heredity (Edinb) 126 (5) 717-732 [2021-05-00; online 2021-01-28]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Novel form of rhizomelic skeletal dysplasia associated with a homozygous variant in GNPNAT1.
Ain NU, Baroncelli M, Costantini A, ..., Mäkitie O, Naz S
J. Med. Genet. 58 (5) 351-356 [2021-05-00; online 2020-06-26]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
In vivo screen identifies a SIK inhibitor that induces β cell proliferation through a transient UPR.
Charbord J, Ren L, Sharma RB, ..., Alonso LC, Andersson O
Nat Metab 3 (5) 682-700 [2021-05-00; online 2021-05-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
ImageJ and CellProfiler: Complements in Open-Source Bioimage Analysis.
Dobson ETA, Cimini B, Klemm AH, ..., Carpenter AE, Eliceiri KW
Curr Protoc 1 (5) e89 [2021-05-00; online 2021-05-27]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
Ibrutinib Has Time-dependent On- and Off-target Effects on Plasma Biomarkers and Immune Cells in Chronic Lymphocytic Leukemia.
Mulder TA, Peña-Pérez L, Berglöf A, ..., Smith CIE, Palma M
Hemasphere 5 (5) e564 [2021-05-00; online 2021-04-26]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Hybrid sequencing resolves two germline ultra-complex chromosomal rearrangements consisting of 137 breakpoint junctions in a single carrier.
Eisfeldt J, Pettersson M, Petri A, ..., Feuk L, Lindstrand A
Hum. Genet. 140 (5) 775-790 [2021-05-00; online 2020-12-14]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]
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Histological and transcriptional characterization of the pancreatic acinar tissue in type 1 diabetes.
Granlund L, Hedin A, Wahlhütter M, ..., Skog O, Lundberg M
BMJ Open Diabetes Res Care 9 (1) - [2021-05-00; online 2021-05-26]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Genetic basis of lacunar stroke: a pooled analysis of individual patient data and genome-wide association studies.
Traylor M, Persyn E, Tomppo L, ..., UK DNA Lacunar Stroke Study Investigators , International Stroke Genetics Consortium
Lancet Neurol 20 (5) 351-361 [2021-05-00; online 2021-03-25]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Examination of how variations in lignin properties from Kraft and organosolv extraction influence the physicochemical characteristics of hydrothermal carbon
Latham KG, Matsakas L, Figueira J, ..., Christakopoulos P, Jansson S
Journal of Analytical and Applied Pyrolysis 155 (-) 105095 [2021-05-00; online 2021-05-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Evidence for discrete modes of YAP1 signaling via mRNA splice isoforms in development and diseases.
Vrbský J, Vinarský V, Perestrelo AR, ..., Pagliari S, Forte G
Genomics 113 (3) 1349-1365 [2021-05-00; online 2021-03-11]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Effects of liraglutide on the metabolism of triglyceride‐rich lipoproteins in type 2 diabetes
Taskinen M, Björnson E, Matikainen N, ..., Packard CJ, Borén J
Diabetes Obes Metab 23 (5) 1191-1201 [2021-05-00; online 2021-03-05]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Dual RNA-Seq transcriptome analysis of chicken macrophage-like cells (HD11) infected in vitro with Eimeria tenella.
Sandholt AKS, Xu F, Söderlund R, ..., Svärd SG, Wattrang E
Parasitology 148 (6) 712-725 [2021-05-00; online 2021-02-04]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Dissolution of wood components during hot water extraction of birch
Wojtasz-Mucha J, Hasani M, Theliander H
Wood Sci Technol 55 (3) 811-835 [2021-05-00; online 2021-04-05]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Comparison of DNA Methylation Profiles of Hemostatic Genes between Liver Tissue and Peripheral Blood within Individuals.
Olsson Lindvall M, Angerfors A, Andersson B, ..., Stanne TM, Jern C
Thromb. Haemost. 121 (5) 573-583 [2021-05-00; online 2020-11-17]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
PubMed DOI Crossref
Chromatin interactions in differentiating keratinocytes reveal novel atopic dermatitis- and psoriasis-associated genes.
Sahlén P, Spalinskas R, Asad S, ..., Bradley M, Tapia-Páez I
J. Allergy Clin. Immunol. 147 (5) 1742-1752 [2021-05-00; online 2020-10-16]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Binding of the human antioxidation protein α1-microglobulin (A1M) to heparin and heparan sulfate. Mapping of binding site, molecular and functional characterization, and co-localization in vivo and in vitro.
Bergwik J, Kristiansson A, Larsson J, ..., Åkerström B, Allhorn M
Redox Biol 41 (-) 101892 [2021-05-00; online 2021-02-10]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Association of Epicardial Fat Volume With the Extent of Coronary Atherosclerosis and Cardiovascular Adverse Events in Asymptomatic Patients With Diabetes.
Venuraju SM, Lahiri A, Jeevarethinam A, ..., Shah PK, Nilsson J
Angiology 72 (5) 442-450 [2021-05-00; online 2021-01-20]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Association between inflammasome-related polymorphisms and psoriatic arthritis.
Juneblad K, Kastbom A, Johansson L, ..., Söderkvist P, Alenius G
Scand. J. Rheumatol. 50 (3) 206-212 [2021-05-00; online 2020-12-10]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
PubMed DOI Crossref
An amylin and calcitonin receptor agonist modulates alcohol behaviors by acting on reward-related areas in the brain.
Kalafateli AL, Satir TM, Vallöf D, Zetterberg H, Jerlhag E
Prog Neurobiol 200 (-) 101969 [2021-05-00; online 2020-12-02]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
A chemical screen for modulators of mRNA translation identifies a distinct mechanism of toxicity for sphingosine kinase inhibitors.
Corman A, Kanellis DC, Michalska P, ..., Carreras-Puigvert J, Fernandez-Capetillo O
PLoS Biol. 19 (5) e3001263 [2021-05-00; online 2021-05-25]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Highlights from the 2016-2020 NEUBIAS training schools for Bioimage Analysts: a success story and key asset for analysts and life scientists.
Martins GG, Cordelières FP, Colombelli J, ..., Tinevez JY, Miura K
F1000Res 10 (-) 334 [2021-04-30; online 2021-04-30]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
Genotypic Characterization of Clinical Klebsiella spp. Isolates Collected From Patients With Suspected Community-Onset Sepsis, Sweden.
Saxenborn P, Baxter J, Tilevik A, ..., Enroth H, Tilevik D
Front Microbiol 12 (-) 640408 [2021-04-30; online 2021-04-30]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Subcellular proteomics.
Christopher JA, Stadler C, Martin CE, ..., Emili A, Lilley KS
Nat Rev Methods Primers 1 (1) - [2021-04-29; online 2021-04-29]
Spatial Proteomics [Technology development]
PubMed DOI Crossref
Immune-Associated Proteins Are Enriched in Lung Tissue-Derived Extracellular Vesicles during Allergen-Induced Eosinophilic Airway Inflammation.
Lässer C, Kishino Y, Park KS, ..., Rådinger M, Lötvall J
Int J Mol Sci 22 (9) - [2021-04-29; online 2021-04-29]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Complete Genome Sequence of an Antimicrobial-Producing Bacillus velezensis Sam8H1 Isolate from the Makgadikgadi Saltpans of Botswana.
Modikwe G, Manoharan L, Mabutho G, ..., Lebogang L, Zhou N
Microbiol Resour Announc 10 (17) - [2021-04-29; online 2021-04-29]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Atypical presentation of Neisseria meningitidis serogroup W disease is associated with the introduction of the 2013 strain.
Säll O, Stenmark B, Jacobsson S, ..., Sundqvist M, Mölling P
Epidemiol. Infect. 149 (-) e126 [2021-04-29; online 2021-04-29]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
How Does Liquid-Liquid Phase Separation in Model Membranes Reflect Cell Membrane Heterogeneity?
Sych T, Gurdap CO, Wedemann L, Sezgin E
Membranes 11 (5) 323 [2021-04-28; online 2021-04-28]
Integrated Microscopy Technologies Stockholm [Service]
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Genome-wide CRISPR screens reveal synthetic lethal interaction between CREBBP and EP300 in diffuse large B-cell lymphoma.
Nie M, Du L, Ren W, ..., Zhang F, Pan-Hammarström Q
Cell Death Dis 12 (5) 419 [2021-04-28; online 2021-04-28]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Cyanophage Diversity and Community Structure in Dead Zone Sediments.
Broman E, Holmfeldt K, Bonaglia S, Hall POJ, Nascimento FJA
mSphere 6 (2) - [2021-04-28; online 2021-04-28]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Small noncoding RNA profiling across cellular and biofluid compartments and their implications for multiple sclerosis immunopathology.
Zheleznyakova GY, Piket E, Needhamsen M, ..., Piehl F, Jagodic M
Proc. Natl. Acad. Sci. U.S.A. 118 (17) e2011574118 [2021-04-27; online 2021-04-22]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Neutron reflectometry and NMR spectroscopy of full-length Bcl-2 protein reveal its membrane localization and conformation.
Mushtaq AU, Ådén J, Clifton LA, ..., Sparrman T, Gröbner G
Commun Biol 4 (1) 507 [2021-04-27; online 2021-04-27]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
An introgressed gene causes meiotic drive in Neurospora sitophila.
Svedberg J, Vogan AA, Rhoades NA, ..., Hammond TM, Johannesson H
Proc. Natl. Acad. Sci. U.S.A. 118 (17) e2026605118 [2021-04-27; online 2021-04-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Middle Pleistocene genome calibrates a revised evolutionary history of extinct cave bears.
Barlow A, Paijmans JLA, Alberti F, ..., Baryshnikov G, Hofreiter M
Curr. Biol. 31 (8) 1771-1779.e7 [2021-04-26; online 2021-02-15]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Live Cell FRET Imaging Reveals Amyloid β-Peptide Oligomerization in Hippocampal Neurons.
Gao Y, Wennmalm S, Winblad B, Schedin-Weiss S, Tjernberg LO
Int J Mol Sci 22 (9) 4530 [2021-04-26; online 2021-04-26]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Genomic insights into the conservation status of the world's last remaining Sumatran rhinoceros populations.
von Seth J, Dussex N, Díez-Del-Molino D, ..., Götherström A, Dalén L
Nat Commun 12 (1) 2393 [2021-04-26; online 2021-04-26]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Entropy-Entropy Compensation between the Protein, Ligand, and Solvent Degrees of Freedom Fine-Tunes Affinity in Ligand Binding to Galectin-3C.
Wallerstein J, Ekberg V, Ignjatović MM, ..., Ryde U, Akke M
JACS Au 1 (4) 484-500 [2021-04-26; online 2021-04-01]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Bioimage analysis workflows: community resources to navigate through a complex ecosystem.
Paul-Gilloteaux P, Tosi S, Hériché JK, ..., Miura K, Colombelli J
F1000Res 10 (-) 320 [2021-04-26; online 2021-04-26]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
No particular genomic features underpin the dramatic economic consequences of 17th century plague epidemics in Italy.
Seguin-Orlando A, Costedoat C, Der Sarkissian C, ..., Signoli M, Orlando L
iScience 24 (4) 102383 [2021-04-23; online 2021-03-31]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Divergent airway microbiomes in lung transplant recipients with or without pulmonary infection.
Påhlman LI, Manoharan L, Aspelund AS
Respir. Res. 22 (1) 118 [2021-04-23; online 2021-04-23]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Functional Diversity Facilitates Stability Under Environmental Changes in an Outdoor Microalgal Cultivation System.
Mattsson L, Sörenson E, Capo E, ..., Lindehoff E, Legrand C
Front Bioeng Biotechnol 9 (-) 651895 [2021-04-22; online 2021-04-22]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Epigenome-wide association study of level and change in cognitive abilities from midlife through late life.
Karlsson IK, Ericsson M, Wang Y, ..., Reynolds CA, Pedersen NL
Clin Epigenetics 13 (1) 85 [2021-04-21; online 2021-04-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Cryo-Electron Microscopy of Arabidopsis thaliana Phytochrome A in Its Pr State Reveals Head-to-Head Homodimeric Architecture.
Wahlgren WY, Golonka D, Westenhoff S, Möglich A
Front Plant Sci 12 (-) 663751 [2021-04-21; online 2021-04-21]
Cryo-EM [Service] Integrated Microscopy Technologies Gothenburg [Technology development]
PubMed DOI Crossref
Alternative redox forms of ASNA-1 separate insulin signaling from tail-anchored protein targeting and cisplatin resistance in C. elegans.
Raj D, Billing O, Podraza-Farhanieh A, ..., Kao G, Naredi P
Sci Rep 11 (1) 8678 [2021-04-21; online 2021-04-21]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
smartPARE: An R Package for Efficient Identification of True mRNA Cleavage Sites.
Persson Hodén K, Hu X, Martinez G, Dixelius C
Int J Mol Sci 22 (8) 4267 [2021-04-20; online 2021-04-20]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Rare deleterious mutations of HNRNP genes result in shared neurodevelopmental disorders.
Gillentine MA, Wang T, Hoekzema K, ..., Bernier RA, Eichler EE
Genome Med 13 (1) 63 [2021-04-19; online 2021-04-19]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
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Woolway RI, Sharma S, Weyhenmeyer GA, ..., Thiery W, Jennings E
Nat Commun 12 (1) 2318 [2021-04-19; online 2021-04-19]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
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Sánchez-Busó L, Yeats CA, Taylor B, ..., Unemo M, Aanensen DM
Genome Med 13 (1) 61 [2021-04-19; online 2021-04-19]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
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Gong B, Li D, Kusko R, ..., Jones W, Xu J
Genome Biol. 22 (1) 109 [2021-04-16; online 2021-04-16]
Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative]
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An intercrypt subpopulation of goblet cells is essential for colonic mucus barrier function.
Nyström EEL, Martinez-Abad B, Arike L, ..., Hansson GC, Johansson MEV
Science 372 (6539) - [2021-04-16; online 2021-04-17]
Integrated Microscopy Technologies Gothenburg [Service]
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Dudka I, Chachaj A, Sebastian A, ..., Gröbner G, Szuba A
Journal of Pharmaceutical and Biomedical Analysis 197 (-) 113971 [2021-04-15; online 2021-02-17]
Swedish Metabolomics Centre (SMC) [Collaborative] Swedish NMR Centre (SNC) [Collaborative]
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Loss of RET Promotes Mesenchymal Identity in Neuroblastoma Cells.
Siaw JT, Gabre JL, Uçkun E, ..., Palmer RH, Guan J
Cancers (Basel) 13 (8) - [2021-04-15; online 2021-04-15]
Glycoproteomics and MS Proteomics [Service]
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Sjödin P, McKenna J, Jakobsson M
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Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Active DNRA and denitrification in oxic hypereutrophic waters.
Broman E, Zilius M, Samuiloviene A, ..., Nascimento FJA, Bonaglia S
Water Res. 194 (-) 116954 [2021-04-15; online 2021-02-21]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
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Rosengren MK, Sigurðardóttir H, Eriksson S, ..., Solé M, Lindgren G
BMC Genomics 22 (1) 267 [2021-04-14; online 2021-04-14]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
DOI Crossref
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Macromolecules 54 (7) 3507-3516 [2021-04-13; online 2021-03-19]
Swedish NMR Centre (SNC) [Service]
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DNA methylation in cord blood in association with prenatal depressive symptoms.
Kallak TK, Bränn E, Fransson E, ..., Lyle R, Skalkidou A
Clin Epigenetics 13 (1) 78 [2021-04-12; online 2021-04-12]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
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Eggers KM, Lindhagen L, Baron T, ..., Spaak J, Lindahl B
PLoS ONE 16 (4) e0249830 [2021-04-08; online 2021-04-08]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
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Montoliu-Gaya L, Tietze D, Kaminski D, ..., Tietze AA, Sterky FH
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Glycoproteomics and MS Proteomics [Collaborative] Swedish NMR Centre (SNC) [Service]
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Picton LD, Bertuzzi M, Pallucchi I, ..., Shearing PR, El Manira A
Neuron 109 (7) 1188-1201.e7 [2021-04-07; online 2021-02-11]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Chantzichristos D, Svensson PA, Garner T, ..., Stevens A, Johannsson G
Elife 10 (-) - [2021-04-06; online 2021-04-06]
Swedish Metabolomics Centre (SMC) [Service]
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Variants That Differentiate Wolf and Dog Populations Are Enriched in Regulatory Elements.
Sahlén P, Yanhu L, Xu J, ..., Wang GD, Savolainen P
Genome Biol Evol 13 (4) - [2021-04-05; online 2021-05-01]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
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Genome Biol Evol 13 (4) - [2021-04-05; online 2021-02-04]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Serum proteins associated with periodontitis relapse post-surgery: A pilot study.
Esberg A, Isehed C, Holmlund A, Lindquist S, Lundberg P
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Affinity Proteomics Uppsala [Service]
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Sharov G, Morado DR, Carroni M, de la Rosa-Trevín JM
Acta Crystallogr D Struct Biol 77 (4) 403-410 [2021-04-01; online 2021-03-30]
Cryo-EM [Technology development]
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Monoallelic and bi-allelic variants in NCDN cause neurodevelopmental delay, intellectual disability, and epilepsy.
Fatima A, Hoeber J, Schuster J, ..., Klar J, Dahl N
Am. J. Hum. Genet. 108 (4) 739-748 [2021-04-01; online 2021-03-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
Chemical Biology Consortium Sweden; Experiences in academic and industry partnerships – forging a path to translational drug discovery. - Book chapter
Gustavsson A, Chorell E
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Lind A, Akbarian E, Olsson S, ..., Razavian AS, Gordon M
PLoS ONE 16 (4) e0248809 [2021-04-01; online 2021-04-01]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Ahmed M, Adedidran F, Holovachov O
J Nematol 53 (-) - [2021-04-01; online 2021-04-01]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Uncemented or cemented stems in first-time revision total hip replacement? An observational study of 867 patients including assessment of femoral bone defect size.
Tyson Y, Hillman C, Majenburg N, ..., Mohaddes M, Hailer NP
Acta Orthop 92 (2) 143-150 [2021-04-00; online 2020-11-12]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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The heart microbiome of insectivorous bats from Central and South Eastern Europe.
Corduneanu A, Mihalca AD, Sándor AD, ..., Viso NP, Bongcam-Rudloff E
Comp Immunol Microbiol Infect Dis 75 (-) 101605 [2021-04-00; online 2021-01-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Thörn F, Rödin-Mörch P, Cortazar-Chinarro M, ..., Laurila A, Höglund J
Heredity (Edinb) 126 (4) 656-667 [2021-04-00; online 2021-02-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The C. elegans PAQR-2 and IGLR-2 membrane homeostasis proteins are uniquely essential for tolerating dietary saturated fats.
Devkota R, Henricsson M, Borén J, Pilon M
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Integrated Microscopy Technologies Gothenburg [Service]
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Correia SP, Moedas MF, Naess K, ..., Wedell A, Wredenberg A
Hum. Mutat. 42 (4) 378-384 [2021-04-00; online 2021-02-04]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Abdulla M, Alexsson A, Sundström C, ..., Hollander P, Amini RM
Acta Oncol 60 (4) 531-538 [2021-04-00; online 2021-02-12]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Neurol Genet 7 (2) e566 [2021-04-00; online 2021-03-15]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Bai Y, Fernández-Calvo P, Ritter A, ..., Goossens A, Pollier J
New Phytol. 230 (1) 228-243 [2021-04-00; online 2021-01-19]
Swedish Metabolomics Centre (SMC)
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Meta-analysis uncovers genome-wide significant variants for rapid kidney function decline.
Gorski M, Jung B, Li Y, ..., Pattaro C, Heid IM
Kidney Int. 99 (4) 926-939 [2021-04-00; online 2020-10-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Machine learning-based investigation of the cancer protein secretory pathway.
Saghaleyni R, Sheikh Muhammad A, Bangalore P, Nielsen J, Robinson JL
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
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Life-Time Covariation of Major Cardiovascular Diseases: A 40-Year Longitudinal Study and Genetic Studies.
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Circ Genom Precis Med 14 (2) e002963 [2021-04-00; online 2021-02-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Later Stone Age human hair from Vaalkrans Shelter, Cape Floristic Region of South Africa, reveals genetic affinity to Khoe groups.
Coutinho A, Malmström H, Edlund H, ..., Schlebusch CM, Jakobsson M
Am. J. Phys. Anthropol. 174 (4) 701-713 [2021-04-00; online 2021-02-04]
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LY6K-AS lncRNA is a lung adenocarcinoma prognostic biomarker and regulator of mitotic progression.
Ali MM, Di Marco M, Mahale S, ..., Kanduri M, Kanduri C
Oncogene 40 (13) 2463-2478 [2021-04-00; online 2021-03-05]
Integrated Microscopy Technologies Gothenburg [Service]
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Fohringer C, Dudka I, Spitzer R, ..., Ericsson G, Singh NJ
Ecol Evol 11 (7) 3159-3183 [2021-04-00; online 2021-03-04]
Swedish NMR Centre (SNC) [Collaborative]
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Immune cells lacking Y chromosome show dysregulation of autosomal gene expression.
Dumanski JP, Halvardson J, Davies H, ..., Ryś J, Forsberg LA
Cell. Mol. Life Sci. 78 (8) 4019-4033 [2021-04-00; online 2021-04-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Illuminating Non-genetic Cellular Heterogeneity with Imaging-Based Spatial Proteomics.
Gnann C, Cesnik AJ, Lundberg E
Trends Cancer 7 (4) 278-282 [2021-04-00; online 2021-01-10]
Spatial Proteomics [Technology development]
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Function of the pseudo phosphotransfer proteins has diverged between rice and Arabidopsis.
Vaughan-Hirsch J, Tallerday EJ, Burr CA, ..., Bishopp A, Kieber JJ
Plant J. 106 (1) 159-173 [2021-04-00; online 2021-02-08]
Swedish Metabolomics Centre (SMC) [Service]
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Extensive transcription mis-regulation and membrane defects in AdipoR2-deficient cells challenged with saturated fatty acids.
Ruiz M, Palmgren H, Henricsson M, ..., Borén J, Pilon M
Biochim Biophys Acta Mol Cell Biol Lipids 1866 (4) 158884 [2021-04-00; online 2021-01-11]
Integrated Microscopy Technologies Gothenburg [Service]
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Experimental evidence of microbial inheritance in plants and transmission routes from seed to phyllosphere and root.
Abdelfattah A, Wisniewski M, Schena L, Tack AJM
Environ. Microbiol. 23 (4) 2199-2214 [2021-04-00; online 2021-01-21]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Direct observation of hyperpolarization breaking through the spin diffusion barrier.
Stern Q, Cousin SF, Mentink-Vigier F, ..., Cala O, Jannin S
Sci Adv 7 (18) - [2021-04-00; online 2021-04-30]
Swedish NMR Centre (SNC) [Collaborative]
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Development of a highly efficient 50K single nucleotide polymorphism genotyping array for the large and complex genome of Norway spruce (Picea abies L. Karst) by whole genome resequencing and its transferability to other spruce species.
Bernhardsson C, Zan Y, Chen Z, Ingvarsson PK, Wu HX
Mol Ecol Resour 21 (3) 880-896 [2021-04-00; online 2020-12-02]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Correction to: High-Resolution Regulatory Maps Connect Vascular Risk Variants to Disease-Related Pathways.
Circ Genom Precis Med 14 (2) e000081 [2021-04-00; online 2021-03-02]
Bioinformatics Support for Computational Resources [Service]
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Burden of rare variants in synaptic genes in patients with severe tinnitus: An exome based extreme phenotype study.
Amanat S, Gallego-Martinez A, Sollini J, ..., Cederroth CR, Lopez-Escamez JA
EBioMedicine 66 (-) 103309 [2021-04-00; online 2021-04-01]
Bioinformatics Support for Computational Resources [Service]
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Autoantibodies against the C-terminus of Lipopolysaccharide binding protein are elevated in young adults with psychiatric disease.
Just D, Rasmusson AJ, Nilsson P, ..., Månberg A, Cunningham JL
Psychoneuroendocrinology 126 (-) 105162 [2021-04-00; online 2021-02-04]
Affinity Proteomics Uppsala [Service]
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A modified protein marker panel to identify four consensus molecular subtypes in colorectal cancer using immunohistochemistry.
Li X, Larsson P, Ljuslinder I, ..., Edin S, Palmqvist R
Pathol Res Pract 220 (-) 153379 [2021-04-00; online 2021-03-05]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Umeå [Collaborative]
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Unnersjö-Jess D, Butt L, Höhne M, ..., Brismar H, Blom H
Kidney Int. 99 (4) 1010-1020 [2021-04-00; online 2020-12-05]
Integrated Microscopy Technologies Stockholm [Technology development]
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Deletions on Chromosome Y and Downregulation of the SRY Gene in Tumor Tissue Are Associated with Worse Survival of Glioblastoma Patients.
Łysiak M, Smits A, Roodakker KR, ..., Söderkvist P, Malmström A
Cancers (Basel) 13 (7) - [2021-03-31; online 2021-03-31]
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Qu Y, Chen C, Chen X, ..., Zhang YE, Lei F
Proc. Natl. Acad. Sci. U.S.A. 118 (13) e2012398118 [2021-03-30; online 2021-03-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Pan J, Borné Y, Orho-Melander M, ..., Melander O, Engström G
Clin Proteomics 18 (1) 12 [2021-03-30; online 2021-03-30]
Affinity Proteomics Uppsala [Service]
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Multiple migrations to the Philippines during the last 50,000 years.
Larena M, Sanchez-Quinto F, Sjödin P, ..., Endicott P, Jakobsson M
Proc. Natl. Acad. Sci. U.S.A. 118 (13) - [2021-03-30; online 2021-03-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Indukuri R, Hases L, Archer A, Williams C
Front Endocrinol (Lausanne) 12 (-) 650625 [2021-03-30; online 2021-03-30]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Hu M, Zhang Y, Li X, ..., Shao LR, Billig H
J. Clin. Endocrinol. Metab. 106 (4) 1022-1040 [2021-03-25; online 2021-01-01]
Integrated Microscopy Technologies Gothenburg [Service]
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High-Throughput and Automated Acoustic Trapping of Extracellular Vesicles to Identify microRNAs With Diagnostic Potential for Prostate Cancer.
Ku A, Fredsøe J, Sørensen KD, ..., Lilja H, Ceder Y
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Front Neurol 12 (-) 652590 [2021-03-25; online 2021-03-25]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Nat Commun 12 (1) 1879 [2021-03-25; online 2021-03-25]
Bioinformatics Support for Computational Resources [Service]
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Drake I, Hindy G, Almgren P, ..., Melander O, Orho-Melander M
Sci Rep 11 (1) 6734 [2021-03-24; online 2021-03-24]
Affinity Proteomics Uppsala [Service]
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NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Persson A, Nikpour M, Vorontsov E, Nilsson J, Larson G
Mol. Cell Proteomics 20 (-) 100074 [2021-03-20; online 2021-03-20]
Glycoproteomics and MS Proteomics [Collaborative]
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SOCS3 Expression by Thymic Stromal Cells Is Required for Normal T Cell Development.
Gao Y, Liu R, He C, ..., Carow B, Rottenberg ME
Front Immunol 12 (-) 642173 [2021-03-18; online 2021-03-18]
Global Proteomics and Proteogenomics [Collaborative]
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Proteomic blood profiling in mild, severe and critical COVID-19 patients.
Patel H, Ashton NJ, Dobson RJB, ..., Gisslen M, Zetterberg H
Sci Rep 11 (1) 6357 [2021-03-18; online 2021-03-18]
Affinity Proteomics Uppsala [Service]
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Stenmark B, Eriksson L, Thulin Hedberg S, ..., Roberts RJ, Mölling P
Sci Rep 11 (1) 6239 [2021-03-18; online 2021-03-18]
Clinical Genomics [Technology development] Clinical Genomics Örebro [Technology development]
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Öz R, Wang JL, Guerois R, ..., Strick TR, Westerlund F
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Integrated Microscopy Technologies Gothenburg [Service]
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PRDM16 regulates a temporal transcriptional program to promote progression of cortical neural progenitors.
He L, Jones J, He W, ..., Wen J, Dai Q
Development 148 (6) - [2021-03-17; online 2021-03-17]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Integration of whole genome sequencing into a healthcare setting: high diagnostic rates across multiple clinical entities in 3219 rare disease patients.
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Genome Med 13 (1) 40 [2021-03-17; online 2021-03-17]
Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative]
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Reproducible, portable, and efficient ancient genome reconstruction with nf-core/eager.
Fellows Yates JA, Lamnidis TC, Borry M, ..., Neukamm J, Peltzer A
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NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
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Expansions of adaptive-like NK cells with a tissue-resident phenotype in human lung and blood.
Brownlie D, Scharenberg M, Mold JE, ..., Marquardt N, Michaëlsson J
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NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Effects of Lactobacillus reuteri supplementation on the gut microbiota in extremely preterm infants in a randomized placebo-controlled trial.
Martí M, Spreckels JE, Ranasinghe PD, ..., Jenmalm MC, Abrahamsson T
Cell Reports Medicine 2 (3) 100206 [2021-03-16; online 2021-02-22]
Bioinformatics Support for Computational Resources [Service]
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COVIDENZA - A prospective, multicenter, randomized PHASE II clinical trial of enzalutamide treatment to decrease the morbidity in patients with Corona virus disease 2019 (COVID-19): a structured summary of a study protocol for a randomised controlled trial.
Welén K, Överby AK, Ahlm C, ..., Gisslén M, Josefsson A
Trials 22 (1) 209 [2021-03-16; online 2021-03-16]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Subcellular Distribution of p53 by the p53-Responsive lncRNA NBAT1 Determines Chemotherapeutic Response in Neuroblastoma.
Mitra S, Muralidharan SV, Di Marco M, ..., Mondal T, Kanduri C
Cancer Res. 81 (6) 1457-1471 [2021-03-15; online 2020-12-28]
Bioinformatics Support for Computational Resources [Service]
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Quantifying absolute gene expression profiles reveals distinct regulation of central carbon metabolism genes in yeast.
Yu R, Vorontsov E, Sihlbom C, Nielsen J
Elife 10 (-) - [2021-03-15; online 2021-03-15]
Glycoproteomics and MS Proteomics [Collaborative]
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Circulating proteins associated with allergy development in infants-an exploratory analysis.
Stockfelt M, Hong M, Hesselmar B, ..., Lundell A, Rudin A
Clin Proteomics 18 (1) 11 [2021-03-15; online 2021-03-15]
Affinity Proteomics Stockholm [Service]
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3D-printing of solid lipid tablets from emulsion gels.
Johannesson J, Khan J, Hubert M, Teleki A, Bergström CAS
Int J Pharm 597 (-) 120304 [2021-03-15; online 2021-02-01]
Integrated Microscopy Technologies Umeå [Service]
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Transcriptional analysis of islets of Langerhans from organ donors of different ages.
Seiron P, Stenwall A, Hedin A, ..., Lundberg M, Skog O
PLoS ONE 16 (3) e0247888 [2021-03-12; online 2021-03-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Neisseria gonorrhoeae Sequence Typing for Antimicrobial Resistance (NG-STAR) clonal complexes are consistent with genomic phylogeny and provide simple nomenclature, rapid visualization and antimicrobial resistance (AMR) lineage predictions.
Golparian D, Sánchez-Busó L, Cole M, Unemo M
J. Antimicrob. Chemother. 76 (4) 940-944 [2021-03-12; online 2021-01-08]
Clinical Genomics [Technology development] Clinical Genomics Örebro [Technology development]
PubMed DOI Crossref
The Fennoscandian Shield deep terrestrial virosphere suggests slow motion 'boom and burst' cycles.
Holmfeldt K, Nilsson E, Simone D, ..., Bertilsson S, Dopson M
Commun Biol 4 (1) 307 [2021-03-08; online 2021-03-08]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Single cell transcriptomics of primate sensory neurons identifies cell types associated with chronic pain.
Kupari J, Usoskin D, Parisien M, ..., Diatchenko L, Ernfors P
Nat Commun 12 (1) 1510 [2021-03-08; online 2021-03-08]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Insight into Functional Membrane Proteins by Solution NMR: The Human Bcl-2 Protein-A Promising Cancer Drug Target.
Ul Mushtaq A, Ådén J, Sparrman T, Hedenström M, Gröbner G
Molecules 26 (5) 1467 [2021-03-08; online 2021-03-08]
Chemical Biology Consortium Sweden (CBCS) [Service] Swedish NMR Centre (SNC) [Service]
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Heterogeneous Hunter-Gatherer and Steppe-Related Ancestries in Late Neolithic and Bell Beaker Genomes from Present-Day France.
Seguin-Orlando A, Donat R, Der Sarkissian C, ..., Guilaine J, Orlando L
Curr. Biol. 31 (5) 1072-1083.e10 [2021-03-08; online 2021-01-13]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Albumin Urinary Excretion Is Associated with Increased Levels of Urinary Chemokines, Cytokines, and Growth Factors Levels in Humans.
Fellström B, Helmersson-Karlqvist J, Lind L, ..., Kultima K, Larsson A
Biomolecules 11 (3) - [2021-03-08; online 2021-03-08]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Sperm Methylome Profiling Can Discern Fertility Levels in the Porcine Biomedical Model.
Pértille F, Alvarez-Rodriguez M, da Silva AN, ..., Guerrero-Bosagna C, Rodriguez-Martinez H
Int J Mol Sci 22 (5) 2679 [2021-03-06; online 2021-03-06]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Prevalence of germline pathogenic variants in 22 cancer susceptibility genes in Swedish pediatric cancer patients.
von Stedingk K, Stjernfelt KJ, Kvist A, ..., Olsson H, Øra I
Sci Rep 11 (1) 5307 [2021-03-05; online 2021-03-05]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
OmicLoupe: facilitating biological discovery by interactive exploration of multiple omic datasets and statistical comparisons.
Willforss J, Siino V, Levander F
BMC Bioinformatics 22 (1) 107 [2021-03-04; online 2021-03-04]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
NMR Structure and Dynamics Studies of Yeast Respiratory Supercomplex Factor 2.
Zhou S, Pettersson P, Huang J, ..., Mäler L, Ädelroth P
Structure 29 (3) 275-283.e4 [2021-03-04; online 2020-09-08]
Swedish NMR Centre (SNC) [Service]
DOI Crossref
Expanding functional protein sequence spaces using generative adversarial networks
Repecka D, Jauniskis V, Karpus L, ..., Engqvist MKM, Zelezniak A
Nat Mach Intell 3 (4) 324-333 [2021-03-04; online 2021-03-04]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Effluent solids recirculation to municipal sludge digesters enhances long-chain fatty acids degradation capacity.
Shakeri Yekta S, Liu T, Mendes Anacleto T, ..., Björn A, Schnürer A
Biotechnol Biofuels 14 (1) 56 [2021-03-04; online 2021-03-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Antibodies to SARS-CoV-2 and risk of past or future sick leave.
Dillner J, Elfström KM, Blomqvist J, ..., Mühr LSA, Conneryd Lundgren K
Sci Rep 11 (1) 5160 [2021-03-04; online 2021-03-04]
Autoimmunity and Serology Profiling [Service]
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A two-tiered targeted proteomics approach to identify pre-diagnostic biomarkers of colorectal cancer risk.
Harlid S, Harbs J, Myte R, ..., Liu X, Van Guelpen B
Sci Rep 11 (1) 5151 [2021-03-04; online 2021-03-04]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Extracellular Vesicles for the Treatment of Radiation-Induced Normal Tissue Toxicity in the Lung.
Montay-Gruel P, Zhu Y, Petit B, ..., Vozenin MC, Limoli CL
Front Oncol 10 (-) 602763 [2021-03-02; online 2021-03-02]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
A polysaccharide utilization locus from the gut bacterium Dysgonomonas mossii encodes functionally distinct carbohydrate esterases.
Kmezik C, Mazurkewich S, Meents T, ..., Brändén G, Larsbrink J
J. Biol. Chem. 296 (-) 100500 [2021-03-02; online 2021-03-02]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Divergence in Coding Sequence and Expression of Different Functional Categories of Immune Genes between Two Wild Rodent Species.
Zhong X, Lundberg M, Råberg L
Genome Biol Evol 13 (3) - [2021-03-01; online 2021-02-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Comparative analysis of targeted next-generation sequencing panels for the detection of gene mutations in chronic lymphocytic leukemia: an ERIC multi-center study.
Sutton L, Ljungström V, Enjuanes A, ..., Stamatopoulos K, Rosenquist R
Haematologica 106 (3) 682-691 [2021-03-01; online 2021-03-01]
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Whole-genome analyses provide no evidence for dog introgression in Fennoscandian wolf populations.
Smeds L, Aspi J, Berglund J, ..., Tirronen K, Ellegren H
Evol Appl 14 (3) 721-734 [2021-03-00; online 2020-11-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics.
Muus C, Luecken MD, Eraslan G, ..., NHLBI LungMap Consortium , Human Cell Atlas Lung Biological Network
Nat. Med. 27 (3) 546-559 [2021-03-00; online 2021-03-02]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Serum choline in extremely preterm infants declines with increasing parenteral nutrition.
Nilsson AK, Pedersen A, Malmodin D, ..., Pupp IH, Hellström A
Eur J Nutr 60 (2) 1081-1089 [2021-03-00; online 2020-06-25]
Swedish NMR Centre (SNC) [Collaborative]
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RNA transcript response by an Acidithiobacillus spp. mixed culture reveals adaptations to growth on arsenopyrite.
Barragán CE, Márquez MA, Dopson M, Montoya D
Extremophiles 25 (2) 143-158 [2021-03-00; online 2021-02-22]
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Plasma oxylipin levels associated with preterm birth in preterm labor✰.
Svenvik M, Raffetseder J, Brudin L, ..., Ernerudh J, Nording ML
Prostaglandins, Leukotrienes and Essential Fatty Acids (PLEFA) 166 (-) 102251 [2021-03-00; online 2021-01-23]
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Plasma metabolomics of presymptomatic PSEN1-H163Y mutation carriers: a pilot study.
Natarajan K, Ullgren A, Khoshnood B, ..., Blennow K, Graff C
Ann Clin Transl Neurol 8 (3) 579-591 [2021-03-00; online 2021-01-21]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] Swedish Metabolomics Centre (SMC) [Service]
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Million-year-old DNA sheds light on the genomic history of mammoths.
van der Valk T, Pečnerová P, Díez-Del-Molino D, ..., Götherström A, Dalén L
Nature 591 (7849) 265-269 [2021-03-00; online 2021-02-17]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Isolation and characterization of extracellular vesicle subpopulations from tissues.
Crescitelli R, Lässer C, Lötvall J
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Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Collaborative]
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Swedish NMR Centre (SNC) [Collaborative]
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Ludvigsson JF, Axelrad J, Halfvarson J, ..., Söderling J, Olén O
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Affinity Proteomics Uppsala [Service]
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Experimental evolution of adaptive divergence under varying degrees of gene flow.
Tusso S, Nieuwenhuis BPS, Weissensteiner B, Immler S, Wolf JBW
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Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Evaluation of the prognostic value of GDF-15, ABC-AF-bleeding score and ABC-AF-death score in patients with atrial fibrillation across different geographical areas.
Pol T, Hijazi Z, Lindbäck J, ..., Siegbahn A, Wallentin L
Open Heart 8 (1) - [2021-03-00; online 2021-03-21]
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Escherichia coli EC93 deploys two plasmid-encoded class I contact-dependent growth inhibition systems for antagonistic bacterial interactions.
Wäneskog M, Halvorsen T, Filek K, ..., Poole SJ, Koskiniemi S
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Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Swedish NMR Centre (SNC) [Collaborative]
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Cyclin A2 localises in the cytoplasm at the S/G2 transition to activate PLK1.
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NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Combined Use of Detergents and Ultrasonication for Generation of an Acellular Pig Larynx.
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Tissue Eng Part A 27 (5-6) 362-371 [2021-03-00; online 2020-09-10]
Integrated Microscopy Technologies Gothenburg [Collaborative]
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Changes in Circulating Cytokines and Adipokines After RYGB in Patients with and without Type 2 Diabetes.
Katsogiannos P, Kamble PG, Pereira MJ, ..., Eriksson JW, Espes D
Obesity (Silver Spring) 29 (3) 535-542 [2021-03-00; online 2021-02-25]
Affinity Proteomics Stockholm [Service]
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Allergome-wide peptide microarrays enable epitope deconvolution in allergen-specific immunotherapy
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Autoimmunity and Serology Profiling [Collaborative]
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Abundantly expressed class of noncoding RNAs conserved through the multicellular evolution of dictyostelid social amoebas.
Kjellin J, Avesson L, Reimegård J, ..., Schaap P, Söderbom F
Genome Res. 31 (3) 436-447 [2021-03-00; online 2021-01-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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System-wide identification and prioritization of enzyme substrates by thermal analysis.
Saei AA, Beusch CM, Sabatier P, ..., Schüler H, Zubarev RA
Nat Commun 12 (1) 1296 [2021-02-26; online 2021-02-26]
Chemical Proteomics [Technology development]
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Commun Biol 4 (1) 250 [2021-02-26; online 2021-02-26]
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Highly Soluble CsPbBr<sub>3</sub> Perovskite Quantum Dots for Solution-Processed Light-Emission Devices
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ACS Appl. Nano Mater. 4 (2) 1162-1174 [2021-02-26; online 2021-01-13]
Integrated Microscopy Technologies Umeå [Service]
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Peptidoglycan-Binding Anchor Is a Pseudomonas aeruginosa OmpA Family Lipoprotein With Importance for Outer Membrane Vesicles, Biofilms, and the Periplasmic Shape.
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Front Microbiol 12 (-) 639582 [2021-02-25; online 2021-02-25]
Cryo-EM [Collaborative]
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Vibrio cholerae cytotoxin MakA induces noncanonical autophagy resulting in the spatial inhibition of canonical autophagy.
Corkery DP, Nadeem A, Aung KM, ..., Wai SN, Wu Y
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Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Meta-Analysis of Gene Popularity: Less Than Half of Gene Citations Stem from Gene Regulatory Networks.
Mihai IS, Das D, Maršalkaite G, Henriksson J
Genes 12 (2) - [2021-02-23; online 2021-02-23]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Challenging conventional karyotyping by next-generation karyotyping in 281 intensively treated patients with AML.
Mareschal S, Palau A, Lindberg J, ..., Grönberg H, Lehmann S
Blood Adv 5 (4) 1003-1016 [2021-02-23; online 2021-02-17]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Chenodeoxycholic Acid Modulates Bile Acid Synthesis Independent of Fibroblast Growth Factor 19 in Primary Human Hepatocytes.
Johansson H, Søndergaard JN, Jorns C, Kutter C, Ellis ECS
Front Endocrinol (Lausanne) 11 (-) 554922 [2021-02-22; online 2021-02-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Single-Cell Analysis of Blood-Brain Barrier Response to Pericyte Loss.
Mäe MA, He L, Nordling S, ..., Keller A, Betsholtz C
Circ. Res. 128 (4) e46-e62 [2021-02-19; online 2020-12-30]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Mechanism of membrane-tethered mitochondrial protein synthesis.
Itoh Y, Andréll J, Choi A, ..., Battersby BJ, Amunts A
Science 371 (6531) 846-849 [2021-02-19; online 2021-02-20]
Global Proteomics and Proteogenomics [Service]
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Continuous human uterine NK cell differentiation in response to endometrial regeneration and pregnancy.
Strunz B, Bister J, Jönsson H, ..., Ivarsson MA, Björkström NK
Sci Immunol 6 (56) eabb7800 [2021-02-19; online 2021-02-19]
Cellular Immunomonitoring [Service]
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Harzandi A, Lee S, Bidkhori G, ..., Shoaie S, Sharpe CC
iScience 24 (2) 102046 [2021-02-19; online 2021-01-09]
Bioinformatics Support for Computational Resources [Service]
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Sheep nemabiome diversity and its response to anthelmintic treatment in Swedish sheep herds.
Halvarsson P, Höglund J
Parasit Vectors 14 (1) 114 [2021-02-18; online 2021-02-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Kaminska K, Akrap N, Staaf J, ..., Bosch A, Honeth G
Breast Cancer Res. 23 (1) 26 [2021-02-18; online 2021-02-18]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Characterization of the nuclear and cytosolic transcriptomes in human brain tissue reveals new insights into the subcellular distribution of RNA transcripts.
Zaghlool A, Niazi A, Björklund ÅK, ..., Ameur A, Feuk L
Sci Rep 11 (1) 4076 [2021-02-18; online 2021-02-18]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Elastin-like recombinamers-based hydrogel modulates post-ischemic remodeling in a non-transmural myocardial infarction in sheep.
Contessotto P, Orbanić D, Da Costa M, ..., Rodríguez-Cabello JC, Pandit A
Sci Transl Med 13 (581) - [2021-02-17; online 2021-02-19]
Glycoproteomics and MS Proteomics [Service]
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Overexpression of vesicle-associated membrane protein PttVAP27-17 as a tool to improve biomass production and the overall saccharification yields in Populus trees.
Gandla ML, Mähler N, Escamez S, ..., Tuominen H, Jönsson LJ
Biotechnol Biofuels 14 (1) 43 [2021-02-16; online 2021-02-16]
Swedish Metabolomics Centre (SMC) [Collaborative]
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Mode of Action of Disinfection Chemicals on the Bacterial Spore Structure and Their Raman Spectra.
Malyshev D, Dahlberg T, Wiklund K, ..., Henriksson S, Andersson M
Anal. Chem. 93 (6) 3146-3153 [2021-02-16; online 2021-02-01]
Integrated Microscopy Technologies Umeå [Collaborative]
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IL-22 promotes the formation of a MUC17 glycocalyx barrier in the postnatal small intestine during weaning.
Layunta E, Jäverfelt S, Dolan B, Arike L, Pelaseyed T
Cell Rep 34 (7) 108757 [2021-02-16; online 2021-02-18]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Comparative Fungal Community Analyses Using Metatranscriptomics and Internal Transcribed Spacer Amplicon Sequencing from Norway Spruce.
Schneider AN, Sundh J, Sundström G, ..., Hurry V, Street NR
mSystems 6 (1) - [2021-02-16; online 2021-02-16]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Biological and therapeutic implications of a unique subtype of NPM1 mutated AML.
Mer AS, Heath EM, Madani Tonekaboni SA, ..., Schimmer AD, Haibe-Kains B
Nat Commun 12 (1) 1054 [2021-02-16; online 2021-02-16]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Time-Dependent Effects of Oral Contraceptive Use on Breast, Ovarian, and Endometrial Cancers.
Karlsson T, Johansson T, Höglund J, Ek WE, Johansson Å
Cancer Res. 81 (4) 1153-1162 [2021-02-15; online 2020-12-17]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Functional and Neurochemical Identification of Ghrelin Receptor (GHSR)-Expressing Cells of the Lateral Parabrachial Nucleus in Mice.
Le May MV, Peris-Sampedro F, Stoltenborg I, ..., Adan RAH, Dickson SL
Front. Neurosci. 15 (-) 633018 [2021-02-15; online 2021-02-15]
Integrated Microscopy Technologies Gothenburg [Service]
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Distinct subtypes of proprioceptive dorsal root ganglion neurons regulate adaptive proprioception in mice.
Wu H, Petitpré C, Fontanet P, ..., Hadjab S, Lallemend F
Nat Commun 12 (1) 1026 [2021-02-15; online 2021-02-15]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Disassociated molecular orientation distributions of a composite cellulose-lignin carbon fiber precursor: A study by rotor synchronized NMR spectroscopy and X-ray scattering.
Svenningsson L, Bengtsson J, Jedvert K, ..., Theliander H, Evenäs L
Carbohydr Polym 254 (-) 117293 [2021-02-15; online 2020-11-08]
Swedish NMR Centre (SNC) [Service]
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Combined removal of organic micropollutants and ammonium in reactive barriers developed for managed aquifer recharge.
Modrzyński JJ, Aamand J, Wittorf L, ..., Hallin S, Albers CN
Water Res. 190 (-) 116669 [2021-02-15; online 2020-11-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Asymmetric introgression reveals the genetic architecture of a plumage trait.
Semenov GA, Linck E, Enbody ED, ..., Andersson L, Taylor SA
Nat Commun 12 (1) 1019 [2021-02-15; online 2021-02-15]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Association between breast cancer risk and disease aggressiveness: Characterizing underlying gene expression patterns.
Ugalde-Morales E, Grassmann F, Humphreys K, ..., Hall P, Czene K
Int. J. Cancer 148 (4) 884-894 [2021-02-15; online 2020-09-05]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Temperature Stress Induces Shift From Co-Existence to Competition for Organic Carbon in Microalgae-Bacterial Photobioreactor Community - Enabling Continuous Production of Microalgal Biomass.
Sörenson E, Capo E, Farnelid H, Lindehoff E, Legrand C
Front Microbiol 12 (-) 607601 [2021-02-11; online 2021-02-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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GWAS for autoimmune Addison's disease identifies multiple risk loci and highlights AIRE in disease susceptibility.
Eriksson D, Røyrvik EC, Aranda-Guillén M, ..., Kämpe O, Husebye ES
Nat Commun 12 (1) 959 [2021-02-11; online 2021-02-11]
Bioinformatics Support for Computational Resources [Service]
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Using Isopropanol as a Capping Agent in the Hydrothermal Liquefaction of Kraft Lignin in Near-Critical Water
Ahlbom A, Maschietti M, Nielsen R, ..., Hasani M, Theliander H
Energies 14 (4) 932 [2021-02-10; online 2021-02-10]
Swedish NMR Centre (SNC) [Service]
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Neuromesodermal progenitor origin of trunk neural crest in vivo
Lukoseviciute M, Mayes S, Sauka-Spengler T
- - (-) - [2021-02-10; online 2021-02-10]
Integrated Microscopy Technologies Stockholm [Service]
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Circulating tight-junction proteins are potential biomarkers for blood-brain barrier function in a model of neonatal hypoxic/ischemic brain injury.
Andersson EA, Mallard C, Ek CJ
Fluids Barriers CNS 18 (1) 7 [2021-02-10; online 2021-02-10]
Integrated Microscopy Technologies Gothenburg [Service]
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A novel canine reference genome resolves genomic architecture and uncovers transcript complexity.
Wang C, Wallerman O, Arendt ML, ..., Meadows JRS, Lindblad-Toh K
Commun Biol 4 (1) 185 [2021-02-10; online 2021-02-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Major alterations in the mononuclear phagocyte landscape associated with COVID-19 severity.
Kvedaraite E, Hertwig L, Sinha I, ..., Svensson M, Karolinska KI/K COVID-19 Study Group
Proc. Natl. Acad. Sci. U.S.A. 118 (6) e2018587118 [2021-02-09; online 2021-01-23]
Affinity Proteomics Stockholm [Service]
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Genomic characterization of relapsed acute myeloid leukemia reveals novel putative therapeutic targets.
Stratmann S, Yones SA, Mayrhofer M, ..., Cavelier L, Holmfeldt L
Blood Adv 5 (3) 900-912 [2021-02-09; online 2021-02-10]
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Distinct developmental pathways from blood monocytes generate human lung macrophage diversity.
Evren E, Ringqvist E, Tripathi KP, ..., Villablanca EJ, Willinger T
Immunity 54 (2) 259-275.e7 [2021-02-09; online 2020-12-30]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Chromaffin Cells with Sympathoblast Signature: Too Similar to Keep Apart?
Bedoya-Reina OC, Schlisio S
Cancer Cell 39 (2) 134-135 [2021-02-08; online 2020-12-31]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
The structure of human dermatan sulfate epimerase 1 emphasizes the importance of C5-epimerization of glucuronic acid in higher organisms.
Hasan M, Khakzad H, Happonen L, ..., Malmström A, Tykesson E
Chem. Sci. 12 (5) 1869-1885 [2021-02-07; online 2020-12-08]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
multiclassPairs: An R package to train multiclass pairbased classifier.
Marzouka NA, Eriksson P
Bioinformatics - (-) - [2021-02-05; online 2021-02-05]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
DOI Crossref
Transport Properties and Local Structure of an Imidazole/Protic Ionic Liquid Mixture Confined in the Mesopores of Hydrophobic Silica
Vavra S, Elamin K, Evenäs L, Martinelli A
J. Phys. Chem. C 125 (4) 2607-2618 [2021-02-04; online 2021-01-27]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Signaling Mechanism of Phytochromes in Solution.
Isaksson L, Gustavsson E, Persson C, ..., Orekhov V, Westenhoff S
Structure 29 (2) 151-160.e3 [2021-02-04; online 2020-09-10]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Cell-free tumour DNA analysis detects copy number alterations in gastro-oesophageal cancer patients.
Wallander K, Eisfeldt J, Lindblad M, ..., Liedén A, Tham E
PLoS ONE 16 (2) e0245488 [2021-02-04; online 2021-02-04]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Sex Disparities in MGMT Promoter Methylation and Survival in Glioblastoma: Further Evidence from Clinical Cohorts.
Smits A, Lysiak M, Magnusson A, ..., Söderkvist P, Malmström A
J Clin Med 10 (4) - [2021-02-03; online 2021-02-03]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Plasma proteome profiling of cardiotoxicity in patients with diffuse large B-cell lymphoma.
Mörth C, Sabaa AA, Freyhult E, ..., Eriksson A, Enblad G
Cardiooncology 7 (1) 6 [2021-02-03; online 2021-02-03]
Affinity Proteomics Uppsala [Service] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Halophytophthora fluviatilis Pathogenicity and Distribution along a Mediterranean-Subalpine Gradient.
Caballol M, Štraus D, Macia H, ..., Redondo MÁ, Oliva J
JoF 7 (2) 112 [2021-02-03; online 2021-02-03]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Genomic Evidence of an Ancient East Asian Divergence Event in Wild Saccharomyces cerevisiae.
Bendixsen DP, Gettle N, Gilchrist C, Zhang Z, Stelkens R
Genome Biol Evol 13 (2) - [2021-02-03; online 2021-01-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Soluble TatA forms oligomers that interact with membranes: Structure and insertion studies of a versatile protein transporter.
Pettersson P, Patrick J, Jakob M, ..., Wennmalm S, Mäler L
Biochimica et Biophysica Acta (BBA) - Biomembranes 1863 (2) 183529 [2021-02-01; online 2020-12-03]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Mapping the energy landscape of protein-ligand binding via linear free energy relationships determined by protein NMR relaxation dispersion.
Stenström O, Diehl C, Modig K, Nilsson UJ, Akke M
RSC Chem Biol 2 (1) 259-265 [2021-02-01; online 2020-12-23]
Swedish NMR Centre (SNC) [Service]
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Isolation of high-yield and -quality RNA from human precision-cut lung slices for RNA-sequencing and computational integration with larger patient cohorts.
Stegmayr J, Alsafadi HN, Langwiński W, ..., Leigh ND, Wagner DE
Am J Physiol Lung Cell Mol Physiol 320 (2) L232-L240 [2021-02-01; online 2020-10-28]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Genetic and clinical basis for two distinct subtypes of primary Sjögren's syndrome.
Thorlacius GE, Hultin-Rosenberg L, Sandling JK, ..., Wahren-Herlenius M, Nordmark G
Rheumatology (Oxford) 60 (2) 837-848 [2021-02-01; online 2020-09-06]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Genetic Risk Score for Serum 25-Hydroxyvitamin D Concentration Helps to Guide Personalized Vitamin D Supplementation in Healthy Finnish Adults.
Sallinen RJ, Dethlefsen O, Ruotsalainen S, ..., Kaunisto MA, Kallioniemi O
J. Nutr. 151 (2) 281-292 [2021-02-01; online 2021-01-01]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
ALK ligand ALKAL2 potentiates MYCN-driven neuroblastoma in the absence of ALK mutation.
Borenäs M, Umapathy G, Lai WY, ..., Hallberg B, Palmer RH
EMBO J. 40 (3) e105784 [2021-02-01; online 2021-01-07]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] Glycoproteomics and MS Proteomics [Service]
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The one-carbon pool controls mitochondrial energy metabolism via complex I and iron-sulfur clusters.
Schober FA, Moore D, Atanassov I, ..., Freyer C, Wredenberg A
Sci Adv 7 (8) - [2021-02-00; online 2021-02-19]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Taste perception and lifestyle: insights from phenotype and genome data among Africans and Asians.
Sjöstrand AE, Sjödin P, Hegay T, ..., Heyer E, Jakobsson M
Eur. J. Hum. Genet. 29 (2) 325-337 [2021-02-00; online 2020-10-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatiotemporal dissection of the cell cycle with single-cell proteogenomics.
Mahdessian D, Cesnik AJ, Gnann C, ..., Sullivan DP, Lundberg E
Nature 590 (7847) 649-654 [2021-02-00; online 2021-02-24]
Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Spatial Proteomics [Collaborative]
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Small-scale population divergence is driven by local larval environment in a temperate amphibian.
Rödin-Mörch P, Palejowski H, Cortazar-Chinarro M, ..., Höglund J, Laurila A
Heredity (Edinb) 126 (2) 279-292 [2021-02-00; online 2020-09-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Single nucleus transcriptomics data integration recapitulates the major cell types in human liver.
Diamanti K, Inda Díaz JS, Raine A, ..., Wadelius C, Cavalli M
Hepatol Res 51 (2) 233-238 [2021-02-00; online 2020-11-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
DOI Crossref
Sea‐ice microbial communities in the Central Arctic Ocean: Limited responses to short‐term <scp> pCO <sub>2</sub> </scp> perturbations
Torstensson A, Margolin AR, Showalter GM, ..., Bolinesi F, Deming JW
Limnol Oceanogr 66 (S1) - [2021-02-00; online 2021-01-20]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Root trait-microbial relationships across tundra plant species.
Spitzer CM, Lindahl B, Wardle DA, ..., Fanin N, Kardol P
New Phytol. 229 (3) 1508-1520 [2021-02-00; online 2020-10-30]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Role of H1 and DNA methylation in selective regulation of transposable elements during heat stress.
Liu S, de Jonge J, Trejo-Arellano MS, ..., Köhler C, Hennig L
New Phytol. 229 (4) 2238-2250 [2021-02-00; online 2020-11-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Proactive Construction of an Annotated Imaging Database for Artificial Intelligence Training.
Stadler CB, Lindvall M, Lundström C, ..., Woisetschläger M, Forsberg D
J Digit Imaging 34 (1) 105-115 [2021-02-00; online 2020-11-11]
AIDA Data Hub [Technology development] Bioinformatics (NBIS) [Technology development]
PubMed DOI Crossref
Measuring Domain Shift for Deep Learning in Histopathology.
Stacke K, Eilertsen G, Unger J, Lundstrom C
IEEE J Biomed Health Inform 25 (2) 325-336 [2021-02-00; online 2021-02-05]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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MAP3K6 Mutations in a Neurovascular Disease Causing Stroke, Cognitive Impairment, and Tremor.
Ilinca A, Englund E, Samuelsson S, ..., Lindgren AG, Puschmann A
Neurol Genet 7 (1) e548 [2021-02-00; online 2021-01-21]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Increased apoptosis, reduced Wnt/β-catenin signaling, and altered tail development in zebrafish embryos exposed to a human-relevant chemical mixture.
Smirnova A, Mentor A, Ranefall P, ..., Mattsson A, Jönsson M
Chemosphere 264 (1) 128467 [2021-02-00; online 2020-09-30]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Genome Engineering Zebrafish [Service]
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Hypoxia inducible factor-2α importance for migration, proliferation, and self-renewal of trunk neural crest cells.
Niklasson CU, Fredlund E, Monni E, ..., Bronner ME, Mohlin S
Dev. Dyn. 250 (2) 191-236 [2021-02-00; online 2020-09-26]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Hybrid seed incompatibility in Capsella is connected to chromatin condensation defects in the endosperm.
Dziasek K, Simon L, Lafon-Placette C, ..., Slotte T, Köhler C
PLoS Genet. 17 (2) e1009370 [2021-02-00; online 2021-02-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide single nucleotide polymorphism markers reveal population structure and dispersal direction of an expanding nuisance algal bloom species.
Rengefors K, Gollnisch R, Sassenhagen I, ..., Bassham S, Ahrén D
Mol. Ecol. 30 (4) 912-925 [2021-02-00; online 2021-01-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Elastin-like hydrogel stimulates angiogenesis in a severe model of critical limb ischemia (CLI): An insight into the glyco-host response.
Marsico G, Jin C, Abbah SA, ..., McCullagh KJA, Pandit A
Biomaterials 269 (-) 120641 [2021-02-00; online 2021-01-04]
Glycoproteomics and MS Proteomics [Service]
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Effects of Evolocumab on the Postprandial Kinetics of Apo (Apolipoprotein) B100- and B48-Containing Lipoproteins in Subjects With Type 2 Diabetes.
Taskinen MR, Björnson E, Kahri J, ..., Packard CJ, Borén J
Arterioscler. Thromb. Vasc. Biol. 41 (2) 962-975 [2021-02-00; online 2020-12-24]
Glycoproteomics and MS Proteomics [Service]
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Comparative genomics highlights the importance of drug efflux transporters during evolution of mycoparasitism in Clonostachys subgenus Bionectria (Fungi, Ascomycota, Hypocreales).
Broberg M, Dubey M, Iqbal M, ..., Brandström Durling M, Karlsson M
Evol Appl 14 (2) 476-497 [2021-02-00; online 2020-09-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Chondrodysplasia and growth failure in children after early hematopoietic stem cell transplantation for non-oncologic disorders.
Botto LD, Meeths M, Campos-Xavier B, ..., Unger S, Superti-Furga A
Am. J. Med. Genet. A 185 (2) 517-527 [2021-02-00; online 2021-01-04]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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CD8+ T cells in the central nervous system of mice with herpes simplex infection are highly activated and express high levels of CCR5 and CXCR3.
Lind L, Svensson A, Thörn K, Krzyzowska M, Eriksson K
J Neurovirol 27 (1) 145-153 [2021-02-00; online 2021-01-25]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Building a high-quality Human Cell Atlas.
Rozenblatt-Rosen O, Shin JW, Rood JE, ..., Regev A, Heyn H
Nat. Biotechnol. 39 (2) 149-153 [2021-02-00; online 2021-01-28]
Spatial Proteomics [Technology development]
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A region of the sex chromosome associated with population differences in diapause induction contains highly divergent alleles at clock genes.
Pruisscher P, Nylin S, Wheat CW, Gotthard K
Evolution 75 (2) 490-500 [2021-02-00; online 2020-12-27]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
A recently isolated human commensal Escherichia coli ST10 clone member mediates enhanced thermotolerance and tetrathionate respiration on a P1 phage-derived IncY plasmid.
Kamal SM, Cimdins-Ahne A, Lee C, ..., Mogk A, Römling U
Mol. Microbiol. 115 (2) 255-271 [2021-02-00; online 2020-10-12]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A novel heterozygous variant in FGF9 associated with previously unreported features of multiple synostosis syndrome 3.
Thuresson AC, Croft B, Hailer YD, ..., Harley VR, Stattin EL
Clin. Genet. 99 (2) 325-329 [2021-02-00; online 2020-11-12]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
PubMed DOI Crossref
The Importance of Sex in the Discovery of Colorectal Cancer Prognostic Biomarkers.
Hases L, Ibrahim A, Chen X, ..., Hartman J, Williams C
Int J Mol Sci 22 (3) 1354 [2021-01-29; online 2021-01-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Acute systemic LPS-exposure impairs perivascular CSF distribution in mice.
Manouchehrian O, Ramos M, Bachiller S, Lundgaard I, Deierborg T
J Neuroinflammation 18 (1) 34 [2021-01-29; online 2021-01-29]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service]
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SMAD4 haploinsufficiency in small intestinal neuroendocrine tumors.
Hofving T, Elias E, Rehammar A, ..., Nilsson O, Arvidsson Y
BMC Cancer 21 (1) 101 [2021-01-28; online 2021-01-28]
Integrated Microscopy Technologies Gothenburg [Service]
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Endophilin A2 deficiency protects rodents from autoimmune arthritis by modulating T cell activation.
Norin U, Rintisch C, Meng L, ..., Bäckdahl L, Holmdahl R
Nat Commun 12 (1) 610 [2021-01-27; online 2021-01-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Chemical Biology Consortium Sweden (CBCS) [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Vertical stratification patterns of methanotrophs and their genetic controllers in water columns of oxygen-stratified boreal lakes.
Rissanen AJ, Saarela T, Jäntti H, ..., Elvert M, Nykänen H
FEMS Microbiol. Ecol. 97 (2) - [2021-01-26; online 2020-12-15]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Ecological adaptation in European eels is based on phenotypic plasticity.
Enbody ED, Pettersson ME, Sprehn CG, ..., Wickström H, Andersson L
Proc. Natl. Acad. Sci. U.S.A. 118 (4) e2022620118 [2021-01-26; online 2021-01-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Umbilical cord blood metabolome differs in relation to delivery mode, birth order and sex, maternal diet and possibly future allergy development in rural children.
Ross AB, Barman M, Hartvigsson O, ..., Wold AE, Sandberg AS
PLoS ONE 16 (1) e0242978 [2021-01-25; online 2021-01-25]
Chalmers Mass Spectrometry Infrastructure [Service]
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Porphyromonas gingivalis fimbrial protein Mfa5 contains a von Willebrand factor domain and an intramolecular isopeptide.
Heidler TV, Ernits K, Ziolkowska A, Claesson R, Persson K
Commun Biol 4 (1) 106 [2021-01-25; online 2021-01-25]
Cryo-EM [Collaborative]
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Divergence and Remarkable Diversity of the Y Chromosome in Guppies.
Almeida P, Sandkam BA, Morris J, ..., Breden F, Mank JE
Mol. Biol. Evol. 38 (2) 619-633 [2021-01-23; online 2020-10-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Diet intervention improves cardiovascular profile in patients with rheumatoid arthritis: results from the randomized controlled cross-over trial ADIRA.
Hulander E, Bärebring L, Turesson Wadell A, ..., Winkvist A, Lindqvist HM
Nutr J 20 (1) 9 [2021-01-23; online 2021-01-23]
Swedish NMR Centre (SNC) [Service]
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Genome-wide association study and pathway analysis identify NTRK2 as a novel candidate gene for litter size in sheep.
Esmaeili-Fard SM, Gholizadeh M, Hafezian SH, Abdollahi-Arpanahi R
PLoS ONE 16 (1) e0244408 [2021-01-22; online 2021-01-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Telomeric double-strand DNA-binding proteins DTN-1 and DTN-2 ensure germline immortality in Caenorhabditis elegans.
Yamamoto I, Zhang K, Zhang J, Vorontsov E, Shibuya H
Elife 10 (-) - [2021-01-21; online 2021-01-21]
Glycoproteomics and MS Proteomics [Service]
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Porphyromonas gingivalis Produce Neutrophil Specific Chemoattractants Including Short Chain Fatty Acids.
Dahlstrand Rudin A, Khamzeh A, Venkatakrishnan V, ..., Christenson K, Bylund J
Front. Cell. Infect. Microbiol. 10 (-) 620681 [2021-01-19; online 2021-01-19]
Chalmers Mass Spectrometry Infrastructure [Service]
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LRIG proteins regulate lipid metabolism via BMP signaling and affect the risk of type 2 diabetes.
Herdenberg C, Mutie PM, Billing O, ..., Franks PW, Hedman H
Commun Biol 4 (1) 90 [2021-01-19; online 2021-01-19]
Swedish Metabolomics Centre (SMC) [Service]
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Human species D adenovirus hexon capsid protein mediates cell entry through a direct interaction with CD46.
Persson BD, John L, Rafie K, ..., Carlson LA, Arnberg N
Proc. Natl. Acad. Sci. U.S.A. 118 (3) - [2021-01-19; online 2021-01-02]
Cryo-EM [Service]
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Aging and CMV discordance are associated with increased immune diversity between monozygotic twins.
Yan Z, Maecker HT, Brodin P, ..., Nadeau KC, Andorf S
Immun Ageing 18 (1) 5 [2021-01-18; online 2021-01-18]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
A FabG inhibitor targeting an allosteric binding site inhibits several orthologs from Gram-negative ESKAPE pathogens.
Vella P, Rudraraju RS, Lundbäck T, ..., Schneider G, Schnell R
Bioorg. Med. Chem. 30 (-) 115898 [2021-01-15; online 2020-12-05]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Structure of a full-length bacterial polysaccharide co-polymerase.
Wiseman B, Nitharwal RG, Widmalm G, Högbom M
Nat Commun 12 (1) 369 [2021-01-14; online 2021-01-14]
Cryo-EM [Service]
Ygle, Guve och Rane i Skänninge DNA-analyser löste frågan om deras släktskap
Ahlström Arcini C, Hedvall R, Lundgren M
Fornvännen 115 (4) 274-278 [2021-01-12]
Ancient DNA [Service]
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The overlap of genetic susceptibility to schizophrenia and cardiometabolic disease can be used to identify metabolically different groups of individuals.
Strawbridge RJ, Johnston KJA, Bailey MES, ..., Sennblad B, Smith DJ
Sci Rep 11 (1) 632 [2021-01-12; online 2021-01-12]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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In Situ Assembly of Choline Acetyltransferase Ligands by a Hydrothiolation Reaction Reveals Key Determinants for Inhibitor Design.
Wiktelius D, Allgardsson A, Bergström T, ..., Linusson A, Ekström F
Angew. Chem. Int. Ed. Engl. 60 (2) 813-819 [2021-01-11; online 2020-11-20]
Swedish NMR Centre (SNC) [Collaborative]
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DNA-Metabarcoding of Belowground Fungal Communities in Bare-Root Forest Nurseries: Focus on Different Tree Species.
Marčiulynienė D, Marčiulynas A, Lynikienė J, ..., Gedminas A, Menkis A
Microorganisms 9 (1) - [2021-01-11; online 2021-01-11]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Cryo-EM structure of Helicobacter pylori urease with an inhibitor in the active site at 2.0 Å resolution.
Cunha ES, Chen X, Sanz-Gaitero M, Mills DJ, Luecke H
Nat Commun 12 (1) 230 [2021-01-11; online 2021-01-11]
Cryo-EM [Service]
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In vivo Cross-Linking MS of the Complement System MAC Assembled on Live Gram-Positive Bacteria.
Khakzad H, Happonen L, Tran Van Nhieu G, Malmström J, Malmström L
Front Genet 11 (-) 612475 [2021-01-08; online 2021-01-08]
Structural Proteomics [Collaborative]
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Temporal changes in DNA methylation and RNA expression in a small song bird: within- and between-tissue comparisons.
Lindner M, Verhagen I, Viitaniemi HM, ..., Husby A, van Oers K
BMC Genomics 22 (1) 36 [2021-01-07; online 2021-01-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structural Basis for Bacterial Ribosome-Associated Quality Control by RqcH and RqcP.
Crowe-McAuliffe C, Takada H, Murina V, ..., Wilson DN, Hauryliuk V
Mol. Cell 81 (1) 115-126.e7 [2021-01-07; online 2020-11-30]
Cryo-EM [Service]
PubMed DOI Crossref
Sex-dimorphic genetic effects and novel loci for fasting glucose and insulin variability.
Lagou V, Mägi R, Hottenga JJ, ..., Prokopenko I, Meta-Analyses of Glucose and Insulin-related traits Consortium (MAGIC)
Nat Commun 12 (1) 24 [2021-01-05; online 2021-01-05]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Regulation of Decay Accelerating Factor Primes Human Germinal Center B Cells for Phagocytosis.
Dernstedt A, Leidig J, Holm A, ..., Hultdin M, Forsell MNE
Front Immunol 11 (-) 599647 [2021-01-05; online 2021-01-05]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Urine Metabolite Profiles and Nutrient Intake Based on 4-Day Weighed Food Diary in Habitual Vegans, Vegetarians, and Omnivores.
Lindqvist HM, Rådjursöga M, Torstensson T, ..., Ellegård L, Winkvist A
J. Nutr. 151 (1) 30-39 [2021-01-04; online 2020-02-13]
Swedish NMR Centre (SNC) [Collaborative]
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Identification of Small Molecules Blocking the Pseudomonas aeruginosa type III Secretion System Protein PcrV.
Sundin C, Saleeb M, Spjut S, Qin L, Elofsson M
Biomolecules 11 (1) - [2021-01-04; online 2021-01-04]
Chemical Biology Consortium Sweden (CBCS) [Service] Swedish NMR Centre (SNC) [Service]
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Embryo-Like Features in Developing Bacillus subtilis Biofilms.
Futo M, Opašić L, Koska S, ..., Mijakovic I, Domazet-Lošo T
Mol. Biol. Evol. 38 (1) 31-47 [2021-01-04; online 2020-09-02]
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Root distribution in intercropping systems – a comparison of DNA based methods and visual distinction of roots
Hassan A, Dresbøll DB, Rasmussen CR, ..., Lund OS, Thorup-Kristensen K
Archives of Agronomy and Soil Science 67 (1) 15-28 [2021-01-02; online 2019-10-16]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Post-treatment of dewatered digested sewage sludge by thermophilic high-solid digestion for pasteurization with positive energy output.
Nordell E, Moestedt J, Österman J, ..., Sun L, Schnürer A
Waste Management 119 (-) 11-21 [2021-01-01; online 2020-10-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
On the interference of urea with CO2/CO32- chemistry of cellulose model solutions in NaOH(aq).
Gunnarsson M, Bernin D, Hasani M
Carbohydr Polym 251 (-) 117059 [2021-01-01; online 2020-09-11]
Swedish NMR Centre (SNC) [Service]
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N-(Methyloxycarbonyl)thiophene sulfonamides as high affinity AT2 receptor ligands.
Wannberg J, Gising J, Lindman J, ..., Hallberg M, Larhed M
Bioorg. Med. Chem. 29 (-) 115859 [2021-01-01; online 2020-11-07]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
ZBED6 binding motifs correlate with endogenous retroviruses and Syncytin genes.
Pettersson ME, Jern P
Virus Evol 7 (1) veaa083 [2021-01-00; online 2020-11-06]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Variable degree of mosaicism for tetrasomy 18p in phenotypically discordant monozygotic twins-Diagnostic implications.
Rydzanicz M, Olszewski P, Kedra D, ..., Dumanski JP, Płoski R
Mol Genet Genomic Med 9 (1) e1526 [2021-01-00; online 2020-12-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Urbanization is associated with modifications in DNA methylation in a small passerine bird.
Watson H, Powell D, Salmón P, Jacobs A, Isaksson C
Evol Appl 14 (1) 85-98 [2021-01-00; online 2020-11-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The structure of enteric human adenovirus 41-A leading cause of diarrhea in children.
Rafie K, Lenman A, Fuchs J, ..., Arnberg N, Carlson LA
Sci Adv 7 (2) - [2021-01-00; online 2021-01-08]
Cryo-EM [Service] Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Sucrose synthase determines carbon allocation in developing wood and alters carbon flow at the whole tree level in aspen.
Dominguez PG, Donev E, Derba-Maceluch M, ..., Mellerowicz EJ, Niittylä T
New Phytol. 229 (1) 186-198 [2021-01-00; online 2020-07-03]
Swedish Metabolomics Centre (SMC) Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Studies of moss reproductive development indicate that auxin biosynthesis in apical stem cells may constitute an ancestral function for focal growth control.
Landberg K, Šimura J, Ljung K, Sundberg E, Thelander M
New Phytol. 229 (2) 845-860 [2021-01-00; online 2020-10-04]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Structural determination of Streptococcus pyogenes M1 protein interactions with human immunoglobulin G using integrative structural biology.
Khakzad H, Happonen L, Karami Y, ..., Malmström J, Malmström L
PLoS Comput. Biol. 17 (1) e1008169 [2021-01-00; online 2021-01-07]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Shared genetic risk between eating disorder- and substance-use-related phenotypes: Evidence from genome-wide association studies.
Munn-Chernoff MA, Johnson EC, Chou YL, ..., Bulik CM, Agrawal A
Addict Biol 26 (1) e12880 [2021-01-00; online 2020-02-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Severe congenital neutropenia-associated JAGN1 mutations unleash a calpain-dependent cell death programme in myeloid cells.
Khandagale A, Holmlund T, Entesarian M, ..., Nordenskjöld M, Fadeel B
Br. J. Haematol. 192 (1) 200-211 [2021-01-00; online 2020-11-18]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Plasma proteins associated with cardiovascular death in patients with chronic coronary heart disease: A retrospective study.
Wallentin L, Eriksson N, Olszowka M, ..., Åberg M, Siegbahn A
PLoS Med. 18 (1) e1003513 [2021-01-00; online 2021-01-13]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Plasma metabolites associated with exposure to perfluoroalkyl substances and risk of type 2 diabetes - A nested case-control study.
Schillemans T, Shi L, Donat-Vargas C, ..., Åkesson A, Brunius C
Environ Int 146 (-) 106180 [2021-01-00; online 2020-10-25]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Novel non-invasive particles in exhaled air method to explore the lining fluid of small airways-a European population-based cohort study.
Hussain-Alkhateeb L, Bake B, Holm M, ..., Mirgorodskaya E, Olin A
BMJ Open Respir Res 8 (1) - [2021-01-00; online 2021-01-07]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Molecular pathways in patients with systemic lupus erythematosus revealed by gene-centred DNA sequencing.
Sandling JK, Pucholt P, Hultin Rosenberg L, ..., Lindblad-Toh K, Rönnblom L
Ann. Rheum. Dis. 80 (1) 109-117 [2021-01-00; online 2020-10-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Mass spectrometry imaging identifies abnormally elevated brain l-DOPA levels and extrastriatal monoaminergic dysregulation in l-DOPA-induced dyskinesia.
Fridjonsdottir E, Shariatgorji R, Nilsson A, ..., Bezard E, Andrén PE
Sci Adv 7 (2) - [2021-01-00; online 2021-01-06]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Longitudinal plasma protein profiling of newly diagnosed type 2 diabetes.
Gummesson A, Björnson E, Fagerberg L, ..., Uhlén M, Bergström G
EBioMedicine 63 (-) 103147 [2021-01-00; online 2020-12-03]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Lake heatwaves under climate change.
Woolway RI, Jennings E, Shatwell T, ..., Pierson DC, Maberly SC
Nature 589 (7842) 402-407 [2021-01-00; online 2021-01-20]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Immunocyte single cell analysis of vaccine‐induced narcolepsy
Lind A, Salami F, Landtblom A, ..., Adolfsson J, Elding Larsson H
Eur. J. Immunol. 51 (1) 247-249 [2021-01-00; online 2020-07-30]
Cellular Immunomonitoring [Service]
PubMed DOI Crossref
Immune determinants of COVID-19 disease presentation and severity.
Brodin P
Nat. Med. 27 (1) 28-33 [2021-01-00; online 2021-01-13]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Identifying the causes and consequences of assembly gaps using a multiplatform genome assembly of a bird-of-paradise.
Peona V, Blom MPK, Xu L, ..., Irestedt M, Suh A
Mol Ecol Resour 21 (1) 263-286 [2021-01-00; online 2020-10-10]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Human population dynamics and Yersinia pestis in ancient northeast Asia.
Kılınç GM, Kashuba N, Koptekin D, ..., Storå J, Götherström A
Sci Adv 7 (2) - [2021-01-00; online 2021-01-06]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Host plant diet affects growth and induces altered gene expression and microbiome composition in the wood white (Leptidea sinapis) butterfly.
Näsvall K, Wiklund C, Mrazek V, ..., Vila R, Backström N
Mol. Ecol. 30 (2) 499-516 [2021-01-00; online 2020-12-14]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Heteroleptic Bismuth(III) Dithiocarbamato-Chlorido Complexes of [Bi(S2CNR2)Cl2] and [Bi(S2CNR2)2Cl] (R = C3H7, iso-C4H9): Preparation, 1D Polymer Structures, Heteronuclear (13C, 15N) CP MAS NMR, and Thermal Behavior
Novikova EV, Isakovskaya KL, Antzutkin ON, Ivanov AV
Russ J Coord Chem 47 (1) 43-51 [2021-01-00; online 2021-02-15]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Heparan Sulfate Biosynthesis in Zebrafish.
Filipek-Górniok B, Habicher J, Ledin J, Kjellén L
J. Histochem. Cytochem. 69 (1) 49-60 [2021-01-00; online 2020-11-20]
Genome Engineering Zebrafish [Collaborative]
PubMed DOI Crossref
Genetics meets proteomics: perspectives for large population-based studies.
Suhre K, McCarthy MI, Schwenk JM
Nat. Rev. Genet. 22 (1) 19-37 [2021-01-00; online 2020-08-28]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Evaluation of NTRK immunohistochemistry as a screening method for NTRK gene fusion detection in non-small cell lung cancer.
Elfving H, Broström E, Moens LNJ, ..., Botling J, Micke P
Lung Cancer 151 (-) 53-59 [2021-01-00; online 2020-11-27]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Evaluating totipotency using criteria of increasing stringency.
Posfai E, Schell JP, Janiszewski A, ..., Lanner F, Rossant J
Nat Cell Biol 23 (1) 49-60 [2021-01-00; online 2021-01-08]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Epigenome-wide cross-tissue correlation of human bone and blood DNA methylation - can blood be used as a surrogate for bone?
Ebrahimi P, Luthman H, McGuigan FE, Akesson KE
Epigenetics 16 (1) 92-105 [2021-01-00; online 2020-07-21]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Effects of operational conditions on auto-catalyzed and sulfuric-acid-catalyzed hydrothermal pretreatment of sugarcane bagasse at different severity factor
Ilanidis D, Stagge S, Jönsson LJ, Martín C
Industrial Crops and Products 159 (-) 113077 [2021-01-00; online 2021-01-00]
Swedish NMR Centre (SNC) [Service]
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Diversification of molecularly defined myenteric neuron classes revealed by single-cell RNA sequencing.
Morarach K, Mikhailova A, Knoflach V, ..., Ernfors P, Marklund U
Nat. Neurosci. 24 (1) 34-46 [2021-01-00; online 2020-12-07]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Crown‐fire severity is more important than ground‐fire severity in determining soil fungal community development in the boreal forest
Pérez‐Izquierdo L, Clemmensen KE, Strengbom J, ..., Nilsson M, Lindahl BD
J Ecol 109 (1) 504-518 [2021-01-00; online 2020-11-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Correlated fluorescence microscopy and multi-ion beam secondary ion mass spectrometry imaging reveals phosphatidylethanolamine increases in the membrane of cancer cells over-expressing the molecular chaperone subunit CCTδ.
Fletcher JS, Sämfors S, Vallin J, Svanström A, Grantham J
Anal Bioanal Chem 413 (2) 445-453 [2021-01-00; online 2020-10-31]
Integrated Microscopy Technologies Gothenburg [Technology development]
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Clinical Presentation, Genetic Etiology, and Coenzyme Q10 Levels in 55 Children with Combined Enzyme Deficiencies of the Mitochondrial Respiratory Chain.
Naess K, Bruhn H, Stranneheim H, ..., Wedell A, von Döbeln U
J Pediatr 228 (-) 240-251.e2 [2021-01-00; online 2020-08-19]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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CUBIC-f: An optimized clearing method for cell tracing and evaluation of neurite density in the salamander brain
Pinheiro T, Mayor I, Edwards S, ..., Kirkham M, Simon A
Journal of Neuroscience Methods 348 (-) 109002 [2021-01-00; online 2021-01-00]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
BL1391: an established cell line from a human malignant peripheral nerve sheath tumor with unique genomic features.
Tolomeo D, Agostini A, Macchia G, ..., Mertens F, Storlazzi CT
Hum Cell 34 (1) 238-245 [2021-01-00; online 2020-08-27]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
A novel type of colistin resistance genes selected from random sequence space.
Knopp M, Babina AM, Gudmundsdóttir JS, ..., Trent MS, Andersson DI
PLoS Genet. 17 (1) e1009227 [2021-01-00; online 2021-01-07]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
A Tribute to Professor Per Artursson - Scientist, Explorer, Mentor, Innovator, and Giant in Pharmaceutical Research.
Matsson P, Baranczewski P, Giacomini KM, ..., Charman WN, Bergström CAS
J Pharm Sci 110 (1) 2-11 [2021-01-00; online 2020-10-21]
Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Collaborative]
DOI Crossref
‘Lignin and extractives first’ conversion of lignocellulosic residual streams using UV light from LEDs
Hynynen J, Riddell A, Achour A, ..., Parkås J, Bernin D
Green Chem. 23 (20) 8251-8259 [2021-00-00; online 2021-00-00]
Swedish NMR Centre (SNC) [Service]
DOI Crossref
Vox2Vox: 3D-GAN for Brain Tumour Segmentation
Cirillo MD, Abramian D, Eklund A
- - (-) 274-284 [2021-00-00; online 2021-03-27]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Learning Cell Nuclei Segmentation Using Labels Generated With Classical Image Analysis Methods
Matuszewski DJ, Ranefall P
- - (-) - [2021-00-00; online 2021-00-00]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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Discovery of fragments inducing conformational effects in dynamic proteins using a second-harmonic generation biosensor
FitzGerald EA, Butko MT, Boronat P, ..., Young T, Danielson UH
RSC Adv. 11 (13) 7527-7537 [2021-00-00; online 2021-00-00]
Chemical Biology Consortium Sweden (CBCS) [Service] Drug Discovery and Development (DDD)
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Whole-genome sequencing of recurrent neuroblastoma reveals somatic mutations that affect key players in cancer progression and telomere maintenance.
Fransson S, Martinez-Monleon A, Johansson M, ..., Kogner P, Martinsson T
Sci Rep 10 (1) 22432 [2020-12-31; online 2020-12-31]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Lysophospholipids as Predictive Markers of ST-Elevation Myocardial Infarction (STEMI) and Non-ST-Elevation Myocardial Infarction (NSTEMI).
Chorell E, Olsson T, Jansson JH, Wennberg P
Metabolites 11 (1) 25 [2020-12-31; online 2020-12-31]
Swedish Metabolomics Centre (SMC) [Service]
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Defining eligible patients for allele-selective chemotherapies targeting NAT2 in colorectal cancer.
Rendo V, Kundu S, Rameika N, ..., Stoimenov I, Sjöblom T
Sci Rep 10 (1) 22436 [2020-12-31; online 2020-12-31]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mechanistic Insights into Regulation of the ALC1 Remodeler by the Nucleosome Acidic Patch.
Lehmann LC, Bacic L, Hewitt G, ..., Boulton SJ, Deindl S
Cell Rep 33 (12) 108529 [2020-12-22; online 2020-12-29]
Cryo-EM [Service]
PubMed DOI Crossref
Genomic Adaptations and Evolutionary History of the Extinct Scimitar-Toothed Cat, Homotherium latidens.
Barnett R, Westbury MV, Sandoval-Velasco M, ..., Yamaguchi N, Gilbert MTP
Curr. Biol. 30 (24) 5018-5025.e5 [2020-12-21; online 2020-10-15]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
You Had Me at “MAGIC”!: Four Barley MAGIC Populations Reveal Novel Resistance QTL for Powdery Mildew
Novakazi F, Krusell L, Jensen J, ..., Bengtsson T, None
Genes 11 (12) 1512 [2020-12-18; online 2020-12-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Depletion of protein kinase STK25 ameliorates renal lipotoxicity and protects against diabetic kidney disease.
Cansby E, Caputo M, Gao L, ..., Howell BW, Mahlapuu M
JCI Insight 5 (24) - [2020-12-17; online 2020-12-17]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
A biomimetic engineered bone platform for advanced testing of prosthetic implants.
Sladkova-Faure M, Pujari-Palmer M, Öhman-Mägi C, ..., Engqvist H, de Peppo GM
Sci Rep 10 (1) 22154 [2020-12-17; online 2020-12-17]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
The Bactericidal Fatty Acid Mimetic 2CCA-1 Selectively Targets Pneumococcal Extracellular Polyunsaturated Fatty Acid Metabolism.
Reithuber E, Nannapaneni P, Rzhepishevska O, ..., Henriques-Normark B, Mellroth P
MBio 11 (6) e03027-20 [2020-12-15; online 2020-12-15]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Structure and elevator mechanism of the mammalian sodium/proton exchanger NHE9.
Winklemann I, Matsuoka R, Meier PF, ..., Beckstein O, Drew D
EMBO J. 39 (24) e105908 [2020-12-15; online 2020-10-29]
Cryo-EM [Service]
PubMed DOI Crossref
Screening of Multiple Biomarkers Associated With Ischemic Stroke in Atrial Fibrillation.
Hijazi Z, Wallentin L, Lindbäck J, ..., Oldgren J, Siegbahn A
J Am Heart Assoc 9 (24) e018984 [2020-12-15; online 2020-12-09]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Rational Design of Azastatin as a Potential ADC Payload with Reduced Bystander Killing.
Hartmann RW, Fahrner R, Shevshenko D, ..., Lehmann F, Odell LR
ChemMedChem 15 (24) 2500-2512 [2020-12-15; online 2020-10-16]
Drug Discovery and Development (DDD)
PubMed DOI Crossref
HY5 and phytochrome activity modulate shoot-to-root coordination during thermomorphogenesis in Arabidopsis.
Gaillochet C, Burko Y, Platre MP, ..., Chory J, Busch W
Development 147 (24) - [2020-12-15; online 2020-12-15]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Direct energy transfer from photosystem II to photosystem I confers winter sustainability in Scots Pine.
Bag P, Chukhutsina V, Zhang Z, ..., Holzwarth AR, Jansson S
Nat Commun 11 (1) 6388 [2020-12-15; online 2020-12-15]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Cryo-EM structure of native human uromodulin, a zona pellucida module polymer.
Stsiapanava A, Xu C, Brunati M, ..., Wu B, Jovine L
EMBO J. 39 (24) e106807 [2020-12-15; online 2020-11-16]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Innate lymphoid cell composition associates with COVID-19 disease severity.
García M, Kokkinou E, Carrasco García A, ..., Mjösberg J, Karolinska KI/K COVID‐19 Study Group
Clin Transl Immunology 9 (12) e1224 [2020-12-14; online 2020-12-14]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Novel Broad-Spectrum Antiviral Inhibitors Targeting Host Factors Essential for Replication of Pathogenic RNA Viruses.
Tampere M, Pettke A, Salata C, ..., Jafari R, Puumalainen MR
Viruses 12 (12) 1423 [2020-12-10; online 2020-12-10]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Hodgkin Lymphoma Monozygotic Triplets Reveal Divergences in DNA Methylation Signatures.
Xia C, Olsen TK, Zirakzadeh AA, ..., Björkholm M, Strååt K
Front Oncol 10 (-) 598872 [2020-12-09; online 2020-12-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Capillary leakage provides nutrients and antioxidants for rapid pneumococcal proliferation in influenza-infected lower airways.
Sender V, Hentrich K, Pathak A, ..., Normark S, Henriques-Normark B
Proc. Natl. Acad. Sci. U.S.A. 117 (49) 31386-31397 [2020-12-08; online 2020-11-23]
Bioinformatics Support for Computational Resources [Service] Chemical Proteomics [Collaborative]
PubMed DOI Crossref
Reaction Wood Anatomical Traits and Hormonal Profiles in Poplar Bent Stem and Root.
De Zio E, Montagnoli A, Karady M, ..., Chiatante D, Trupiano D
Front Plant Sci 11 (-) 590985 [2020-12-07; online 2020-12-07]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
BMP signaling is a therapeutic target in ovarian cancer.
Fukuda T, Fukuda R, Tanabe R, ..., Miyazono K, Heldin CH
Cell Death Discov 6 (1) 139 [2020-12-05; online 2020-12-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Resolution enhancement in NMR spectra by deconvolution with compressed sensing reconstruction.
Kazimierczuk K, Kasprzak P, Georgoulia PS, ..., Westenhoff S, Orekhov VY
Chem. Commun. (Camb.) 56 (93) 14585-14588 [2020-12-04; online 2020-11-04]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Structure and Characterization of Phosphoglucomutase 5 from Atlantic and Baltic Herring-An Inactive Enzyme with Intact Substrate Binding.
Gustafsson R, Eckhard U, Ye W, ..., Andersson L, Selmer M
Biomolecules 10 (12) - [2020-12-03; online 2020-12-03]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
A Model of Germinal Matrix Hemorrhage in Preterm Rat Pups.
Jinnai M, Koning G, Singh-Mallah G, ..., Rocha-Ferreira E, Hagberg H
Front Cell Neurosci 14 (-) 535320 [2020-12-03; online 2020-12-03]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Moose genomes reveal past glacial demography and the origin of modern lineages.
Dussex N, Alberti F, Heino MT, ..., Dalén L, Díez-Del-Molino D
BMC Genomics 21 (1) 854 [2020-12-02; online 2020-12-02]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
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Bromopyrylium Derivatization Facilitates Identification by Mass Spectrometry Imaging of Monoamine Neurotransmitters and Small Molecule Neuroactive Compounds.
Shariatgorji R, Nilsson A, Strittmatter N, ..., Goodwin RJA, Andrén PE
J. Am. Soc. Mass Spectrom. 31 (12) 2553-2557 [2020-12-02; online 2020-07-21]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
A shotgun metagenomic investigation of the microbiota of udder cleft dermatitis in comparison to healthy skin in dairy cows.
Ekman L, Bagge E, Nyman A, ..., Pringle M, Segerman B
PLoS ONE 15 (12) e0242880 [2020-12-02; online 2020-12-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Whole blood co-expression modules associate with metabolic traits and type 2 diabetes: an IMI-DIRECT study.
Gudmundsdottir V, Pedersen HK, Mazzoni G, ..., Pedersen O, Brunak S
Genome Med 12 (1) 109 [2020-12-01; online 2020-12-01]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Amplification-free long-read sequencing reveals unforeseen CRISPR-Cas9 off-target activity.
Höijer I, Johansson J, Gudmundsson S, ..., Gyllensten U, Ameur A
Genome Biol. 21 (1) 290 [2020-12-01; online 2020-12-01]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Tissue-specific patterns of regulatory changes underlying gene expression differences among Ficedula flycatchers and their naturally occurring F1 hybrids.
Mugal CF, Wang M, Backström N, ..., Qvarnström A, Ellegren H
Genome Res. 30 (12) 1727-1739 [2020-12-00; online 2020-11-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The methylation landscape and its role in domestication and gene regulation in the chicken.
Höglund A, Henriksen R, Fogelholm J, ..., Jensen P, Wright D
Nat Ecol Evol 4 (12) 1713-1724 [2020-12-00; online 2020-09-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
DOI Crossref
Surface analysis of bacterial systems using cryo‐X‐ray photoelectron spectroscopy
Hagberg A, Rzhepishevska O, Semenets A, Cisneros DA, Ramstedt M
Surf Interface Anal 52 (12) 792-801 [2020-12-00; online 2020-07-02]
Integrated Microscopy Technologies Umeå [Service]
DOI Crossref
Solid-state NMR methods for studying membrane systems
Gröbner G, Williamson P
- - (-) - [2020-12-00; online 2020-12-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Mutation-independent Proteomic Signatures of Pathological Progression in Murine Models of Duchenne Muscular Dystrophy.
van Westering TLE, Johansson HJ, Hanson B, ..., Aoki Y, Roberts TC
Mol. Cell Proteomics 19 (12) 2047-2068 [2020-12-00; online 2020-09-29]
Global Proteomics and Proteogenomics [Service]
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Morphological characters and SNP markers suggest hybridization and introgression in sympatric populations of the pleurocarpous mosses Homalothecium lutescens and H. sericeum
Sawangproh W, Lang AS, Hedenäs L, Cronberg N
Org Divers Evol 20 (4) 619-637 [2020-12-00; online 2020-09-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Molecular characteristics of eae-positive clinical Shiga toxin-producing Escherichia coli in Sweden.
Hua Y, Bai X, Zhang J, ..., Wan C, Matussek A
Emerg Microbes Infect 9 (1) 2562-2570 [2020-12-00; online 2020-11-13]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Methods for isolation and transcriptional profiling of individual cells from the human heart.
Pimpalwar N, Czuba T, Smith ML, ..., Gidlöf O, Smith JG
Heliyon 6 (12) e05810 [2020-12-00; online 2020-12-29]
Eukaryotic Single Cell Genomics (ESCG) [Service]
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Methane potentials and organic matter characterization of wood fibres from pulp and paper mills: The influence of raw material, pulping process and bleaching technique
Ekstrand EM, Hedenström M, Svensson BH, Shakeri Yekta S, Björn A
Biomass and Bioenergy 143 (-) 105824 [2020-12-00; online 2020-12-00]
Swedish NMR Centre (SNC) [Collaborative]
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Metagenome assembled-genomes reveal similar functional profiles of CPR/Patescibacteria phyla in soils.
Nascimento Lemos L, Manoharan L, William Mendes L, ..., Satler Pylro V, Tsai SM
Environ Microbiol Rep 12 (6) 651-655 [2020-12-00; online 2020-09-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Heterozygous variants in DCC: Beyond congenital mirror movements.
Thams S, Islam M, Lindefeldt M, ..., Nilsson D, Paucar M
Neurol Genet 6 (6) e526 [2020-12-00; online 2020-10-20]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Glycocholic acid and butyrate synergistically increase vitamin D-induced calcium uptake in Caco-2 intestinal epithelial cell monolayers.
Casselbrant A, Fändriks L, Wallenius V
Bone Rep 13 (-) 100294 [2020-12-00; online 2020-07-03]
Integrated Microscopy Technologies Gothenburg [Service]
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Genome-wide association study of angioedema induced by angiotensin-converting enzyme inhibitor and angiotensin receptor blocker treatment.
Rasmussen ER, Hallberg P, Baranova EV, ..., Palmer CNA, Wadelius M
Pharmacogenomics J. 20 (6) 770-783 [2020-12-00; online 2020-02-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic Studies of Leptin Concentrations Implicate Leptin in the Regulation of Early Adiposity.
Yaghootkar H, Zhang Y, Spracklen CN, ..., Loos RJF, Kilpeläinen TO
Diabetes 69 (12) 2806-2818 [2020-12-00; online 2020-09-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genetic Predisposition to Coronary Artery Disease in Type 2 Diabetes Mellitus.
van Zuydam NR, Ladenvall C, Voight BF, ..., Palmer CNA, SUMMIT Steering Committee; CARDIOGRAMplusC4D Steering Committee*
Circ Genom Precis Med 13 (6) e002769 [2020-12-00; online 2020-08-13]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Features of increased malignancy in eosinophilic clear cell renal cell carcinoma.
Nilsson H, Lindgren D, Axelson H, ..., Lundgren J, Johansson ME
J. Pathol. 252 (4) 384-397 [2020-12-00; online 2020-09-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exome Sequencing Reveals Common and Rare Variants in F5 Associated With ACE Inhibitor and Angiotensin Receptor Blocker-Induced Angioedema.
Maroteau C, Siddiqui MK, Veluchamy A, ..., Palmer CNA, PREDICTION-ADR
Clin. Pharmacol. Ther. 108 (6) 1195-1202 [2020-12-00; online 2020-07-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Esomeprazole reduces sperm motility index by targeting the spermic cholinergic machinery: A mechanistic study for the association between use of proton pump inhibitors and reduced sperm motility index.
Kumar A, Kumar R, Flanagan J, ..., Björndahl L, Darreh-Shori T
Biochem. Pharmacol. 182 (-) 114212 [2020-12-00; online 2020-08-28]
Protein Science Facility (PSF) [Service]
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Effect of RNA silencing suppression activity of chrysanthemum virus B p12 protein on small RNA species.
Vetukuri RR, Kalyandurg PB, Saripella GV, ..., Grenville-Briggs LJ, Savenkov EI
Arch Virol 165 (12) 2953-2959 [2020-12-00; online 2020-10-10]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Dysregulation in Akt/mTOR/HIF-1 signaling identified by proteo-transcriptomics of SARS-CoV-2 infected cells.
Appelberg S, Gupta S, Svensson Akusjärvi S, ..., Mirazimi A, Neogi U
Emerg Microbes Infect 9 (1) 1748-1760 [2020-12-00; online 2020-07-22]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Discovery of rare variants associated with blood pressure regulation through meta-analysis of 1.3 million individuals.
Surendran P, Feofanova EV, Lahrouchi N, ..., Munroe PB, Howson JMM
Nat. Genet. 52 (12) 1314-1332 [2020-12-00; online 2020-11-23]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Differentiation of two Maytenus species and their hybrid via untargeted metabolomics
Antunes ERM, Duarte RS, Moritz T, Sawaya ACHF
Industrial Crops and Products 158 (-) 113014 [2020-12-00; online 2020-12-00]
Swedish Metabolomics Centre (SMC) [Service]
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Deep sequencing detects human papillomavirus (HPV) in cervical cancers negative for HPV by PCR.
Arroyo Mühr LS, Lagheden C, Lei J, ..., Sundström K, Dillner J
Br. J. Cancer 123 (12) 1790-1795 [2020-12-00; online 2020-10-06]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Changes in lipid and carotenoid metabolism in Chlamydomonas reinhardtii during induction of CO2-concentrating mechanism: Cellular response to low CO2 stress
Abreu IN, Aksmann A, Bajhaiya AK, ..., Selstam E, Moritz T
Algal Research 52 (-) 102099 [2020-12-00; online 2020-12-00]
Swedish Metabolomics Centre (SMC)
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CRISPR and Long-Read Sequencing: A Perfect Match.
Ameur A
CRISPR J 3 (6) 425-427 [2020-12-00; online 2020-11-30]
NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Associations between serum concentrations of perfluoroalkyl substances and DNA methylation in women exposed through drinking water: A pilot study in Ronneby, Sweden.
Xu Y, Jurkovic-Mlakar S, Lindh CH, ..., Jakobsson K, Engström K
Environ Int 145 (-) 106148 [2020-12-00; online 2020-09-30]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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A metabolite roadmap of the wood-forming tissue in Populus tremula.
Abreu IN, Johansson AI, Sokołowska K, ..., Street NR, Moritz T
New Phytol. 228 (5) 1559-1572 [2020-12-00; online 2020-08-27]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Collaborative]
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A genome-wide association study revealed five SNPs affecting 8-month weight in sheep.
Pasandideh M, Gholizadeh M, Rahimi-Mianji G
Anim Genet 51 (6) 973-976 [2020-12-00; online 2020-09-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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TrackMate: My favorite image analysis tool, by Neubias members
Klemm A
Wiley Analytical Science https://analyticalscience.wiley.com/do/10.1002/was.000400044 (-) - [2020-11-30; online 2020-05-26]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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Evaluation of Single-Molecule Sequencing Technologies for Structural Variant Detection in Two Swedish Human Genomes.
Fatima N, Petri A, Gyllensten U, Feuk L, Ameur A
Genes 11 (12) 1444 [2020-11-30; online 2020-11-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Competitive mapping allows for the identification and exclusion of human DNA contamination in ancient faunal genomic datasets.
Feuerborn TR, Palkopoulou E, van der Valk T, ..., Dalén L, Díez-Del-Molino D
BMC Genomics 21 (1) 844 [2020-11-30; online 2020-11-30]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
A workflow for high-throughput screening, data analysis, processing, and hit identification
Hansel CS, Yousefian S, Klemm AH, Carreras-Puigvert J
KNIME blog https://www.knime.com/blog/a-workflow-for-high-throughput-screening-data-analysis-processing-and-hit-identification (-) - [2020-11-30; online 2020-06-19]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
PubMed DOI Crossref
New Insights into the Microbial Profiles of Infected Root Canals in Traumatized Teeth.
Manoharan L, Brundin M, Rakhimova O, Chávez de Paz L, Romani Vestman N
J Clin Med 9 (12) 3877 [2020-11-28; online 2020-11-28]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
The Human Adenovirus Type 2 Transcriptome: An Amazing Complexity of Alternatively Spliced mRNAs.
Westergren Jakobsson A, Segerman B, Wallerman O, ..., Pettersson U, Akusjärvi G
J. Virol. - (-) - [2020-11-25; online 2020-11-25]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Immobilization of sulfate and thiosulfate-reducing biomass on sand under haloalkaline conditions.
Sousa JAB, Bolgár A, Christel S, ..., Stams AJM, Plugge CM
Sci. Total Environ. 745 (-) 141017 [2020-11-25; online 2020-07-22]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genome-wide identification of Argonautes in Solanaceae with emphasis on potato.
Liao Z, Hodén KP, Singh RK, Dixelius C
Sci Rep 10 (1) 20577 [2020-11-25; online 2020-11-25]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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α-Synuclein promotes IAPP fibril formation in vitro and β-cell amyloid formation in vivo in mice.
Mucibabic M, Steneberg P, Lidh E, ..., Lindahl E, Edlund H
Sci Rep 10 (1) 20438 [2020-11-24; online 2020-11-24]
Cryo-EM [Service]
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Variations among Viruses in Influent Water and Effluent Water at a Wastewater Plant over One Year as Assessed by Quantitative PCR and Metagenomics.
Wang H, Neyvaldt J, Enache L, ..., Bergstedt O, Norder H
Appl. Environ. Microbiol. 86 (24) - [2020-11-24; online 2020-11-24]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Structure dynamics of ApoA-I amyloidogenic variants in small HDL increase their ability to mediate cholesterol efflux.
Nilsson O, Lindvall M, Obici L, ..., Lagerstedt JO, Del Giudice R
J. Lipid Res. 62 (-) 100004 [2020-11-24; online 2020-11-24]
Structural Proteomics [Collaborative]
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High CD45 expression of CD8+ and CD4+ T cells correlates with the size of HIV-1 reservoir in blood.
Petkov S, Bekele Y, Lakshmikanth T, ..., Brodin P, Chiodi F
Sci Rep 10 (1) 20425 [2020-11-24; online 2020-11-24]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Collaborative]
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Inactivation of mediator complex protein 22 in podocytes results in intracellular vacuole formation, podocyte loss and premature death.
Rodriguez PQ, Unnersjö-Jess D, Zambrano SS, ..., Ebarasi L, Patrakka J
Sci Rep 10 (1) 20037 [2020-11-18; online 2020-11-18]
Integrated Microscopy Technologies Stockholm [Technology development]
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Exploring autoantibody signatures in brain tissue from patients with severe mental illness.
Just D, Månberg A, Mitsios N, ..., Nilsson P, Carlström EL
Transl Psychiatry 10 (1) 401 [2020-11-18; online 2020-11-18]
Autoimmunity and Serology Profiling [Collaborative]
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A complex DICER1 syndrome phenotype associated with a germline pathogenic variant affecting the RNase IIIa domain of DICER1.
Pontén E, Frisk S, Taylan F, ..., Lagerstedt-Robinson K, Nordgren A
J. Med. Genet. - (-) jmedgenet-2020-107385 [2020-11-18; online 2020-11-18]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Distinct oligodendrocyte populations have spatial preference and different responses to spinal cord injury
Floriddia EM, Lourenço T, Zhang S, ..., Nilsson M, Castelo-Branco G
Nat Commun 11 (1) 5860 [2020-11-17; online 2020-11-17]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] In Situ Sequencing (ISS) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Association between Aquatic Micropollutant Dissipation and River Sediment Bacterial Communities.
Coll C, Bier R, Li Z, ..., Gorokhova E, Sobek A
Environ. Sci. Technol. 54 (22) 14380-14392 [2020-11-17; online 2020-10-26]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Evaluation of the efficiency of genomic versus pedigree predictions for growth and wood quality traits in Scots pine.
Calleja-Rodriguez A, Pan J, Funda T, ..., Abrahamsson S, Wu HX
BMC Genomics 21 (1) 796 [2020-11-16; online 2020-11-16]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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One-Pot, Metal-Free Synthesis of Dimethyl Carbonate from CO2 at Room Temperature
Khokarale SG, Bui TQ, Mikkola JP
Sustainable Chemistry 1 (3) 298-314 [2020-11-13; online 2020-11-13]
Swedish NMR Centre (SNC) [Service]
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Obesity-associated microbiota contributes to mucus layer defects in genetically obese mice.
Schroeder BO, Birchenough GMH, Pradhan M, ..., Hansson GC, Bäckhed F
J. Biol. Chem. 295 (46) 15712-15726 [2020-11-13; online 2020-09-08]
Integrated Microscopy Technologies Gothenburg [Service]
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A ribonucleotide reductase from Clostridium botulinum reveals distinct evolutionary pathways to regulation via the overall activity site.
Martínez-Carranza M, Jonna VR, Lundin D, ..., Stenmark P, Hofer A
J. Biol. Chem. 295 (46) 15576-15587 [2020-11-13; online 2020-09-03]
Bioinformatics Support for Computational Resources [Service] Cryo-EM [Service] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
The Immunology of Multisystem Inflammatory Syndrome in Children with COVID-19.
Consiglio CR, Cotugno N, Sardh F, ..., Palma P, Brodin P
Cell 183 (4) 968-981.e7 [2020-11-12; online 2020-09-06]
Affinity Proteomics Stockholm [Service] Autoimmunity and Serology Profiling [Service] Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
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Identification of Pre-Diagnostic Metabolic Patterns for Glioma Using Subset Analysis of Matched Repeated Time Points.
Jonsson P, Antti H, Späth F, Melin B, Björkblom B
Cancers (Basel) 12 (11) 3349 [2020-11-12; online 2020-11-12]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Development and evaluation of a deep learning based artificial intelligence for automatic identification of gold fiducial markers in an MRI-only prostate radiotherapy workflow.
Gustafsson CJ, Swärd J, Adalbjörnsson SI, Jakobsson A, Olsson LE
Phys Med Biol 65 (22) 225011 [2020-11-12; online 2020-11-12]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Association of aberrant ASNS imprinting with asparaginase sensitivity and chromosomal abnormality in childhood BCP-ALL.
Watanabe A, Miyake K, Nordlund J, ..., Sugita K, Inukai T
Blood 136 (20) 2319-2333 [2020-11-12; online 2020-06-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Recurring urothelial carcinomas show genomic rearrangements incompatible with a direct relationship.
Marzouka NA, Lindgren D, Eriksson P, ..., Axelson H, Höglund M
Sci Rep 10 (1) 19539 [2020-11-11; online 2020-11-11]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Metabolomics of Interstitial Fluid, Plasma and Urine in Patients with Arterial Hypertension: New Insights into the Underlying Mechanisms.
Chachaj A, Matkowski R, Gröbner G, Szuba A, Dudka I
Diagnostics 10 (11) 936 [2020-11-11; online 2020-11-11]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Genome-Scale Mapping Reveals Complex Regulatory Activities of RpoN in Yersinia pseudotuberculosis.
Mahmud AKMF, Nilsson K, Fahlgren A, ..., Avican K, Fällman M
mSystems 5 (6) - [2020-11-10; online 2020-11-10]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Targeted sequencing reveals the somatic mutation landscape in a Swedish breast cancer cohort.
Mathioudaki A, Ljungström V, Melin M, ..., Sjöblom T, Lindblad-Toh K
Sci Rep 10 (1) 19304 [2020-11-09; online 2020-11-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of candidate genetic variants and altered protein expression in neural stem and mature neural cells support altered microtubule function to be an essential component in bipolar disorder.
Truvé K, Parris TZ, Vizlin-Hodzic D, ..., Ågren H, Funa K
Transl Psychiatry 10 (1) 390 [2020-11-09; online 2020-11-09]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Lysine-specific demethylase 1A restricts ex vivo propagation of human HSCs and is a target of UM171.
Subramaniam A, Žemaitis K, Talkhoncheh MS, ..., Zubarev RA, Larsson J
Blood 136 (19) 2151-2161 [2020-11-05; online 2020-06-26]
Bioinformatics Support for Computational Resources [Service] Chemical Proteomics [Collaborative]
PubMed DOI Crossref
Draft Genome Assembly of the Freshwater Apex Predator Wels Catfish (Silurus glanis) Using Linked-Read Sequencing.
Ozerov MY, Flajšhans M, Noreikiene K, Vasemägi A, Gross R
G3 (Bethesda) 10 (11) 3897-3906 [2020-11-05; online 2020-11-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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DNA-Based Methods for Measurable Residual Disease Detection in NPM1-Mutated Acute Myeloid Leukemia; Establishment of Cut-Offs for qPCR, Digital Droplet PCR and Targeted Deep Sequencing
Pettersson L, Johansson Alm S, Almstedt A, ..., Fogelstrand L, Ehinger M
Blood 136 (Supplement 1) 6-6 [2020-11-05; online 2020-11-05]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Point-of-Care Approaches for Meningitis Diagnosis in a Low-Resource Setting (Southwestern Uganda): Observational Cohort Study Protocol of the "PI-POC" Trial.
Gaudenzi G, Kumbakumba E, Rasti R, ..., Mwanga-Amumpaire J, Alfvén T
JMIR Res Protoc 9 (11) e21430 [2020-11-04; online 2020-11-04]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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MYC as a driver of stochastic chromatin networks: implications for the fitness of cancer cells.
Sumida N, Sifakis EG, Kiani NA, ..., Göndör A, Ohlsson R
Nucleic Acids Res. 48 (19) 10867-10876 [2020-11-04; online 2020-10-15]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Hybridization-based in situ sequencing (HybISS) for spatially resolved transcriptomics in human and mouse brain tissue.
Gyllborg D, Langseth CM, Qian X, ..., Lein ES, Nilsson M
Nucleic Acids Res. 48 (19) e112 [2020-11-04; online 2020-09-30]
Bioinformatics Support for Computational Resources [Service] In Situ Sequencing (ISS) [Technology development]
PubMed DOI Crossref
Evolution from adherent to suspension: systems biology of HEK293 cell line development.
Malm M, Saghaleyni R, Lundqvist M, ..., Nielsen J, Rockberg J
Sci Rep 10 (1) 18996 [2020-11-04; online 2020-11-04]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Systems Biology [Collaborative]
PubMed DOI Crossref
Naming the untouchable - environmental sequences and niche partitioning as taxonomical evidence in fungi.
Kalsoom Khan F, Kluting K, Tångrot J, ..., Ryberg M, Rosling A
IMA Fungus 11 (1) 23 [2020-11-03; online 2020-11-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
From Inquilines to Gall Inducers: Genomic Signature of a Life-Style Transition in Synergus Gall Wasps.
Gobbo E, Lartillot N, Hearn J, ..., Ide T, Ronquist F
Genome Biol Evol 12 (11) 2060-2073 [2020-11-03; online 2020-09-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cross-validated Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry Imaging Quantitation Protocol for a Pharmaceutical Drug and Its Drug-Target Effects in the Brain Using Time-of-Flight and Fourier Transform Ion Cyclotron Resonance Analyzers.
Källback P, Vallianatou T, Nilsson A, ..., Svenningsson P, Andrén PE
Anal. Chem. 92 (21) 14676-14684 [2020-11-03; online 2020-10-21]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Putative Epigenetic Biomarkers of Stress in Red Blood Cells of Chickens Reared Across Different Biomes.
Pértille F, Ibelli AMG, Sharif ME, ..., Guerrero-Bosagna C, Coutinho LL
Front Genet 11 (-) 508809 [2020-11-02; online 2020-11-02]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Pericyte dysfunction due to Shb gene deficiency increases B16F10 melanoma lung metastasis.
He Q, Li X, He L, ..., Betsholtz C, Welsh M
Int. J. Cancer 147 (9) 2634-2644 [2020-11-01; online 2020-05-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Interspecific Gene Flow and the Evolution of Specialization in Black and White Rhinoceros.
Moodley Y, Westbury MV, Russo IM, ..., Dalén L, Bruford MW
Mol. Biol. Evol. 37 (11) 3105-3117 [2020-11-01; online 2020-06-26]
NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Genomic epidemiology of Neisseria gonorrhoeae elucidating the gonococcal antimicrobial resistance and lineages/sublineages across Brazil, 2015-16.
Golparian D, Bazzo ML, Golfetto L, ..., Unemo M, Brazilian-GASP Network
J. Antimicrob. Chemother. 75 (11) 3163-3172 [2020-11-01; online 2020-08-14]
Clinical Genomics [Technology development] Clinical Genomics Örebro [Technology development]
PubMed DOI Crossref
Angiotensin-converting enzyme 2 (ACE2) levels in relation to risk factors for COVID-19 in two large cohorts of patients with atrial fibrillation.
Wallentin L, Lindbäck J, Eriksson N, ..., Oldgren J, Siegbahn A
Eur. Heart J. 41 (41) 4037-4046 [2020-11-01; online 2020-09-29]
Affinity Proteomics Uppsala [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The proliferative history shapes the DNA methylome of B-cell tumors and predicts clinical outcome.
Duran-Ferrer M, Clot G, Nadeu F, ..., Campo E, Martín-Subero JI
Nat Cancer 1 (11) 1066-1081 [2020-11-00; online 2020-11-02]
NGI SNP genotyping [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Sahelian pastoralism from the perspective of variants associated with lactase persistence.
Priehodová E, Austerlitz F, Čížková M, ..., Schlebusch CM, Černý V
Am. J. Phys. Anthropol. 173 (3) 423-436 [2020-11-00; online 2020-08-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Optimized metabarcoding with Pacific biosciences enables semi-quantitative analysis of fungal communities.
Castaño C, Berlin A, Brandström Durling M, ..., Clemmensen KE, Olson Å
New Phytol. 228 (3) - [2020-11-00; online 2020-07-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Leaf shape in Populus tremula is a complex, omnigenic trait.
Mähler N, Schiffthaler B, Robinson KM, ..., Hvidsten TR, Street NR
Ecol Evol 10 (21) 11922-11940 [2020-11-00; online 2020-10-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification and rescue of a tRNA wobble inosine deficiency causing intellectual disability disorder.
Ramos J, Proven M, Halvardson J, ..., Thuresson AC, Fu D
RNA 26 (11) 1654-1666 [2020-11-00; online 2020-08-06]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Human G-MDSCs are neutrophils at distinct maturation stages promoting tumor growth in breast cancer
Mehmeti-Ajradini M, Bergenfelz C, Larsson AM, ..., Bexell D, Leandersson K
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Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] Cellular Immunomonitoring [Service]
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Epilepsy syndromes, etiologies, and the use of next-generation sequencing in epilepsy presenting in the first 2 years of life: A population-based study.
Stödberg T, Tomson T, Barbaro M, ..., Åmark P, Wedell A
Epilepsia 61 (11) 2486-2499 [2020-11-00; online 2020-09-23]
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Divergent above- and below-ground responses of fungal functional groups to forest thinning
Collado E, Castaño C, Bonet JA, ..., Martínez de Aragón J, de-Miguel S
Soil Biology and Biochemistry 150 (-) 108010 [2020-11-00; online 2020-11-00]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dense sampling of bird diversity increases power of comparative genomics.
Feng S, Stiller J, Deng Y, ..., Paten B, Zhang G
Nature 587 (7833) 252-257 [2020-11-00; online 2020-11-11]
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PubMed DOI Crossref
Cytogenetically visible inversions are formed by multiple molecular mechanisms.
Pettersson M, Grochowski CM, Wincent J, ..., Carvalho CMB, Lindstrand A
Hum. Mutat. 41 (11) 1979-1998 [2020-11-00; online 2020-10-01]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Bankvall M, Östman S, Jontell M, Torinsson Naluai Å
Oral Dis 26 (8) 1696-1705 [2020-11-00; online 2020-07-30]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A comparative genomics multitool for scientific discovery and conservation.
Zoonomia Consortium
Nature 587 (7833) 240-245 [2020-11-00; online 2020-11-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Origins and genetic legacy of prehistoric dogs.
Bergström A, Frantz L, Schmidt R, ..., Larson G, Skoglund P
Science 370 (6516) 557-564 [2020-10-30; online 2020-10-29]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Intra-Individual Behavioural Variability: A Trait under Genetic Control.
Henriksen R, Höglund A, Fogelholm J, ..., Dingemanse NJ, Wright D
Int J Mol Sci 21 (21) 8069 [2020-10-29; online 2020-10-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Noer NK, Pagter M, Bahrndorff S, Malmendal A, Kristensen TN
PLoS ONE 15 (10) e0237201 [2020-10-29; online 2020-10-29]
Swedish NMR Centre (SNC) [Service]
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Liang D, Andersen CB, Vetukuri RR, Dou D, Grenville-Briggs LJ
Front Microbiol 11 (-) 581698 [2020-10-29; online 2020-10-29]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Sundman AS, Pértille F, Lehmann Coutinho L, ..., Guerrero-Bosagna C, Jensen P
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Activation of RAS Signalling is Associated with Altered Cell Adhesion in Phaeochromocytoma.
Rossitti HM, Dutta RK, Larsson C, ..., Söderkvist P, Gimm O
Int J Mol Sci 21 (21) 8072 [2020-10-29; online 2020-10-29]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Nuclear gene proximity and protein interactions shape transcript covariations in mammalian single cells.
Tarbier M, Mackowiak SD, Frade J, ..., Gallant CJ, Friedländer MR
Nat Commun 11 (1) 5445 [2020-10-28; online 2020-10-28]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service]
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Sjöberg S, Stairs CW, Allard B, ..., Ettema TJG, Dupraz C
FEMS Microbiol. Ecol. 96 (11) - [2020-10-28; online 2020-08-21]
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Díez-Del-Molino D, von Seth J, Gyllenstrand N, ..., Sjögren-Gulve P, Dalén L
Sci Rep 10 (1) 18347 [2020-10-27; online 2020-10-27]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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ENPL-1, the Caenorhabditis elegans homolog of GRP94, promotes insulin secretion via regulation of proinsulin processing and maturation.
Podraza-Farhanieh A, Natarajan B, Raj D, Kao G, Naredi P
Development 147 (20) - [2020-10-27; online 2020-10-27]
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- - (-) - [2020-10-27; online 2020-10-27]
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Coupling stabilizers open KV1-type potassium channels.
Silverå Ejneby M, Wallner B, Elinder F
Proc. Natl. Acad. Sci. U.S.A. 117 (43) 27016-27021 [2020-10-27; online 2020-10-13]
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UvrD helicase-RNA polymerase interactions are governed by UvrD's carboxy-terminal Tudor domain.
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Polycomb Repressive Complex 2-mediated histone modification H3K27me3 is associated with embryogenic potential in Norway spruce.
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Preger C, Wigren E, Ossipova E, ..., Gräslund S, Persson H
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Protein Science Facility (PSF) [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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GeneSetCluster: a tool for summarizing and integrating gene-set analysis results.
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Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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BMC Plant Biol. 20 (1) 455 [2020-10-06; online 2020-10-06]
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Sci Data 7 (1) 331 [2020-10-06; online 2020-10-06]
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Pre-extinction Demographic Stability and Genomic Signatures of Adaptation in the Woolly Rhinoceros.
Lord E, Dussex N, Kierczak M, ..., Götherström A, Dalén L
Curr. Biol. 30 (19) 3871-3879.e7 [2020-10-05; online 2020-08-13]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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HEARTBREAK Controls Post-translational Modification of INDEHISCENT to Regulate Fruit Morphology in Capsella.
Dong Y, Majda M, Šimura J, ..., Smith RS, Østergaard L
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Llorens-Bobadilla E, Chell JM, Le Merre P, ..., Carlén M, Frisén J
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Notch activation in the mouse mammary luminal lineage leads to ductal hyperplasia and altered partitioning of luminal cell subtypes.
Phoon YP, Chivukula IV, Tsoi YL, ..., Kuiper R, Lendahl U
Exp. Cell Res. 395 (1) 112156 [2020-10-01; online 2020-07-22]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Nat Commun 11 (1) 4932 [2020-10-01; online 2020-10-01]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Schlebusch CM, Sjödin P, Breton G, ..., Soodyall H, Jakobsson M
Mol. Biol. Evol. 37 (10) 2944-2954 [2020-10-01; online 2020-07-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Sato DX, Rafati N, Ring H, ..., Carneiro M, Andersson L
Genome Biol Evol 12 (10) 1918-1928 [2020-10-01; online 2020-08-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Cauz-Santos LA, da Costa ZP, Callot C, ..., van den Berg C, Vieira MLC
Genome Biol Evol 12 (10) 1841-1857 [2020-10-01; online 2020-07-30]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Unraveling the Immune Response in Severe COVID-19.
Rodriguez L, Brodin P
J Clin Immunol 40 (7) 958-959 [2020-10-00; online 2020-08-22]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Profiles of histidine-rich glycoprotein associate with age and risk of all-cause mortality.
Hong MG, Dodig-Crnković T, Chen X, ..., Magnusson PK, Schwenk JM
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Affinity Proteomics Stockholm [Collaborative] Autoimmunity and Serology Profiling [Service] Bioinformatics Support for Computational Resources [Service]
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Ouabain Modulates the Functional Interaction Between Na,K-ATPase and NMDA Receptor.
Akkuratov EE, Westin L, Vazquez-Juarez E, ..., Brismar H, Aperia A
Mol Neurobiol 57 (10) 4018-4030 [2020-10-00; online 2020-07-10]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
Multi-Reader-Multi-Split Annotation of Emphysema in Computed Tomography.
Lidén M, Hjelmgren O, Vikgren J, Thunberg P
J Digit Imaging 33 (5) 1185-1193 [2020-10-00; online 2020-08-10]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Mitigation of the replication of SARS-CoV-2 by nitric oxide in vitro.
Akaberi D, Krambrich J, Ling J, ..., Lennerstrand J, Lundkvist Å
Redox Biol 37 (-) 101734 [2020-10-00; online 2020-09-21]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Service] Drug Discovery and Development (DDD) [Service] Protein Science Facility (PSF) [Service]
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Metagenomic analysis of bacteria in stallion semen.
Al-Kass Z, Guo Y, Vinnere Pettersson O, Niazi A, Morrell JM
Animal Reproduction Science 221 (-) 106568 [2020-10-00; online 2020-08-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Implications of TP53 allelic state for genome stability, clinical presentation and outcomes in myelodysplastic syndromes.
Bernard E, Nannya Y, Hasserjian RP, ..., Ogawa S, Papaemmanuil E
Nat. Med. 26 (10) 1549-1556 [2020-10-00; online 2020-08-03]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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Geographically widespread invasive meningococcal disease caused by a ciprofloxacin resistant non-groupable strain of the ST-175 clonal complex.
Willerton L, Lucidarme J, Campbell H, ..., Vogel U, Borrow R
J Infect 81 (4) 575-584 [2020-10-00; online 2020-08-25]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Genomic and drug target evaluation of 90 cardiovascular proteins in 30,931 individuals.
Folkersen L, Gustafsson S, Wang Q, ..., Ingelsson E, Mälarstig A
Nat Metab 2 (10) 1135-1148 [2020-10-00; online 2020-10-16]
Affinity Proteomics Uppsala [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
GPSeq reveals the radial organization of chromatin in the cell nucleus.
Girelli G, Custodio J, Kallas T, ..., Crosetto N, Bienko M
Nat. Biotechnol. 38 (10) 1184-1193 [2020-10-00; online 2020-05-25]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Function of multiple sclerosis-protective HLA class I alleles revealed by genome-wide protein-quantitative trait loci mapping of interferon signalling.
Lundtoft C, Pucholt P, Imgenberg-Kreuz J, ..., Rönnblom L, Hagberg N
PLoS Genet. 16 (10) e1009199 [2020-10-00; online 2020-10-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exploring the bacterial nano-universe.
Söderholm N, Singh B, Uhlin BE, Sandblad L
Curr. Opin. Struct. Biol. 64 (-) 166-173 [2020-10-00; online 2020-08-23]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Differences in structure and hibernation mechanism highlight diversification of the microsporidian ribosome.
Ehrenbolger K, Jespersen N, Sharma H, ..., Vossbrinck CR, Barandun J
PLoS Biol. 18 (10) e3000958 [2020-10-00; online 2020-10-30]
Cryo-EM [Service]
PubMed DOI Crossref
Development of a chemical probe against NUDT15.
Zhang SM, Desroses M, Hagenkort A, ..., Stenmark P, Helleday T
Nat. Chem. Biol. 16 (10) 1120-1128 [2020-10-00; online 2020-07-20]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Association of serum anti-centromere protein F antibodies with clinical response to infliximab in patients with rheumatoid arthritis: A prospective study.
Lourido L, Ruiz-Romero C, Picchi F, ..., Nilsson P, Blanco FJ
Semin. Arthritis Rheum. 50 (5) 1101-1108 [2020-10-00; online 2020-06-30]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
High-fat diet and estrogen impacts the colon and its transcriptome in a sex-dependent manner.
Hases L, Archer A, Indukuri R, ..., Korach-André M, Williams C
Sci Rep 10 (1) 16160 [2020-09-30; online 2020-09-30]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Toll-like receptors revisited; a possible role for TLR1 in lupus nephritis.
Yavuz S, Bianchi M, Kozyrev S, ..., Lindblad-Toh K, Rönnblom L
Ann. Rheum. Dis. 80 (3) 404-406 [2020-09-29; online 2020-09-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structural Basis for GTP versus ATP Selectivity in the NMP Kinase AK3.
Rogne P, Dulko-Smith B, Goodman J, ..., Sauer-Eriksson AE, Wolf-Watz M
Biochemistry 59 (38) 3570-3581 [2020-09-29; online 2020-09-11]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Streamlined and Abundant Bacterioplankton Thrive in Functional Cohorts.
Mondav R, Bertilsson S, Buck M, ..., Lindström ES, Garcia SL
mSystems 5 (5) - [2020-09-29; online 2020-09-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Reconstruction of the birth of a male sex chromosome present in Atlantic herring.
Rafati N, Chen J, Herpin A, ..., Schartl M, Andersson L
Proc. Natl. Acad. Sci. U.S.A. 117 (39) 24359-24368 [2020-09-29; online 2020-09-16]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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MAIT cell activation and dynamics associated with COVID-19 disease severity.
Parrot T, Gorin JB, Ponzetta A, ..., Strålin K, Sandberg JK
Sci Immunol 5 (51) - [2020-09-28; online 2020-09-30]
Affinity Proteomics Stockholm [Service]
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Inducible Deletion of YAP and TAZ in Adult Mouse Smooth Muscle Causes Rapid and Lethal Colonic Pseudo-Obstruction.
Daoud F, Holmberg J, Alajbegovic A, ..., Swärd K, Albinsson S
Cellular and Molecular Gastroenterology and Hepatology 11 (2) 623-637 [2020-09-28; online 2020-09-28]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Labile Dissolved Organic Matter Compound Characteristics Select for Divergence in Marine Bacterial Activity and Transcription.
Pontiller B, Martínez-García S, Lundin D, Pinhassi J
Front Microbiol 11 (-) 588778 [2020-09-25; online 2020-09-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Increased antibiotic efficacy and noninvasive monitoring of Staphylococcus epidermidis biofilms using per-cysteamine-substituted γ-cyclodextrin - A delivery effect validated by fluorescence microscopy.
Thomsen H, Agnes M, Uwangue O, ..., Ericson MB, Farewell A
Int J Pharm 587 (-) 119646 [2020-09-25; online 2020-07-14]
Integrated Microscopy Technologies Gothenburg [Service]
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High-Resolution Imaging of Tumor Spheroids and Organoids Enabled by Expansion Microscopy.
Edwards SJ, Carannante V, Kuhnigk K, ..., Önfelt B, Brismar H
Front Mol Biosci 7 (-) 208 [2020-09-24; online 2020-09-24]
Integrated Microscopy Technologies Stockholm [Technology development]
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Therapeutic targeting of KSP in preclinical models of high-risk neuroblastoma.
Hansson K, Radke K, Aaltonen K, ..., Gisselsson D, Bexell D
Sci Transl Med 12 (562) - [2020-09-23; online 2020-09-25]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Dental cell type atlas reveals stem and differentiated cell types in mouse and human teeth.
Krivanek J, Soldatov RA, Kastriti ME, ..., Kharchenko PV, Adameyko I
Nat Commun 11 (1) 4816 [2020-09-23; online 2020-09-23]
Eukaryotic Single Cell Genomics (ESCG) [Service]
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Sources of variation in cell-type RNA-Seq profiles.
Gustafsson J, Held F, Robinson JL, ..., Jörnsten R, Nielsen J
PLoS ONE 15 (9) e0239495 [2020-09-21; online 2020-09-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
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Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples.
Bailey MH, Meyerson WU, Dursi LJ, ..., Ding L, PCAWG Consortium
Nat Commun 11 (1) 4748 [2020-09-21; online 2020-09-21]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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Generation of Sequencing Libraries for Structural Analysis of Bacterial 5' UTRs.
Ignatov D, Vaitkevicius K, Johansson J
STAR Protoc 1 (2) 100046 [2020-09-18; online 2020-06-06]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Parvimonas micra as a putative non-invasive faecal biomarker for colorectal cancer.
Löwenmark T, Löfgren-Burström A, Zingmark C, ..., Edin S, Palmqvist R
Sci Rep 10 (1) 15250 [2020-09-17; online 2020-09-17]
Clinical Genomics [Collaborative] Clinical Genomics Umeå [Collaborative]
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Macrocyclization of bis-indole quinolines for selective stabilization of G-quadruplex DNA structures.
Das RN, Andréasson M, Kumar R, Chorell E
Chem. Sci. 11 (38) 10529-10537 [2020-09-16; online 2020-09-16]
Swedish NMR Centre (SNC) [Service]
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Presynaptic dysfunction in CASK-related neurodevelopmental disorders.
Becker M, Mastropasqua F, Reising JP, ..., Bölte S, Tammimies K
Transl Psychiatry 10 (1) 312 [2020-09-14; online 2020-09-14]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service]
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Diversity and Abundance of Microbial Communities in UASB Reactors during Methane Production from Hydrolyzed Wheat Straw and Lucerne.
Liu T, Schnürer A, Björkmalm J, Willquist K, Kreuger E
Microorganisms 8 (9) 1394 [2020-09-11; online 2020-09-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Compositional and functional differences of the mucosal microbiota along the intestine of healthy individuals.
Vaga S, Lee S, Ji B, ..., Engstrand L, Shoaie S
Sci Rep 10 (1) 14977 [2020-09-11; online 2020-09-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A whole-genome sequenced control population in northern Sweden reveals subregional genetic differences.
Svensson D, Rentoft M, Dahlin AM, ..., Trygg J, Johansson E
PLoS ONE 15 (9) e0237721 [2020-09-11; online 2020-09-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Complete Genome Sequence of Francisella halioticida Type Strain DSM 23729 (FSC1005).
Uneklint I, Öhrman C, Karlsson L, ..., Forsman M, Sjödin A
Microbiol Resour Announc 9 (37) - [2020-09-10; online 2020-09-10]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Integration of molecular profiles in a longitudinal wellness profiling cohort.
Tebani A, Gummesson A, Zhong W, ..., Uhlen M, Fagerberg L
Nat Commun 11 (1) 4487 [2020-09-08; online 2020-09-08]
Affinity Proteomics Stockholm [Collaborative] Autoimmunity and Serology Profiling [Collaborative] Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Cellular Immunomonitoring [Collaborative] Swedish Metabolomics Centre (SMC) [Collaborative]
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Profiling of Inflammatory Proteins in Plasma of HIV-1-Infected Children Receiving Antiretroviral Therapy.
Lemma M, Petkov S, Bekele Y, ..., Howe R, Chiodi F
Proteomes 8 (3) 24 [2020-09-07; online 2020-09-07]
Affinity Proteomics Stockholm [Service]
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Genome sequence of segmented filamentous bacteria present in the human intestine.
Jonsson H, Hugerth LW, Sundh J, Lundin E, Andersson AF
Commun Biol 3 (1) 485 [2020-09-04; online 2020-09-04]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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An alpaca nanobody neutralizes SARS-CoV-2 by blocking receptor interaction.
Hanke L, Vidakovics Perez L, Sheward DJ, ..., Murrell B, McInerney GM
Nat Commun 11 (1) 4420 [2020-09-04; online 2020-09-04]
Bioinformatics Support for Computational Resources [Service] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Bilayer-Coated Nanoparticles Reveal How Influenza Viral Entry Depends on Membrane Deformability but Not Curvature.
Villamil Giraldo AM, Kasson PM
J Phys Chem Lett 11 (17) 7190-7196 [2020-09-03; online 2020-08-19]
Cryo-EM [Service]
PubMed DOI Crossref
Toward Two-Photon Absorbing Dyes with Unusually Potentiated Nonlinear Fluorescence Response.
Benitez-Martin C, Li S, Dominguez-Alfaro A, ..., Pischel U, Andréasson J
J. Am. Chem. Soc. 142 (35) 14854-14858 [2020-09-02; online 2020-08-21]
Integrated Microscopy Technologies Gothenburg [Service]
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River biofilms adapted to anthropogenic disturbances are more resistant to WWTP inputs.
Freixa A, Perujo N, Langenheder S, Romaní AM
FEMS Microbiol. Ecol. 96 (9) - [2020-09-01; online 2020-08-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Parallel Evolution of Bower-Building Behavior in Two Groups of Bowerbirds Suggested by Phylogenomics.
Ericson PGP, Irestedt M, Nylander JAA, ..., Joseph L, Qu Y
Syst. Biol. 69 (5) 820-829 [2020-09-01; online 2020-05-18]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mutations Upstream of the TBX5 and PITX1 Transcription Factor Genes Are Associated with Feathered Legs in the Domestic Chicken.
Li J, Lee M, Davis BW, ..., Siegel PB, Andersson L
Mol. Biol. Evol. 37 (9) 2477-2486 [2020-09-01; online 2020-04-29]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Evolutionary Remodeling of the Cell Envelope in Bacteria of the Planctomycetes Phylum.
Mahajan M, Seeger C, Yee B, Andersson SGE
Genome Biol Evol 12 (9) 1528-1548 [2020-09-01; online 2020-08-08]
Bioinformatics Support for Computational Resources [Service] Cryo-EM [Service] Integrated Microscopy Technologies Umeå [Service]
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Xdrop: Targeted sequencing of long DNA molecules from low input samples using droplet sorting.
Madsen EB, Höijer I, Kvist T, Ameur A, Mikkelsen MJ
Hum. Mutat. 41 (9) 1671-1679 [2020-09-00; online 2020-06-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
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Mkrtchian S, Kåhlin J, Gómez-Galán M, ..., Erlandsson Harris H, Eriksson LI
Exp. Physiol. 105 (9) 1634-1647 [2020-09-00; online 2020-07-24]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Reconstructing marine plankton food web interactions using DNA metabarcoding.
Zamora-Terol S, Novotny A, Winder M
Mol. Ecol. 29 (17) 3380-3395 [2020-09-00; online 2020-08-09]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Linked-read sequencing enables haplotype-resolved resequencing at population scale.
Lutgen D, Ritter R, Olsen RA, ..., Suh A, Burri R
Mol Ecol Resour 20 (5) 1311-1322 [2020-09-00; online 2020-06-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
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van der Valk T, Vezzi F, Ormestad M, Dalén L, Guschanski K
Mol Ecol Resour 20 (5) 1171-1181 [2020-09-00; online 2019-05-05]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Hyperandrogenism and insulin resistance modulate gravid uterine and placental ferroptosis in PCOS-like rats.
Zhang Y, Hu M, Jia W, ..., Shao LR, Billig H
J Endocrinol 246 (3) 247-263 [2020-09-00; online 2020-06-27]
Integrated Microscopy Technologies Gothenburg [Service]
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Ylinen E, Salmenlinna S, Halkilahti J, ..., Jalanko H, Saxén H
Pediatr Nephrol 35 (9) 1749-1759 [2020-09-00; online 2020-04-22]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genetic association of gemcitabine/carboplatin-induced leukopenia and neutropenia in non-small cell lung cancer patients using whole-exome sequencing.
Svedberg A, Björn N, Sigurgeirsson B, ..., Lundeberg J, Gréen H
Lung Cancer 147 (-) 106-114 [2020-09-00; online 2020-07-12]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Defining the proteolytic landscape during enterovirus infection.
Saeed M, Kapell S, Hertz NT, ..., Molina H, Rice CM
PLoS Pathog. 16 (9) e1008927 [2020-09-00; online 2020-09-30]
Protein Science Facility (PSF) [Service]
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DNA methylation variation in the brain of laying hens in relation to differential behavioral patterns.
Guerrero-Bosagna C, Pértille F, Gomez Y, ..., Voelkl B, Toscano MJ
Comp Biochem Physiol Part D Genomics Proteomics 35 (-) 100700 [2020-09-00; online 2020-06-02]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Comparative analysis of genome-wide DNA methylation in Neurospora.
Hosseini S, Meunier C, Nguyen D, Reimegård J, Johannesson H
Epigenetics 15 (9) 972-987 [2020-09-00; online 2020-03-31]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A dynamic mutational landscape associated with an inter-regionally diverse immune response in malignant rhabdoid tumour.
Yasui H, Valind A, Karlsson J, ..., Backman T, Gisselsson D
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Clinical Genomics Clinical Genomics Lund
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A Shh/Gli-driven three-node timer motif controls temporal identity and fate of neural stem cells.
Dias JM, Alekseenko Z, Jeggari A, ..., Iber D, Ericson J
Sci Adv 6 (38) - [2020-09-00; online 2020-09-16]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Sex differences in oncogenic mutational processes.
Li CH, Prokopec SD, Sun RX, ..., Boutros PC, PCAWG Consortium
Nat Commun 11 (1) 4330 [2020-08-28; online 2020-08-28]
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Prenylated Flavonoids from the Roots of Tephrosia rhodesica.
Atilaw Y, Muiva-Mutisya L, Bogaerts J, ..., Erdélyi M, Yenesew A
J. Nat. Prod. 83 (8) 2390-2398 [2020-08-28; online 2020-08-13]
Swedish NMR Centre (SNC) [Service]
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Bulk-Processed Pd Nanocube–Poly(methyl methacrylate) Nanocomposites as Plasmonic Plastics for Hydrogen Sensing
Darmadi I, Stolaś A, Östergren I, ..., Müller C, Langhammer C
ACS Appl. Nano Mater. 3 (8) 8438-8445 [2020-08-28; online 2020-07-20]
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High-Throughput Sequencing and Unsupervised Analysis of Formyltetrahydrofolate Synthetase (FTHFS) Gene Amplicons to Estimate Acetogenic Community Structure.
Singh A, Nylander JAA, Schnürer A, Bongcam-Rudloff E, Müller B
Front Microbiol 11 (-) 2066 [2020-08-27; online 2020-08-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Four SARS-CoV-2 Genome Sequences from Late April in Stockholm, Sweden, Reveal a Rare Mutation in the Spike Protein.
Soratto TAT, Darban H, Bjerkner A, ..., Allander T, Andersson B
Microbiol Resour Announc 9 (35) - [2020-08-27; online 2020-08-27]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Cell-surface receptors enable perception of extracellular cytokinins.
Antoniadi I, Novák O, Gelová Z, ..., Ljung K, Turnbull C
Nat Commun 11 (1) 4284 [2020-08-27; online 2020-08-27]
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Bezard E, Li Q, Hulme H, ..., Andren PE, Crossman AR
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Spatial Mass Spectrometry [Collaborative]
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Combined transcriptome and proteome profiling of the pancreatic β-cell response to palmitate unveils key pathways of β-cell lipotoxicity.
Lytrivi M, Ghaddar K, Lopes M, ..., Eizirik DL, Cnop M
BMC Genomics 21 (1) 590 [2020-08-26; online 2020-08-26]
Global Proteomics and Proteogenomics [Collaborative]
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Systems-Level Immunomonitoring from Acute to Recovery Phase of Severe COVID-19.
Rodriguez L, Pekkarinen PT, Lakshmikanth T, ..., Kekäläinen E, Brodin P
Cell Reports Medicine 1 (5) 100078 [2020-08-25; online 2020-08-05]
Affinity Proteomics Stockholm [Service] Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
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Whole-genome sequencing and gene network modules predict gemcitabine/carboplatin-induced myelosuppression in non-small cell lung cancer patients.
Björn N, Badam TVS, Spalinskas R, ..., Gustafsson M, Gréen H
npj Syst Biol Appl 6 (1) 25 [2020-08-24; online 2020-08-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Single cell RNA sequencing identifies early diversity of sensory neurons forming via bi-potential intermediates.
Faure L, Wang Y, Kastriti ME, ..., Adameyko I, Hadjab S
Nat Commun 11 (1) 4175 [2020-08-21; online 2020-08-21]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service]
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Natural killer cell immunotypes related to COVID-19 disease severity.
Maucourant C, Filipovic I, Ponzetta A, ..., Björkström NK, Karolinska COVID-19 Study Group
Sci Immunol 5 (50) eabd6832 [2020-08-21; online 2020-08-23]
Affinity Proteomics Stockholm [Service] Bioinformatics Support for Computational Resources [Service]
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13q12.2 deletions in acute lymphoblastic leukemia lead to upregulation of FLT3 through enhancer hijacking.
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Blood 136 (8) 946-956 [2020-08-20; online 2020-05-10]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Structural basis of mitochondrial translation
Aibara S, Singh V, Modelska A, Amunts A
Elife 9 (-) 1-17 [2020-08-19; online 2020-08-19]
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Rapid size change associated with intra-island evolutionary radiation in extinct Caribbean "island-shrews".
Woods R, Turvey ST, Brace S, ..., Brown MJF, Barnes I
BMC Evol. Biol. 20 (1) 106 [2020-08-18; online 2020-08-18]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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High Cysteine Membrane Proteins (HCMPs) Are Up-Regulated During Giardia-Host Cell Interactions.
Peirasmaki D, Ma'ayeh SY, Xu F, ..., Liu J, Svärd SG
Front Genet 11 (-) 913 [2020-08-18; online 2020-08-18]
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Designing custom CRISPR libraries for hypothesis-driven drug target discovery.
Iyer VS, Jiang L, Shen Y, ..., Schmierer B, Wermeling F
Computational and Structural Biotechnology Journal 18 (-) 2237-2246 [2020-08-18; online 2020-08-18]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Collaborative]
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Association of Established Blood Pressure Loci With 10-Year Change in Blood Pressure and Their Ability to Predict Incident Hypertension.
Poveda A, Atabaki-Pasdar N, Ahmad S, ..., Renström F, Franks PW
J Am Heart Assoc 9 (16) e014513 [2020-08-18; online 2020-08-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Platelet-Specific PDGFB Ablation Impairs Tumor Vessel Integrity and Promotes Metastasis.
Zhang Y, Cedervall J, Hamidi A, ..., Dimberg A, Olsson AK
Cancer Res. 80 (16) 3345-3358 [2020-08-15; online 2020-06-25]
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Crystal structures of human PAICS reveal substrate and product binding of an emerging cancer target.
Škerlová J, Unterlass J, Göttmann M, ..., Jemth AS, Stenmark P
J. Biol. Chem. 295 (33) 11656-11668 [2020-08-14; online 2020-06-22]
Protein Science Facility (PSF) [Service]
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Gsta4 controls apoptosis of differentiating adult oligodendrocytes during homeostasis and remyelination via the mitochondria-associated Fas-Casp8-Bid-axis.
Carlström KE, Zhu K, Ewing E, ..., Castelo-Branco G, Piehl F
Nat Commun 11 (1) 4071 [2020-08-13; online 2020-08-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Variations in Plasma Membrane Topography Can Explain Heterogenous Diffusion Coefficients Obtained by Fluorescence Correlation Spectroscopy.
Gesper A, Wennmalm S, Hagemann P, ..., Happel P, Parmryd I
Front Cell Dev Biol 8 (-) 767 [2020-08-11; online 2020-08-11]
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Transcriptional mutagenesis dramatically alters genome-wide p53 transactivation landscape.
Liang S, Ezerskyte M, Wang J, Pelechano V, Dreij K
Sci Rep 10 (1) 13513 [2020-08-11; online 2020-08-11]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Regular use of depot medroxyprogesterone acetate causes thinning of the superficial lining and apical distribution of HIV target cells in the human ectocervix.
Edfeldt G, Lajoie J, Röhl M, ..., Broliden K, Tjernlund A
J. Infect. Dis. - (-) - [2020-08-11; online 2020-08-11]
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Association of Factor V Leiden With Subsequent Atherothrombotic Events: A GENIUS-CHD Study of Individual Participant Data.
Mahmoodi BK, Tragante V, Kleber ME, ..., Asselbergs FW, Patel RS
Circulation 142 (6) 546-555 [2020-08-11; online 2020-07-13]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Mebendazole is unique among tubulin-active drugs in activating the MEK-ERK pathway.
Andersson CR, Selvin T, Blom K, ..., Nygren P, Larsson R
Sci Rep 10 (1) 13124 [2020-08-04; online 2020-08-04]
Drug Discovery and Development (DDD) [Service]
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Lysophosphatidic Acid-Mediated GPR35 Signaling in CX3CR1+ Macrophages Regulates Intestinal Homeostasis.
Kaya B, Doñas C, Wuggenig P, ..., Villablanca EJ, Niess JH
Cell Rep 32 (5) 107979 [2020-08-04; online 2020-08-07]
Genome Engineering Zebrafish [Service]
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Heterogeneous somatostatin-expressing neuron population in mouse ventral tegmental area.
Nagaeva E, Zubarev I, Bengtsson Gonzales C, ..., Augustine GJ, Korpi ER
Elife 9 (-) - [2020-08-04; online 2020-08-04]
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The Relation Between Position and Chemical Composition of Bis-Indole Substituents Determines Their Interactions with G-Quadruplex DNA.
Prasad B, Das RN, Jamroskovic J, ..., Sabouri N, Chorell E
Chemistry 26 (43) 9561-9572 [2020-08-03; online 2020-07-03]
Swedish NMR Centre (SNC) [Collaborative]
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Zhang H, Waldmann L, Manuel R, ..., Haitina T, Allalou A
Biomed. Opt. Express 11 (8) 4290-4305 [2020-08-01; online 2020-07-15]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development] Bioinformatics Support for Computational Resources [Service] Genome Engineering Zebrafish [Service]
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Optical coherence tomography for thyroid pathology: 3D analysis of tissue microstructure.
Emil Tampu I, Maintz M, Koller D, ..., Eklund A, Haj-Hosseini N
Biomed. Opt. Express 11 (8) 4130-4149 [2020-08-01; online 2020-07-09]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Uncovering the hidden diversity of litter-decomposition mechanisms in mushroom-forming fungi.
Floudas D, Bentzer J, Ahrén D, ..., Persson P, Tunlid A
ISME J 14 (8) 2046-2059 [2020-08-00; online 2020-05-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Oliach D, Colinas C, Castaño C, ..., Bonet JA, Oliva J
Forest Ecology and Management 469 (-) 118199 [2020-08-00; online 2020-08-00]
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The importance of the ZBED6-IGF2 axis for metabolic regulation in mouse myoblast cells.
Younis S, Naboulsi R, Wang X, ..., Welsh N, Andersson L
FASEB J. 34 (8) 10250-10266 [2020-08-00; online 2020-06-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The compact genome of Giardia muris reveals important steps in the evolution of intestinal protozoan parasites.
Xu F, Jiménez-González A, Einarsson E, ..., Svärd SG, Jerlström-Hultqvist J
Microb Genom 6 (8) - [2020-08-00; online 2020-07-03]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Neolithic Pitted Ware culture foragers were culturally but not genetically influenced by the Battle Axe culture herders.
Coutinho A, Günther T, Munters AR, ..., Malmström H, Jakobsson M
Am. J. Phys. Anthropol. 172 (4) 638-649 [2020-08-00; online 2020-06-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Technologies for assessing vaccine responses in the very young.
Brodin P
Current Opinion in Immunology 65 (-) 28-31 [2020-08-00; online 2020-04-24]
Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
SWEDEGENE-a Swedish nation-wide DNA sample collection for pharmacogenomic studies of serious adverse drug reactions.
Hallberg P, Yue QY, Eliasson E, ..., Ås J, Wadelius M
Pharmacogenomics J. 20 (4) 579-585 [2020-08-00; online 2020-01-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SLC12A2 mutations cause NKCC1 deficiency with encephalopathy and impaired secretory epithelia.
Stödberg T, Magnusson M, Lesko N, ..., Stranneheim H, Wedell A
Neurol Genet 6 (4) e478 [2020-08-00; online 2020-07-02]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Recent introgression between Taiga Bean Goose and Tundra Bean Goose results in a largely homogeneous landscape of genetic differentiation.
Ottenburghs J, Honka J, Müskens GJDM, Ellegren H
Heredity (Edinb) 125 (1-2) 73-84 [2020-08-00; online 2020-05-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Preclinical safety studies of human embryonic stem cell-derived retinal pigment epithelial cells for the treatment of age-related macular degeneration.
Petrus-Reurer S, Kumar P, Padrell Sánchez S, ..., Kvanta A, Lanner F
Stem Cells Transl Med 9 (8) 936-953 [2020-08-00; online 2020-04-22]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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MrpH, a new class of metal-binding adhesin, requires zinc to mediate biofilm formation.
Jiang W, Ubhayasekera W, Breed MC, ..., Pearson MM, Knight SD
PLoS Pathog. 16 (8) e1008707 [2020-08-00; online 2020-08-11]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Management of an outbreak of postpartum Streptococcus pyogenes emm75 infections.
Trell K, Jörgensen J, Rasmussen M, Senneby E
J. Hosp. Infect. 105 (4) 752-756 [2020-08-00; online 2020-06-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Leveraging a gain-of-function allele of Caenorhabditis elegans paqr-1 to elucidate membrane homeostasis by PAQR proteins.
Busayavalasa K, Ruiz M, Devkota R, ..., Borén J, Pilon M
PLoS Genet. 16 (8) e1008975 [2020-08-00; online 2020-08-04]
Integrated Microscopy Technologies Gothenburg [Service]
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Label‐free laser scanning microscopy targeting sentinel lymph node diagnostics: A feasibility study ex vivo
Kantere D, Siarov J, De Lara S, ..., Wennberg Larkö A, Ericson MB
Translational Biophotonics 2 (3) - [2020-08-00; online 2020-06-22]
Integrated Microscopy Technologies Gothenburg [Service]
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Joint impact of common risk factors on incident dementia: A cohort study of the Swedish Twin Registry.
Tomata Y, Li X, Karlsson IK, ..., Pedersen NL, Hägg S
J. Intern. Med. 288 (2) 234-247 [2020-08-00; online 2020-05-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Higher host plant specialization of root-associated endophytes than mycorrhizal fungi along an arctic elevational gradient.
Abrego N, Huotari T, Tack AJM, ..., Ovaskainen O, Roslin T
Ecol Evol 10 (16) 8989-9002 [2020-08-00; online 2020-08-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Evolutionary genetics of canine respiratory coronavirus and recent introduction into Swedish dogs.
Wille M, Wensman JJ, Larsson S, ..., Hayer J, Malmberg M
Infection, Genetics and Evolution 82 (-) 104290 [2020-08-00; online 2020-03-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Determinants of genetic variation across eco-evolutionary scales in pinnipeds.
Peart CR, Tusso S, Pophaly SD, ..., Shafer ABA, Wolf JBW
Nat Ecol Evol 4 (8) 1095-1104 [2020-08-00; online 2020-06-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
CELLULOSE SYNTHASE INTERACTING 1 is required for wood mechanics and leaf morphology in aspen.
Bünder A, Sundman O, Mahboubi A, ..., Rüggeberg M, Niittylä T
Plant J. 103 (5) 1858-1868 [2020-08-00; online 2020-07-10]
Integrated Microscopy Technologies Umeå [Service]
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Association between proteomics and obstructive sleep apnea phenotypes in a community-based cohort of women.
Ljunggren M, Theorell-Haglöw J, Freyhult E, ..., Janson C, Lindberg E
J Sleep Res 29 (4) e13041 [2020-08-00; online 2020-04-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Archaea in boreal Swedish lakes are diverse, dominated by Woesearchaeota and follow deterministic community assembly.
Juottonen H, Fontaine L, Wurzbacher C, ..., Peura S, Eiler A
Environ. Microbiol. 22 (8) 3158-3171 [2020-08-00; online 2020-06-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Apparent stiffness of vimentin intermediate filaments in living cells and its relation with other cytoskeletal polymers
Smoler M, Coceano G, Testa I, Bruno L, Levi V
Biochimica et Biophysica Acta (BBA) - Molecular Cell Research 1867 (8) 118726 [2020-08-00; online 2020-08-00]
Integrated Microscopy Technologies Stockholm [Service]
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A robust and versatile method for production and purification of large-scale RNA samples for structural biology.
Karlsson H, Baronti L, Petzold K
RNA 26 (8) 1023-1037 [2020-08-00; online 2020-04-30]
Protein Science Facility (PSF) [Service]
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A novel recombinant expression and purification approach for the full-length anti-apoptotic membrane protein Bcl-2.
Ådén J, Mushtaq AU, Dingeldein A, Wallgren M, Gröbner G
Protein Expression and Purification 172 (-) 105628 [2020-08-00; online 2020-03-22]
Swedish NMR Centre (SNC) [Collaborative]
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A decade of epigenetic change in aging twins: Genetic and environmental contributions to longitudinal DNA methylation.
Reynolds CA, Tan Q, Munoz E, ..., Hägg S, Pedersen NL
Aging Cell 19 (8) e13197 [2020-08-00; online 2020-07-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A 3D Cell Culture Model Identifies Wnt/β-Catenin Mediated Inhibition of p53 as a Critical Step during Human Hepatocyte Regeneration.
Oliva-Vilarnau N, Vorrink SU, Ingelman-Sundberg M, Lauschke VM
Adv Sci (Weinh) 7 (15) 2000248 [2020-08-00; online 2020-06-23]
Global Proteomics and Proteogenomics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The genetic regulation of size variation in the transcriptome of the cerebrum in the chicken and its role in domestication and brain size evolution.
Höglund A, Strempfl K, Fogelholm J, Wright D, Henriksen R
BMC Genomics 21 (1) 518 [2020-07-29; online 2020-07-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
First evidence of microbial wood degradation in the coastal waters of the Antarctic.
Björdal CG, Dayton PK
Sci Rep 10 (1) 12774 [2020-07-29; online 2020-07-29]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Extracellular vesicles from human mesenchymal stem cells expedite chondrogenesis in 3D human degenerative disc cell cultures.
Hingert D, Ekström K, Aldridge J, Crescitelli R, Brisby H
Stem Cell Res Ther 11 (1) 323 [2020-07-29; online 2020-07-29]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Detection of leukemia gene fusions by targeted RNA-sequencing in routine diagnostics.
Engvall M, Cahill N, Jonsson BI, ..., Hallböök H, Cavelier L
BMC Med Genomics 13 (1) 106 [2020-07-29; online 2020-07-29]
Clinical Genomics [Technology development] Clinical Genomics Uppsala [Technology development]
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Combining transcriptomics and genetic linkage based information to identify candidate genes associated with Heterobasidion-resistance in Norway spruce.
Chaudhary R, Lundén K, Dalman K, ..., Stenlid J, Elfstrand M
Sci Rep 10 (1) 12711 [2020-07-29; online 2020-07-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Prototypical pacemaker neurons interact with the resident microbiota.
Klimovich A, Giacomello S, Björklund Å, ..., Adameyko I, Bosch TCG
Proc. Natl. Acad. Sci. U.S.A. 117 (30) 17854-17863 [2020-07-28; online 2020-07-09]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Early Pleistocene origin and extensive intra-species diversity of the extinct cave lion.
Stanton DWG, Alberti F, Plotnikov V, ..., Skoglund P, Dalén L
Sci Rep 10 (1) 12621 [2020-07-28; online 2020-07-28]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A Transmembrane Crenarchaeal Mannosyltransferase Is Involved in N-Glycan Biosynthesis and Displays an Unexpected Minimal Cellulose-Synthase-like Fold.
Gandini R, Reichenbach T, Spadiut O, ..., Kalyani DC, Divne C
J. Mol. Biol. 432 (16) 4658-4672 [2020-07-24; online 2020-06-19]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Recording In-Cell NMR-Spectra in Living Mammalian Cells.
Matečko-Burmann I, Burmann BM
Methods Mol. Biol. 2141 (-) 857-871 [2020-07-23; online 2020-07-23]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Multimodal Analysis of Composition and Spatial Architecture in Human Squamous Cell Carcinoma.
Ji AL, Rubin AJ, Thrane K, ..., Lundeberg J, Khavari PA
Cell 182 (2) 497-514.e22 [2020-07-23; online 2020-06-23]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Decellularization and recellularization of the ovary for bioengineering applications; studies in the mouse.
Alshaikh AB, Padma AM, Dehlin M, ..., Brännström M, Hellström M
Reprod Biol Endocrinol 18 (1) 75 [2020-07-23; online 2020-07-23]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Cell-Free Protein Synthesis of Small Intrinsically Disordered Proteins for NMR Spectroscopy.
Isaksson L, Pedersen A
Methods Mol. Biol. 2141 (-) 233-245 [2020-07-23; online 2020-07-23]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Extended-Spectrum-β-Lactamase- and Plasmid AmpC-Producing Escherichia coli Causing Community-Onset Bloodstream Infection: Association of Bacterial Clones and Virulence Genes with Septic Shock, Source of Infection, and Recurrence.
Fröding I, Hasan B, Sylvin I, ..., Nauclér P, Giske CG
Antimicrob. Agents Chemother. 64 (8) - [2020-07-22; online 2020-07-22]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Human Immune System Variation during 1 Year.
Lakshmikanth T, Muhammad SA, Olin A, ..., Uhlen M, Brodin P
Cell Rep 32 (3) 107923 [2020-07-21; online 2020-07-23]
Affinity Proteomics Stockholm [Service] Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Descriptive Proteome Analysis to Investigate Context-Dependent Treatment Responses to OXPHOS Inhibition in Colon Carcinoma Cells Grown as Monolayer and Multicellular Tumor Spheroids.
Steinmetz J, Senkowski W, Lengqvist J, ..., Fryknäs M, Kultima K
ACS Omega 5 (28) 17242-17254 [2020-07-21; online 2020-07-06]
Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Probing the retention mechanism of small hydrophilic molecules in hydrophilic interaction chromatography using saturation transfer difference nuclear magnetic resonance spectroscopy.
Shamshir A, Dinh NP, Jonsson T, Sparrman T, Irgum K
Journal of Chromatography A 1623 (-) 461130 [2020-07-19; online 2020-04-29]
Swedish NMR Centre (SNC) [Collaborative]
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Validating Signal Transducer and Activator of Transcription (STAT) Protein-Inhibitor Interactions Using Biochemical and Cellular Thermal Shift Assays.
Attarha S, Reithmeier A, Busker S, Desroses M, Page BDG
ACS Chem. Biol. 15 (7) 1842-1851 [2020-07-17; online 2020-07-02]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Unveiling the activation dynamics of a fold-switch bacterial glycosyltransferase by 19F NMR.
Liebau J, Tersa M, Trastoy B, ..., Guerin ME, Mäler L
J. Biol. Chem. 295 (29) 9868-9878 [2020-07-17; online 2020-05-20]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Translating GWAS-identified loci for cardiac rhythm and rate using an in vivo image- and CRISPR/Cas9-based approach
von der Heyde B, Emmanouilidou A, Mazzaferro E, ..., Brooke HL, den Hoed M
Sci Rep 10 (1) 11831 [2020-07-16; online 2020-07-16]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Genome Engineering Zebrafish [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]
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AML displays increased CTCF occupancy associated with aberrant gene expression and transcription factor binding.
Mujahed H, Miliara S, Neddermeyer A, ..., Lennartsson A, Lehmann S
Blood 136 (3) 339-352 [2020-07-16; online 2020-04-02]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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RNA Splicing Alterations Induce a Cellular Stress Response Associated with Poor Prognosis in Acute Myeloid Leukemia.
Anande G, Deshpande NP, Mareschal S, ..., Unnikrishnan A, Pimanda JE
Clin. Cancer Res. 26 (14) 3597-3607 [2020-07-15; online 2020-03-02]
Bioinformatics Support for Computational Resources [Service]
DOI Crossref
Adding seemingly uninformative labels helps in low data regimes
Matsoukas C, Hernandez A, Liu Y, ..., Strand F, Smith K
International Conference on Machine Learning (ICML) - (-) - [2020-07-15]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Seamless integration of image and molecular analysis for spatial transcriptomics workflows.
Bergenstråhle J, Larsson L, Lundeberg J
BMC Genomics 21 (1) 482 [2020-07-14; online 2020-07-14]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A Patient-Derived Cell Atlas Informs Precision Targeting of Glioblastoma.
Johansson P, Krona C, Kundu S, ..., Marino S, Nelander S
Cell Rep 32 (2) 107897 [2020-07-14; online 2020-07-16]
Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Mapping the Interactome of the Nuclear Heparan Sulfate Proteoglycan Syndecan-1 in Mesothelioma Cells.
Kumar-Singh A, Shrinet J, Parniewska MM, ..., Dobra K, Hjerpe A
Biomolecules 10 (7) - [2020-07-11; online 2020-07-11]
Global Proteomics and Proteogenomics [Service]
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Transcriptional responses in Parascaris univalens after in vitro exposure to ivermectin, pyrantel citrate and thiabendazole.
Martin F, Dube F, Karlsson Lindsjö O, ..., Bergström TF, Tydén E
Parasit Vectors 13 (1) 342 [2020-07-09; online 2020-07-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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SF3B1-mutant MDS as a distinct disease subtype: a proposal from the International Working Group for the Prognosis of MDS.
Malcovati L, Stevenson K, Papaemmanuil E, ..., Hellstrom-Lindberg E, Cazzola M
Blood 136 (2) 157-170 [2020-07-09; online 2020-04-30]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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Disturbance history can increase functional stability in the face of both repeated disturbances of the same type and novel disturbances.
Renes SE, Sjöstedt J, Fetzer I, Langenheder S
Sci Rep 10 (1) 11333 [2020-07-09; online 2020-07-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Arachidonic acid promotes the binding of 5-lipoxygenase on nanodiscs containing 5-lipoxygenase activating protein in the absence of calcium-ions.
Kumar RB, Purhonen P, Hebert H, Jegerschöld C
PLoS ONE 15 (7) e0228607 [2020-07-09; online 2020-07-09]
Protein Science Facility (PSF) [Service]
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Systems biology of acidophile biofilms for efficient metal extraction.
Buetti-Dinh A, Herold M, Christel S, ..., Pivkin IV, Dopson M
Sci Data 7 (1) 215 [2020-07-07; online 2020-07-07]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Low Abundance of Methanotrophs in Sediments of Shallow Boreal Coastal Zones With High Water Methane Concentrations.
Broman E, Sun X, Stranne C, ..., Humborg C, Nascimento FJA
Front Microbiol 11 (-) 1536 [2020-07-07; online 2020-07-07]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Discovery and population genomics of structural variation in a songbird genus.
Weissensteiner MH, Bunikis I, Catalán A, ..., Warmuth VM, Wolf JBW
Nat Commun 11 (1) 3403 [2020-07-07; online 2020-07-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Clonal hematopoiesis in patients with high-grade B-cell lymphoma is associated with inferior outcome.
Amini RM, Ljungström V, Abdulla M, ..., Enblad G, Baliakas P
Am. J. Hematol. 95 (10) - [2020-07-06; online 2020-07-06]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
VEGF-B signaling impairs endothelial glucose transcytosis by decreasing membrane cholesterol content.
Moessinger C, Nilsson I, Muhl L, ..., Skogsberg J, Eriksson U
EMBO Rep. 21 (7) e49343 [2020-07-03; online 2020-05-24]
Swedish Metabolomics Centre (SMC) [Service]
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Spatio-molecular domains identified in the mouse subthalamic nucleus and neighboring glutamatergic and GABAergic brain structures.
Wallén-Mackenzie Å, Dumas S, Papathanou M, ..., König N, Björklund ÅK
Commun Biol 3 (1) 338 [2020-07-03; online 2020-07-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Eukaryotic Single Cell Genomics (ESCG) [Service]
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Multiplex profiling of serum proteins in solution using barcoded antibody fragments and next generation sequencing.
Brofelth M, Ekstrand AI, Gour S, ..., Axelsson U, Borrebaeck CAK
Commun Biol 3 (1) 339 [2020-07-03; online 2020-07-03]
Clinical Genomics Clinical Genomics Lund
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Diamond Blackfan anemia is mediated by hyperactive Nemo-like kinase.
Wilkes MC, Siva K, Chen J, ..., Flygare J, Sakamoto KM
Nat Commun 11 (1) 3344 [2020-07-03; online 2020-07-03]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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meQTL and ncRNA functional analyses of 102 GWAS-SNPs associated with depression implicate HACE1 and SHANK2 genes.
Ciuculete DM, Voisin S, Kular L, ..., Mwinyi J, Schiöth HB
Clin Epigenetics 12 (1) 99 [2020-07-02; online 2020-07-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Y-Chromosome Variation in Southern African Khoe-San Populations Based on Whole-Genome Sequences.
Naidoo T, Xu J, Vicente M, ..., Jakobsson M, Schlebusch CM
Genome Biol Evol 12 (7) 1031-1039 [2020-07-01; online 2020-07-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Viral antigens elicit augmented immune responses in primary Sjögren's syndrome.
Björk A, Thorlacius GE, Mofors J, ..., Kvarnström M, Wahren-Herlenius M
Rheumatology (Oxford) 59 (7) 1651-1661 [2020-07-01; online 2019-10-31]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Loqusdb: added value of an observations database of local genomic variation.
Magnusson M, Eisfeldt J, Nilsson D, ..., Wedell A, Stranneheim H
BMC Bioinformatics 21 (1) 273 [2020-07-01; online 2020-07-01]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Technology development] Clinical Genomics Stockholm [Technology development]
PubMed DOI Crossref
Genetic Associations Between Childhood Psychopathology and Adult Depression and Associated Traits in 42 998 Individuals: A Meta-analysis.
Akingbuwa WA, Hammerschlag AR, Jami ES, ..., Middeldorp CM, Bipolar Disorder and Major Depressive Disorder Working Groups of the Psychiatric Genomics Consortium
JAMA Psychiatry 77 (7) 715-728 [2020-07-01; online 2020-04-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transcriptomes from German shepherd dogs reveal differences in immune activity between atopic dermatitis affected and control skin.
Tengvall K, Bergvall K, Olsson M, ..., Lindblad-Toh K, Andersson G
Immunogenetics 72 (5) 315-323 [2020-07-00; online 2020-06-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Tissue-specific isolation of Arabidopsis/plant mitochondria - IMTACT (isolation of mitochondria tagged in specific cell types).
Boussardon C, Przybyla-Toscano J, Carrie C, Keech O
Plant J. 103 (1) 459-473 [2020-07-00; online 2020-03-13]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Support systems to guide clinical decision-making in precision oncology: The Cancer Core Europe Molecular Tumor Board Portal.
Tamborero D, Dienstmann R, Rachid MH, ..., Rodon J, Lehtiö J
Nat. Med. 26 (7) 992-994 [2020-07-00; online 2020-07-08]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative] Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Serum Metabolites in Hand-Arm Vibration Exposed Workers.
Vihlborg P, Graff P, Hagenbjörk A, ..., Bryngelsson IL, Eriksson K
J Occup Environ Med 62 (7) 460-465 [2020-07-00; online 2020-07-31]
Swedish Metabolomics Centre (SMC) [Service]
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Proton pump inhibitors act with unprecedented potencies as inhibitors of the acetylcholine biosynthesizing enzyme-A plausible missing link for their association with incidence of dementia.
Kumar R, Kumar A, Nordberg A, Långström B, Darreh-Shori T
Alzheimers Dement 16 (7) 1031-1042 [2020-07-00; online 2020-05-08]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Proteomic analysis of follicular fluid during human ovulation.
Zakerkish F, Brännström M, Carlsohn E, ..., van der Post S, Thoroddsen A
Acta Obstet Gynecol Scand 99 (7) 917-924 [2020-07-00; online 2020-04-07]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Pre- and postnatal Lactobacillus reuteri treatment alters DNA methylation of infant T helper cells.
Forsberg A, Huoman J, Söderholm S, ..., Gustafsson M, Jenmalm MC
Pediatr Allergy Immunol 31 (5) 544-553 [2020-07-00; online 2020-04-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
PHF1 fusions cause distinct gene expression and chromatin accessibility profiles in ossifying fibromyxoid tumors and mesenchymal cells.
Hofvander J, Jo VY, Fletcher CDM, ..., Magnusson L, Mertens F
Mod. Pathol. 33 (7) 1331-1340 [2020-07-00; online 2020-01-13]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Odorant receptor phylogeny confirms conserved channels for sex pheromone and host plant signals in tortricid moths.
Gonzalez F, Borrero-Echeverry F, Jósvai JK, ..., Bengtsson M, Walker WB
Ecol Evol 10 (14) 7334-7348 [2020-07-00; online 2020-06-30]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Meiofauna improve oxygenation and accelerate sulfide removal in the seasonally hypoxic seabed.
Bonaglia S, Hedberg J, Marzocchi U, ..., Glud RN, Nascimento FJA
Mar Environ Res 159 (-) 104968 [2020-07-00; online 2020-03-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Inflammatory markers in women with postpartum depressive symptoms.
Bränn E, Fransson E, White RA, ..., Sundström-Poromaa I, Skalkidou A
J Neuro Res 98 (7) 1309-1321 [2020-07-00; online 2018-09-05]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Identifying the ‘unidentified’ fungi: a global-scale long-read third-generation sequencing approach
Tedersoo L, Anslan S, Bahram M, Kõljalg U, Abarenkov K
Fungal Diversity 103 (1) 273-293 [2020-07-00; online 2020-08-08]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Growth-Inhibitory Activity of Bone Morphogenetic Protein 4 in Human Glioblastoma Cell Lines Is Heterogeneous and Dependent on Reduced SOX2 Expression.
Dalmo E, Johansson P, Niklasson M, ..., Nelander S, Westermark B
Mol Cancer Res 18 (7) 981-991 [2020-07-00; online 2020-03-31]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genomic epidemiology and antimicrobial resistance determinants of Neisseria gonorrhoeae isolates from Ukraine, 2013-2018.
Boiko I, Golparian D, Jacobsson S, ..., Shevchenko T, Unemo M
APMIS 128 (7) 465-475 [2020-07-00; online 2020-05-23]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Gastric Microbiota in a Low-Helicobacter pylori Prevalence General Population and Their Associations With Gastric Lesions.
Ndegwa N, Ploner A, Andersson AF, ..., Agreus L, Ye W
Clin Transl Gastroenterol 11 (7) e00191 [2020-07-00; online 2020-08-09]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Female-biased gene flow between two species of Darwin's finches.
Lamichhaney S, Han F, Webster MT, ..., Grant PR, Andersson L
Nat Ecol Evol 4 (7) 979-986 [2020-07-00; online 2020-05-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Facets of individual-specific health signatures determined from longitudinal plasma proteome profiling.
Dodig-Crnković T, Hong MG, Thomas CE, ..., Uhlén M, Schwenk JM
EBioMedicine 57 (-) 102854 [2020-07-00; online 2020-07-03]
Affinity Proteomics Stockholm [Collaborative]
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Dynamic allosteric communication pathway directing differential activation of the glucocorticoid receptor.
Köhler C, Carlström G, Gunnarsson A, ..., Edman K, Akke M
Sci Adv 6 (29) eabb5277 [2020-07-00; online 2020-07-17]
Swedish NMR Centre (SNC) [Service]
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Deactivation mechanism of Cu active sites in Cu/SSZ-13 — Phosphorus poisoning and the effect of hydrothermal aging
Wang A, Xie K, Bernin D, ..., Kamasamudram K, Olsson L
Applied Catalysis B: Environmental 269 (-) 118781 [2020-07-00; online 2020-07-00]
Swedish NMR Centre (SNC) [Service]
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DNA demethylation regulates gene expression in IgE-activated mouse mast cells.
Paivandy A, Grujic M, Rafati N, Pejler G
Allergy 75 (7) 1776-1780 [2020-07-00; online 2020-02-12]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Comparison of spleen transcriptomes of two wild rodent species reveals differences in the immune response against Borrelia afzelii.
Zhong X, Lundberg M, Råberg L
Ecol Evol 10 (13) 6421-6434 [2020-07-00; online 2020-05-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Base-pair conformational switch modulates miR-34a targeting of Sirt1 mRNA.
Baronti L, Guzzetti I, Ebrahimi P, ..., Chen AA, Petzold K
Nature 583 (7814) 139-144 [2020-07-00; online 2020-05-27]
Protein Science Facility (PSF) [Service]
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Accounting for environmental variation in co-occurrence modelling reveals the importance of positive interactions in root-associated fungal communities.
Abrego N, Roslin T, Huotari T, ..., Schmidt NM, Ovaskainen O
Mol. Ecol. 29 (14) 2736-2746 [2020-07-00; online 2020-07-04]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A framework to assess the quality and impact of bioinformatics training across ELIXIR.
Gurwitz KT, Singh Gaur P, Bellis LJ, ..., Morgan SL, Rustici G
PLoS Comput. Biol. 16 (7) e1007976 [2020-07-00; online 2020-07-23]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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A Sample Preparation Protocol for High Throughput Immunofluorescence of Suspension Cells on an Adherent Surface.
Bäckström A, Kugel L, Gnann C, ..., Lundberg E, Stadler C
J. Histochem. Cytochem. 68 (7) 473-489 [2020-07-00; online 2020-06-20]
Spatial Proteomics [Technology development]
PubMed DOI Crossref
High content drug screening for Fanconi anemia therapeutics.
Montanuy H, Camps-Fajol C, Carreras-Puigvert J, ..., Minguillón J, Surrallés J
Orphanet J Rare Dis 15 (1) 170 [2020-06-30; online 2020-06-30]
Drug Discovery and Development (DDD)
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Genome assembly of the basket willow, Salix viminalis, reveals earliest stages of sex chromosome expansion.
Almeida P, Proux-Wera E, Churcher A, ..., Berlin S, Mank JE
BMC Biol. 18 (1) 78 [2020-06-30; online 2020-06-30]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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An efficient single-cell transcriptomics workflow for microbial eukaryotes benchmarked on Giardia intestinalis cells.
Onsbring H, Tice AK, Barton BT, Brown MW, Ettema TJG
BMC Genomics 21 (1) 448 [2020-06-29; online 2020-06-29]
Microbial Single Cell Genomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Whole genome sequencing of familial isolated oesophagus atresia uncover shared structural variants.
Klar J, Engstrand-Lilja H, Maqbool K, ..., Feuk L, Dahl N
BMC Med Genomics 13 (1) 85 [2020-06-26; online 2020-06-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Evolutionary History of the Marchantia polymorpha Complex.
Linde AM, Sawangproh W, Cronberg N, Szövényi P, Lagercrantz U
Front Plant Sci 11 (-) 829 [2020-06-26; online 2020-06-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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CAM-Delam: an in vivo approach to visualize and quantify the delamination and invasion capacity of human cancer cells.
Palaniappan TK, Šlekienė L, Jonasson AK, Gilthorpe J, Gunhaga L
Sci Rep 10 (1) 10472 [2020-06-26; online 2020-06-26]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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RNA-seq reveals altered gene expression levels in proximal tubular cell cultures compared to renal cortex but not during early glucotoxicity.
Nilsson LM, Castresana-Aguirre M, Scott L, Brismar H
Sci Rep 10 (1) 10390 [2020-06-25; online 2020-06-25]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A site-specific self-assembled light-up rotor probe for selective recognition and stabilization of c-MYC G-quadruplex DNA.
Deiana M, Chand K, Jamroskovic J, ..., Chorell E, Sabouri N
Nanoscale 12 (24) 12950-12957 [2020-06-25; online 2020-06-12]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Whole-genome sequence association analysis of blood proteins in a longitudinal wellness cohort.
Zhong W, Gummesson A, Tebani A, ..., Fagerberg L, Uhlén M
Genome Med 12 (1) 53 [2020-06-23; online 2020-06-23]
Affinity Proteomics Stockholm [Collaborative] Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Skeletal Muscle Transcriptomic Comparison between Long-Term Trained and Untrained Men and Women.
Chapman MA, Arif M, Emanuelsson EB, ..., Mardinoglu A, Sundberg CJ
Cell Rep 31 (12) 107808 [2020-06-23; online 2020-06-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Amyloid precursor protein-b facilitates cell adhesion during early development in zebrafish.
Banote RK, Chebli J, Şatır TM, ..., Abramsson A, Zetterberg H
Sci Rep 10 (1) 10127 [2020-06-23; online 2020-06-23]
Genome Engineering Zebrafish [Collaborative] Integrated Microscopy Technologies Gothenburg [Service]
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Altered levels of CSF proteins in patients with FTD, presymptomatic mutation carriers and non-carriers.
Remnestål J, Öijerstedt L, Ullgren A, ..., Graff C, Nilsson P
Transl Neurodegener 9 (1) 27 [2020-06-23; online 2020-06-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Decreased detection of ESBL- or pAmpC-producing Escherichia coli in broiler breeders imported into Sweden.
Nilsson O, Börjesson S, Landén A, Greko C, Bengtsson B
Acta Vet. Scand. 62 (1) 33 [2020-06-22; online 2020-06-22]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Accelerated Nuclear Magnetic Resonance Spectroscopy with Deep Learning.
Qu X, Huang Y, Lu H, ..., Orekhov V, Chen Z
Angew. Chem. Int. Ed. Engl. 59 (26) 10297-10300 [2020-06-22; online 2020-04-15]
Swedish NMR Centre (SNC) [Collaborative]
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T2 and T17 cytokines alter the cargo and function of airway epithelium-derived extracellular vesicles.
Ax E, Jevnikar Z, Cvjetkovic A, ..., Rådinger M, Lässer C
Respir. Res. 21 (1) 155 [2020-06-19; online 2020-06-19]
Integrated Microscopy Technologies Gothenburg [Service]
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Ciliate mitoribosome illuminates evolutionary steps of mitochondrial translation.
Tobiasson V, Amunts A
Elife 9 (-) 1-15 [2020-06-18; online 2020-06-18]
Cryo-EM [Service] Global Proteomics and Proteogenomics [Service]
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Removal of H2Aub1 by ubiquitin-specific proteases 12 and 13 is required for stable Polycomb-mediated gene repression in Arabidopsis.
Kralemann LEM, Liu S, Trejo-Arellano MS, ..., Köhler C, Hennig L
Genome Biol. 21 (1) 144 [2020-06-16; online 2020-06-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Chanjo: Clincal grade sequence coverage analysis
Andeer R, Magnusson M, Wedell A, Stranneheim H
F1000Res 9 (-) 615 [2020-06-16; online 2020-06-16]
Clinical Genomics [Technology development] Clinical Genomics Stockholm [Technology development]
PubMed DOI Crossref
Aβ(1-42) tetramer and octamer structures reveal edge conductivity pores as a mechanism for membrane damage.
Ciudad S, Puig E, Botzanowski T, ..., Bardiaux B, Carulla N
Nat Commun 11 (1) 3014 [2020-06-15; online 2020-06-15]
Swedish NMR Centre (SNC) [Collaborative]
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Integrated transcriptomic and genomic analysis improves prediction of complete remission and survival in elderly patients with acute myeloid leukemia.
Österroos A, Björklund M, Eriksson A, ..., Grönberg H, Lehmann S
Blood Cancer J 10 (6) 67 [2020-06-11; online 2020-06-11]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Illuminating Genetic Mysteries of the Dead Sea Scrolls.
Anava S, Neuhof M, Gingold H, ..., Jakobsson M, Rechavi O
Cell 181 (6) 1218-1231.e27 [2020-06-11; online 2020-06-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Distinct pre-initiation steps in human mitochondrial translation.
Khawaja A, Itoh Y, Remes C, ..., Amunts A, Rorbach J
Nat Commun 11 (1) 2932 [2020-06-10; online 2020-06-10]
Cryo-EM [Service]
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Whole-genome sequencing of glioblastoma reveals enrichment of non-coding constraint mutations in known and novel genes.
Sakthikumar S, Roy A, Haseeb L, ..., Lindblad-Toh K, Forsberg-Nilsson K
Genome Biol. 21 (1) 127 [2020-06-09; online 2020-06-09]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
Sales of antibiotics and occurrence of resistance in Sweden
Swedres-Svarm 19088 (-) 1-128 [2020-06-09; online 2020-06-09]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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High genomic-based predicted strain coverage among invasive meningococcal isolates when combining Bexsero and Trumenba vaccines.
Säll O, Olofsson E, Jacobsson S
Vaccine 38 (28) 4374-4378 [2020-06-09; online 2020-05-12]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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CYCLIN-B1/2 and -D1 act in opposition to coordinate cortical progenitor self-renewal and lineage commitment.
Hagey DW, Topcic D, Kee N, ..., Perlmann T, Muhr J
Nat Commun 11 (1) 2898 [2020-06-09; online 2020-06-09]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The regulation and pharmacological modulation of immune complex induced type III IFN production by plasmacytoid dendritic cells.
Hjorton K, Hagberg N, Pucholt P, Eloranta ML, Rönnblom L
Arthritis Res. Ther. 22 (1) 130 [2020-06-05; online 2020-06-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
LPS-treatment of bovine endometrial epithelial cells causes differential DNA methylation of genes associated with inflammation and endometrial function.
Jhamat N, Niazi A, Guo Y, ..., Andersson G, Humblot P
BMC Genomics 21 (1) 385 [2020-06-03; online 2020-06-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Radiation Triggers a Dynamic Sequence of Transient Microglial Alterations in Juvenile Brain.
Osman AM, Sun Y, Burns TC, ..., Kele J, Blomgren K
Cell Rep 31 (9) 107699 [2020-06-02; online 2020-06-04]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service]
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Vegetation type determines spore deposition within a forest-agricultural mosaic landscape.
Redondo MA, Berlin A, Boberg J, Oliva J
FEMS Microbiol. Ecol. 96 (6) - [2020-06-01; online 2020-05-02]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Normal murine respiratory tract has its mucus concentrated in clouds based on the Muc5b mucin.
Fakih D, Rodriguez-Piñeiro AM, Trillo-Muyo S, ..., Ermund A, Hansson GC
Am J Physiol Lung Cell Mol Physiol 318 (6) L1270-L1279 [2020-06-01; online 2020-04-29]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
In-plate toxicometabolomics of single zebrafish embryos.
Ribbenstedt A, Posselt M, Brunius C, Benskin JP
Mol Omics 16 (3) 185-194 [2020-06-01; online 2020-03-19]
Bioinformatics Support for Computational Resources [Service] Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Genomic analysis and antimicrobial resistance of Neisseria gonorrhoeae isolates from Vietnam in 2011 and 2015-16.
Lan PT, Golparian D, Ringlander J, ..., Van Thuong N, Unemo M
J. Antimicrob. Chemother. 75 (6) 1432-1438 [2020-06-01; online 2020-02-19]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Evolutionary Analysis of the Bacillus subtilis Genome Reveals New Genes Involved in Sporulation.
Shi L, Derouiche A, Pandit S, ..., Vlahoviček K, Mijakovic I
Mol. Biol. Evol. 37 (6) 1667-1678 [2020-06-01; online 2020-02-16]
Integrated Microscopy Technologies Gothenburg [Service]
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The mating type system of the rare polypore Hapalopilus croceus
Redr D, Dahlberg A, Stenlid J, ..., Vasaitis R, Menkis A
Fungal Ecology 45 (-) 100941 [2020-06-00; online 2020-06-00]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Size-Dependent Pulmonary Impact of Thin Graphene Oxide Sheets in Mice: Toward Safe-by-Design.
Rodrigues AF, Newman L, Jasim D, ..., Kostarelos K, Bussy C
Adv Sci (Weinh) 7 (12) 1903200 [2020-06-00; online 2020-05-07]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Single-cell RNA counting at allele and isoform resolution using Smart-seq3.
Hagemann-Jensen M, Ziegenhain C, Chen P, ..., Faridani OR, Sandberg R
Nat. Biotechnol. 38 (6) 708-714 [2020-06-00; online 2020-05-04]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Predicting and elucidating the etiology of fatty liver disease: A machine learning modeling and validation study in the IMI DIRECT cohorts.
Atabaki-Pasdar N, Ohlsson M, Viñuela A, ..., Pavo I, Franks PW
PLoS Med. 17 (6) e1003149 [2020-06-00; online 2020-06-19]
Affinity Proteomics Stockholm [Collaborative]
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Normal Testosterone but Higher Luteinizing Hormone Plasma Levels in Men With Hypersexual Disorder.
Chatzittofis A, Boström AE, Öberg KG, ..., Arver S, Jokinen J
Sex Med 8 (2) 243-250 [2020-06-00; online 2020-03-12]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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New approaches to the study of immune responses in humans.
Brodin P
Hum. Genet. 139 (6-7) 795-799 [2020-06-00; online 2020-02-10]
Cellular Immunomonitoring [Technology development]
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Mitochondrial genomes from Bronze Age Poland reveal genetic continuity from the Late Neolithic and additional genetic affinities with the steppe populations.
Juras A, Makarowicz P, Chyleński M, ..., Jakobsson M, Dabert M
Am. J. Phys. Anthropol. 172 (2) 176-188 [2020-06-00; online 2020-04-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
MYO5B mutations in pheochromocytoma/paraganglioma promote cancer progression.
Tomić TT, Olausson J, Rehammar A, ..., Wassén ON, Abel F
PLoS Genet. 16 (6) e1008803 [2020-06-00; online 2020-06-08]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Genome-wide CRISPR screen identifies ZIC2 as an essential gene that controls the cell fate of early mesodermal precursors to human heart progenitors.
Xu J, Zhou C, Foo KS, ..., Sahara M, Chien KR
Stem Cells 38 (6) 741-755 [2020-06-00; online 2020-03-10]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
DEqMS: A Method for Accurate Variance Estimation in Differential Protein Expression Analysis.
Zhu Y, Orre LM, Zhou Tran Y, ..., Anders S, Lehtiö J
Mol. Cell Proteomics 19 (6) 1047-1057 [2020-06-00; online 2020-03-23]
Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Benchmarking single-cell RNA-sequencing protocols for cell atlas projects.
Mereu E, Lafzi A, Moutinho C, ..., Stegle O, Heyn H
Nat. Biotechnol. 38 (6) 747-755 [2020-06-00; online 2020-04-06]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Balancing selection in Pattern Recognition Receptor signalling pathways is associated with gene function and pleiotropy in a wild rodent.
Lundberg M, Zhong X, Konrad A, Olsen RA, Råberg L
Mol. Ecol. 29 (11) 1990-2003 [2020-06-00; online 2020-06-03]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
An immune gene expression signature distinguishes central nervous system metastases from primary tumours in non-small-cell lung cancer.
Tsakonas G, Lewensohn R, Botling J, ..., Hydbring P, Ekman S
Eur. J. Cancer 132 (-) 24-34 [2020-06-00; online 2020-04-20]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Age-of-onset information helps identify 76 genetic variants associated with allergic disease.
Ferreira MAR, Vonk JM, Baurecht H, ..., Lee Y, Koppelman GH
PLoS Genet. 16 (6) e1008725 [2020-06-00; online 2020-06-30]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Activated carbon stimulates microbial diversity and PAH biodegradation under anaerobic conditions in oil-polluted sediments.
Bonaglia S, Broman E, Brindefalk B, ..., Udekwu K, Gunnarsson JS
Chemosphere 248 (-) 126023 [2020-06-00; online 2020-01-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Restoration of KMT2C/MLL3 in human colorectal cancer cells reinforces genome-wide H3K4me1 profiles and influences cell growth and gene expression.
Larsson C, Cordeddu L, Siggens L, ..., Ekwall K, Sjöblom T
Clin Epigenetics 12 (1) 74 [2020-05-29; online 2020-05-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
In silico Druggability Assessment of the NUDIX Hydrolase Protein Family as a Workflow for Target Prioritization.
Michel M, Homan EJ, Wiita E, ..., Helleday T, Warpman Berglund U
Front. Chem. 8 (-) 443 [2020-05-29; online 2020-05-29]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Transitions in wheat endosperm metabolism upon transcriptional induction of oil accumulation by oat endosperm WRINKLED1.
Grimberg Å, Wilkinson M, Snell P, ..., Shewry P, Hofvander P
BMC Plant Biol. 20 (1) 235 [2020-05-25; online 2020-05-25]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Staphylococcus argenteus as an etiological agent of prosthetic hip joint infection: a case presentation.
Söderquist B, Wildeman P, Stenmark B, Stegger M
J Bone Jt Infect 5 (4) 172-175 [2020-05-25; online 2020-05-25]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Auxin export from proximal fruits drives arrest in temporally competent inflorescences
Ware A, Walker CH, Šimura J, ..., Wilson ZA, Bennett T
NPLANTS 6 (6) 699-707 [2020-05-25; online 2020-05-25]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Multi-ancestry GWAS of the electrocardiographic PR interval identifies 202 loci underlying cardiac conduction.
Ntalla I, Weng LC, Cartwright JH, ..., Lubitz SA, Munroe PB
Nat Commun 11 (1) 2542 [2020-05-21; online 2020-05-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Integration of whole-body [18F]FDG PET/MRI with non-targeted metabolomics can provide new insights on tissue-specific insulin resistance in type 2 diabetes.
Diamanti K, Visvanathar R, Pereira MJ, ..., Wadelius C, Ahlström H
Sci Rep 10 (1) 8343 [2020-05-20; online 2020-05-20]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Comprehensive metabolomics analysis of prostate cancer tissue in relation to tumor aggressiveness and TMPRSS2-ERG fusion status.
Dudka I, Thysell E, Lundquist K, ..., Wikström P, Gröbner G
BMC Cancer 20 (1) 437 [2020-05-18; online 2020-05-18]
Swedish Metabolomics Centre (SMC) [Service] Swedish NMR Centre (SNC) [Collaborative]
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Del Pozo A, Manuel R, Iglesias Gonzalez AB, ..., Kullander K, Boije H
eNeuro 7 (3) ENEURO.0047-20.2020 [2020-05-18; online 2020-05-18]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service] Bioinformatics Support for Computational Resources [Service] Genome Engineering Zebrafish [Service]
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Single cell transcriptomics identifies stem cell-derived graft composition in a model of Parkinson's disease.
Tiklová K, Nolbrant S, Fiorenzano A, ..., Perlmann T, Parmar M
Nat Commun 11 (1) 2434 [2020-05-15; online 2020-05-15]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Grankvist R, Chireh A, Sandell M, ..., Daub CO, Holmin S
Sci Rep 10 (1) 8029 [2020-05-15; online 2020-05-15]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mol. Hum. Reprod. 26 (5) 312-326 [2020-05-15; online 2020-03-24]
Integrated Microscopy Technologies Gothenburg [Service]
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Sci Rep 10 (1) 7946 [2020-05-14; online 2020-05-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Biomacromolecules 21 (5) 1892-1901 [2020-05-11; online 2020-03-04]
Swedish NMR Centre (SNC) [Service]
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Swedish NMR Centre (SNC) [Service]
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Cell Rep 31 (5) 107601 [2020-05-05; online 2020-05-07]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Swedish NMR Centre (SNC) [Service]
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Elife 9 (-) - [2020-05-04; online 2020-05-04]
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Bieder A, Einarsdottir E, Matsson H, ..., Kere J, Tapia-Páez I
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Int. J. Cancer 146 (9) 2636-2647 [2020-05-01; online 2019-11-14]
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Methods 177 (-) 50-57 [2020-05-01; online 2019-10-25]
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Extracellular vesicles from mast cells induce mesenchymal transition in airway epithelial cells.
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Genome Biol Evol 12 (5) 522-534 [2020-05-01; online 2020-04-14]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Am. J. Med. Genet. A 182 (5) 1143-1151 [2020-05-00; online 2020-03-03]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Tillmar A, Sjölund P, Lundqvist B, ..., Älgenäs C, Green H
Forensic Sci Int Genet 46 (-) 102233 [2020-05-00; online 2020-01-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Transcriptome profiling of Ewing sarcomas - treatment resistance pathways and IGF-dependency.
Chen Y, Hesla AC, Lin Y, ..., Larsson O, Haglund F
Mol Oncol 14 (5) 1101-1117 [2020-05-00; online 2020-03-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Nordin J, Ameur A, Lindblad-Toh K, Gyllensten U, Meadows JRS
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Puls F, Agaimy A, Flucke U, ..., Arbajian E, Mertens F
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Small 16 (21) e1907686 [2020-05-00; online 2020-03-29]
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Early growth response 1 regulates hematopoietic support and proliferation in human primary bone marrow stromal cells.
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Haematologica 105 (5) 1206-1215 [2020-05-00; online 2019-08-01]
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Comprehensive chemical proteomics for target deconvolution of the redox active drug auranofin.
Saei AA, Gullberg H, Sabatier P, ..., Arnér ESJ, Zubarev RA
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Drug Discovery and Development (DDD)
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Mitra S, Lauss M, Cabrita R, ..., Brown KM, Jönsson G
Mol Oncol 14 (5) 933-950 [2020-05-00; online 2020-03-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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A molecular mechanism explaining albuminuria in kidney disease.
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Interactive proteogenomic exploration of response to Fusarium head blight in oat varieties with different resistance.
Willforss J, Leonova S, Tillander J, ..., Chawade A, Levander F
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Villamil Giraldo AM, Eriksson I, Wennmalm S, ..., Ederth T, Öllinger K
Int J Mol Sci 21 (9) 3136 [2020-04-29; online 2020-04-29]
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Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Cell Calcium 88 (-) 102210 [2020-04-26; online 2020-04-26]
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Börjesson S, Gunnarsson L, Landén A, Grönlund U
Acta Vet. Scand. 62 (1) 18 [2020-04-25; online 2020-04-25]
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Optimization of Tetrahydroindazoles as Inhibitors of Human Dihydroorotate Dehydrogenase and Evaluation of Their Activity and In Vitro Metabolic Stability.
Popova G, Ladds MJGW, Johansson L, ..., Yngve U, Lain S
J. Med. Chem. 63 (8) 3915-3934 [2020-04-23; online 2020-04-08]
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Chen HY, Jolly C, Bublys K, Marcu D, Immler S
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Bioinformatics Support for Computational Resources [Service] Genome Engineering Zebrafish [Service]
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Xiao L, Zheng Z, Irgum K, Andersson PL
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Swedish NMR Centre (SNC) [Service]
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Solution Conformations Explain the Chameleonic Behaviour of Macrocyclic Drugs.
Danelius E, Poongavanam V, Peintner S, ..., Erdélyi M, Kihlberg J
Chemistry 26 (23) 5231-5244 [2020-04-21; online 2020-04-06]
Swedish NMR Centre (SNC) [Service]
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Molecular profiling of driver events in metastatic uveal melanoma.
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Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Gustavsson DJI, Suarez C, Wilén BM, Hermansson M, Persson F
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Šafarič L, Yekta SS, Svensson BH, ..., Bastviken D, Björn A
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Rapid Biophysical Characterization and NMR Spectroscopy Structural Analysis of Small Proteins from Bacteria and Archaea.
Kubatova N, Pyper DJ, Jonker HRA, ..., Schmitz RA, Schwalbe H
ChemBioChem 21 (8) 1178-1187 [2020-04-17; online 2020-01-21]
Swedish NMR Centre (SNC) [Collaborative]
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Genome-Scale Metabolic Modeling of Glioblastoma Reveals Promising Targets for Drug Development.
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Front Genet 11 (-) 381 [2020-04-17; online 2020-04-17]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Bianchi M, Rafati N, Karlsson Å, ..., Lindblad-Toh K, Rosengren Pielberg G
BMC Genomics 21 (1) 307 [2020-04-16; online 2020-04-16]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Munke A, Kimura K, Tomaru Y, Okamoto K
J. Virol. 94 (9) - [2020-04-16; online 2020-04-16]
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The ELIXIR Core Data Resources: fundamental infrastructure for the life sciences.
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Nat Commun 11 (1) 1842 [2020-04-15; online 2020-04-15]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service] Systems Biology [Collaborative]
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Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Petrus-Reurer S, Winblad N, Kumar P, ..., Kvanta A, Lanner F
Stem Cell Reports 14 (4) 648-662 [2020-04-14; online 2020-03-19]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Cancers (Basel) 12 (4) 923 [2020-04-10; online 2020-04-10]
Clinical Genomics [Collaborative] Clinical Genomics Umeå [Collaborative]
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Hybrid Aspen Expressing a Carbohydrate Esterase Family 5 Acetyl Xylan Esterase Under Control of a Wood-Specific Promoter Shows Improved Saccharification.
Wang Z, Pawar PM, Derba-Maceluch M, ..., Jönsson LJ, Mellerowicz EJ
Front Plant Sci 11 (-) 380 [2020-04-08; online 2020-04-08]
Swedish NMR Centre (SNC) [Collaborative]
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Building blocks are synthesized on demand during the yeast cell cycle.
Campbell K, Westholm J, Kasvandik S, ..., Mormino M, Nielsen J
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
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Yañez O, Chávez-Galarza J, Tellgren-Roth C, ..., Neumann P, de Miranda JR
Sci Rep 10 (1) 5956 [2020-04-06; online 2020-04-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Shafeeq S, Wang X, Lünsdorf H, Brauner A, Römling U
Microorganisms 8 (4) 522 [2020-04-05; online 2020-04-05]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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The conifer root rot pathogens Heterobasidion irregulare and Heterobasidion occidentale employ different strategies to infect Norway spruce.
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Sci Rep 10 (1) 5884 [2020-04-03; online 2020-04-03]
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Plant resistance does not compromise parasitoid-based biocontrol of a strawberry pest.
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Sci Rep 10 (1) 5899 [2020-04-03; online 2020-04-03]
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- - (-) - [2020-04-03; online 2020-04-03]
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Genomic characterization and outcome of prosthetic joint infections caused by Staphylococcus aureus.
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Peuget S, Zhu J, Sanz G, ..., Zubarev R, Selivanova G
Cancer Res. 80 (7) 1538-1550 [2020-04-01; online 2020-02-04]
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Paralogization and New Protein Architectures in Planctomycetes Bacteria with Complex Cell Structures.
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Gouveia L, Kraut S, Hadzic S, ..., Betsholtz C, Andrae J
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Andersson N, Bakker B, Karlsson J, ..., Foijer F, Gisselsson D
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Eriksen AK, Brunius C, Mazidi M, ..., Dicksved J, Landberg R
Am. J. Clin. Nutr. 111 (4) 864-876 [2020-04-01; online 2020-02-26]
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PubMed DOI Crossref
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de la Rosa-Trevín JM, Hernández Viga PA, Otón J, Lindahl E
Acta Crystallogr D Struct Biol 76 (Pt 4) 350-356 [2020-04-01; online 2020-03-31]
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Zhang C, Bjornson E, Arif M, ..., Borén J, Mardinoglu A
Mol. Syst. Biol. 16 (4) e9495 [2020-04-00; online 2020-04-28]
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PubMed DOI Crossref
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Gretarsson S, Nygren A, Rosendahl AH, ..., Wennerberg J, Ekblad L
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Hulme H, Fridjonsdottir E, Gunnarsdottir H, ..., Svenningsson P, Andrén PE
Neurobiol. Dis. 137 (-) 104738 [2020-04-00; online 2020-01-10]
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Lind A, Eriksson D, Akel O, ..., Elding Larsson H, Landegren N
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Nunes L, Aasebø K, Mathot L, ..., Sjöblom T, Glimelius B
Acta Oncol 59 (4) 417-426 [2020-04-00; online 2020-01-10]
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Long-term application of Swedish sewage sludge on farmland does not cause clear changes in the soil bacterial resistome.
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Environ Int 137 (-) 105339 [2020-04-00; online 2020-02-06]
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Björn N, Sigurgeirsson B, Svedberg A, ..., Lundeberg J, Gréen H
Pharmacogenomics J. 20 (2) 179-191 [2020-04-00; online 2019-10-15]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Opassi G, Nordström H, Lundin A, ..., Klebe G, Danielson UH
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Cell Cycle Profiling Reveals Protein Oscillation, Phosphorylation, and Localization Dynamics.
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ABCB1 single-nucleotide variants and survival in patients with glioblastoma treated with radiotherapy concomitant with temozolomide.
Malmström A, Łysiak M, Åkesson L, ..., Green H, Söderkvist P
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Cavalli M, Diamanti K, Pan G, ..., Komorowski J, Wadelius C
OMICS 24 (4) 180-194 [2020-04-00; online 2020-03-16]
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Gliga AR, Di Bucchianico S, Åkerlund E, Karlsson HL
Nanomaterials (Basel) 10 (4) 649 [2020-03-31; online 2020-03-31]
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Andersson K, Malmgren B, Åström E, ..., Taylan F, Dahllöf G
Orphanet J Rare Dis 15 (1) 80 [2020-03-31; online 2020-03-31]
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Plaza Reyes A, Petrus-Reurer S, Padrell Sánchez S, ..., Kvanta A, Lanner F
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Antimicrobial peptide and sequence variation along a latitudinal gradient in two anurans.
Cortázar-Chinarro M, Meyer-Lucht Y, Van der Valk T, ..., Laurila A, Höglund J
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Madru C, Henneke G, Raia P, ..., Carroni M, Sauguet L
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Zhang X, Mantas I, Fridjonsdottir E, ..., Chergui K, Svenningsson P
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Ignatov D, Vaitkevicius K, Durand S, ..., Condon C, Johansson J
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Robinson JL, Kocabaş P, Wang H, ..., Uhlén M, Nielsen J
Sci Signal 13 (624) - [2020-03-24; online 2020-03-24]
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Cancers (Basel) 12 (3) 753 [2020-03-22; online 2020-03-22]
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Specific functions for Mediator complex subunits from different modules in the transcriptional response of Arabidopsis thaliana to abiotic stress.
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Analysis of the behaviour of confined molecules using 2H T1 nuclear magnetic relaxation dispersion
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Newborn Screening for Presymptomatic Diagnosis of Complement and Phagocyte Deficiencies.
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Front Immunol 11 (-) 455 [2020-03-17; online 2020-03-17]
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Effects of acute sleep loss on diurnal plasma dynamics of CNS health biomarkers in young men.
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Methods 175 (-) 10-23 [2020-03-15; online 2019-11-11]
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Inherited DNA Repair Gene Mutations in Men with Lethal Prostate Cancer.
Rantapero T, Wahlfors T, Kähler A, ..., Schleutker J, Wiklund F
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Rendo V, Stoimenov I, Mateus A, ..., Cheong I, Sjöblom T
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Footprints of natural selection at the mannose-6-phosphate isomerase locus in barnacles.
Nunez JCB, Flight PA, Neil KB, ..., Blomberg A, Rand DM
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Ribonucleotide reductase inhibitors suppress SAMHD1 ara-CTPase activity enhancing cytarabine efficacy.
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An atlas of the protein-coding genes in the human, pig, and mouse brain.
Sjöstedt E, Zhong W, Fagerberg L, ..., Uhlén M, Mulder J
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Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Stressful Beginnings with Long-Term Consequences.
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Short-Range Order and Transport Properties in Mixtures of the Protic Ionic Liquid [C2HIm][TFSI] with Water or Imidazole.
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Swedish NMR Centre (SNC) [Service]
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Epiphyseal Cartilage Formation Involves Differential Dynamics of Various Cellular Populations During Embryogenesis.
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Front Cell Dev Biol 8 (-) 122 [2020-03-05; online 2020-03-05]
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One-Pot Production of RNA in High Yield and Purity Through Cleaving Tandem Transcripts.
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Transcriptomic resources for evolutionary studies in flat periwinkles and related species.
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NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Oral Microbiota Profile Associates with Sugar Intake and Taste Preference Genes.
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NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service]
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Metabolomics 16 (3) 35 [2020-03-02; online 2020-03-02]
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Tumor localized agonistic anti-CD40 therapy and beyond.
Eltahir M, Persson H, Mangsbo S
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NGI Stockholm (Genomics Applications) [Technology development] NGI Stockholm (Genomics Production) [Technology development] National Genomics Infrastructure [Technology development]
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Engen K, Vanga SR, Lundbäck T, ..., Larhed M, Rosenström U
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Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Structure of a minimal photosystem I from the green alga Dunaliella salina.
Perez-Boerema A, Klaiman D, Caspy I, ..., Amunts A, Nelson N
NPLANTS 6 (3) 321-327 [2020-03-00; online 2020-03-02]
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PIRIN2 suppresses S-type lignin accumulation in a noncell-autonomous manner in Arabidopsis xylem elements.
Zhang B, Sztojka B, Escamez S, ..., Boerjan W, Tuominen H
New Phytol. 225 (5) 1923-1935 [2020-03-00; online 2019-11-11]
Swedish NMR Centre (SNC) [Collaborative]
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Overexpression of chromatin remodeling and tyrosine kinase genes in iAMP21-positive acute lymphoblastic leukemia.
Ivanov Öfverholm I, Zachariadis V, Taylan F, ..., Nordlund J, Barbany G
Leuk. Lymphoma 61 (3) 604-613 [2020-03-00; online 2019-10-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Longitudinal changes in the frequency of mosaic chromosome Y loss in peripheral blood cells of aging men varies profoundly between individuals.
Danielsson M, Halvardson J, Davies H, ..., Dumanski JP, Forsberg LA
Eur. J. Hum. Genet. 28 (3) 349-357 [2020-03-00; online 2019-10-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Irreversible TrxR1 inhibitors block STAT3 activity and induce cancer cell death.
Busker S, Qian W, Haraldsson M, ..., Tamm KP, Page BDG
Sci Adv 6 (12) eaax7945 [2020-03-00; online 2020-03-20]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Protein Science Facility (PSF) [Service]
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In Situ Encapsulation of Nile Red or Doxorubicin during RAFT‐Mediated Emulsion Polymerization via Polymerization‐Induced Self‐Assembly for Biomedical Applications
Engström J, Asem H, Brismar H, ..., Malkoch M, Malmström E
Macromol. Chem. Phys. 221 (5) 1900443 [2020-03-00; online 2020-02-10]
Integrated Microscopy Technologies Stockholm [Service]
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Hyena paleogenomes reveal a complex evolutionary history of cross-continental gene flow between spotted and cave hyena.
Westbury MV, Hartmann S, Barlow A, ..., Heller R, Hofreiter M
Sci Adv 6 (11) eaay0456 [2020-03-00; online 2020-03-13]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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High genetic risk score is associated with early disease onset, damage accrual and decreased survival in systemic lupus erythematosus.
Reid S, Alexsson A, Frodlund M, ..., Rönnblom L, Leonard D
Ann. Rheum. Dis. 79 (3) 363-369 [2020-03-00; online 2019-12-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Heritability of Caries Scores, Trajectories, and Disease Subtypes.
Haworth S, Esberg A, Lif Holgerson P, ..., Franks PW, Johansson I
J Dent Res 99 (3) 264-270 [2020-03-00; online 2020-01-06]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Functionally distinct subgroups of oligodendrocyte precursor cells integrate neural activity and execute myelin formation.
Marisca R, Hoche T, Agirre E, ..., Castelo-Branco G, Czopka T
Nat. Neurosci. 23 (3) 363-374 [2020-03-00; online 2020-02-17]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Evidence for widespread selection in shaping the genomic landscape during speciation of Populus.
Wang J, Street NR, Park EJ, Liu J, Ingvarsson PK
Mol. Ecol. 29 (6) 1120-1136 [2020-03-00; online 2020-03-09]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Distinct structural modulation of photosystem I and lipid environment stabilizes its tetrameric assembly.
Chen M, Perez-Boerema A, Zhang L, ..., Li S, Amunts A
NPLANTS 6 (3) 314-320 [2020-03-00; online 2020-03-09]
Cryo-EM [Service] Global Proteomics and Proteogenomics [Service]
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Discovery of Species-unique Peptide Biomarkers of Bacterial Pathogens by Tandem Mass Spectrometry-based Proteotyping.
Karlsson R, Thorsell A, Gomila M, ..., Kristiansson E, Moore ERB
Mol. Cell Proteomics 19 (3) 518-528 [2020-03-00; online 2020-01-15]
Glycoproteomics and MS Proteomics [Collaborative]
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Chemical imaging of evolving amyloid plaque pathology and associated Aβ peptide aggregation in a transgenic mouse model of Alzheimer's disease.
Michno W, Wehrli P, Meier SR, ..., Blennow K, Hanrieder J
J. Neurochem. 152 (5) 602-616 [2020-03-00; online 2019-11-06]
Integrated Microscopy Technologies Gothenburg [Collaborative]
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Apolipoprotein E impairs amyloid-β fibril elongation and maturation.
Islam T, Gharibyan AL, Golchin SA, ..., Olofsson L, Olofsson A
FEBS J. 287 (6) 1208-1219 [2020-03-00; online 2019-10-09]
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A link between the newly described colistin resistance gene mcr-9 and clinical Enterobacteriaceae isolates carrying blaSHV-12 from horses in Sweden.
Börjesson S, Greko C, Myrenås M, ..., Nilsson O, Pedersen K
J Glob Antimicrob Resist 20 (-) 285-289 [2020-03-00; online 2019-09-05]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
PCSK6 Is a Key Protease in the Control of Smooth Muscle Cell Function in Vascular Remodeling.
Rykaczewska U, Suur BE, Röhl S, ..., Hedin U, Matic L
Circ. Res. 126 (5) 571-585 [2020-02-28; online 2020-01-02]
Global Proteomics and Proteogenomics [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Complete genome and methylome analysis of Neisseria meningitidis associated with increased serogroup Y disease.
Stenmark B, Harrison OB, Eriksson L, ..., Maiden MCJ, Mölling P
Sci Rep 10 (1) 3644 [2020-02-27; online 2020-02-27]
Clinical Genomics [Technology development] Clinical Genomics Örebro [Technology development]
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The Relationship Between Polygenic Risk Scores and Cognition in Schizophrenia.
Richards AL, Pardiñas AF, Frizzati A, ..., O'Donovan MC, Walters JTR
Schizophr Bull 46 (2) 336-344 [2020-02-26; online 2019-06-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Streptococcus pneumoniae Nasopharyngeal Carriage among PCV-10-Vaccinated HIV-1-Infected Children with Maintained Serological Memory in Ethiopia.
Lemma M, Bekele Y, Petkov S, ..., Howe R, Chiodi F
Pathogens 9 (3) 159 [2020-02-25; online 2020-02-25]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Patterns of African and Asian admixture in the Afrikaner population of South Africa.
Hollfelder N, Erasmus JC, Hammaren R, ..., Greeff JM, Schlebusch CM
BMC Biol. 18 (1) 16 [2020-02-24; online 2020-02-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
rs953413 Regulates Polyunsaturated Fatty Acid Metabolism by Modulating ELOVL2 Expression.
Pan G, Cavalli M, Carlsson B, ..., Kumar C, Wadelius C
iScience 23 (2) 100808 [2020-02-21; online 2020-01-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
In Vitro Regeneration of Decellularized Pig Esophagus Using Human Amniotic Stem Cells.
Nayakawde NB, Methe K, Banerjee D, ..., Premaratne GU, Olausson M
Biores Open Access 9 (1) 22-36 [2020-02-21; online 2020-02-21]
Integrated Microscopy Technologies Gothenburg [Service]
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Dominance of Mating Type A1 and Indication of Epigenetic Effects During Early Stages of Mating in Phytophthora infestans.
Tzelepis G, Hodén KP, Fogelqvist J, ..., Vetukuri RR, Dixelius C
Front Microbiol 11 (-) 252 [2020-02-21; online 2020-02-21]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Biomolecular analyses reveal the age, sex and species identity of a near-intact Pleistocene bird carcass.
Dussex N, Stanton DWG, Sigeman H, ..., Hansson B, Dalén L
Commun Biol 3 (1) 84 [2020-02-21; online 2020-02-21]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Backbone Cyclization and Dimerization of LL-37-Derived Peptides Enhance Antimicrobial Activity and Proteolytic Stability.
Gunasekera S, Muhammad T, Strömstedt AA, Rosengren KJ, Göransson U
Front Microbiol 11 (-) 168 [2020-02-21; online 2020-02-21]
Swedish NMR Centre (SNC) [Service]
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Subtle structural alterations in G-quadruplex DNA regulate site specificity of fluorescence light-up probes.
Kumar R, Chand K, Bhowmik S, ..., Hedenström M, Chorell E
Nucleic Acids Res. 48 (3) 1108-1119 [2020-02-20; online 2020-01-09]
Swedish NMR Centre (SNC) [Collaborative]
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Primary cell wall inspired micro containers as a step towards a synthetic plant cell.
Paulraj T, Wennmalm S, Wieland DCF, ..., Cárdenas M, Svagan AJ
Nat Commun 11 (1) 958 [2020-02-19; online 2020-02-19]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Validation of Novel Prognostic Biomarkers for Early-Stage Clear-Cell, Endometrioid and Mucinous Ovarian Carcinomas Using Immunohistochemistry.
Engqvist H, Parris TZ, Kovács A, ..., Karlsson P, Helou K
Front Oncol 10 (-) 162 [2020-02-18; online 2020-02-18]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Managed and Unmanaged Pinus sylvestris Forest Stands Harbour Similar Diversity and Composition of the Phyllosphere and Soil Fungi.
Lynikienė J, Marčiulynienė D, Marčiulynas A, ..., Vaičiukynė M, Menkis A
Microorganisms 8 (2) 259 [2020-02-15; online 2020-02-15]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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The First Structure of an Active Mammalian dCTPase and its Complexes With Substrate Analogs and Products.
Scaletti E, Claesson M, Helleday T, Jemth AS, Stenmark P
J. Mol. Biol. 432 (4) 1126-1142 [2020-02-14; online 2020-01-15]
Protein Science Facility (PSF) [Service]
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Refined detection and phasing of structural aberrations in pediatric acute lymphoblastic leukemia by linked-read whole-genome sequencing.
Nordlund J, Marincevic-Zuniga Y, Cavelier L, ..., Lönnerholm G, Syvänen AC
Sci Rep 10 (1) 2512 [2020-02-13; online 2020-02-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Using null models to compare bacterial and microeukaryotic metacommunity assembly under shifting environmental conditions.
Vass M, Székely AJ, Lindström ES, Langenheder S
Sci Rep 10 (1) 2455 [2020-02-12; online 2020-02-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Quinazoline Ligands Induce Cancer Cell Death through Selective STAT3 Inhibition and G-Quadruplex Stabilization.
Jamroskovic J, Doimo M, Chand K, ..., Chorell E, Sabouri N
J. Am. Chem. Soc. 142 (6) 2876-2888 [2020-02-12; online 2020-01-28]
Swedish NMR Centre (SNC) [Collaborative]
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Subpopulations of extracellular vesicles from human metastatic melanoma tissue identified by quantitative proteomics after optimized isolation.
Crescitelli R, Lässer C, Jang SC, ..., Olofsson Bagge R, Lötvall J
J Extracell Vesicles 9 (1) 1722433 [2020-02-11; online 2020-02-11]
Glycoproteomics and MS Proteomics [Collaborative] Integrated Microscopy Technologies Gothenburg [Service]
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Longitudinal trajectories, correlations and mortality associations of nine biological ages across 20-years follow-up.
Li X, Ploner A, Wang Y, ..., Jylhävä J, Hägg S
Elife 9 (-) - [2020-02-11; online 2020-02-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Whole genome sequencing unveils genetic heterogeneity in optic nerve hypoplasia.
Dahl S, Pettersson M, Eisfeldt J, ..., Anderlid BM, Lindstrand A
PLoS ONE 15 (2) e0228622 [2020-02-10; online 2020-02-10]
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Low concentrations of the benzodiazepine drug oxazepam induce anxiolytic effects in wild-caught but not in laboratory zebrafish.
Vossen LE, Červený D, Sen Sarma O, ..., Brodin T, Winberg S
Sci. Total Environ. 703 (-) 134701 [2020-02-10; online 2019-11-01]
Genome Engineering Zebrafish [Service]
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Clinicopathological features and prognostic value of SOX11 in childhood acute lymphoblastic leukemia.
Grönroos T, Mäkinen A, Laukkanen S, ..., Heinäniemi M, Lohi O
Sci Rep 10 (1) 2043 [2020-02-06; online 2020-02-06]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Clonal competition within complex evolutionary hierarchies shapes AML over time.
Sandén C, Lilljebjörn H, Orsmark Pietras C, ..., Ågerstam H, Fioretos T
Nat Commun 11 (1) 579 [2020-02-05; online 2020-02-05]
Clinical Genomics Clinical Genomics Lund
PubMed DOI Crossref
A chromosome-scale reference genome for Giardia intestinalis WB.
Xu F, Jex A, Svärd SG
Sci Data 7 (1) 38 [2020-02-04; online 2020-02-04]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Extensive dissemination and intraclonal maturation of HIV Env vaccine-induced B cell responses.
Phad GE, Pushparaj P, Tran K, ..., Wyatt RT, Karlsson Hedestam GB
J. Exp. Med. 217 (2) - [2020-02-03; online 2019-11-11]
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PubMed DOI Crossref
Plasma kidney injury molecule-1 (p-KIM-1) levels and deterioration of kidney function over 16 years.
Schulz CA, Engström G, Nilsson J, ..., Melander O, Orho-Melander M
Nephrol Dial Transplant 35 (2) 265-273 [2020-02-01; online 2019-01-11]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Glycogenin is Dispensable for Glycogen Synthesis in Human Muscle, and Glycogenin Deficiency Causes Polyglucosan Storage.
Visuttijai K, Hedberg-Oldfors C, Thomsen C, ..., Roach P, Oldfors A
J. Clin. Endocrinol. Metab. 105 (2) 557-566 [2020-02-01; online 2019-10-20]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Demography and Natural Selection Have Shaped Genetic Variation in the Widely Distributed Conifer Norway Spruce (Picea abies).
Wang X, Bernhardsson C, Ingvarsson PK
Genome Biol Evol 12 (2) 3803-3817 [2020-02-01; online 2020-01-21]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Convergent Evolution of Hydrogenosomes from Mitochondria by Gene Transfer and Loss.
Lewis WH, Lind AE, Sendra KM, ..., Ettema TJG, Embley TM
Mol. Biol. Evol. 37 (2) 524-539 [2020-02-01; online 2019-10-28]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The antimalarial drug amodiaquine stabilizes p53 through ribosome biogenesis stress, independently of its autophagy-inhibitory activity.
Espinoza JA, Zisi A, Kanellis DC, ..., Lindström MS, Bartek J
Cell Death Differ. 27 (2) 773-789 [2020-02-00; online 2019-07-08]
Chemical Biology Consortium Sweden (CBCS) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Revealing the Regional Localization and Differential Lung Retention of Inhaled Compounds by Mass Spectrometry Imaging.
Hamm GR, Bäckström E, Brülls M, ..., Fridén M, Goodwin RJA
J Aerosol Med Pulm Drug Deliv 33 (1) 43-53 [2020-02-00; online 2019-07-31]
Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
Plasma Lipidome and Prediction of Type 2 Diabetes in the Population-Based Malmö Diet and Cancer Cohort.
Fernandez C, Surma MA, Klose C, ..., Simons K, Melander O
Diabetes Care 43 (2) 366-373 [2020-02-00; online 2019-12-08]
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PubMed DOI Crossref
Perspective on CETSA Literature: Toward More Quantitative Data Interpretation.
Seashore-Ludlow B, Axelsson H, Lundbäck T
SLAS DISCOVERY: Advancing Life Sciences R&D 25 (2) 118-126 [2020-02-00; online 2019-10-30]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
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Genomic and transcriptomic features of dermatofibrosarcoma protuberans: Unusual chromosomal origin of the COL1A1-PDGFB fusion gene and synergistic effects of amplified regions in tumor development.
Köster J, Arbajian E, Viklund B, ..., Mandahl N, Mertens F
Cancer Genet 241 (-) 34-41 [2020-02-00; online 2019-12-10]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Clinical Genomics Lund
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Fast time-resolved NMR with non-uniform sampling.
Gołowicz D, Kasprzak P, Orekhov V, Kazimierczuk K
Progress in Nuclear Magnetic Resonance Spectroscopy 116 (-) 40-55 [2020-02-00; online 2019-09-25]
Swedish NMR Centre (SNC) [Collaborative]
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Exosomes influence the behavior of human mesenchymal stem cells on titanium surfaces.
Wang X, Shah FA, Vazirisani F, ..., Ekström K, Thomsen P
Biomaterials 230 (-) 119571 [2020-02-00; online 2019-10-24]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Engineering yeast phospholipid metabolism for de novo oleoylethanolamide production.
Liu Y, Liu Q, Krivoruchko A, Khoomrung S, Nielsen J
Nat. Chem. Biol. 16 (2) 197-205 [2020-02-00; online 2019-12-16]
Integrated Microscopy Technologies Gothenburg [Service]
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Dynamic architecture and regulatory implications of the miRNA network underlying the response to stress in melon.
Sanz-Carbonell A, Marques MC, Martinez G, Gomez G
RNA Biol 17 (2) 292-308 [2020-02-00; online 2019-12-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Associations Between Apolipoprotein A1, High-Density Lipoprotein Cholesterol, and Urinary Cytokine Levels in Elderly Males and Females.
Fellström B, Helmersson-Karlqvist J, Lind L, ..., Ärnlöv J, Larsson A
Journal of Interferon & Cytokine Research 40 (2) 71-74 [2020-02-00; online 2019-10-10]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Artificial intelligence for diagnosis and grading of prostate cancer in biopsies: a population-based, diagnostic study.
Ström P, Kartasalo K, Olsson H, ..., Egevad L, Eklund M
Lancet Oncol 21 (2) 222-232 [2020-02-00; online 2020-01-08]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service] Bioinformatics Support for Computational Resources [Service]
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Analysis of the genetic variants associated with circulating levels of sgp130. Results from the IMPROVE study.
Bonomi A, Veglia F, Baldassarre D, ..., Gigante B, on behalf of the IMPROVE study group
Genes Immun. 21 (2) 100-108 [2020-02-00; online 2020-01-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Painting of Fourth and the X-Linked 1.688 Satellite in D. melanogaster is Involved in Chromosome-Wide Gene Regulation.
Ekhteraei-Tousi S, Lewerentz J, Larsson J
Cells 9 (2) 323 [2020-01-30; online 2020-01-30]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Diversity and Host Interactions Among Virulent and Temperate Baltic Sea Flavobacterium Phages.
Nilsson E, Bayfield OW, Lundin D, Antson AA, Holmfeldt K
Viruses 12 (2) 158 [2020-01-30; online 2020-01-30]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Sarek: A portable workflow for whole-genome sequencing analysis of germline and somatic variants.
Garcia M, Juhos S, Larsson M, ..., Käller M, Nystedt B
F1000Res 9 (-) 63 [2020-01-29; online 2020-01-29]
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The round goby genome provides insights into mechanisms that may facilitate biological invasions.
Adrian-Kalchhauser I, Blomberg A, Larsson T, ..., Schloissnig S, Winkler S
BMC Biol. 18 (1) 11 [2020-01-28; online 2020-01-28]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Building de novo reference genome assemblies of complex eukaryotic microorganisms from single nuclei.
Montoliu-Nerin M, Sánchez-García M, Bergin C, ..., Johannesson H, Rosling A
Sci Rep 10 (1) 1303 [2020-01-28; online 2020-01-28]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Microbial Single Cell Genomics [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Population Pharmacokinetics and Pharmacogenetics of Ethambutol in Adult Patients Coinfected with Tuberculosis and HIV.
Sundell J, Bienvenu E, Birgersson S, Äbelö A, Ashton M
Antimicrob. Agents Chemother. 64 (2) - [2020-01-27; online 2020-01-27]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Transcriptomic profiling of skeletal muscle adaptations to exercise and inactivity.
Pillon NJ, Gabriel BM, Dollet L, ..., Krook A, Zierath JR
Nat Commun 11 (1) 470 [2020-01-24; online 2020-01-24]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Extracellular Vesicles Released From the Skin Commensal Yeast Malassezia sympodialis Activate Human Primary Keratinocytes.
Vallhov H, Johansson C, Veerman RE, Scheynius A
Front. Cell. Infect. Microbiol. 10 (-) 6 [2020-01-24; online 2020-01-24]
Bioinformatics Support for Computational Resources [Service] Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Estimating Detection Limits of Potentiometric DNA Sensors Using Surface Plasmon Resonance Analyses.
Xu X, Makaraviciute A, Abdurakhmanov E, ..., Nyholm L, Zhang Z
ACS Sens. 5 (1) 217-224 [2020-01-24; online 2019-12-23]
Drug Discovery and Development (DDD) [Technology development]
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CREBBP and WDR 24 Identified as Candidate Genes for Quantitative Variation in Red-Brown Plumage Colouration in the Chicken.
Fogelholm J, Henriksen R, Höglund A, ..., Jensen P, Wright D
Sci Rep 10 (1) 1161 [2020-01-24; online 2020-01-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The Medical Genome Reference Bank contains whole genome and phenotype data of 2570 healthy elderly.
Pinese M, Lacaze P, Rath EM, ..., Dinger ME, Thomas DM
Nat Commun 11 (1) 435 [2020-01-23; online 2020-01-23]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Reverse engineering directed gene regulatory networks from transcriptomics and proteomics data of biomining bacterial communities with approximate Bayesian computation and steady-state signalling simulations.
Buetti-Dinh A, Herold M, Christel S, ..., Friedman R, Dopson M
BMC Bioinformatics 21 (1) 23 [2020-01-21; online 2020-01-21]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Modulation of Structural Heterogeneity Controls Phytochrome Photoswitching.
Gustavsson E, Isaksson L, Persson C, ..., Orekhov V, Westenhoff S
Biophysical Journal 118 (2) 415-421 [2020-01-21; online 2019-11-26]
Swedish NMR Centre (SNC) [Collaborative]
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Transcriptome analysis of fibroblasts from schizophrenia patients reveals differential expression of schizophrenia-related genes.
Etemadikhah M, Niazi A, Wetterberg L, Feuk L
Sci Rep 10 (1) 630 [2020-01-20; online 2020-01-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Loss of centromere function drives karyotype evolution in closely related Malassezia species.
Sankaranarayanan SR, Ianiri G, Coelho MA, ..., Heitman J, Sanyal K
Elife 9 (-) - [2020-01-20; online 2020-01-20]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Genome-Based Comparison of All Species of the Genus Moorella, and Status of the Species Moorella thermoacetica and Moorella thermoautotrophica.
Redl S, Poehlein A, Esser C, ..., Dürre P, Nielsen AT
Front Microbiol 10 (-) 3070 [2020-01-17; online 2020-01-17]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A spontaneous mitonuclear epistasis converging on Rieske Fe-S protein exacerbates complex III deficiency in mice.
Purhonen J, Grigorjev V, Ekiert R, ..., Fellman V, Kallijärvi J
Nat Commun 11 (1) 322 [2020-01-16; online 2020-01-16]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Gene regulatory response to hyposalinity in the brown seaweed Fucus vesiculosus.
Rugiu L, Panova M, Pereyra RT, Jormalainen V
BMC Genomics 21 (1) 42 [2020-01-13; online 2020-01-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Development and characterization of an EMS-mutagenized wheat population and identification of salt-tolerant wheat lines.
Lethin J, Shakil SSM, Hassan S, ..., Olsson O, Aronsson H
BMC Plant Biol. 20 (1) 18 [2020-01-13; online 2020-01-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Screening for bioactive secondary metabolites in Sri Lankan medicinal plants by microfractionation and targeted isolation of antimicrobial flavonoids from Derris scandens.
Mohotti S, Rajendran S, Muhammad T, ..., Hettiarachchi CM, Gunasekera S
Journal of Ethnopharmacology 246 (-) 112158 [2020-01-10; online 2019-08-14]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
A regulatory role for CHD2 in myelopoiesis.
Shahin Varnoosfaderani F, Palau A, Dong W, ..., Svensson JP, Lennartsson A
Epigenetics 15 (6-7) 702-714 [2020-01-10; online 2020-01-10]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genome-wide association and Mendelian randomisation analysis provide insights into the pathogenesis of heart failure.
Shah S, Henry A, Roselli C, ..., Swerdlow DI, Lumbers RT
Nat Commun 11 (1) 163 [2020-01-09; online 2020-01-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
DNA methylation changes in Down syndrome derived neural iPSCs uncover co-dysregulation of ZNF and HOX3 families of transcription factors.
Laan L, Klar J, Sobol M, ..., Schuster J, Dahl N
Clin Epigenetics 12 (1) 9 [2020-01-08; online 2020-01-08]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Light-up Logic Platform for Selective Recognition of Parallel G-Quadruplex Structures via Disaggregation-Induced Emission.
Deiana M, Chand K, Jamroskovic J, ..., Chorell E, Sabouri N
Angew. Chem. Int. Ed. Engl. 59 (2) 896-902 [2020-01-07; online 2019-11-22]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Evolutionary History, Genomic Adaptation to Toxic Diet, and Extinction of the Carolina Parakeet.
Gelabert P, Sandoval-Velasco M, Serres A, ..., Gilbert MTP, Lalueza-Fox C
Curr. Biol. 30 (1) 108-114.e5 [2020-01-06; online 2019-12-12]
NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Metabolic Profiling and Compound-Class Identification Reveal Alterations in Serum Triglyceride Levels in Mice Immunized with Human Vaccine Adjuvant Alum.
Khoomrung S, Nookaew I, Sen P, ..., Harandi AM, Nielsen J
J. Proteome Res. 19 (1) 269-278 [2020-01-03; online 2019-11-01]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Integrative discovery of treatments for high-risk neuroblastoma.
Almstedt E, Elgendy R, Hekmati N, ..., Krona C, Nelander S
Nat Commun 11 (1) 71 [2020-01-03; online 2020-01-03]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
The Mitogenome of Norway Spruce and a Reappraisal of Mitochondrial Recombination in Plants.
Sullivan AR, Eldfjell Y, Schiffthaler B, ..., Street NR, Wang XR
Genome Biol Evol 12 (1) 3586-3598 [2020-01-01; online 2019-11-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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The Genome of the Endangered Dryas Monkey Provides New Insights into the Evolutionary History of the Vervets.
van der Valk T, Gonda CM, Silegowa H, ..., Detwiler KM, Guschanski K
Mol. Biol. Evol. 37 (1) 183-194 [2020-01-01; online 2019-09-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Hepatitis E virus genotype 3 strains and a plethora of other viruses detected in raw and still in tap water.
Wang H, Kjellberg I, Sikora P, ..., Bergstedt O, Norder H
Water Res. 168 (-) 115141 [2020-01-01; online 2019-09-30]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Discovery of Novel Sequences in 1,000 Swedish Genomes.
Eisfeldt J, Mårtensson G, Ameur A, Nilsson D, Lindstrand A
Mol. Biol. Evol. 37 (1) 18-30 [2020-01-01; online 2019-09-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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A dual-action peptide-containing hydrogel targets wound infection and inflammation.
Puthia M, Butrym M, Petrlova J, ..., Kjellström S, Schmidtchen A
Sci Transl Med 12 (524) eaax6601 [2020-01-01; online 2020-01-03]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Whole genome sequencing of apparently mutation-negative MEN1 patients.
Backman S, Bajic D, Crona J, ..., Skogseid B, Stålberg P
Eur. J. Endocrinol. 182 (1) 35-45 [2020-01-00; online 2019-10-29]
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Variable neurodevelopmental and morphological phenotypes of carriers with 12q12 duplications.
Myers L, Blyth M, Moradkhani K, ..., Anderlid BM, Tammimies K
Mol Genet Genomic Med 8 (1) e1013 [2020-01-00; online 2019-11-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Proteome of the Dentate Terminal Zone of the Perforant Path Indicates Presynaptic Impairment in Alzheimer Disease.
Haytural H, Mermelekas G, Emre C, ..., Tjernberg LO, Frykman S
Mol. Cell Proteomics 19 (1) 128-141 [2020-01-00; online 2019-11-07]
Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Collaborative]
PubMed DOI Crossref
Regulation of α-synuclein by chaperones in mammalian cells.
Burmann BM, Gerez JA, Matečko-Burmann I, ..., Riek R, Hiller S
Nature 577 (7788) 127-132 [2020-01-00; online 2019-12-04]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Protein and DNA methylation-based scores as surrogate markers for interferon system activation in patients with primary Sjögren's syndrome.
Björk A, Richardsdotter Andersson E, Imgenberg-Kreuz J, ..., Nordmark G, Wahren-Herlenius M
RMD Open 6 (1) e000995 [2020-01-00; online 2020-01-21]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] Clinical Biomarkers [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] PLA and Single Cell Proteomics [Service]
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Probabilistic cell typing enables fine mapping of closely related cell types in situ.
Qian X, Harris KD, Hauling T, ..., Hjerling-Leffler J, Nilsson M
Nat. Methods 17 (1) 101-106 [2020-01-00; online 2019-11-18]
Bioinformatics Support for Computational Resources [Service] In Situ Sequencing (ISS) [Service]
PubMed DOI Crossref
NMR Spectroscopic Analysis to Evaluate the Quality of Insulin: Concentration, Variability, and Excipient Content.
Malmodin D, Pedersen A, Karlsson BG, Forsander G
J Diabetes Sci Technol 14 (1) 180-184 [2020-01-00; online 2019-02-19]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
NIST Interlaboratory Study on Glycosylation Analysis of Monoclonal Antibodies: Comparison of Results from Diverse Analytical Methods.
De Leoz MLA, Duewer DL, Fung A, ..., Yuan H, Stein SE
Mol. Cell Proteomics 19 (1) 11-30 [2020-01-00; online 2019-10-07]
Glycoproteomics and MS Proteomics [Collaborative]
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Molecular mechanisms of collateral sensitivity to the antibiotic nitrofurantoin.
Roemhild R, Linkevicius M, Andersson DI
PLoS Biol. 18 (1) e3000612 [2020-01-00; online 2020-01-27]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Metabolic response patterns in brain microdialysis fluids and serum during interstitial cisplatin treatment of high-grade glioma.
Björkblom B, Jonsson P, Tabatabaei P, ..., Bergenheim AT, Antti H
Br. J. Cancer 122 (2) 221-232 [2020-01-00; online 2019-12-10]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Identification of novel diagnostic and prognostic biomarkers for abdominal aortic aneurysm.
Memon AA, Zarrouk M, Ågren-Witteschus S, ..., Gottsäter A, Sundquist K
Eur J Prev Cardiol 27 (2) 132-142 [2020-01-00; online 2019-08-29]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
IDDomainSpotter: Compositional bias reveals domains in long disordered protein regions-Insights from transcription factors.
Millard PS, Bugge K, Marabini R, ..., Burow M, Kragelund BB
Protein Sci. 29 (1) 169-183 [2020-01-00; online 2019-11-11]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Genotypic variation in Norway spruce correlates to fungal communities in vegetative buds.
Elfstrand M, Zhou L, Baison J, ..., Stenlid J, García-Gil MR
Mol. Ecol. 29 (1) 199-213 [2020-01-00; online 2019-12-09]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Genome-wide signatures of environmental adaptation in European aspen (Populus tremula) under current and future climate conditions.
Ingvarsson PK, Bernhardsson C
Evol Appl 13 (1) 132-142 [2020-01-00; online 2019-04-02]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Do we really know who has an MGMT methylated glioma? Results of an international survey regarding use of MGMT analyses for glioma.
Malmström A, Łysiak M, Kristensen BW, ..., Henriksson R, Söderkvist P
Neurooncol Pract 7 (1) 68-76 [2020-01-00; online 2019-09-24]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Developmental exposure to a human relevant mixture of endocrine disruptors alters metabolism and adipogenesis in zebrafish (Danio rerio).
Mentor A, Brunström B, Mattsson A, Jönsson M
Chemosphere 238 (-) 124584 [2020-01-00; online 2019-08-13]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Circadian regulation of phosphodiesterase 6 genes in zebrafish differs between cones and rods: Implications for photopic and scotopic vision.
Abalo XM, Lagman D, Heras G, ..., Eggert J, Larhammar D
Vision Res. 166 (-) 43-51 [2020-01-00; online 2019-12-16]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Cell-of-origin determined by both gene expression profiling and immunohistochemistry is the strongest predictor of survival in patients with diffuse large B-cell lymphoma.
Abdulla M, Hollander P, Pandzic T, ..., Rosenquist R, Amini RM
Am. J. Hematol. 95 (1) 57-67 [2020-01-00; online 2019-11-07]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Association of genetic variants related to plasma fatty acids with type 2 diabetes mellitus and glycaemic traits: a Mendelian randomisation study.
Yuan S, Larsson SC
Diabetologia 63 (1) 116-123 [2020-01-00; online 2019-11-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Regeneration of water-deactivated Cu/SAPO-34(MO) with acids
Woo J, Bernin D, Ahari H, ..., Zammit M, Olsson L
Catal. Sci. Technol. 10 (5) 1539-1550 [2020-00-00; online 2020-00-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
In Situ Sequencing: A High-Throughput, Multi-Targeted Gene Expression Profiling Technique for Cell Typing in Tissue Sections
Hilscher MM, Gyllborg D, Yokota C, Nilsson M
Methods Mol. Biol. 2148 (-) 313-329 [2020-00-00; online 2020-05-12]
Bioinformatics Support for Computational Resources [Service] In Situ Sequencing (ISS) [Collaborative]
DOI Crossref
An integrative toolbox to unlock the structure and dynamics of protein–surfactant complexes
Sanchez-Fernandez A, Diehl C, Houston JE, ..., Sjögren H, Wahlgren M
Nanoscale Adv. 2 (9) 4011-4023 [2020-00-00; online 2020-00-00]
Swedish NMR Centre (SNC) [Service]
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A Chemical Screen Identifies a Link between Lipid Metabolism and mRNA Translation
Corman A, Kanellis DC, Häggblad M, ..., Carreras-Puigvert J, Fernandez-Capetillo O
SSRN Journal - (-) - [2020-00-00; online 2020-00-00]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Novel Viruses Found in Antricola Ticks Collected in Bat Caves in the Western Amazonia of Brazil.
Blomström AL, Luz HR, Öhlund P, ..., Labruna MB, Berg M
Viruses 12 (1) - [2019-12-31; online 2019-12-31]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A Comprehensive Sequencing-Based Analysis of Allelic Methylation Patterns in Hemostatic Genes in Human Liver
Olsson Lindvall M, Davila Lopez M, Klasson S, ..., Stanne TM, Jern C
Thromb. Haemost. 120 (02) 229-242 [2019-12-30; online 2019-12-30]
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Transcriptional study of appetite regulating genes in the brain of zebrafish (Danio rerio) with impaired leptin signalling.
Ahi EP, Brunel M, Tsakoumis E, Schmitz M
Sci Rep 9 (1) 20166 [2019-12-27; online 2019-12-27]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Structural and biochemical studies of the glucuronoyl esterase OtCE15A illuminate its interaction with lignocellulosic components.
Mazurkewich S, Poulsen JN, Lo Leggio L, Larsbrink J
J. Biol. Chem. 294 (52) 19978-19987 [2019-12-27; online 2019-11-18]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Identification of a C2-symmetric diol based human immunodeficiency virus protease inhibitor targeting Zika virus NS2B-NS3 protease.
Akaberi D, Chinthakindi PK, Båhlström A, ..., Lundkvist Å, Lennerstrand J
J. Biomol. Struct. Dyn. 38 (18) 1-11 [2019-12-27; online 2019-12-27]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Dynamic Chirality in the Mechanism of Action of Allosteric CD36 Modulators of Macrophage-Driven Inflammation.
Danelius E, Ohm RG, Mulumba M, ..., Erdelyi M, Lubell WD
J. Med. Chem. 62 (24) 11071-11079 [2019-12-26; online 2019-12-13]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Gene transfer across species boundaries in bryophytes: evidence from major life cycle stages in Homalothecium lutescens and H. sericeum.
Sawangproh W, Hedenäs L, Lang AS, Hansson B, Cronberg N
Ann. Bot. - (-) - [2019-12-24; online 2019-12-24]
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Inoculum Source Determines Acetate and Lactate Production during Anaerobic Digestion of Sewage Sludge and Food Waste.
Moestedt J, Westerholm M, Isaksson S, Schnürer A
Bioengineering 7 (1) 3 [2019-12-23; online 2019-12-23]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Consequences of past climate change and recent human persecution on mitogenomic diversity in the arctic fox.
Larsson P, von Seth J, Hagen IJ, ..., Stanton DWG, Dalén L
Philos. Trans. R. Soc. Lond., B, Biol. Sci. 374 (1788) 20190212 [2019-12-23; online 2019-11-04]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Gene Expression Alterations during Development of Castration-Resistant Prostate Cancer Are Detected in Circulating Tumor Cells.
Josefsson A, Larsson K, Freyhult E, Damber J, Welén K
Cancers (Basel) 12 (1) - [2019-12-21; online 2019-12-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Sequencing detects human papillomavirus in some apparently HPV-negative invasive cervical cancers.
Arroyo Mühr LS, Lagheden C, Eklund C, ..., Sundström K, Dillner J
J. Gen. Virol. - (-) - [2019-12-20; online 2019-12-20]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic Screening of Plasticity Regulating Nogo-Type Signaling Genes in Migraine.
Smedfors G, Liesecke F, Ran C, ..., Karlsson TE, Carmine Belin A
Brain Sci 10 (1) - [2019-12-20; online 2019-12-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A genome-wide transcriptomic analysis of protein-coding genes in human blood cells.
Uhlen M, Karlsson MJ, Zhong W, ..., Fagerberg L, Brodin P
Science 366 (6472) - [2019-12-20; online 2019-12-21]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Tissue-specific transposon-associated small RNAs in the gymnosperm tree, Norway spruce.
Nakamura M, Köhler C, Hennig L
BMC Genomics 20 (1) 997 [2019-12-19; online 2019-12-19]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Longitudinal DNA methylation changes at MET may alter HGF/c-MET signalling in adolescents at risk for depression.
Ciuculete DM, Voisin S, Kular L, ..., Mwinyi J, Schiöth HB
Epigenetics 15 (6-7) 646-663 [2019-12-19; online 2019-12-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Lipid Droplet-Associated Kinase STK25 Regulates Peroxisomal Activity and Metabolic Stress Response in Steatotic Liver.
Nerstedt A, Kurhe Y, Cansby E, ..., Hoy AJ, Mahlapuu M
J. Lipid Res. - (-) - [2019-12-19; online 2019-12-19]
Glycoproteomics and MS Proteomics [Service]
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Levels of caspase-3 and histidine-rich glycoprotein in the embryo secretome as biomarkers of good-quality day-2 embryos and high-quality blastocysts
Kaihola H, Yaldir FG, Bohlin T, ..., Hreinsson J, Åkerud H
PLoS ONE 14 (12) e0226419 [2019-12-19; online 2019-12-19]
Affinity Proteomics Uppsala [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Apolipoprotein B48 metabolism in chylomicrons and very low-density lipoproteins and its role in triglyceride transport in normo- and hypertriglyceridemic human subjects.
Björnson E, Packard CJ, Adiels M, ..., Taskinen MR, Borén J
J. Intern. Med. - (-) - [2019-12-17; online 2019-12-17]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
A transposable element insertion is associated with an alternative life history strategy.
Woronik A, Tunström K, Perry MW, ..., Käkelä R, Wheat CW
Nat Commun 10 (1) 5757 [2019-12-17; online 2019-12-17]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Protein profiling and network enrichment analysis in individuals before and after the onset of rheumatoid arthritis.
Brink M, Lundquist A, Alexeyenko A, Lejon K, Rantapää-Dahlqvist S
Arthritis Res. Ther. 21 (1) 288 [2019-12-16; online 2019-12-16]
Affinity Proteomics Stockholm [Service] Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Autoregulation of RCO by Low-Affinity Binding Modulates Cytokinin Action and Shapes Leaf Diversity.
Hajheidari M, Wang Y, Bhatia N, ..., Gan X, Tsiantis M
Curr. Biol. 29 (24) 4183-4192.e6 [2019-12-16; online 2019-11-21]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
NGS targeted screening of 100 Scandinavian patients with coronal synostosis.
Topa A, Rohlin A, Andersson MK, ..., Stenman G, Kölby L
Am. J. Med. Genet. A - (-) - [2019-12-14; online 2019-12-14]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
BEN-solo factors partition active chromatin to ensure proper gene activation in Drosophila.
Ueberschär M, Wang H, Zhang C, ..., Wen J, Dai Q
Nat Commun 10 (1) 5700 [2019-12-13; online 2019-12-13]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A Spatiotemporal Organ-Wide Gene Expression and Cell Atlas of the Developing Human Heart.
Asp M, Giacomello S, Larsson L, ..., Sylvén C, Lundeberg J
Cell 179 (7) 1647-1660.e19 [2019-12-12; online 2019-12-14]
Advanced FISH Technologies Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Eukaryotic Single Cell Genomics (ESCG) [Service] In Situ Sequencing (ISS) [Technology development] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Morphological analysis of Apolipoprotein E binding to Aβ Amyloid using a combination of Surface Plasmon Resonance, Immunogold Labeling and Scanning Electron Microscopy.
Islam T, Gharibyan AL, Lee CC, Olofsson A
BMC Biotechnol. 19 (1) 97 [2019-12-11; online 2019-12-11]
Cryo-EM [Technology development] Integrated Microscopy Technologies Umeå [Collaborative]
PubMed DOI Crossref
HISTONE DEACETYLASE 9 stimulates auxin-dependent thermomorphogenesis in Arabidopsis thaliana by mediating H2A.Z depletion.
van der Woude LC, Perrella G, Snoek BL, ..., Kaiserli E, van Zanten M
Proc. Natl. Acad. Sci. U.S.A. 116 (50) 25343-25354 [2019-12-10; online 2019-11-25]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
The Hidden Story of Heterogeneous B-raf V600E Mutation Quantitative Protein Expression in Metastatic Melanoma-Association with Clinical Outcome and Tumor Phenotypes.
Betancourt LH, Szasz AM, Kuras M, ..., Sanchez A, Marko-Varga G
Cancers (Basel) 11 (12) - [2019-12-09; online 2019-12-09]
Structural Proteomics [Service]
PubMed DOI Crossref
Comprehensive longitudinal study of epigenetic mutations in aging.
Wang Y, Karlsson R, Jylhävä J, ..., Almgren M, Hägg S
Clin Epigenetics 11 (1) 187 [2019-12-09; online 2019-12-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Gene-Environment Interaction Between Smoking and Gene polymorphisms Provides a High Risk of Two Subgroups of Sarcoidosis.
Rivera NV, Patasova K, Kullberg S, ..., Grunewald J, Padyukov L
Sci Rep 9 (1) 18633 [2019-12-09; online 2019-12-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mining the Proteome Associated with Rheumatic and Autoimmune Diseases.
Ruiz-Romero C, Lam MPY, Nilsson P, ..., Watt FE, Blanco FJ
J. Proteome Res. 18 (12) 4231-4239 [2019-12-06; online 2019-10-23]
Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
Mass Spectrometry-Based Plasma Proteomics: Considerations from Sample Collection to Achieving Translational Data.
Ignjatovic V, Geyer PE, Palaniappan KK, ..., Deutsch EW, Schwenk JM
J. Proteome Res. 18 (12) 4085-4097 [2019-12-06; online 2019-10-11]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Epigenome-wide meta-analysis of blood DNA methylation and its association with subcortical volumes: findings from the ENIGMA Epigenetics Working Group.
Jia T, Chu C, Liu Y, ..., Schumann G, Desrivières S
Mol. Psychiatry - (-) - [2019-12-06; online 2019-12-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Depression, GABA, and Age Correlate with Plasma Levels of Inflammatory Markers.
Bhandage AK, Cunningham JL, Jin Z, ..., Ekselius L, Birnir B
Int J Mol Sci 20 (24) 6172 [2019-12-06; online 2019-12-06]
Affinity Proteomics Uppsala [Service] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
Cell Type-Specific Expression of Testis Elevated Genes Based on Transcriptomics and Antibody-Based Proteomics.
Pineau C, Hikmet F, Zhang C, ..., Uhlén M, Lindskog C
J. Proteome Res. 18 (12) 4215-4230 [2019-12-06; online 2019-08-29]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Humanized Stem Cell Models of Pediatric Medulloblastoma Reveal an Oct4/mTOR Axis that Promotes Malignancy.
Čančer M, Hutter S, Holmberg KO, ..., Weishaupt H, Swartling FJ
Cell Stem Cell 25 (6) 855-870.e11 [2019-12-05; online 2019-11-27]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
GLUL Ablation Can Confer Drug Resistance to Cancer Cells via a Malate-Aspartate Shuttle-Mediated Mechanism.
Muthu M, Kumar R, Syed Khaja AS, ..., Persson JL, Nordström A
Cancers (Basel) 11 (12) 1945 [2019-12-05; online 2019-12-05]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Dinucleotide Degradation by REXO2 Maintains Promoter Specificity in Mammalian Mitochondria.
Nicholls TJ, Spåhr H, Jiang S, ..., Larsson NG, Gustafsson CM
Mol. Cell 76 (5) 784-796.e6 [2019-12-05; online 2019-10-03]
Bioinformatics Support for Computational Resources [Service] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Specialized sledge dogs accompanied Inuit dispersal across the North American Arctic.
Ameen C, Feuerborn TR, Brown SK, ..., Darwent CM, Evin A
Proc. Biol. Sci. 286 (1916) 20191929 [2019-12-04; online 2019-11-27]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Replicating associations between DNA methylation and body mass index in a longitudinal sample of older twins.
Karlsson IK, Ericsson M, Wang Y, ..., Reynolds CA, Dahl Aslan AK
Int J Obes (Lond) - (-) - [2019-12-04; online 2019-12-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The MADS-box transcription factor PHERES1 controls imprinting in the endosperm by binding to domesticated transposons.
Batista RA, Moreno-Romero J, Qiu Y, ..., Figueiredo DD, Köhler C
Elife 8 (-) - [2019-12-02; online 2019-12-02]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Population history and genetic adaptation of the Fulani nomads: inferences from genome-wide data and the lactase persistence trait.
Vicente M, Priehodová E, Diallo I, ..., Černý V, Schlebusch CM
BMC Genomics 20 (1) 915 [2019-12-02; online 2019-12-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Impact of Q-Griffithsin anti-HIV microbicide gel in non-human primates: In situ analyses of epithelial and immune cell markers in rectal mucosa.
Günaydın G, Edfeldt G, Garber DA, ..., Tjernlund A, Broliden K
Sci Rep 9 (1) 18120 [2019-12-02; online 2019-12-02]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service]
PubMed DOI Crossref
High throughput barcoding method for genome-scale phasing.
Redin D, Frick T, Aghelpasand H, ..., Olsen RA, Ahmadian A
Sci Rep 9 (1) 18116 [2019-12-02; online 2019-12-02]
NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
DNA methylation profiles in chronic lymphocytic leukemia patients treated with chemoimmunotherapy.
Tsagiopoulou M, Papakonstantinou N, Moysiadis T, ..., Rosenquist R, Stamatopoulos K
Clin Epigenetics 11 (1) 177 [2019-12-02; online 2019-12-02]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mitochondrial protein enriched extracellular vesicles discovered in human melanoma tissues can be detected in patient plasma
Jang SC, Crescitelli R, Cvjetkovic A, ..., Kalluri R, Lötvall J
J Extracell Vesicles 8 (1) 1635420 [2019-12-01; online 2019-08-27]
Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Endosomal signalling via exosome surface TGFβ-1
Shelke GV, Yin Y, Jang SC, ..., Nilsson JA, Lötvall J
J Extracell Vesicles 8 (1) 1650458 [2019-12-01; online 2019-09-20]
Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service] Integrated Microscopy Technologies Stockholm
PubMed DOI Crossref
Arteria: An automation system for a sequencing core facility.
Dahlberg J, Hermansson J, Sturlaugsson S, ..., Hofmann O, Larsson P
Gigascience 8 (12) - [2019-12-01; online 2019-12-12]
Clinical Genomics [Technology development] Clinical Genomics Uppsala [Technology development] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
iFISH is a publically available resource enabling versatile DNA FISH to study genome architecture
Gelali E, Girelli G, Matsumoto M, ..., Crosetto N, Bienko M
Nat Commun 10 (1) - [2019-12-00; online 2019-04-09]
Advanced FISH Technologies [Technology development] Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Zebrafish embryo as a replacement model for initial biocompatibility studies of biomaterials and drug delivery systems.
Rothenbücher TSP, Ledin J, Gibbs D, ..., Persson C, Hulsart-Billström G
Acta Biomater 100 (-) 235-243 [2019-12-00; online 2019-10-01]
Genome Engineering Zebrafish
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Whole genome DNA sequencing provides an atlas of somatic mutagenesis in healthy human cells and identifies a tumor-prone cell type
Franco I, Helgadottir HT, Moggio A, ..., Supek F, Eriksson M
Genome Biol. 20 (1) - [2019-12-00; online 2019-12-18]
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Voluntary exercise normalizes the proteomic landscape in muscle and brain and improves the phenotype of progeroid mice.
Ross JM, Coppotelli G, Branca RM, ..., Sinclair DA, Olson L
Aging Cell 18 (6) e13029 [2019-12-00; online 2019-09-06]
Global Proteomics and Proteogenomics [Collaborative]
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Undifferentiated pleomorphic sarcomas with PRDM10 fusions have a distinct gene expression profile.
Hofvander J, Puls F, Pillay N, ..., Nilsson J, Mertens F
J. Pathol. 249 (4) 425-434 [2019-12-00; online 2019-08-27]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Transmission dynamics study of tuberculosis isolates with whole genome sequencing in southern Sweden
Alaridah N, Hallbäck ET, Tångrot J, ..., Kaijser B, Godaly G
Sci Rep 9 (1) - [2019-12-00; online 2019-03-20]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Transcriptomes of Dravet syndrome iPSC derived GABAergic cells reveal dysregulated pathways for chromatin remodeling and neurodevelopment.
Schuster J, Laan L, Klar J, ..., Birnir B, Dahl N
Neurobiol. Dis. 132 (-) 104583 [2019-12-00; online 2019-08-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Towards a standardized bioinformatics infrastructure for N- and O-glycomics
Rojas-Macias MA, Mariethoz J, Andersson P, ..., Lisacek F, Karlsson NG
Nat Commun 10 (1) - [2019-12-00; online 2019-07-22]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support and Infrastructure [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Glycoproteomics and MS Proteomics [Technology development]
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The potential of magnetisation transfer NMR to monitor the dissolution process of cellulose in cold alkali
Gunnarsson M, Hasani M, Bernin D
Cellulose 26 (18) 9403-9412 [2019-12-00; online 2019-09-12]
Swedish NMR Centre (SNC) [Collaborative]
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The genomic footprint of sexual conflict.
Sayadi A, Martinez Barrio A, Immonen E, ..., Nystedt B, Arnqvist G
Nat Ecol Evol 3 (12) 1725-1730 [2019-12-00; online 2019-11-18]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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The bio.tools registry of software tools and data resources for the life sciences
Ison J, Ienasescu H, Chmura P, ..., Løngreen P, Brunak S
Genome Biol. 20 (1) 164 [2019-12-00; online 2019-08-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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The MTH1 inhibitor TH588 is a microtubule-modulating agent that eliminates cancer cells by activating the mitotic surveillance pathway
Gul N, Karlsson J, Tängemo C, ..., Bergö MO, Lindahl P
Sci Rep 9 (1) 14667 [2019-12-00; online 2019-10-11]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Targeted Multiple Reaction Monitoring Analysis of CSF Identifies UCHL1 and GPNMB as Candidate Biomarkers for ALS.
Zhu S, Wuolikainen A, Wu J, ..., Forsgren L, Trupp M
J. Mol. Neurosci. 69 (4) 643-657 [2019-12-00; online 2019-11-12]
Swedish Metabolomics Centre (SMC) [Service]
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Studies of liver tissue identify functional gene regulatory elements associated to gene expression, type 2 diabetes, and other metabolic diseases
Cavalli M, Baltzer N, Pan G, ..., Komorowski J, Wadelius C
Hum Genomics 13 (1) 20 [2019-12-00; online 2019-04-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Structural weakening of the colonic mucus barrier is an early event in ulcerative colitis pathogenesis.
van der Post S, Jabbar KS, Birchenough G, ..., Johansson MEV, Hansson GC
Gut 68 (12) 2142-2151 [2019-12-00; online 2019-03-26]
Integrated Microscopy Technologies Gothenburg [Service]
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Single-cell study of neural stem cells derived from human iPSCs reveals distinct progenitor populations with neurogenic and gliogenic potential.
Lam M, Sanosaka T, Lundin A, ..., Okano H, Falk A
Genes Cells 24 (12) 836-847 [2019-12-00; online 2019-11-17]
Eukaryotic Single Cell Genomics (ESCG) [Service]
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Sewage effluent from an Indian hospital harbors novel carbapenemases and integron-borne antibiotic resistance genes
Marathe NP, Berglund F, Razavi M, ..., Kristiansson E, Larsson DGJ
Microbiome 7 (1) - [2019-12-00; online 2019-06-27]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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ProTargetMiner as a proteome signature library of anticancer molecules for functional discovery
Saei AA, Beusch CM, Chernobrovkin A, ..., Végvári Á, Zubarev RA
Nat Commun 10 (1) 5715 [2019-12-00; online 2019-12-16]
Chemical Proteomics [Technology development]
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Physiology, Metabolism, and Fossilization of Hot-Spring Filamentous Microbial Mats.
Dong Y, Sanford RA, Inskeep WP, ..., Fried GA, Fouke BW
Astrobiology 19 (12) 1442-1458 [2019-12-00; online 2019-04-30]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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PECTIN ACETYLESTERASE9 Affects the Transcriptome and Metabolome and Delays Aphid Feeding.
Kloth KJ, Abreu IN, Delhomme N, ..., Moritz T, Albrectsen BR
Plant Physiol. 181 (4) 1704-1720 [2019-12-00; online 2019-09-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre (SMC) [Service]
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Modelling of zero-inflation improves inference of metagenomic gene count data.
Jonsson V, Österlund T, Nerman O, Kristiansson E
Stat Methods Med Res 28 (12) 3712-3728 [2019-12-00; online 2018-11-25]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Systems Biology [Technology development]
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Metabolic phenotype of breast-fed infants, and infants fed standard formula or bovine MFGM supplemented formula: a randomized controlled trial
He X, Parenti M, Grip T, ..., Timby N, Slupsky CM
Sci Rep 9 (1) 339 [2019-12-00; online 2019-01-23]
Swedish Metabolomics Centre (SMC) [Service]
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Meckel syndrome: Clinical and mutation profile in six fetuses.
Radhakrishnan P, Nayak SS, Shukla A, Lindstrand A, Girisha KM
Clin. Genet. 96 (6) 560-565 [2019-12-00; online 2019-08-21]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Intra- and inter-individual metabolic profiling highlights carnitine and lysophosphatidylcholine pathways as key molecular defects in type 2 diabetes
Diamanti K, Cavalli M, Pan G, ..., Komorowski J, Wadelius C
Sci Rep 9 (1) 9653 [2019-12-00; online 2019-07-04]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
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Insight into the biology of Mycobacterium mucogenicum and Mycobacterium neoaurum clade members
Behra PRK, Pettersson BMF, Ramesh M, Dasgupta S, Kirsebom LA
Sci Rep 9 (1) 19259 [2019-12-00; online 2019-12-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Gunnarsson M, Hasani M, Bernin D
Cellulose 26 (18) 9413-9422 [2019-12-00; online 2019-09-14]
Swedish NMR Centre (SNC) [Collaborative]
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Improved power and precision with whole genome sequencing data in genome-wide association studies of inflammatory biomarkers
Höglund J, Rafati N, Rask-Andersen M, ..., Ek WE, Johansson Å
Sci Rep 9 (1) - [2019-12-00; online 2019-11-14]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Heterologous phosphoketolase expression redirects flux towards acetate, perturbs sugar phosphate pools and increases respiratory demand in Saccharomyces cerevisiae
Bergman A, Hellgren J, Moritz T, ..., Nielsen J, Chen Y
Microb. Cell Fact. 18 (1) 25 [2019-12-00; online 2019-02-01]
Swedish Metabolomics Centre (SMC) [Service]
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Growth performance and nutrient removal of a Chlorella vulgaris-Rhizobium sp. co-culture during mixotrophic feed-batch cultivation in synthetic wastewater
Ferro L, Gojkovic Z, Muñoz R, Funk C
Algal Research 44 (-) 101690 [2019-12-00; online 2019-12-00]
Integrated Microscopy Technologies Umeå [Service]
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Genomic architecture of parallel ecological divergence: Beyond a single environmental contrast.
Morales HE, Faria R, Johannesson K, ..., Westram AM, Butlin RK
Sci Adv 5 (12) eaav9963 [2019-12-00; online 2019-12-04]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genome expansion of an obligate parthenogenesis-associated Wolbachia poses an exception to the symbiont reduction model
Kampfraath AA, Klasson L, Anvar SY, ..., Kraaijeveld K, Ellers J
BMC Genomics 20 (1) 106 [2019-12-00; online 2019-02-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Genetic Prediction of Serum 25-Hydroxyvitamin D, Calcium, and Parathyroid Hormone Levels in Relation to Development of Type 2 Diabetes: A Mendelian Randomization Study.
Yuan S, Jiang X, Michaëlsson K, Larsson SC
Diabetes Care 42 (12) 2197-2203 [2019-12-00; online 2019-09-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Epigenetic signatures associated with imprinted paternally expressed genes in the Arabidopsis endosperm
Moreno-Romero J, Del Toro-De León G, Yadav VK, Santos-González J, Köhler C
Genome Biol. 20 (1) - [2019-12-00; online 2019-02-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Coro2b, a podocyte protein downregulated in human diabetic nephropathy, is involved in the development of protamine sulphate-induced foot process effacement
Schwarz A, Möller-Hackbarth K, Ebarasi L, ..., Lal M, Patrakka J
Sci Rep 9 (1) 8888 [2019-12-00; online 2019-06-20]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Conbase: a software for unsupervised discovery of clonal somatic mutations in single cells through read phasing
Hård J, Al Hakim E, Kindblom M, ..., Mold JE, Frisén J
Genome Biol. 20 (1) - [2019-12-00; online 2019-04-01]
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Chromatin-sensitive cryptic promoters putatively drive expression of alternative protein isoforms in yeast.
Wei W, Hennig BP, Wang J, ..., Steinmetz LM, Pelechano V
Genome Res. 29 (12) 1974-1984 [2019-12-00; online 2019-11-18]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Angioimmunoblastic T-cell lymphoma and myelodysplastic syndrome with mutations in TET2, DNMT3 and CUX1 - azacitidine induces only lymphoma remission.
Tobiasson M, Pandzic T, Cavelier L, Sander B, Wahlin BE
Leuk. Lymphoma 60 (13) 3316-3319 [2019-12-00; online 2019-06-17]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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An AP2/ERF transcription factor ERF139 coordinates xylem cell expansion and secondary cell wall deposition.
Wessels B, Seyfferth C, Escamez S, ..., Felten J, Tuominen H
New Phytol. 224 (4) 1585-1599 [2019-12-00; online 2019-07-02]
Integrated Microscopy Technologies Umeå [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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ATAC-seq reveals alterations in open chromatin in pancreatic islets from subjects with type 2 diabetes
Bysani M, Agren R, Davegårdh C, ..., Bacos K, Ling C
Sci Rep 9 (1) - [2019-12-00; online 2019-05-23]
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A cell fitness selection model for neuronal survival during development
Wang Y, Wu H, Fontanet P, ..., Hadjab S, Lallemend F
Nat Commun 10 (1) - [2019-12-00; online 2019-09-12]
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A Spatiomolecular Map of the Striatum
Märtin A, Calvigioni D, Tzortzi O, ..., Wärnberg E, Meletis K
Cell Rep 29 (13) 4320-4333.e5 [2019-12-00; online 2019-12-00]
Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A Mitochondrial LYR Protein Is Required for Complex I Assembly.
Ivanova A, Gill-Hille M, Huang S, ..., Whelan J, Murcha MW
Plant Physiol. 181 (4) 1632-1650 [2019-12-00; online 2019-10-10]
Global Proteomics and Proteogenomics [Collaborative]
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Programmed DNA elimination of germline development genes in songbirds.
Kinsella CM, Ruiz-Ruano FJ, Dion-Côté AM, ..., Forstmeier W, Suh A
Nat Commun 10 (1) 5468 [2019-11-29; online 2019-11-29]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mucosal Metabolomic Profiling and Pathway Analysis Reveal the Metabolic Signature of Ulcerative Colitis.
Diab J, Hansen T, Goll R, ..., Florholmen J, Forsdahl G
Metabolites 9 (12) S035-S035 [2019-11-27; online 2019-11-27]
Swedish Metabolomics Centre (SMC) [Collaborative]
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The human secretome
Uhlén M, Karlsson MJ, Hober A, ..., Fagerberg L, Sivertsson Å
Sci. Signal. 12 (609) eaaz0274 [2019-11-26; online 2019-11-26]
Affinity Proteomics Stockholm [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Spatial Proteomics [Collaborative]
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The Mastery Rubric for Bioinformatics: A tool to support design and evaluation of career-spanning education and training.
Tractenberg RE, Lindvall JM, Attwood TK, Via A
PLoS ONE 14 (11) e0225256 [2019-11-26; online 2019-11-26]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support and Infrastructure [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
PubMed DOI Crossref
TcellSubC: An Atlas of the Subcellular Proteome of Human T Cells.
Joshi RN, Stadler C, Lehmann R, ..., Schmidt A, Vesterlund M
Front Immunol 10 (-) 2708 [2019-11-26; online 2019-11-26]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] Global Proteomics and Proteogenomics [Technology development] Spatial Proteomics [Collaborative]
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Optimizing cultivation of Cordyceps militaris for fast growth and cordycepin overproduction using rational design of synthetic media.
Raethong N, Wang H, Nielsen J, Vongsangnak W
Computational and Structural Biotechnology Journal 18 (-) 1-8 [2019-11-26; online 2019-11-26]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
PubMed DOI Crossref
Uncovering microbial inter-domain interactions in complex communities.
Florenza J, Tamminen M, Bertilsson S
Philos. Trans. R. Soc. Lond., B, Biol. Sci. 374 (1786) 20190087 [2019-11-25; online 2019-10-07]
Microbial Single Cell Genomics [Technology development]
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MYCN-enhanced Oxidative and Glycolytic Metabolism Reveals Vulnerabilities for Targeting Neuroblastoma.
Oliynyk G, Ruiz-Pérez MV, Sainero-Alcolado L, ..., Lehtiö J, Arsenian-Henriksson M
iScience 21 (-) 188-204 [2019-11-22; online 2019-10-11]
Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Collaborative]
PubMed DOI Crossref
The Swedish Twin Registry: Content and Management as a Research Infrastructure.
Zagai U, Lichtenstein P, Pedersen NL, Magnusson PKE
Twin Res Hum Genet - (-) 1-9 [2019-11-21; online 2019-11-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Evidence that genes involved in hedgehog signaling are associated with both bipolar disorder and high BMI.
Pisanu C, Williams MJ, Ciuculete DM, ..., Squassina A, Schiöth HB
Transl Psychiatry 9 (1) 315 [2019-11-21; online 2019-11-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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BET and Aurora Kinase A inhibitors synergize against MYCN-positive human glioblastoma cells.
Čančer M, Drews LF, Bengtsson J, ..., Weishaupt H, Swartling FJ
Cell Death Dis 10 (12) 881 [2019-11-21; online 2019-11-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Interaction between Copper Chaperone Atox1 and Parkinson's Disease Protein α-Synuclein Includes Metal-Binding Sites and Occurs in Living Cells.
Horvath I, Blockhuys S, Šulskis D, ..., Burmann BM, Wittung-Stafshede P
ACS Chem Neurosci 10 (11) 4659-4668 [2019-11-20; online 2019-10-24]
Swedish NMR Centre (SNC) [Service]
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Identification of Novel Putative Bacterial Feruloyl Esterases From Anaerobic Ecosystems by Use of Whole-Genome Shotgun Metagenomics and Genome Binning.
Mogodiniyai Kasmaei K, Sundh J
Front Microbiol 10 (-) 2673 [2019-11-20; online 2019-11-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Fast and Efficient Fc-Specific Photoaffinity Labeling To Produce Antibody-DNA Conjugates.
Stiller C, Aghelpasand H, Frick T, ..., Ahmadian A, Karlström AE
Bioconjug. Chem. 30 (11) 2790-2798 [2019-11-20; online 2019-10-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structural Changes of Mercaptohexanol Self-Assembled Monolayers on Gold and Their Influence on Impedimetric Aptamer Sensors.
Xu X, Makaraviciute A, Kumar S, ..., Nyholm L, Zhang Z
Anal. Chem. 91 (22) 14697-14704 [2019-11-19; online 2019-11-07]
Drug Discovery and Development (DDD) [Technology development]
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Inferring the Genomic Landscape of Recombination Rate Variation in European Aspen ( Populus tremula).
Apuli RP, Bernhardsson C, Schiffthaler B, ..., Street NR, Ingvarsson PK
G3 (Bethesda) - (-) - [2019-11-19; online 2019-11-19]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Human induced pluripotent stem cells from two azoospermic patients with Klinefelter syndrome show similar X chromosome inactivation behavior to female pluripotent stem cells.
Panula S, Kurek M, Kumar P, ..., Lanner F, Stukenborg JB
Hum. Reprod. - (-) - [2019-11-19; online 2019-11-19]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genotype-dependent epigenetic regulation of DLGAP2 in alcohol use and dependence.
Meng W, Sjöholm LK, Kononenko O, ..., Rüegg J, Liu Y
Mol. Psychiatry - (-) - [2019-11-19; online 2019-11-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Boldness in Male and Female Zebrafish ( Danio rerio) Is Dependent on Strain and Test.
Mustafa A, Roman E, Winberg S
Front. Behav. Neurosci. 13 (-) 248 [2019-11-19; online 2019-11-19]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
The associations of self-rated health with cardiovascular risk proteins: a proteomics approach.
Bao X, Borné Y, Yin S, ..., Melander O, Engström G
Clin Proteomics 16 (1) 40 [2019-11-18; online 2019-11-18]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Synthesis of Indomorphan Pseudo-Natural Product Inhibitors of Glucose Transporters GLUT-1 and -3.
Ceballos J, Schwalfenberg M, Karageorgis G, ..., Ziegler S, Waldmann H
Angew. Chem. Int. Ed. Engl. 58 (47) 17016-17025 [2019-11-18; online 2019-10-07]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Structure of a mitochondrial ATP synthase with bound native cardiolipin.
Mühleip A, McComas SE, Amunts A
Elife 8 (-) - [2019-11-18; online 2019-11-18]
Cryo-EM [Service] Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
A Chemical Biology Approach to Understanding Molecular Recognition of Lipid II by Nisin(1-12): Synthesis and NMR Ensemble Analysis of Nisin(1-12) and Analogues.
Dickman R, Danelius E, Mitchell SA, ..., Erdélyi M, Tabor AB
Chemistry 25 (64) 14572-14582 [2019-11-18; online 2019-10-10]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Lithium treatment reverses irradiation-induced changes in rodent neural progenitors and rescues cognition.
Zanni G, Goto S, Fragopoulou AF, ..., Hermanson O, Blomgren K
Mol. Psychiatry - (-) - [2019-11-14; online 2019-11-14]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Effects of the Antimicrobial Peptide LL-37 and Innate Effector Mechanisms in Colistin-Resistant Klebsiella pneumoniae With mgrB Insertions.
Al-Farsi HM, Al-Adwani S, Ahmed S, ..., Giske CG, Bergman P
Front Microbiol 10 (-) 2632 [2019-11-14; online 2019-11-14]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Daytime melatonin levels in saliva are associated with inflammatory markers and anxiety disorders.
Sundberg I, Rasmusson AJ, Ramklint M, ..., Ekselius L, Cunningham JL
Psychoneuroendocrinology 112 (-) 104514 [2019-11-14; online 2019-11-14]
Affinity Proteomics Uppsala [Service] Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
The ALK-1/SMAD/ATOH8 axis attenuates hypoxic responses and protects against the development of pulmonary arterial hypertension.
Morikawa M, Mitani Y, Holmborn K, ..., Heldin CH, Miyazono K
Sci Signal 12 (607) eaay4430 [2019-11-12; online 2019-11-12]
Genome Engineering Zebrafish [Collaborative]
PubMed DOI Crossref
A MYC2/MYC3/MYC4-dependent transcription factor network regulates water spray-responsive gene expression and jasmonate levels.
Van Moerkercke A, Duncan O, Zander M, ..., Millar AH, Van Aken O
Proc. Natl. Acad. Sci. U.S.A. 116 (46) 23345-23356 [2019-11-12; online 2019-10-29]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
On-demand virtual research environments using microservices.
Capuccini M, Larsson A, Carone M, ..., Toor S, Spjuth O
PeerJ Comput Sci 5 (-) e232 [2019-11-11; online 2019-11-11]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Long-read metabarcoding of the eukaryotic rDNA operon to phylogenetically and taxonomically resolve environmental diversity
Jamy M, Foster R, Barbera P, ..., Bass D, Burki F
Mol Ecol Resour - (-) - [2019-11-09; online 2019-11-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Carnivores, competition and genetic connectivity in the Anthropocene.
Creel S, Spong G, Becker M, ..., Schiffthaler B, Chifunte C
Sci Rep 9 (1) 16339 [2019-11-08; online 2019-11-08]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Calcium-activated chloride channel regulator 1 (CLCA1) forms non-covalent oligomers in colonic mucus and has mucin 2-processing properties.
Nyström EEL, Arike L, Ehrencrona E, Hansson GC, Johansson MEV
J. Biol. Chem. 294 (45) 17075-17089 [2019-11-08; online 2019-09-29]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Two-step derivatization for determination of sugar phosphates in plants by combined reversed phase chromatography/tandem mass spectrometry.
Rende U, Niittylä T, Moritz T
Plant Methods 15 (1) 127 [2019-11-07; online 2019-11-07]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
From cytogenetics to cytogenomics: whole-genome sequencing as a first-line test comprehensively captures the diverse spectrum of disease-causing genetic variation underlying intellectual disability.
Lindstrand A, Eisfeldt J, Pettersson M, ..., Lundin J, Nilsson D
Genome Med 11 (1) 68 [2019-11-07; online 2019-11-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics [Technology development] Clinical Genomics Stockholm [Technology development] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Distinct Coastal Microbiome Populations Associated With Autochthonous- and Allochthonous-Like Dissolved Organic Matter.
Broman E, Asmala E, Carstensen J, Pinhassi J, Dopson M
Front Microbiol 10 (-) 2579 [2019-11-07; online 2019-11-07]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Comparative distribution of extended-spectrum beta-lactamase-producing Escherichia coli from urine infections and environmental waters.
Fagerström A, Mölling P, Khan FA, ..., Jass J, Söderquist B
PLoS ONE 14 (11) e0224861 [2019-11-07; online 2019-11-07]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
A Cell-Free Approach Based on Phospholipid Characterization for Determination of the Cell Specific Unbound Drug Fraction (f u,cell).
Treyer A, Walday S, Boriss H, Matsson P, Artursson P
Pharm. Res. 36 (12) 178 [2019-11-07; online 2019-11-07]
Drug Discovery and Development (DDD) [Technology development]
PubMed DOI Crossref
Linkage and exome analysis implicate multiple genes in non-syndromic intellectual disability in a large Swedish family.
Lindholm Carlström E, Halvardson J, Etemadikhah M, ..., Gustavson KH, Feuk L
BMC Med Genomics 12 (1) 156 [2019-11-06; online 2019-11-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Viromics Reveal a Number of Novel RNA Viruses in Swedish Mosquitoes.
Öhlund P, Hayer J, Lundén H, Hesson JC, Blomström AL
Viruses 11 (11) - [2019-11-05; online 2019-11-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Myc-dependent endothelial proliferation is controlled by phosphotyrosine 1212 in VEGF receptor-2.
Testini C, Smith RO, Jin Y, ..., Hellström M, Claesson-Welsh L
EMBO Rep. 20 (11) e47845 [2019-11-05; online 2019-09-23]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
The Nlrp6 inflammasome is not required for baseline colonic inner mucus layer formation or function.
Volk JK, Nyström EEL, van der Post S, ..., Hansson GC, Birchenough GMH
J. Exp. Med. 216 (11) 2602-2618 [2019-11-04; online 2019-08-16]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Genetic regulation of gene expression and splicing during a 10-year period of human aging.
Balliu B, Durrant M, Goede O, ..., Ingelsson E, Montgomery SB
Genome Biol. 20 (1) 230 [2019-11-04; online 2019-11-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Amyloid fibrils prepared using an acetylated and methyl amidated peptide model of the α-Synuclein NAC 71-82 amino acid stretch contain an additional cross-β structure also found in prion proteins.
Näsström T, Andersson PO, Lejon C, Karlsson BCG
Sci Rep 9 (1) 15949 [2019-11-04; online 2019-11-04]
Cryo-EM [Service]
PubMed DOI Crossref
A bacterial assay for rapid screening of IAA catabolic enzymes.
Brunoni F, Collani S, Šimura J, ..., Bellini C, Ljung K
Plant Methods 15 (1) 126 [2019-11-04; online 2019-11-04]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Sulfide level in municipal sludge digesters affects microbial community response to long-chain fatty acid loads.
Shakeri Yekta S, Liu T, Axelsson Bjerg M, ..., Björn A, Schnürer A
Biotechnol Biofuels 12 (1) 259 [2019-11-02; online 2019-11-02]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Yeast Volatomes Differentially Affect Larval Feeding in an Insect Herbivore.
Ljunggren J, Borrero-Echeverry F, Chakraborty A, ..., Witzgall P, Bengtsson M
Appl. Environ. Microbiol. 85 (21) - [2019-11-01; online 2019-10-16]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Serum Parathyroid Hormone and Risk of Coronary Artery Disease: Exploring Causality Using Mendelian Randomization.
Melhus H, Michaëlsson K, Larsson SC
J. Clin. Endocrinol. Metab. 104 (11) 5595-5600 [2019-11-01; online 2019-07-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Proteome Integral Solubility Alteration: A High-Throughput Proteomics Assay for Target Deconvolution.
Gaetani M, Sabatier P, Saei AA, ..., Lundström SL, Zubarev RA
J. Proteome Res. 18 (11) 4027-4037 [2019-11-01; online 2019-10-14]
Chemical Proteomics [Technology development]
PubMed DOI Crossref
Methyl sulfonamide substituents improve the pharmacokinetic properties of bicyclic 2-pyridone based Chlamydia trachomatis inhibitors.
Kulén M, Núñez-Otero C, Cairns AG, ..., Gylfe Å, Almqvist F
Med. Chem. Commun. 10 (11) 1966-1987 [2019-11-01; online 2019-10-17]
Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
A genomic inference of the White Plymouth Rock genealogy.
Guo Y, Lillie M, Zan Y, ..., Siegel PB, Carlborg Ö
Poult. Sci. 98 (11) 5272-5280 [2019-11-01; online 2019-07-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Tuning drug release from polyoxazoline-drug conjugates
Harris JM, Bentley MD, Moreadith RW, ..., Dizman B, Nordstierna L
European Polymer Journal 120 (-) 109241 [2019-11-00; online 2019-11-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Structural characterization and biological function of bivalent binding of CD2AP to intrinsically disordered domain of chikungunya virus nsP3 protein
Agback P, Dominguez F, Pustovalova Y, ..., Agback T, Frolova EI
Virology 537 (-) 130-142 [2019-11-00; online 2019-11-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Single-Cell Transcriptomics Uncovers Zonation of Function in the Mesenchyme during Liver Fibrosis
Dobie R, Wilson-Kanamori JR, Henderson BEP, ..., Marioni JC, Henderson NC
Cell Rep 29 (7) 1832-1847.e8 [2019-11-00; online 2019-11-00]
Eukaryotic Single Cell Genomics (ESCG) [Collaborative]
PubMed DOI Crossref
Protein Paucimannosylation Is an Enriched N-Glycosylation Signature of Human Cancers.
Chatterjee S, Lee LY, Kawahara R, ..., Palmisano G, Thaysen-Andersen M
Proteomics 19 (21-22) e1900010 [2019-11-00; online 2019-10-16]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Physical activity is associated with a large number of cardiovascular-specific proteins: Cross-sectional analyses in two independent cohorts.
Stattin K, Lind L, Elmståhl S, ..., Michaëlsson K, Byberg L
Eur J Prev Cardiol 26 (17) 1865-1873 [2019-11-00; online 2019-08-14]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
PIN-driven auxin transport emerged early in streptophyte evolution.
Skokan R, Medvecká E, Viaene T, ..., Petrášek J, Friml J
NPLANTS 5 (11) 1114-1119 [2019-11-00; online 2019-11-11]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Novel BEST1 gene mutations associated with two different forms of macular dystrophy in Tunisian families.
Chibani Z, Abid IZ, Molbaek A, ..., Feki J, Hmani-Aifa M
Clin Exp Ophthalmol 47 (8) 1063-1073 [2019-11-00; online 2019-07-24]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Molecular pathology of the luminal class of urothelial tumors.
Bernardo C, Eriksson P, Marzouka NA, ..., Sjödahl G, Höglund M
J. Pathol. 249 (3) 308-318 [2019-11-00; online 2019-08-27]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Molecular imaging identifies age-related attenuation of acetylcholine in retrosplenial cortex in response to acetylcholinesterase inhibition.
Vallianatou T, Shariatgorji M, Nilsson A, ..., Svenningsson P, Andrén PE
Neuropsychopharmacology 44 (12) 2091-2098 [2019-11-00; online 2019-04-22]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Mice exposed to maternal androgen excess and diet-induced obesity have altered phosphorylation of catechol-O-methyltransferase in the placenta and fetal liver.
Fornes R, Manti M, Qi X, ..., Benrick A, Stener-Victorin E
Int J Obes (Lond) 43 (11) 2176-2188 [2019-11-00; online 2019-01-22]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Mesenchymal transition and increased therapy resistance of glioblastoma cells is related to astrocyte reactivity.
Niklasson M, Bergström T, Jarvius M, ..., Segerman B, Segerman A
J. Pathol. 249 (3) 295-307 [2019-11-00; online 2019-08-31]
Drug Discovery and Development (DDD) [Service]
DOI Crossref
Mass transport during coagulation of cellulose-ionic liquid solutions in different non-solvents
Hedlund A, Theliander H, Köhnke T
Cellulose 26 (16) 8525-8541 [2019-11-00; online 2019-08-19]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Leveraging European infrastructures to access 1 million human genomes by 2022.
Saunders G, Baudis M, Becker R, ..., Blomberg N, Scollen S
Nat. Rev. Genet. 20 (11) 693-701 [2019-11-00; online 2019-08-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Influence of blue mussel (Mytilus edulis) intake on fatty acid composition in erythrocytes and plasma phospholipids and serum metabolites in women with rheumatoid arthritis.
Lindqvist HM, Gjertsson I, Andersson S, Calder PC, Bärebring L
Prostaglandins, Leukotrienes and Essential Fatty Acids (PLEFA) 150 (-) 7-15 [2019-11-00; online 2019-08-24]
Bioinformatics Support for Computational Resources [Service] Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
In search of causal pathways in diabetes: a study using proteomics and genotyping data from a cross-sectional study.
Beijer K, Nowak C, Sundström J, ..., Fall T, Lind L
Diabetologia 62 (11) 1998-2006 [2019-11-00; online 2019-08-24]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] Clinical Biomarkers [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Identification of two abundant Aerococcus urinae cell wall-anchored proteins.
Senneby E, Sunnerhagen T, Hallström B, ..., Karlsson C, Rasmussen M
Int. J. Med. Microbiol. 309 (7) 151325 [2019-11-00; online 2019-06-24]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Genomic analysis of Staphylococcus capitis isolated from blood cultures in neonates at a neonatal intensive care unit in Sweden.
Stenmark B, Hellmark B, Söderquist B
Eur. J. Clin. Microbiol. Infect. Dis. 38 (11) 2069-2075 [2019-11-00; online 2019-08-09]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Genetic predisposition to mosaic Y chromosome loss in blood.
Thompson DJ, Genovese G, Halvardson J, ..., Forsberg LA, Perry JRB
Nature 575 (7784) 652-657 [2019-11-00; online 2019-11-20]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Genetic differentiation between and within ecotypes of pike (Esox lucius) in the Baltic Sea
Nordahl O, Koch‐Schmidt P, Sunde J, ..., Forsman A, Larsson P
Aquatic Conserv: Mar Freshw Ecosyst 29 (11) 1923-1935 [2019-11-00; online 2019-08-16]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic architecture of subcortical brain structures in 38,851 individuals.
Satizabal CL, Adams HHH, Hibar DP, ..., Seshadri S, Ikram MA
Nat. Genet. 51 (11) 1624-1636 [2019-11-00; online 2019-10-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Establishing arthropod community composition using metabarcoding: Surprising inconsistencies between soil samples and preservative ethanol and homogenate from Malaise trap catches.
Marquina D, Esparza-Salas R, Roslin T, Ronquist F
Mol Ecol Resour 19 (6) 1516-1530 [2019-11-00; online 2019-09-18]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Electrochemical Evaluation of a Napthalene Diimide Derivative for Potential Application in Aqueous Organic Redox Flow Batteries
Wiberg C, Owusu F, Wang E, Ahlberg E
Energy Technol. 7 (11) 1900843 [2019-11-00; online 2019-08-23]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
EZH2 upregulates the PI3K/AKT pathway through IGF1R and MYC in clinically aggressive chronic lymphocytic leukaemia.
Kosalai ST, Morsy MHA, Papakonstantinou N, ..., Rosenquist R, Kanduri M
Epigenetics 14 (11) 1125-1140 [2019-11-00; online 2019-06-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Diagnostic pitfalls in vitamin B6-dependent epilepsy caused by mutations in the PLPBP gene.
Jensen KV, Frid M, Stödberg T, ..., Darin N, Grønborg S
JIMD Rep 50 (1) 1-8 [2019-11-00; online 2019-09-30]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Chemical Screening Pipeline for Identification of Specific Plant Autophagy Modulators.
Dauphinee AN, Cardoso C, Dalman K, ..., Bozhkov PV, Minina EA
Plant Physiol. 181 (3) 855-866 [2019-11-00; online 2019-09-05]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Characterization of Bacterial Communities in Breeding Waters of Anopheles darlingi in Manaus in the Amazon Basin Malaria-Endemic Area.
Nilsson LKJ, de Oliveira MR, Marinotti O, ..., de Souza AQL, Terenius O
Microb. Ecol. 78 (4) 781-791 [2019-11-00; online 2019-04-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Challenges in the Multivariate Analysis of Mass Cytometry Data: The Effect of Randomization.
Papoutsoglou G, Lagani V, Schmidt A, ..., Tegnér J, Tsamardinos I
Cytometry A 95 (11) 1178-1190 [2019-11-00; online 2019-11-06]
Cellular Immunomonitoring [Service]
PubMed DOI Crossref
Assessment of genetic and non-genetic risk factors for venous thromboembolism in glioblastoma - The predictive significance of B blood group.
Heenkenda MK, Malmström A, Lysiak M, ..., Uppugunduri S, Osman A
Thromb. Res. 183 (-) 136-142 [2019-11-00; online 2019-10-22]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
PubMed DOI Crossref
A somatic mutation in CLCN2 identified in a sporadic aldosterone-producing adenoma.
Dutta RK, Arnesen T, Heie A, ..., Söderkvist P, Gimm O
Eur. J. Endocrinol. 181 (5) K37-K41 [2019-11-00; online 2019-09-07]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
DOI Crossref
A revised solid-state NMR method to assess the crystallinity of cellulose
Sparrman T, Svenningsson L, Sahlin-Sjövold K, ..., Westman G, Bernin D
Cellulose 26 (17) 8993-9003 [2019-11-00; online 2019-09-03]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
A rapid and accurate method to quantify neurite outgrowth from cell and tissue cultures: Two image analytic approaches using adaptive thresholds or machine learning
Ossinger A, Bajic A, Pan S, ..., Hailer NP, Schizas N
Journal of Neuroscience Methods 331 (-) 108522 [2019-11-00; online 2019-11-00]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
The architecture of the Plasmodiophora brassicae nuclear and mitochondrial genomes.
Stjelja S, Fogelqvist J, Tellgren-Roth C, Dixelius C
Sci Rep 9 (1) 15753 [2019-10-31; online 2019-10-31]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Associations of autozygosity with a broad range of human phenotypes.
Clark DW, Okada Y, Moore KHS, ..., Kubo M, Wilson JF
Nat Commun 10 (1) 4957 [2019-10-31; online 2019-10-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
High-grade progression confers poor survival in pancreatic neuroendocrine tumors.
Botling J, Lamarca A, Bajic D, ..., Skogseid B, Crona J
Neuroendocrinology - (-) - [2019-10-29; online 2019-10-29]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
CRISPR-Cas9-mediated knockout of SPRY2 in human hepatocytes leads to increased glucose uptake and lipid droplet accumulation.
Cook NL, Pjanic M, Emmerich AG, ..., Castillejo-López C, Ingelsson E
BMC Endocr Disord 19 (1) 115 [2019-10-29; online 2019-10-29]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Inhibition of translation termination by small molecules targeting ribosomal release factors.
Ge X, Oliveira A, Hjort K, ..., Sanyal S, Åqvist J
Sci Rep 9 (1) 15424 [2019-10-28; online 2019-10-28]
Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Comparative analysis of obesity-related cardiometabolic and renal biomarkers in human plasma and serum.
Rajan MR, Sotak M, Barrenäs F, ..., Lange S, Börgeson E
Sci Rep 9 (1) 15385 [2019-10-28; online 2019-10-28]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Assembly and Analysis of the Genome Sequence of the Yeast Brettanomyces naardenensis CBS 7540.
Tiukova IA, Jiang H, Dainat J, ..., Gu Z, Passoth V
Microorganisms 7 (11) - [2019-10-26; online 2019-10-26]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Detection of a High-Turnover Serotonin Circuit in the Mouse Brain Using Mass Spectrometry Imaging.
Sugiyama E, Guerrini MM, Honda K, ..., Suematsu M, Sugiura Y
iScience 20 (-) 359-372 [2019-10-25; online 2019-09-27]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Detailed Functional Characterization of a Waist-Hip Ratio Locus in 7p15.2 Defines an Enhancer Controlling Adipocyte Differentiation.
Castillejo-Lopez C, Pjanic M, Pirona AC, ..., Arner E, Ingelsson E
iScience 20 (-) 42-59 [2019-10-25; online 2019-09-10]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A chromosome-level assembly of the Atlantic herring genome-detection of a supergene and other signals of selection.
Pettersson ME, Rochus CM, Han F, ..., Folkvord A, Andersson L
Genome Res. - (-) - [2019-10-24; online 2019-10-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
The SH3 domains of the protein kinases ITK and LCK compete for adjacent sites on T cell-specific adapter protein.
Andersen TCB, Kristiansen PE, Huszenicza Z, ..., Andreotti AH, Spurkland A
J. Biol. Chem. 294 (42) 15480-15494 [2019-10-18; online 2019-09-04]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Puma genomes from North and South America provide insights into the genomic consequences of inbreeding.
Saremi NF, Supple MA, Byrne A, ..., Wilmers CC, Shapiro B
Nat Commun 10 (1) 4769 [2019-10-18; online 2019-10-18]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Metal free synthesis of ethylene and propylene carbonate from alkylene halohydrin and CO2 at room temperature.
Khokarale SG, Mikkola JP
RSC Adv. 9 (58) 34023-34031 [2019-10-18; online 2019-10-22]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Lipidomics in Ulcerative Colitis Reveal Alteration in Mucosal Lipid Composition Associated With the Disease State.
Diab J, Hansen T, Goll R, ..., Florholmen J, Forsdahl G
Inflamm Bowel Dis 25 (11) 1780-1787 [2019-10-18; online 2019-05-12]
Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
DPI Selectively Inhibits Intracellular NADPH Oxidase Activity in Human Neutrophils.
Buck A, Sanchez Klose FP, Venkatakrishnan V, ..., Christenson K, Bylund J
Immunohorizons 3 (10) 488-497 [2019-10-18; online 2019-10-18]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Considerations and Implications in the Purification of Extracellular Vesicles - A Cautionary Tale.
Lee YXF, Johansson H, Wood MJA, El Andaloussi S
Front. Neurosci. 13 (-) 1067 [2019-10-18; online 2019-10-18]
Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Whole-genome sequencing of synchronous thyroid carcinomas identifies aberrant DNA repair in thyroid cancer dedifferentiation
Paulsson JO, Backman S, Wang N, ..., Zedenius J, Juhlin CC
J. Pathol - (-) - [2019-10-17; online 2019-10-17]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Microbe-host interplay in atopic dermatitis and psoriasis.
Fyhrquist N, Muirhead G, Prast-Nielsen S, ..., Andersson B, Alenius H
Nat Commun 10 (1) 4703 [2019-10-16; online 2019-10-16]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Metagenomes and metatranscriptomes from boreal potential and actual acid sulfate soil materials.
Högfors-Rönnholm E, Lopez-Fernandez M, Christel S, ..., Engblom S, Dopson M
Sci Data 6 (1) 207 [2019-10-16; online 2019-10-16]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
doepipeline: a systematic approach to optimizing multi-level and multi-step data processing workflows.
Svensson D, Sjögren R, Sundell D, Sjödin A, Trygg J
BMC Bioinformatics 20 (1) 498 [2019-10-15; online 2019-10-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Monitoring of Protein Biomarkers of Inflammation in Human Traumatic Brain Injury Using Microdialysis and Proximity Extension Assay Technology in Neurointensive Care.
Dyhrfort P, Shen Q, Clausen F, ..., Lewén A, Hillered L
J. Neurotrauma 36 (20) 2872-2885 [2019-10-15; online 2019-06-17]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
DOI Crossref
Challenges for CLEM from a Light Microscopy Perspective
Anderson K, Nilsson T, Fernandez‐Rodriguez J
John Wiley & Sons Ltd 2 (-) 23-35 [2019-10-15; online 2019-09-06]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
CSF levels of apolipoprotein C1 and autotaxin found to associate with neuropathic pain and fibromyalgia.
Lind AL, Just D, Mikus M, ..., Gordh T, Månberg A
J Pain Res 12 (-) 2875-2889 [2019-10-15; online 2019-10-15]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Associations Between Attention-Deficit/Hyperactivity Disorder and Various Eating Disorders: A Swedish Nationwide Population Study Using Multiple Genetically Informative Approaches.
Yao S, Kuja-Halkola R, Martin J, ..., Bulik CM, Larsson H
Biol. Psychiatry 86 (8) 577-586 [2019-10-15; online 2019-05-15]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dynamic Nanocellulose Networks for Thermoset-like yet Recyclable Plastics with a High Melt Stiffness and Creep Resistance.
Peterson A, Östergren I, Lotsari A, ..., Boldizar A, Müller C
Biomacromolecules 20 (10) 3924-3932 [2019-10-14; online 2019-09-17]
Cryo-EM [Technology development]
PubMed DOI Crossref
A Fluorescent Kinase Inhibitor that Exhibits Diagnostic Changes in Emission upon Binding.
Fleming CL, Sandoz PA, Inghardt T, ..., Grøtli M, Andréasson J
Angew. Chem. Int. Ed. Engl. 58 (42) 15000-15004 [2019-10-14; online 2019-09-05]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Novel functional proteins coded by the human genome discovered in metastases of melanoma patients.
Sanchez A, Kuras M, Murillo JR, ..., Betancourt LH, Marko-Varga G
Cell Biol. Toxicol. - (-) - [2019-10-10; online 2019-10-10]
Structural Proteomics [Service]
PubMed DOI Crossref
N-Trifluoromethylthiolated Sulfonimidamides and Sulfoximines: Anti-microbial, Anti-mycobacterial, and Cytotoxic Activity.
Thota N, Makam P, Rajbongshi KK, ..., Naicker T, Arvidsson PI
ACS Med Chem Lett 10 (10) 1457-1461 [2019-10-10; online 2019-09-11]
Drug Discovery and Development (DDD) [Technology development]
PubMed DOI Crossref
Correction: APR-246 reactivates mutant p53 by targeting cysteines 124 and 277.
Zhang Q, Bykov VJN, Wiman KG, Zawacka-Pankau J
Cell Death Dis 10 (10) 769 [2019-10-10; online 2019-10-10]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Chromosomal Abnormalities and Prognosis in NPM1-Mutated Acute Myeloid Leukemia: A Pooled Analysis of Individual Patient Data From Nine International Cohorts.
Angenendt L, Röllig C, Montesinos P, ..., Krug U, Schliemann C
J Clin Oncol 37 (29) 2632-2642 [2019-10-10; online 2019-08-20]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
The genomic ancestry of the Scandinavian Battle Axe Culture people and their relation to the broader Corded Ware horizon.
Malmström H, Günther T, Svensson EM, ..., Storå J, Jakobsson M
Proc. Biol. Sci. 286 (1912) 20191528 [2019-10-09; online 2019-10-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SynQuant: an automatic tool to quantify synapses from microscopy images
Wang Y, Wang C, Ranefall P, ..., Tian L, Yu G
Bioinformatics 36 (5) 1599-1606 [2019-10-09; online 2019-10-09]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
Molecular dynamics involving proton exchange of a protic ionic liquid-water mixture studied by NMR spectroscopy.
Hasani M, Nordstierna L, Martinelli A
Phys Chem Chem Phys 21 (39) 22014-22021 [2019-10-09; online 2019-09-27]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Intracrystalline Transport Barriers Affecting the Self-Diffusion of CH4 in Zeolites |Na12|-A and |Na12–K|-A
Hedin N, Rzepka P, Jasso-Salcedo AB, Church TL, Bernin D
Langmuir 35 (40) 12971-12978 [2019-10-08; online 2019-09-11]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Along the Indian Ocean coast: genomic variation in Mozambique provides new insights into the Bantu expansion.
Semo A, Gayà-Vidal M, Fortes-Lima C, ..., Schlebusch C, Rocha J
Mol. Biol. Evol. - (-) - [2019-10-08; online 2019-10-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Reduced sialyl-Lewisx on salivary MUC7 from patients with burning mouth syndrome.
Acharya S, Jin C, Bylund J, ..., Carlén A, Karlsson NG
Mol Omics 15 (5) 331-339 [2019-10-07; online 2019-08-16]
Affinity Proteomics Uppsala [Collaborative] Glycoproteomics and MS Proteomics [Collaborative] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
Above-below surface interactions mediate effects of seagrass disturbance on meiobenthic diversity, nematode and polychaete trophic structure.
Nascimento FJA, Dahl M, Deyanova D, ..., Creer S, Gullström M
Commun Biol 2 (-) 362 [2019-10-04; online 2019-10-04]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Target genes, variants, tissues and transcriptional pathways influencing human serum urate levels.
Tin A, Marten J, Halperin Kuhns VL, ..., Vitart V, Köttgen A
Nat. Genet. - (-) - [2019-10-02; online 2019-10-02]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Proteomic Analysis of Longitudinal Changes in Blood Pressure.
Lin YT, Fall T, Hammar U, ..., Engström G, Sundström J
J Clin Med 8 (10) 1585 [2019-10-02; online 2019-10-02]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Skeletal Mineralization in Association with Type X Collagen Expression Is an Ancestral Feature for Jawed Vertebrates.
Debiais-Thibaud M, Simion P, Ventéo S, ..., Mazan S, Haitina T
Mol. Biol. Evol. 36 (10) 2265-2276 [2019-10-01; online 2019-07-05]
Bioinformatics Support for Computational Resources [Service] Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Molecular characterization of particulate organic matter in full scale anaerobic digesters: An NMR spectroscopy study.
Shakeri Yekta S, Hedenström M, Svensson BH, ..., Hertkorn N, Björn A
Sci. Total Environ. 685 (-) 1107-1115 [2019-10-01; online 2019-06-18]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Interoperable and scalable data analysis with microservices: applications in metabolomics.
Emami Khoonsari P, Moreno P, Bergmann S, ..., Kultima K, Spjuth O
Bioinformatics 35 (19) 3752-3760 [2019-10-01; online 2019-03-10]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Industrial wastewater treatment plant enriches antibiotic resistance genes and alters the structure of microbial communities.
Bengtsson-Palme J, Milakovic M, Švecová H, ..., Grabic R, Udikovic-Kolic N
Water Res. 162 (-) 437-445 [2019-10-01; online 2019-07-04]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
PubMed DOI Crossref
Extreme Differences in Recombination Rate between the Genomes of a Solitary and a Social Bee.
Jones JC, Wallberg A, Christmas MJ, Kapheim KM, Webster MT
Mol. Biol. Evol. 36 (10) 2277-2291 [2019-10-01; online 2019-05-31]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dissecting the Effects of Selection and Mutation on Genetic Diversity in Three Wood White (Leptidea) Butterfly Species.
Talla V, Soler L, Kawakami T, ..., Wiklund C, Backström N
Genome Biol Evol 11 (10) 2875-2886 [2019-10-01; online 2019-10-04]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cellular uptake of self-assembled phytantriol-based hexosomes is independent of major endocytic machineries.
Rodrigues L, Schneider F, Zhang X, ..., Lundmark R, Hubert M
Journal of Colloid and Interface Science 553 (-) 820-833 [2019-10-01; online 2019-06-19]
Integrated Microscopy Technologies Umeå [Collaborative]
PubMed DOI Crossref
Upregulation of PBP1B and LpoB in cysB Mutants Confers Mecillinam (Amdinocillin) Resistance in Escherichia coli.
Thulin E, Andersson DI
Antimicrob. Agents Chemother. 63 (10) - [2019-10-00; online 2019-09-23]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Transcriptome and Proteome Profiling of Neural Induced Pluripotent Stem Cells from Individuals with Down Syndrome Disclose Dynamic Dysregulations of Key Pathways and Cellular Functions.
Sobol M, Klar J, Laan L, ..., Falk A, Dahl N
Mol Neurobiol 56 (10) 7113-7127 [2019-10-00; online 2019-04-13]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Real time MRI to elucidate the functionality of coating films intended for modified release.
Bernin D, Marucci M, Boissier C, ..., Olsson U, Abrahmsén-Alami S
Journal of Controlled Release 311-312 (-) 117-124 [2019-10-00; online 2019-08-24]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Molecular subtypes applied to a population-based modern cystectomy series do not predict cancer-specific survival.
Kollberg P, Chebil G, Eriksson P, Sjödahl G, Liedberg F
Urol Oncol 37 (10) 791-799 [2019-10-00; online 2019-05-02]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Implantable Organic Electronic Ion Pump Enables ABA Hormone Delivery for Control of Stomata in an Intact Tobacco Plant.
Bernacka-Wojcik I, Huerta M, Tybrandt K, ..., Berggren M, Stavrinidou E
Small 15 (43) e1902189 [2019-10-00; online 2019-09-12]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
High-definition spatial transcriptomics for in situ tissue profiling.
Vickovic S, Eraslan G, Salmén F, ..., Regev A, Ståhl PL
Nat. Methods 16 (10) 987-990 [2019-10-00; online 2019-09-09]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide evidence supports mitochondrial relationships and pervasive parallel phenotypic evolution in open-habitat chats.
Schweizer M, Warmuth VM, Alaei Kakhki N, ..., Suh A, Burri R
Mol. Phylogenet. Evol. 139 (-) 106568 [2019-10-00; online 2019-07-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Genetic variations in A20 DUB domain provide a genetic link to citrullination and neutrophil extracellular traps in systemic lupus erythematosus.
Odqvist L, Jevnikar Z, Riise R, ..., Collins B, Vaarala O
Ann. Rheum. Dis. 78 (10) 1363-1370 [2019-10-00; online 2019-07-12]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic basis and timing of a major mating system shift in Capsella.
Bachmann JA, Tedder A, Laenen B, ..., Castric V, Slotte T
New Phytol. 224 (1) 505-517 [2019-10-00; online 2019-08-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Generation of in situ sequencing based OncoMaps to spatially resolve gene expression profiles of diagnostic and prognostic markers in breast cancer.
Svedlund J, Strell C, Qian X, ..., Sieuwerts AM, Nilsson M
EBioMedicine 48 (-) 212-223 [2019-10-00; online 2019-09-13]
In Situ Sequencing (ISS) [Technology development]
PubMed DOI Crossref
Fam83F induces p53 stabilisation and promotes its activity.
Salama M, Benitez-Riquelme D, Elabd S, ..., Davidson G, Blattner C
Cell Death Differ. 26 (10) 2125-2138 [2019-10-00; online 2019-01-28]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exploring a Pool-seq-only approach for gaining population genomic insights in nonmodel species.
Kurland S, Wheat CW, de la Paz Celorio Mancera M, ..., Ryman N, Laikre L
Ecol Evol 9 (19) 11448-11463 [2019-10-00; online 2019-09-26]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Endocytic pathway of vascular cell adhesion molecule 1 in human umbilical vein endothelial cell identified in vitro by using functionalized nontoxic fluorescent quantum dots
Fu Y, Jussi J, Wang Q, ..., Yang X, Chen Y
Sensors and Actuators B: Chemical 297 (-) 126702 [2019-10-00; online 2019-10-00]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Elevated IL-27 in patients with acute coronary syndrome is associated with adverse ventricular remodeling and increased risk of recurrent myocardial infarction and cardiovascular death.
Grufman H, Yndigegn T, Gonçalves I, Nilsson J, Schiopu A
Cytokine 122 (-) 154208 [2019-10-00; online 2018-02-07]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Early Pleistocene enamel proteome from Dmanisi resolves Stephanorhinus phylogeny.
Cappellini E, Welker F, Pandolfi L, ..., Lordkipanidze D, Willerslev E
Nature 574 (7776) 103-107 [2019-10-00; online 2019-09-11]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Distribution of bacteria between different milk fractions, investigated using culture-dependent methods and molecular-based and fluorescent microscopy approaches.
Sun L, Dicksved J, Priyashantha H, Lundh Å, Johansson M
J Appl Microbiol 127 (4) 1028-1037 [2019-10-00; online 2019-07-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Discovery and development of substituted thiadiazoles as inhibitors of Staphylococcus aureus Sortase A
Wehrli PM, Uzelac I, Olsson T, ..., Tietze D, Gottfries J
Bioorganic & Medicinal Chemistry 27 (19) 115043 [2019-10-00; online 2019-10-00]
Chemical Biology Consortium Sweden (CBCS) [Service] Glycoproteomics and MS Proteomics [Service] Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Comprehensive mapping of neurotransmitter networks by MALDI-MS imaging.
Shariatgorji M, Nilsson A, Fridjonsdottir E, ..., Odell LR, Andrén PE
Nat. Methods 16 (10) 1021-1028 [2019-10-00; online 2019-09-23]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Cell generation dynamics underlying naive T-cell homeostasis in adult humans.
Mold JE, Réu P, Olin A, ..., Brodin P, Frisén J
PLoS Biol. 17 (10) e3000383 [2019-10-00; online 2019-10-29]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
A clonal expression biomarker associates with lung cancer mortality.
Biswas D, Birkbak NJ, Rosenthal R, ..., Swanton C, TRACERx Consortium
Nat. Med. 25 (10) 1540-1548 [2019-10-00; online 2019-10-07]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Significant Changes in Metabolic Profiles after Intervention with Selenium and Coenzyme Q10 in an Elderly Population.
Alehagen U, Johansson P, Aaseth J, ..., Lundstedt-Enkel K, Lundstedt T
Biomolecules 9 (10) - [2019-09-30; online 2019-09-30]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Prognostic Impact of BRAF and KRAS Mutation in Patients with Colorectal and Appendiceal Peritoneal Metastases Scheduled for CRS and HIPEC.
Graf W, Cashin PH, Ghanipour L, ..., Terman A, Birgisson H
Ann. Surg. Oncol. - (-) - [2019-09-30; online 2019-09-30]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Interaction between VPS35 and RABG3f is necessary as a checkpoint to control fusion of late compartments with the vacuole.
Rodriguez-Furlan C, Domozych D, Qian W, ..., Raikhel NV, Hicks GR
Proc. Natl. Acad. Sci. U.S.A. - (-) - [2019-09-30; online 2019-09-30]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Clinical candidate and genistein analogue AXP107-11 has chemoenhancing functions in pancreatic adenocarcinoma through G protein-coupled estrogen receptor signaling.
Mesmar F, Dai B, Ibrahim A, ..., Fleming J, Williams C
Cancer Med - (-) - [2019-09-30; online 2019-09-30]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Leaf metabolic signatures induced by real and simulated herbivory in black mustard (Brassica nigra).
Papazian S, Girdwood T, Wessels BA, ..., Moritz T, Albrectsen BR
Metabolomics 15 (10) 130 [2019-09-28; online 2019-09-28]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Complete genomes of two extinct New Zealand passerines show responses to climate fluctuations but no evidence for genomic erosion prior to extinction.
Dussex N, von Seth J, Knapp M, ..., Robertson BC, Dalén L
Biol. Lett. 15 (9) 20190491 [2019-09-27; online 2019-09-04]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cold Atmospheric Plasma Disarms M1 Protein, an Important Streptococcal Virulence Factor.
Persson ST, Ekström S, Papareddy P, Herwald H
J Innate Immun 12 (4) 277-290 [2019-09-27; online 2019-09-27]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Translational offsetting as a mode of estrogen receptor α-dependent regulation of gene expression.
Lorent J, Kusnadi EP, van Hoef V, ..., Larsson O, Furic L
EMBO J. - (-) e101323 [2019-09-26; online 2019-09-26]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Ethylene Signaling Is Required for Fully Functional Tension Wood in Hybrid Aspen.
Seyfferth C, Wessels BA, Gorzsás A, ..., Sundberg B, Felten J
Front Plant Sci 10 (-) 1101 [2019-09-26; online 2019-09-26]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cytoplasmic protein misfolding titrates Hsp70 to activate nuclear Hsf1.
Masser AE, Kang W, Roy J, ..., Friedländer MR, Andréasson C
Elife 8 (-) - [2019-09-25; online 2019-09-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Predisposition to childhood acute lymphoblastic leukemia caused by a constitutional translocation disrupting ETV6.
Järviaho T, Bang B, Zachariadis V, ..., Niinimäki R, Nordgren A
Blood Adv 3 (18) 2722-2731 [2019-09-24; online 2019-09-15]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Novel Y-Chromosome Long Non-Coding RNAs Expressed in Human Male CNS During Early Development.
Johansson MM, Pottmeier P, Suciu P, ..., Peuckert C, Jazin E
Front Genet 10 (-) 891 [2019-09-24; online 2019-09-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Ataxia in Patients With Bi-Allelic NFASC Mutations and Absence of Full-Length NF186.
Kvarnung M, Shahsavani M, Taylan F, ..., Lindstrand A, Falk A
Front Genet 10 (-) 896 [2019-09-24; online 2019-09-24]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
IGEMS: The Consortium on Interplay of Genes and Environment Across Multiple Studies - An Update.
Pedersen NL, Gatz M, Finch BK, ..., Sachdev P, Whitfield KE
Twin Res Hum Genet - (-) 1-8 [2019-09-23; online 2019-09-23]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Microwave Synthesis of Alkali‐Free Hexaniobate, Decaniobate, and Hexatantalate Polyoxometalate Ions
Rambaran MA, Pascual‐Borràs M, Ohlin CA
Eur. J. Inorg. Chem. 2019 (35) 3913-3918 [2019-09-22; online 2019-09-05]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Hypermethylation-associated downregulation of microRNA-4456 in hypersexual disorder with putative influence on oxytocin signalling: A DNA methylation analysis of miRNA genes.
Boström AE, Chatzittofis A, Ciuculete DM, ..., Schiöth HB, Jokinen J
Epigenetics - (-) 1-16 [2019-09-22; online 2019-09-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The TGFB2-AS1 lncRNA Regulates TGF-β Signaling by Modulating Corepressor Activity.
Papoutsoglou P, Tsubakihara Y, Caja L, ..., Heldin CH, Moustakas A
Cell Rep 28 (12) 3182-3198.e11 [2019-09-17; online 2019-09-19]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Phylogenetic microbiota profiling in fecal samples depends on combination of sequencing depth and choice of NGS analysis method.
Rajan SK, Lindqvist M, Brummer RJ, Schoultz I, Repsilber D
PLoS ONE 14 (9) e0222171 [2019-09-17; online 2019-09-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Model System for the Formation of Tick-Borne Encephalitis Virus Replication Compartments without Viral RNA Replication.
Yau WL, Nguyen-Dinh V, Larsson E, ..., Överby AK, Lundmark R
J. Virol. 93 (18) - [2019-09-15; online 2019-08-28]
Bioinformatics Support for Computational Resources [Service] Cryo-EM [Service] Integrated Microscopy Technologies Umeå [Collaborative]
PubMed DOI Crossref
Genomic and Seasonal Variations among Aquatic Phages Infecting the Baltic Sea Gammaproteobacterium Rheinheimera sp. Strain BAL341.
Nilsson E, Li K, Fridlund J, ..., Pinhassi J, Holmfeldt K
Appl. Environ. Microbiol. 85 (18) - [2019-09-15; online 2019-08-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Nestin Regulates Neurogenesis in Mice Through Notch Signaling From Astrocytes to Neural Stem Cells.
Wilhelmsson U, Lebkuechner I, Leke R, ..., Pekna M, Pekny M
Cereb. Cortex 29 (10) 4050-4066 [2019-09-13; online 2019-01-04]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Electron cryo-microscopy of bacteriophage PR772 reveals the elusive vertex complex and the capsid architecture.
Reddy HK, Carroni M, Hajdu J, Svenda M
Elife 8 (-) - [2019-09-12; online 2019-09-12]
Cryo-EM [Service]
PubMed DOI Crossref
A Single-Stranded Oligonucleotide Inhibits Toll-Like Receptor 3 Activation and Reduces Influenza A (H1N1) Infection.
Poux C, Dondalska A, Bergenstråhle J, ..., Tregoning JS, Spetz AL
Front Immunol 10 (-) 2161 [2019-09-12; online 2019-09-12]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide association meta-analyses and fine-mapping elucidate pathways influencing albuminuria.
Teumer A, Li Y, Ghasemi S, ..., Pattaro C, Köttgen A
Nat Commun 10 (1) 4130 [2019-09-11; online 2019-09-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Correlative STED super-resolution light and electron microscopy on resin sections
Wurm CA, Schwarz H, Jans DC, ..., Humbel BM, Jakobs S
J. Phys. D: Appl. Phys. 52 (37) 374003 [2019-09-11; online 2019-07-16]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
Recurrent convergent evolution at amino acid residue 261 in fish rhodopsin.
Hill J, Enbody ED, Pettersson ME, ..., Scheerer P, Andersson L
Proc. Natl. Acad. Sci. U.S.A. 116 (37) 18473-18478 [2019-09-10; online 2019-08-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Metagenomes from Coastal Marine Sediments Give Insights into the Ecological Role and Cellular Features of Loki- and Thorarchaeota.
Manoharan L, Kozlowski JA, Murdoch RW, ..., Sousa FL, Schleper C
MBio 10 (5) - [2019-09-10; online 2019-09-10]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Evaluation of the Genetic Association Between Adult Obesity and Neuropsychiatric Disease.
Stahel P, Nahmias A, Sud SK, ..., Batterham RL, Dash S
Diabetes - (-) - [2019-09-10; online 2019-09-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Combining ERBB family and MET inhibitors is an effective therapeutic strategy in cutaneous malignant melanoma independent of BRAF/NRAS mutation status.
Das I, Wilhelm M, Höiom V, ..., Tuominen R, Egyhàzi Brage S
Cell Death Dis 10 (9) 663 [2019-09-10; online 2019-09-10]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
μLAS technology for DNA isolation coupled to Cas9-assisted targeting for sequencing and assembly of a 30 kb region in plant genome.
Milon N, Chantry-Darmon C, Satge C, ..., Bergès H, Bancaud A
Nucleic Acids Res. 47 (15) 8050-8060 [2019-09-05; online 2019-09-11]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Differential gene expression in bovine endometrial epithelial cells after challenge with LPS; specific implications for genes involved in embryo maternal interactions.
Guo Y, van Schaik T, Jhamat N, ..., Andersson G, Humblot P
PLoS ONE 14 (9) e0222081 [2019-09-05; online 2019-09-05]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Protein prenylation restrains innate immunity by inhibiting Rac1 effector interactions.
Akula MK, Ibrahim MX, Ivarsson EG, ..., Sayin VI, Bergo MO
Nat Commun 10 (1) 3975 [2019-09-04; online 2019-09-04]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Genome Sequencing of Pleurozium schreberi: The Assembled and Annotated Draft Genome of a Pleurocarpous Feather Moss.
Pederson ERA, Warshan D, Rasmussen U
G3 (Bethesda) 9 (9) 2791-2797 [2019-09-04; online 2019-09-04]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Associations of Smoking and Alcohol and Coffee Intake with Fracture and Bone Mineral Density: A Mendelian Randomization Study.
Yuan S, Michaëlsson K, Wan Z, Larsson SC
Calcif. Tissue Int. - (-) - [2019-09-04; online 2019-09-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic variance of metabolomic features and their relationship with body weight and body weight gain in Holstein cattle1
Aliakbari A, Ehsani A, Vaez Torshizi R, ..., Jensen J, Sarup P
J. Anim. Sci. 97 (9) 3832-3844 [2019-09-03; online 2019-07-05]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
A novel tumor spheroid model identifies selective enhancement of radiation by an inhibitor of oxidative phosphorylation.
Karlsson H, Senkowski W, Fryknäs M, ..., Larsson R, Nygren P
Oncotarget 10 (51) 5372-5382 [2019-09-03; online 2019-09-03]
Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Vimentin Phosphorylation Is Required for Normal Cell Division of Immature Astrocytes.
de Pablo Y, Marasek P, Pozo-Rodrigálvarez A, ..., Pekna M, Pekny M
Cells 8 (9) 1016 [2019-09-01; online 2019-09-01]
Integrated Microscopy Technologies Gothenburg [Service]
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The autoantibody response to cyclic citrullinated collagen type II peptides in rheumatoid arthritis.
Liang B, Ge C, Lönnblom E, ..., Zhao M, Holmdahl R
Rheumatology (Oxford) 58 (9) 1623-1633 [2019-09-01; online 2019-03-21]
Autoimmunity and Serology Profiling [Service]
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Perturbed ovarian and uterine glucocorticoid receptor signaling accompanies the balanced regulation of mitochondrial function and NFκB-mediated inflammation under conditions of hyperandrogenism and insulin resistance.
Hu M, Zhang Y, Guo X, ..., Shao LR, Billig H
Life Sciences 232 (-) 116681 [2019-09-01; online 2019-07-23]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Multilayered Tuning of Dosage Compensation and Z-Chromosome Masculinization in the Wood White (Leptidea sinapis) Butterfly.
Höök L, Leal L, Talla V, Backström N
Genome Biol Evol 11 (9) 2633-2652 [2019-09-01; online 2019-08-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic Affinities among Southern Africa Hunter-Gatherers and the Impact of Admixing Farmer and Herder Populations.
Vicente M, Jakobsson M, Ebbesen P, Schlebusch CM
Mol. Biol. Evol. 36 (9) 1849-1861 [2019-09-01; online 2019-07-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Effects of allochthonous dissolved organic matter input on microbial composition and nitrogen-cycling genes at two contrasting estuarine sites.
Happel EM, Markussen T, Teikari JE, ..., Kisand V, Riemann L
FEMS Microbiol. Ecol. 95 (9) - [2019-09-01; online 2019-08-10]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Ancestral Admixture Is the Main Determinant of Global Biodiversity in Fission Yeast.
Tusso S, Nieuwenhuis BPS, Sedlazeck FJ, ..., Jeffares DC, Wolf JBW
Mol. Biol. Evol. 36 (9) 1975-1989 [2019-09-01; online 2019-06-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Whole exome sequencing identifies novel variant underlying hereditary spastic paraplegia in consanguineous Pakistani families.
Zulfiqar S, Tariq M, Ali Z, ..., Dahl N, Baig SM
J Clin Neurosci 67 (-) 19-23 [2019-09-00; online 2019-07-04]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Targeted ultra-deep sequencing of a South African Bantu-speaking cohort to comprehensively map and characterize common and novel variants in 65 pharmacologically-related genes.
Tshabalala S, Choudhury A, Beeton-Kempen N, ..., Ramsay M, Mancama D
Pharmacogenet. Genomics 29 (7) 167-178 [2019-09-00; online 2019-06-05]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Protein kinase MST3 modulates lipid homeostasis in hepatocytes and correlates with nonalcoholic steatohepatitis in humans.
Cansby E, Kulkarni NM, Magnusson E, ..., Blüher M, Mahlapuu M
FASEB J. 33 (9) 9974-9989 [2019-09-00; online 2019-06-07]
Glycoproteomics and MS Proteomics [Collaborative]
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Orthologous nuclear markers and new transcriptomes that broadly cover the phylogenetic diversity of Acanthaceae.
Morais EB, Schönenberger J, Conti E, Antonelli A, Szövényi P
Appl Plant Sci 7 (9) e11290 [2019-09-00; online 2019-09-25]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Multiplexed analysis of the secretin-like GPCR-RAMP interactome.
Lorenzen E, Dodig-Crnković T, Kotliar IB, ..., Schwenk JM, Sakmar TP
Sci Adv 5 (9) eaaw2778 [2019-09-00; online 2019-09-18]
Affinity Proteomics Stockholm [Collaborative]
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Impact of demography on linked selection in two outcrossing Brassicaceae species.
Mattila TM, Laenen B, Horvath R, ..., Savolainen O, Slotte T
Ecol Evol 9 (17) 9532-9545 [2019-09-00; online 2019-08-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Global extracellular vesicle proteomic signature defines U87-MG glioma cell hypoxic status with potential implications for non-invasive diagnostics.
Indira Chandran V, Welinder C, Gonçalves de Oliveira K, ..., Marko-Varga G, Belting M
J. Neurooncol. 144 (3) 477-488 [2019-09-00; online 2019-08-14]
Structural Proteomics [Service]
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FLT3N676K drives acute myeloid leukemia in a xenograft model of KMT2A-MLLT3 leukemogenesis.
Hyrenius-Wittsten A, Pilheden M, Falqués-Costa A, ..., Järås M, Hagström-Andersson AK
Leukemia 33 (9) 2310-2314 [2019-09-00; online 2019-04-05]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Exploration of potential biochemical markers for persistence of patent ductus arteriosus in preterm infants at 22-27 weeks' gestation.
Olsson KW, Larsson A, Jonzon A, Sindelar R
Pediatr. Res. 86 (3) 333-338 [2019-09-00; online 2018-09-18]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Direct effects of organic pollutants on the growth and gene expression of the Baltic Sea model bacterium Rheinheimera sp. BAL341.
Karlsson CMG, Cerro-Gálvez E, Lundin D, ..., Vila-Costa M, Pinhassi J
Microb Biotechnol 12 (5) 892-906 [2019-09-00; online 2019-07-04]
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Dimerization of 9,10-anthraquinone-2,7-Disulfonic acid (AQDS)
Wiberg C, Carney TJ, Brushett F, Ahlberg E, Wang E
Electrochimica Acta 317 (-) 478-485 [2019-09-00; online 2019-09-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Copy number variation and neuropsychiatric problems in females and males in the general population.
Martin J, Tammimies K, Karlsson R, ..., Lichtenstein P, Magnusson PKE
Am. J. Med. Genet. B Neuropsychiatr. Genet. 180 (6) 341-350 [2019-09-00; online 2018-10-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Combining microdialysis with metabolomics to characterize the in situ composition of dissolved organic compounds in boreal forest soil
Randewig D, Marshall JD, Näsholm T, Jämtgård S
Soil Biology and Biochemistry 136 (-) 107530 [2019-09-00; online 2019-09-00]
Swedish Metabolomics Centre (SMC) [Service]
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A simultaneous assessment of organic matter and trace elements bio-accessibility in substrate and digestate from an anaerobic digestion plant.
Laera A, Shakeri Yekta S, Hedenström M, ..., Esposito G, van Hullebusch ED
Bioresour. Technol. 288 (-) 121587 [2019-09-00; online 2019-05-31]
Swedish NMR Centre (SNC) [Collaborative]
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MiDRM pol: A High-Throughput Multiplexed Amplicon Sequencing Workflow to Quantify HIV-1 Drug Resistance Mutations against Protease, Reverse Transcriptase, and Integrase Inhibitors.
Aralaguppe SG, Ambikan AT, Ashokkumar M, ..., Sönnerborg A, Neogi U
Viruses 11 (9) - [2019-08-30; online 2019-08-30]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Large-scale GWAS reveals insights into the genetic architecture of same-sex sexual behavior.
Ganna A, Verweij KJH, Nivard MG, ..., Neale BM, Zietsch BP
Science 365 (6456) - [2019-08-30; online 2019-08-31]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Neuroticism as a predictor of frailty in old age: a genetically informative approach.
Danielsdottir HB, Jylhävä J, Hägg S, ..., Mosing MA, Lehto K
Psychosom Med - (-) - [2019-08-28; online 2019-08-28]
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PubMed DOI Crossref
DNA analysis of low- and high-density fractions defines heterogeneous subpopulations of small extracellular vesicles based on their DNA cargo and topology.
Lázaro-Ibáñez E, Lässer C, Shelke GV, ..., García-Rodríguez A, Lötvall J
J Extracell Vesicles 8 (1) 1656993 [2019-08-27; online 2019-08-27]
Integrated Microscopy Technologies Gothenburg [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Unique transcriptional and protein-expression signature in human lung tissue-resident NK cells.
Marquardt N, Kekäläinen E, Chen P, ..., Ljunggren HG, Michaëlsson J
Nat Commun 10 (1) 3841 [2019-08-26; online 2019-08-26]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Profiling surface proteins on individual exosomes using a proximity barcoding assay.
Wu D, Yan J, Shen X, ..., Landegren U, Kamali-Moghaddam M
Nat Commun 10 (1) 3854 [2019-08-26; online 2019-08-26]
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PubMed DOI Crossref
Array-Based Profiling of Proteins and Autoantibody Repertoires in CSF.
Pin E, Sjöberg R, Andersson E, ..., Nilsson P, Månberg A
Methods Mol. Biol. 2044 (-) 303-318 [2019-08-23; online 2019-08-23]
Autoimmunity and Serology Profiling [Technology development]
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The human transmembrane mucin MUC17 responds to TNFα by increased presentation at the plasma membrane.
Schneider H, Berger E, Dolan B, ..., Pelaseyed T, Hansson GC
Biochem. J. 476 (16) 2281-2295 [2019-08-22; online 2019-08-22]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Publisher Correction: Metabolic phenotype of breast-fed infants, and infants fed standard formula or bovine MFGM supplemented formula: a randomized controlled trial.
He X, Parenti M, Grip T, ..., Timby N, Slupsky CM
Sci Rep 9 (1) 12382 [2019-08-22; online 2019-08-22]
Swedish Metabolomics Centre (SMC) [Service]
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Syntaxin 5 Is Required for the Formation and Clearance of Protein Inclusions during Proteostatic Stress.
Babazadeh R, Ahmadpour D, Jia S, ..., Liu B, Nystrom T
Cell Rep 28 (8) 2096-2110.e8 [2019-08-20; online 2019-08-23]
Integrated Microscopy Technologies Gothenburg [Service]
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Separation of Isomeric O-Glycans by Ion Mobility and Liquid Chromatography-Mass Spectrometry.
Jin C, Harvey DJ, Struwe WB, Karlsson NG
Anal. Chem. 91 (16) 10604-10613 [2019-08-20; online 2019-08-01]
Glycoproteomics and MS Proteomics [Technology development]
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Molecular mimicry between Anoctamin 2 and Epstein-Barr virus nuclear antigen 1 associates with multiple sclerosis risk.
Tengvall K, Huang J, Hellström C, ..., Olsson T, Kockum I
Proc. Natl. Acad. Sci. U.S.A. 116 (34) 16955-16960 [2019-08-20; online 2019-08-02]
Autoimmunity and Serology Profiling [Collaborative]
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Molecular Basis and Ecological Relevance of Caulobacter Cell Filamentation in Freshwater Habitats.
Heinrich K, Leslie DJ, Morlock M, Bertilsson S, Jonas K
MBio 10 (4) - [2019-08-20; online 2019-08-20]
Global Proteomics and Proteogenomics [Service]
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Non-parametric combination analysis of multiple data types enables detection of novel regulatory mechanisms in T cells of multiple sclerosis patients.
Fernandes SJ, Morikawa H, Ewing E, ..., Tegnér J, Gomez-Cabrero D
Sci Rep 9 (1) 11996 [2019-08-19; online 2019-08-19]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genome-wide systematic identification of methyltransferase recognition and modification patterns.
Jensen TØ, Tellgren-Roth C, Redl S, ..., Pedersen LE, Nielsen AT
Nat Commun 10 (1) 3311 [2019-08-19; online 2019-08-19]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Matrisome Properties of Scaffolds Direct Fibroblasts in Idiopathic Pulmonary Fibrosis.
Elowsson Rendin L, Löfdahl A, Åhrman E, ..., Malmström J, Westergren-Thorsson G
Int J Mol Sci 20 (16) - [2019-08-17; online 2019-08-17]
Structural Proteomics [Collaborative]
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Toxic Activation of an AAA+ Protease by the Antibacterial Drug Cyclomarin A.
Maurer M, Linder D, Franke KB, ..., Bukau B, Mogk A
Cell Chem Biol 26 (8) 1169-1179.e4 [2019-08-15; online 2019-06-13]
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Joint and unique multiblock analysis of biological data - multiomics malaria study.
Surowiec I, Skotare T, Sjögren R, ..., Normark J, Trygg J
Faraday Discuss. 218 (0) 268-283 [2019-08-15; online 2019-05-24]
Swedish Metabolomics Centre (SMC) [Service]
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Complete Genome Sequence of Hydrocarbon-Degrading Halotolerant Acinetobacter radioresistens DD78, Isolated from the Aconcagua River Mouth in Central Chile.
Macaya CC, Méndez V, Durán RE, ..., Moore ERB, Seeger M
Microbiol Resour Announc 8 (33) - [2019-08-15; online 2019-08-15]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Genotyping by low-coverage whole-genome sequencing in intercross pedigrees from outbred founders: a cost-efficient approach.
Zan Y, Payen T, Lillie M, ..., Siegel PB, Carlborg Ö
Genet. Sel. Evol. 51 (1) 44 [2019-08-14; online 2019-08-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] Protein Science Facility (PSF) [Service]
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Statistical Analysis of Community RNA Transcripts between Organic Carbon and Geogas-Fed Continental Deep Biosphere Groundwaters.
Lopez-Fernandez M, Broman E, Simone D, Bertilsson S, Dopson M
MBio 10 (4) - [2019-08-13; online 2019-08-13]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Nucleation of an Activating Conformational Change by a Cation-π Interaction.
Rogne P, Andersson D, Grundström C, ..., Linusson A, Wolf-Watz M
Biochemistry 58 (32) 3408-3412 [2019-08-13; online 2019-07-29]
Swedish NMR Centre (SNC) [Service]
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Functional Identification of Target by Expression Proteomics (FITExP)
Gaetani M, Zubarev RA
- - (-) 257-266 [2019-08-13; online 2019-07-26]
Chemical Proteomics [Technology development]
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Glycosylation influences activity, stability and immobilization of the feruloyl esterase 1a from Myceliophthora thermophila.
Bonzom C, Hüttner S, Mirgorodskaya E, ..., Verhaert RMD, Olsson L
AMB Express 9 (1) 126 [2019-08-12; online 2019-08-12]
Glycoproteomics and MS Proteomics [Collaborative]
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PAK4 suppresses RELB to prevent senescence-like growth arrest in breast cancer.
Costa TDF, Zhuang T, Lorent J, ..., Defilippi P, Strömblad S
Nat Commun 10 (1) 3589 [2019-08-09; online 2019-08-09]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Lack of gene flow: Narrow and dispersed differentiation islands in a triplet of Leptidea butterfly species
Talla V, Johansson A, Dincă V, ..., Wiklund C, Backström N
Mol Ecol 28 (6) 3756-3770 [2019-08-08; online 2019-08-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Selective Enrichment of Phosphorylated Peptides by Monolithic Polymers Surface Imprinted with bis-Imidazolium Moieties by UV-Initiated Cryopolymerization.
Liu M, Torsetnes SB, Wierzbicka C, ..., Sellergren B, Irgum K
Anal. Chem. 91 (15) 10188-10196 [2019-08-06; online 2019-07-08]
Swedish NMR Centre (SNC) [Service]
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Deciphering Isomers with a Multiple Reaction Monitoring Method for the Complete Detectable O-Glycan Repertoire of the Candidate Therapeutic, Lubricin.
Flowers SA, Lane CS, Karlsson NG
Anal. Chem. 91 (15) 9819-9827 [2019-08-06; online 2019-07-11]
Glycoproteomics and MS Proteomics [Technology development]
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Classical Human Leukocyte Antigen Alleles and C4 Haplotypes Are Not Significantly Associated With Depression.
Glanville KP, Coleman JRI, Hanscombe KB, ..., O'Reilly PF, Lewis CM
Biol. Psychiatry - (-) - [2019-08-05; online 2019-08-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The Critical Role of Dysregulated RhoB Signaling Pathway in Radioresistance of Colorectal Cancer.
Liu N, Cui W, Jiang X, ..., Wang X, Sun XF
Int. J. Radiat. Oncol. Biol. Phys. 104 (5) 1153-1164 [2019-08-01; online 2019-04-27]
Cellular Immunomonitoring [Service]
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Mesenchymal stromal cell-derived nanovesicles ameliorate bacterial outer membrane vesicle-induced sepsis via IL-10.
Park KS, Svennerholm K, Shelke GV, ..., Gribonika I, Lötvall J
Stem Cell Res Ther 10 (1) 231 [2019-08-01; online 2019-08-01]
Integrated Microscopy Technologies Gothenburg [Service]
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Individual Physiological Adaptations Enable Selected Bacterial Taxa To Prevail during Long-Term Incubations.
Herlemann DPR, Markert S, Meeske C, ..., Jürgens K, Schweder T
Appl. Environ. Microbiol. 85 (15) - [2019-08-01; online 2019-07-18]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Gene Flow in the Müllerian Mimicry Ring of a Poisonous Papuan Songbird Clade (Pitohui; Aves).
Garg KM, Sam K, Chattopadhyay B, ..., Ericson PGP, Rheindt FE
Genome Biol Evol 11 (8) 2332-2343 [2019-08-01; online 2019-08-17]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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sTRAIL-R2 (Soluble TNF [Tumor Necrosis Factor]-Related Apoptosis-Inducing Ligand Receptor 2) a Marker of Plaque Cell Apoptosis and Cardiovascular Events.
Gonçalves I, Singh P, Tengryd C, ..., Nilsson J, Edsfeldt A
Stroke 50 (8) 1989-1996 [2019-08-00; online 2019-07-05]
Affinity Proteomics Stockholm [Service] Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service]
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Viral mimetic priming enhances α-synuclein-induced degeneration: Implications for Parkinson's disease.
Olsen LK, Cairns AG, Ådén J, ..., Dowd E, McKernan DP
Brain, Behavior, and Immunity 80 (-) 525-535 [2019-08-00; online 2019-04-25]
Swedish NMR Centre (SNC) [Service]
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Tobacco smoking induces changes in true DNA methylation, hydroxymethylation and gene expression in bronchoalveolar lavage cells.
Ringh MV, Hagemann-Jensen M, Needhamsen M, ..., Öckinger J, Ekström TJ
EBioMedicine 46 (-) 290-304 [2019-08-00; online 2019-07-12]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Systematic Development of Sandwich Immunoassays for the Plasma Secretome.
Häussler RS, Bendes A, Iglesias M, ..., Qundos U, Schwenk JM
Proteomics 19 (15) e1900008 [2019-08-00; online 2019-07-22]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Substantial Heritable Variation in Recombination Rate on Multiple Scales in Honeybees and Bumblebees.
Kawakami T, Wallberg A, Olsson A, ..., Rundlöf M, Webster MT
Genetics 212 (4) 1101-1119 [2019-08-00; online 2019-05-31]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Salinity drives meiofaunal community structure dynamics across the Baltic ecosystem.
Broman E, Raymond C, Sommer C, ..., Creer S, Nascimento FJA
Mol. Ecol. 28 (16) 3813-3829 [2019-08-00; online 2019-09-05]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Role of apolipoprotein C-III overproduction in diabetic dyslipidaemia.
Adiels M, Taskinen MR, Björnson E, ..., Packard C, Borén J
Diabetes Obes Metab 21 (8) 1861-1870 [2019-08-00; online 2019-05-08]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Reply to "CRISPR screens are feasible in TP53 wild-type cells".
Haapaniemi E, Botla S, Persson J, Schmierer B, Taipale J
Mol. Syst. Biol. 15 (8) e9059 [2019-08-00; online 2019-08-30]
CRISPR Functional Genomics [Collaborative]
PubMed DOI Crossref
Post-metaphase correction of aberrant kinetochore-microtubule attachments in mammalian eggs.
Kouznetsova A, Kitajima TS, Brismar H, Höög C
EMBO Rep. 20 (8) e47905 [2019-08-00; online 2019-07-10]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Molecular insights into hypomineralized enamel.
Malmberg P, Norén JG, Bernin D
Eur. J. Oral Sci. 127 (4) 340-346 [2019-08-00; online 2019-04-29]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Mixture toxicity effects and uptake of titanium dioxide (TiO 2) nanoparticles and 3,3',4,4'-tetrachlorobiphenyl (PCB77) in juvenile brown trout following co-exposure via the diet.
Lammel T, Wassmur B, Mackevica A, Chen CL, Sturve J
Aquat. Toxicol. 213 (-) 105195 [2019-08-00; online 2019-05-30]
Integrated Microscopy Technologies Gothenburg [Service]
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Microbial utilization of simple carbon substrates in boreal peat soils at low temperatures
Segura JH, Nilsson MB, Schleucher J, ..., Bertilsson S, Öquist MG
Soil Biology and Biochemistry 135 (-) 438-448 [2019-08-00; online 2019-08-00]
Bioinformatics Support for Computational Resources [Service] Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Maintenance of High Genome Integrity over Vegetative Growth in the Fairy-Ring Mushroom Marasmius oreades
Hiltunen M, Grudzinska-Sterno M, Wallerman O, Ryberg M, Johannesson H
Current Biology 29 (16) 2758-2765.e6 [2019-08-00; online 2019-08-00]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Linkage analysis revealed risk loci on 6p21 and 18p11.2-q11.2 in familial colon and rectal cancer, respectively.
von Holst S, Jiao X, Liu W, ..., Bryant P, Lindblom A
Eur. J. Hum. Genet. 27 (8) 1286-1295 [2019-08-00; online 2019-04-05]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Layer formation mechanism of K-feldspar in bubbling fluidized bed combustion of phosphorus-lean and phosphorus-rich residual biomass
Wagner K, Häggström G, Skoglund N, ..., Öhman M, Hofbauer H
Applied Energy 248 (-) 545-554 [2019-08-00; online 2019-08-00]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Joint Image Deconvolution and Separation Using Mixed Dictionaries.
Siadat M, Aghazadeh N, Akbarifard F, Brismar H, Oktem O
IEEE Trans. on Image Process. 28 (8) 3936-3945 [2019-08-00; online 2019-03-06]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
Interaction of Sox2 with RNA binding proteins in mouse embryonic stem cells
Samudyata , Amaral PP, Engström PG, ..., Kouzarides T, Castelo-Branco G
Experimental Cell Research 381 (1) 129-138 [2019-08-00; online 2019-08-00]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
In-hospital metabolite changes in infective endocarditis-a longitudinal 1H NMR-based study.
Klein CF, Holle SLK, Andersen MH, ..., Iversen KK, Malmendal A
Eur. J. Clin. Microbiol. Infect. Dis. 38 (8) 1553-1560 [2019-08-00; online 2019-05-22]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Goodbye reference, hello genome graphs.
Ameur A
Nat. Biotechnol. 37 (8) 866-868 [2019-08-00; online 2019-08-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Gas-Phase Collisions with Trimethylamine-N-Oxide Enable Activation-Controlled Protein Ion Charge Reduction.
Kaldmäe M, Österlund N, Lianoudaki D, ..., Marklund EG, Landreh M
J. Am. Soc. Mass Spectrom. 30 (8) 1385-1388 [2019-08-00; online 2019-07-08]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Early activating somatic PIK3CA mutations promote ectopic muscle development and upper limb overgrowth.
Frisk S, Taylan F, Blaszczyk I, ..., Laurell T, Nordgren A
Clin. Genet. 96 (2) 118-125 [2019-08-00; online 2019-05-09]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Complete subspecies-level phylogeny of the Oriolidae (Aves: Passeriformes): Out of Australasia and return.
Jønsson KA, Blom MPK, Marki PZ, ..., Ericson PGP, Irestedt M
Mol. Phylogenet. Evol. 137 (-) 200-209 [2019-08-00; online 2019-03-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Clinical protein science in translational medicine targeting malignant melanoma.
Gil J, Betancourt LH, Pla I, ..., Malm J, Marko-Varga G
Cell Biol. Toxicol. 35 (4) 293-332 [2019-08-00; online 2019-03-21]
Structural Proteomics [Service]
PubMed DOI Crossref
Circulating HER2/ErbB2 Levels Are Associated With Increased Incidence of Diabetes: A Population-Based Cohort Study.
Muhammad IF, Borné Y, Bao X, ..., Nilsson J, Engström G
Diabetes Care 42 (8) 1582-1588 [2019-08-00; online 2019-06-14]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
DOI Crossref
Boreal tree species affect soil organic matter composition and saprotrophic mineralization rates
Segura JH, Nilsson MB, Sparrman T, ..., Tolu J, Öquist MG
Plant Soil 441 (1-2) 173-190 [2019-08-00; online 2019-05-24]
Bioinformatics Support for Computational Resources [Service] Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Anti-tumor effects of PIM/PI3K/mTOR triple kinase inhibitor IBL-302 in neuroblastoma.
Mohlin S, Hansson K, Radke K, ..., von Stedingk K, Bexell D
EMBO Mol Med 11 (8) e10058 [2019-08-00; online 2019-07-16]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service] Structural Proteomics [Service]
PubMed DOI Crossref
A role for the auxin precursor anthranilic acid in root gravitropism via regulation of PIN-FORMED protein polarity and relocalisation in Arabidopsis.
Doyle SM, Rigal A, Grones P, ..., Novák O, Robert S
New Phytol. 223 (3) 1420-1432 [2019-08-00; online 2019-06-07]
Chemical Biology Consortium Sweden (CBCS) [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
31° South: The physiology of adaptation to arid conditions in a passerine bird.
Ribeiro ÂM, Puetz L, Pattinson NB, ..., Smit B, Gilbert MTP
Mol. Ecol. 28 (16) 3709-3721 [2019-08-00; online 2019-08-06]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Computational and Experimental Druggability Assessment of Human DNA Glycosylases.
Michel M, Visnes T, Homan EJ, ..., Warpman Berglund U, Helleday T
ACS Omega 4 (7) 11642-11656 [2019-07-31; online 2019-07-05]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Shared and Unique Patterns of DNA Methylation in Systemic Lupus Erythematosus and Primary Sjögren's Syndrome.
Imgenberg-Kreuz J, Almlöf JC, Leonard D, ..., Sandling JK, Nordmark G
Front Immunol 10 (-) 1686 [2019-07-30; online 2019-07-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Multiplex plasma protein profiling identifies novel markers to discriminate patients with adenocarcinoma of the lung.
Djureinovic D, Pontén V, Landelius P, ..., Micke P, Ståhle E
BMC Cancer 19 (1) 741 [2019-07-29; online 2019-07-29]
Affinity Proteomics Uppsala [Collaborative] Bioinformatics Support for Computational Resources [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
Impact of vitamin D and vitamin D receptor TaqI polymorphism in primary human myoblasts.
Saini A, Björkhem-Bergman L, Boström J, ..., Rullman E, Gustafsson T
Endocr Connect 8 (7) 1070-1081 [2019-07-29; online 2019-07-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
E3 ubiquitin-protein ligase TRIM21-mediated lysine capture by UBE2E1 reveals substrate-targeting mode of a ubiquitin-conjugating E2.
Anandapadamanaban M, Kyriakidis NC, Csizmók V, ..., Wahren-Herlenius M, Sunnerhagen M
J. Biol. Chem. 294 (30) 11404-11419 [2019-07-26; online 2019-06-03]
Protein Science Facility (PSF) [Collaborative]
PubMed DOI Crossref
Combinations of Spok genes create multiple meiotic drivers in Podospora.
Vogan AA, Ament-Velásquez SL, Granger-Farbos A, ..., Saupe SJ, Johannesson H
Elife 8 (-) - [2019-07-26; online 2019-07-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
TAF1, associated with intellectual disability in humans, is essential for embryogenesis and regulates neurodevelopmental processes in zebrafish.
Gudmundsson S, Wilbe M, Filipek-Górniok B, ..., Annerén G, Bondeson M
Sci Rep 9 (1) 10730 [2019-07-24; online 2019-07-24]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] Genome Engineering Zebrafish [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genomic differentiation tracks earth-historic isolation in an Indo-Australasian archipelagic pitta (Pittidae; Aves) complex.
Ericson PGP, Qu Y, Rasmussen PC, ..., Rheindt FE, Irestedt M
BMC Evol. Biol. 19 (1) 151 [2019-07-24; online 2019-07-24]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
α-synuclein-lipoprotein interactions and elevated ApoE level in cerebrospinal fluid from Parkinson's disease patients.
Paslawski W, Zareba-Paslawska J, Zhang X, ..., Andrén PE, Svenningsson P
Proc. Natl. Acad. Sci. U.S.A. 116 (30) 15226-15235 [2019-07-23; online 2019-07-03]
Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
Genetic analyses supporting colorectal, gastric, and prostate cancer syndromes.
Wallander K, Liu W, von Holst S, ..., Lindblom A, Lagerstedt-Robinson K
Genes Chromosomes Cancer - (-) - [2019-07-23; online 2019-07-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Annotations, Ontologies, and Whole Slide Images - Development of an Annotated Ontology-Driven Whole Slide Image Library of Normal and Abnormal Human Tissue.
Lindman K, Rose JF, Lindvall M, Lundström C, Treanor D
J Pathol Inform 10 (-) 22 [2019-07-23; online 2019-07-23]
AIDA Data Hub [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
Vitamin D and Phenylbutyrate Supplementation Does Not Modulate Gut Derived Immune Activation in HIV-1.
Missailidis C, Sørensen N, Ashenafi S, ..., Brighenti S, Bergman P
Nutrients 11 (7) 1675 [2019-07-21; online 2019-07-21]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Genome and plasmid diversity of Extended-Spectrum β-Lactamase-producing Escherichia coli ST131 - tracking phylogenetic trajectories with Bayesian inference.
Ny S, Sandegren L, Salemi M, Giske CG
Sci Rep 9 (1) 10291 [2019-07-16; online 2019-07-16]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
TGF-β family ligands exhibit distinct signalling dynamics that are driven by receptor localisation.
Miller DSJ, Schmierer B, Hill CS
J. Cell. Sci. 132 (14) - [2019-07-15; online 2019-07-15]
CRISPR Functional Genomics [Collaborative]
PubMed DOI Crossref
Structure-based mechanism for activation of the AAA+ GTPase McrB by the endonuclease McrC.
Nirwan N, Itoh Y, Singh P, ..., Amunts A, Saikrishnan K
Nat Commun 10 (1) 3058 [2019-07-11; online 2019-07-11]
Cryo-EM [Service]
PubMed DOI Crossref
Development, Optimization, and Validation of a High Throughput Screening Assay for Identification of Tat and Type II Secretion Inhibitors of Pseudomonas aeruginosa.
Massai F, Saleeb M, Doruk T, Elofsson M, Forsberg Å
Front. Cell. Infect. Microbiol. 9 (-) 250 [2019-07-10; online 2019-07-10]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Optical DNA Mapping Combined with Cas9-Targeted Resistance Gene Identification for Rapid Tracking of Resistance Plasmids in a Neonatal Intensive Care Unit Outbreak.
Bikkarolla SK, Nordberg V, Rajer F, ..., Sandegren L, Westerlund F
MBio 10 (4) - [2019-07-09; online 2019-07-09]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Systems-level immunomonitoring using self-sampled capillary blood
Josyula VS, Lakshmikanth T, Mikes J, Chen Y, Brodin P
- - (-) - [2019-07-08; online 2019-07-08]
Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Association between Copy Number Variation and Response to Social Skills Training in Autism Spectrum Disorder.
Tammimies K, Li D, Rabkina I, ..., Choque-Olsson N, Bölte S
Sci Rep 9 (1) 9810 [2019-07-08; online 2019-07-08]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
DOI Crossref
GUESSmyLT: Software to guess the RNA-Seq library type of paired and single end read files
Wik E, Olin H, Haughey C, Klasson L, Dainat J
JOSS 4 (39) 1344 [2019-07-07; online 2019-07-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Screening a Resource of Recombinant Protein Fragments for Targeted Proteomics.
Edfors F, Forsström B, Vunk H, ..., Schwenk JM, Uhlen M
J. Proteome Res. 18 (7) 2706-2718 [2019-07-05; online 2019-06-07]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Global gene expression analysis in etiolated and de-etiolated seedlings in conifers.
Ranade SS, Delhomme N, García-Gil MR
PLoS ONE 14 (7) e0219272 [2019-07-05; online 2019-07-05]
Bioinformatics Support for Computational Resources [Service] Cryo-EM [Service] Integrated Microscopy Technologies Umeå [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cryo-EM structure of the activated RET signaling complex reveals the importance of its cysteine-rich domain
Bigalke JM, Aibara S, Roth R, ..., Amunts A, Sandmark J
Sci Adv 5 (7) eaau4202 [2019-07-05; online 2019-07-05]
Cryo-EM [Service]
PubMed DOI Crossref
Comparison of boreal acid sulfate soil microbial communities in oxidative and reductive environments.
Christel S, Yu C, Wu X, ..., Åström ME, Dopson M
Res. Microbiol. 170 (6-7) 288-295 [2019-07-03; online 2019-07-03]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Streptococcus pyogenes evades adaptive immunity through specific IgG glycan hydrolysis.
Naegeli A, Bratanis E, Karlsson C, ..., Malmström J, Collin M
J. Exp. Med. 216 (7) 1615-1629 [2019-07-01; online 2019-05-15]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Serum metabolite profiles of habitual diet: evaluation by 1H-nuclear magnetic resonance analysis.
Lindqvist HM, Rådjursöga M, Malmodin D, Winkvist A, Ellegård L
Am. J. Clin. Nutr. 110 (1) 53-62 [2019-07-01; online 2019-05-28]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Efficient RNA silencing suppression activity of Potato Mop-Top Virus 8K protein is driven by variability and positive selection.
Kalyandurg PB, Tahmasebi A, Vetukuri RR, ..., Grenville-Briggs LJ, Savenkov EI
Virology 535 (-) 111-121 [2019-07-01; online 2019-07-01]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Androgen Receptor Burden and Poor Response to Abiraterone or Enzalutamide in TP53 Wild-Type Metastatic Castration-Resistant Prostate Cancer.
De Laere B, Rajan P, Grönberg H, ..., Lindberg J, CORE-ARV-CTC and ProBIO Investigators
JAMA Oncol 5 (7) 1060-1062 [2019-07-01; online 2019-05-03]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Transcriptome analysis of shade avoidance and shade tolerance in conifers.
Ranade SS, Delhomme N, García-Gil MR
Planta 250 (1) 299-318 [2019-07-00; online 2019-04-26]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transcriptional and metabolic rewiring of colorectal cancer cells expressing the oncogenic KRASG13D mutation.
Charitou T, Srihari S, Lynn MA, ..., Kolch W, Lynn DJ
Br. J. Cancer 121 (1) 37-50 [2019-07-00; online 2019-05-28]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The molecular pathogenesis of superoxide dismutase 1-linked ALS is promoted by low oxygen tension.
Keskin I, Forsgren E, Lehmann M, ..., Marklund SL, Gilthorpe JD
Acta Neuropathol. 138 (1) 85-101 [2019-07-00; online 2019-03-12]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
The cholesterol transfer protein GRAMD1A regulates autophagosome biogenesis.
Laraia L, Friese A, Corkery DP, ..., Wu YW, Waldmann H
Nat. Chem. Biol. 15 (7) 710-720 [2019-07-00; online 2019-06-20]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
The autoimmune targets in IPEX are dominated by gut epithelial proteins
Eriksson D, Bacchetta R, Gunnarsson HI, ..., Kämpe O, Landegren N
Journal of Allergy and Clinical Immunology 144 (1) 327-330.e8 [2019-07-00; online 2019-07-00]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
TRAF6 function as a novel co-regulator of Wnt3a target genes in prostate cancer
Aripaka K, Gudey SK, Zang G, ..., von Hofsten J, Landström M
EBioMedicine 45 (-) 192-207 [2019-07-00; online 2019-07-00]
Affinity Proteomics Uppsala [Service] PLA and Single Cell Proteomics [Service]
DOI Crossref
Surface activated polyethylene separator promoting Li+ ion transport in gel polymer electrolytes and cycling stability of Li-metal anode
Qiu Z, Shi L, Wang Z, ..., Zhao Y, Yuan S
Chemical Engineering Journal 368 (-) 321-330 [2019-07-00; online 2019-07-00]
Bioinformatics Support for Computational Resources [Service] Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Structural basis of inhibition of the human serine hydroxymethyltransferase SHMT2 by antifolate drugs.
Scaletti E, Jemth AS, Helleday T, Stenmark P
FEBS Lett. 593 (14) 1863-1873 [2019-07-00; online 2019-06-10]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Specific amino acid substitutions in β strand S2 of FtsZ cause spiraling septation and impair assembly cooperativity in Streptomyces spp.
Sen BC, Wasserstrom S, Findlay K, ..., von Wachenfeldt C, Flärdh K
Mol. Microbiol. 112 (1) 184-198 [2019-07-00; online 2019-05-17]
Cryo-EM [Collaborative] Integrated Microscopy Technologies Umeå
PubMed DOI Crossref
Single cell analysis of autism patient with bi-allelic NRXN1-alpha deletion reveals skewed fate choice in neural progenitors and impaired neuronal functionality
Lam M, Moslem M, Bryois J, ..., Sullivan PF, Falk A
Experimental Cell Research 383 (1) 111469 [2019-07-00; online 2019-07-00]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
OPENER Is a Nuclear Envelope and Mitochondria Localized Protein Required for Cell Cycle Progression in Arabidopsis.
Wang W, Zhang X, Niittylä T
Plant Cell 31 (7) 1446-1465 [2019-07-00; online 2019-04-25]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Mutation dynamics of CpG dinucleotides during a recent event of vertebrate diversification.
Pértille F, Da Silva VH, Johansson AM, ..., Jensen P, Guerrero-Bosagna C
Epigenetics 14 (7) 685-707 [2019-07-00; online 2019-05-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Image Analysis in Digital Pathology: Combining Automated Assessment of Ki67 Staining Quality with Calculation of Ki67 Cell Proliferation Index.
Bengtsson E, Ranefall P
Cytometry A 95 (7) 714-716 [2019-07-00; online 2018-12-03]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
PubMed DOI Crossref
Hemostatic Genes Exhibit a High Degree of Allele-Specific Regulation in Liver.
Olsson Lindvall M, Hansson L, Klasson S, ..., Jern C, Stanne TM
Thromb. Haemost. 119 (7) 1072-1083 [2019-07-00; online 2019-04-29]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Systems Biology [Collaborative]
PubMed DOI Crossref
Expanding the phenotypic spectrum of osteogenesis imperfecta type V including heterotopic ossification of muscle origins and attachments.
Clewemar P, Hailer NP, Hailer Y, ..., Ljunggren Ö, Stattin EL
Mol Genet Genomic Med 7 (7) e00723 [2019-07-00; online 2019-05-16]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Uppsala [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Epigenome-wide association study of lung function level and its change.
Imboden M, Wielscher M, Rezwan FI, ..., Jarvis D, Probst-Hensch NM
Eur. Respir. J. 54 (1) - [2019-07-00; online 2019-07-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Development of parallel reaction monitoring assays for cerebrospinal fluid proteins associated with Alzheimer's disease.
Andersson A, Remnestål J, Nellgård B, ..., Nilsson P, Fredolini C
Clin. Chim. Acta 494 (-) 79-93 [2019-07-00; online 2019-03-09]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Confident phylogenetic identification of uncultured prokaryotes through long read amplicon sequencing of the 16S-ITS-23S rRNA operon.
Martijn J, Lind AE, Schön ME, ..., Pettersson OV, Ettema TJG
Environ. Microbiol. 21 (7) 2485-2498 [2019-07-00; online 2019-05-07]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Choroid plexus transcriptome and ultrastructure analysis reveals a TLR2-specific chemotaxis signature and cytoskeleton remodeling in leukocyte trafficking.
Mottahedin A, Joakim Ek C, Truvé K, Hagberg H, Mallard C
Brain, Behavior, and Immunity 79 (-) 216-227 [2019-07-00; online 2019-02-26]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
BACH1 Stabilization by Antioxidants Stimulates Lung Cancer Metastasis
Wiel C, Le Gal K, Ibrahim MX, ..., Sayin VI, Bergo MO
Cell 178 (2) 330-345.e22 [2019-07-00; online 2019-07-00]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Analyzing DNA methylation patterns in subjects diagnosed with schizophrenia using machine learning methods.
Torabi Moghadam B, Etemadikhah M, Rajkowska G, ..., Feuk L, Carlström EL
J Psychiatr Res 114 (-) 41-47 [2019-07-00; online 2019-04-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
1H NMR profiling of the 6-OHDA parkinsonian rat brain reveals metabolic alterations and signs of recovery after N-acetylcysteine treatment.
Virel A, Dudka I, Laterveer R, Af Bjerkén S
Molecular and Cellular Neuroscience 98 (-) 131-139 [2019-07-00; online 2019-06-12]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Insights into the Exfoliation Process of V2O5·nH2O Nanosheet Formation Using Real-Time 51V NMR.
Etman AS, Pell AJ, Svedlindh P, ..., Sun J, Bernin D
ACS Omega 4 (6) 10899-10905 [2019-06-30; online 2019-06-24]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Influence of ABO Locus on PFA-100 Collagen-ADP Closure Time Is Not Totally Dependent on the Von Willebrand Factor. Results of a GWAS on GAIT-2 Project Phenotypes.
Pujol-Moix N, Martinez-Perez A, Sabater-Lleal M, ..., Souto JC, Soria JM
Int J Mol Sci 20 (13) - [2019-06-30; online 2019-06-30]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Allelic Variation in Taste Genes Is Associated with Taste and Diet Preferences and Dental Caries.
Eriksson L, Esberg A, Haworth S, Holgerson PL, Johansson I
Nutrients 11 (7) - [2019-06-29; online 2019-06-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exploring Molecular Signs of Sex in the Marine Diatom Skeletonema marinoi.
Ferrante MI, Entrambasaguas L, Johansson M, ..., Montresor M, Godhe A
Genes 10 (7) - [2019-06-28; online 2019-06-28]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Comment on 'AIRE-deficient patients harbor unique high-affinity disease-ameliorating autoantibodies'.
Landegren N, Rosen LB, Freyhult E, ..., Anderson M, Kämpe O
Elife 8 (-) - [2019-06-27; online 2019-06-27]
Autoimmunity and Serology Profiling [Service] Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Pharmacogenomics of statin-related myopathy: Meta-analysis of rare variants from whole-exome sequencing.
Floyd JS, Bloch KM, Brody JA, ..., Alfirevic A, PREDICTION-ADR Consortium and EUDRAGENE
PLoS ONE 14 (6) e0218115 [2019-06-26; online 2019-06-26]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genomic Characterization of the Emerging Pathogen Streptococcus pseudopneumoniae.
Garriss G, Nannapaneni P, Simões AS, ..., de Lencastre H, Henriques-Normark B
MBio 10 (3) - [2019-06-25; online 2019-06-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide analysis of dental caries and periodontitis combining clinical and self-reported data.
Shungin D, Haworth S, Divaris K, ..., Timpson NJ, Johansson I
Nat Commun 10 (1) 2773 [2019-06-24; online 2019-06-24]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of Salivary Microbiota and Its Association With Host Inflammatory Mediators in Periodontitis.
Lundmark A, Hu YOO, Huss M, ..., Andersson AF, Yucel-Lindberg T
Front. Cell. Infect. Microbiol. 9 (-) 216 [2019-06-21; online 2019-06-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A quantitative Streptococcus pyogenes-human protein-protein interaction map reveals localization of opsonizing antibodies.
Happonen L, Hauri S, Svensson Birkedal G, ..., Malmström L, Malmström J
Nat Commun 10 (1) 2727 [2019-06-21; online 2019-06-21]
Structural Proteomics [Technology development]
DOI Crossref
Shotgun Environmental DNA, Pollen, and Macrofossil Analysis of Lateglacial Lake Sediments From Southern Sweden
Parducci L, Alsos IG, Unneberg P, ..., Slotte T, Wohlfarth B
Front. Ecol. Evol. 7 (-) 189 [2019-06-20; online 2019-06-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Proteomic profiling of extracellular vesicles reveals additional diagnostic biomarkers for myocardial infarction compared to plasma alone.
Gidlöf O, Evander M, Rezeli M, ..., Laurell T, Erlinge D
Sci Rep 9 (1) 8991 [2019-06-20; online 2019-06-20]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Peptide-Loaded Cubosomes Functioning as an Antimicrobial Unit against Escherichia coli.
Boge L, Browning KL, Nordström R, ..., Ringstad L, Andersson M
ACS Appl Mater Interfaces 11 (24) 21314-21322 [2019-06-19; online 2019-06-04]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Comparative genomics of Mycobacterium mucogenicum and Mycobacterium neoaurum clade members emphasizing tRNA and non-coding RNA.
Behra PRK, Pettersson BMF, Das S, Dasgupta S, Kirsebom LA
BMC Evol. Biol. 19 (1) 124 [2019-06-18; online 2019-06-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Ouabain-regulated phosphoproteome reveals molecular mechanisms for Na+, K+–ATPase control of cell adhesion, proliferation, and survival
Panizza E, Zhang L, Fontana JM, ..., Lehtiö J, Aperia A
The FASEB Journal - (-) fj.201900445R [2019-06-14; online 2019-06-14]
Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Technology development] Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Microbiota data from low biomass milk samples is markedly affected by laboratory and reagent contamination.
Dahlberg J, Sun L, Persson Waller K, ..., Agenäs S, Dicksved J
PLoS ONE 14 (6) e0218257 [2019-06-13; online 2019-06-13]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Improved phylogenomic sampling of free-living nematodes enhances resolution of higher-level nematode phylogeny.
Smythe AB, Holovachov O, Kocot KM
BMC Evol. Biol. 19 (1) 121 [2019-06-13; online 2019-06-13]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Modeling Motor Neuron Resilience in ALS Using Stem Cells.
Allodi I, Nijssen J, Benitez JA, ..., Kiehn O, Hedlund E
Stem Cell Reports 12 (6) 1329-1341 [2019-06-11; online 2019-05-09]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The effect of Wolbachia on gene expression in Drosophila paulistorum and its implications for symbiont-induced host speciation.
Baião GC, Schneider DI, Miller WJ, Klasson L
BMC Genomics 20 (1) 465 [2019-06-07; online 2019-06-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatiotemporal structure of cell fate decisions in murine neural crest
Soldatov R, Kaucka M, Kastriti ME, ..., Kharchenko PV, Adameyko I
Science 364 (6444) eaas9536 [2019-06-07; online 2019-06-07]
Eukaryotic Single Cell Genomics (ESCG) [Service] In Situ Sequencing (ISS) [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Systematic assessment of antibody selectivity in plasma based on a resource of enrichment profiles.
Fredolini C, Byström S, Sanchez-Rivera L, ..., Lehtiö J, Schwenk JM
Sci Rep 9 (1) 8324 [2019-06-06; online 2019-06-06]
Affinity Proteomics Stockholm [Technology development] Autoimmunity and Serology Profiling [Technology development] Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Structural Basis for YjbH Adaptor-Mediated Recognition of Transcription Factor Spx.
Awad W, Al-Eryani Y, Ekström S, Logan DT, von Wachenfeldt C
Structure 27 (6) 923-936.e6 [2019-06-04; online 2019-04-11]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Dietary Pattern Specific Protein Biomarkers for Cardiovascular Disease: A Cross-Sectional Study in 2 Independent Cohorts.
Warensjö Lemming E, Byberg L, Stattin K, ..., Wolk A, Michaëlsson K
J Am Heart Assoc 8 (11) e011860 [2019-06-04; online 2019-06-01]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Dysregulated autophagy in muscle precursor cells from humans with type 2 diabetes.
Henriksen TI, Wigge LV, Nielsen J, ..., Sandri M, Scheele C
Sci Rep 9 (1) 8169 [2019-06-03; online 2019-06-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
PubMed DOI Crossref
Recombinant dermatan sulfate is a potent activator of heparin cofactor II-dependent inhibition of thrombin.
Tykesson E, Maccarana M, Thorsson H, ..., Ellervik U, Westergren-Thorsson G
Glycobiology 29 (6) 446-451 [2019-06-01; online 2019-03-15]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Nitrogen dynamics of decomposing Scots pine needle litter depends on colonizing fungal species.
Baskaran P, Ekblad A, Soucémarianadin LN, ..., Schleucher J, Lindahl BD
FEMS Microbiol. Ecol. 95 (6) - [2019-06-01; online 2019-05-10]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Multiancestry Genome-Wide Association Study of Lipid Levels Incorporating Gene-Alcohol Interactions.
de Vries PS, Brown MR, Bentley AR, ..., Rao DC, Morrison AC
Am. J. Epidemiol. 188 (6) 1033-1054 [2019-06-01; online 2019-01-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Integrated epigenomic and transcriptomic analysis reveals TP63 as a novel player in clinically aggressive chronic lymphocytic leukemia.
Papakonstantinou N, Ntoufa S, Tsagiopoulou M, ..., Rosenquist R, Stamatopoulos K
Int. J. Cancer 144 (11) 2695-2706 [2019-06-01; online 2019-01-15]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genome-based epidemiology and antimicrobial resistance determinants of Neisseria gonorrhoeae isolates with decreased susceptibility and resistance to extended-spectrum cephalosporins in Argentina in 2011-16.
Gianecini RA, Golparian D, Zittermann S, ..., Galarza P, Gonococcal Antimicrobial Susceptibility Surveillance Programme-Argentina (GASSP-AR) Working Group
J. Antimicrob. Chemother. 74 (6) 1551-1559 [2019-06-01; online 2019-03-02]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
β-Mannosidosis caused by a novel homozygous intragenic inverted duplication in MANBA.
Blomqvist M, Smeland MF, Lindgren J, ..., Riise Stensland HMF, Asin-Cayuela J
Cold Spring Harb Mol Case Stud 5 (3) a003954 [2019-06-00; online 2019-06-03]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Unprecedented reorganization of holocentric chromosomes provides insights into the enigma of lepidopteran chromosome evolution.
Hill J, Rastas P, Hornett EA, ..., Nylin S, Wheat CW
Sci Adv 5 (6) eaau3648 [2019-06-00; online 2019-06-12]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transcriptomic correlates of electrophysiological and morphological diversity within and across excitatory and inhibitory neuron classes.
Bomkamp C, Tripathy SJ, Bengtsson Gonzales C, ..., Craig AM, Pavlidis P
PLoS Comput. Biol. 15 (6) e1007113 [2019-06-00; online 2019-06-18]
Eukaryotic Single Cell Genomics (ESCG) [Service]
PubMed DOI Crossref
Tracking Microscope Performance: A Workflow to Compare Point Spread Function Evaluations Over Time.
Klemm AH, Thomae AW, Wachal K, Dietzel S
Microsc Microanal 25 (3) 699-704 [2019-06-00; online 2019-02-06]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
PubMed DOI Crossref
The effects of male social environment on sperm phenotype and genome integrity.
Silva WTAF, Sáez-Espinosa P, Torijo-Boix S, ..., Gómez-Torres MJ, Immler S
J. Evol. Biol. 32 (6) 535-544 [2019-06-00; online 2019-03-25]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Staphylococcus aureus isolates from nares of orthopaedic patients in Sweden are mupirocin susceptible.
Magnusson C, Stegger M, Hellmark B, Stenmark B, Söderquist B
Infect Dis (Lond) 51 (6) 475-478 [2019-06-00; online 2019-04-15]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Somatic alterations detected in diagnostic prostate biopsies provide an inadequate representation of multifocal prostate cancer.
Kristiansen A, Bergström R, Delahunt B, ..., Egevad L, Lindberg J
Prostate 79 (8) 920-928 [2019-06-00; online 2019-03-25]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Single-Cell RNA Sequencing of the T Helper Cell Response to House Dust Mites Defines a Distinct Gene Expression Signature in Airway Th2 Cells
Tibbitt CA, Stark JM, Martens L, ..., Saeys Y, Coquet JM
Immunity 51 (1) 169-184.e5 [2019-06-00; online 2019-06-00]
Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mutations in the mitochondrial tryptophanyl-tRNA synthetase cause growth retardation and progressive leukoencephalopathy.
Maffezzini C, Laine I, Dallabona C, ..., Wredenberg A, Wedell A
Mol Genet Genomic Med 7 (6) e654 [2019-06-00; online 2019-03-28]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Lipopolysaccharide-induced alteration of mitochondrial morphology induces a metabolic shift in microglia modulating the inflammatory response in vitro and in vivo.
Nair S, Sobotka KS, Joshi P, ..., Mallard C, Hagberg H
Glia 67 (6) 1047-1061 [2019-06-00; online 2019-01-13]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Identification of DNA methylation patterns predisposing for an efficient response to BCG vaccination in healthy BCG-naïve subjects.
Das J, Verma D, Gustafsson M, Lerm M
Epigenetics 14 (6) 589-601 [2019-06-00; online 2019-04-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic basis of amphibian larval development along a latitudinal gradient: Gene diversity, selection and links with phenotypic variation in transcription factor C/EBP-1.
Meyer-Lucht Y, Luquet E, Jóhannesdóttir F, ..., Höglund J, Laurila A
Mol. Ecol. 28 (11) 2786-2801 [2019-06-00; online 2019-06-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Gene fusion involving the insulin-like growth factor 1 receptor in an ALK-negative inflammatory myofibroblastic tumour.
Piarulli G, Puls F, Wängberg B, ..., Arbajian E, Mertens F
Histopathology 74 (7) 1098-1102 [2019-06-00; online 2019-04-24]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Further support linking the 22q11.2 microduplication to an increased risk of bladder exstrophy and highlighting LZTR1 as a candidate gene.
Lundin J, Markljung E, Baranowska Körberg I, ..., Lindstrand A, Nordenskjöld A
Mol Genet Genomic Med 7 (6) e666 [2019-06-00; online 2019-05-01]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Detecting selection signatures in three Iranian sheep breeds.
Manzari Z, Mehrabani-Yeganeh H, Nejati-Javaremi A, Moradi MH, Gholizadeh M
Anim Genet 50 (3) 298-302 [2019-06-00; online 2019-03-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
DSeg: A Dynamic Image Segmentation Program to Extract Backbone Patterns for Filamentous Bacteria and Hyphae Structures.
Zhang H, Söderholm N, Sandblad L, Wiklund K, Andersson M
Microsc Microanal 25 (3) 711-719 [2019-06-00; online 2019-03-21]
Cryo-EM [Technology development]
PubMed DOI Crossref
Crystal structure of the catalytic domain of the Weissella oryzae botulinum‐like toxin
Košenina S, Masuyer G, Zhang S, Dong M, Stenmark P
FEBS Lett 593 (12) 1403-1410 [2019-06-00; online 2019-05-31]
Bioinformatics Support for Computational Resources [Service] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Circulating mast cell progenitors correlate with reduced lung function in allergic asthma.
Salomonsson M, Malinovschi A, Kalm-Stephens P, ..., Alving K, Hallgren J
Clin Exp Allergy 49 (6) 874-882 [2019-06-00; online 2019-03-21]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Can markers of biological age predict dependency in old age?
Jylhävä J, Jiang M, Foebel AD, Pedersen NL, Hägg S
Biogerontology 20 (3) 321-329 [2019-06-00; online 2019-01-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Bax to the future - A novel, high-yielding approach for purification and expression of full-length Bax protein for structural studies.
Dingeldein APG, Lindberg MJ, Ådén J, ..., Stoll R, Gröbner G
Protein Expression and Purification 158 (-) 20-26 [2019-06-00; online 2019-02-06]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Assembly mechanisms of the bacterial cytoskeletal protein FilP.
Javadi A, Söderholm N, Olofsson A, Flärdh K, Sandblad L
Life Sci. Alliance 2 (3) e201800290 [2019-06-00; online 2019-06-26]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Alterations in the metabolism of phospholipids, bile acids and branched-chain amino acids predicts development of type 2 diabetes in black South African women: a prospective cohort study.
Zeng Y, Mtintsilana A, Goedecke JH, ..., Olsson T, Chorell E
Metabolism 95 (-) 57-64 [2019-06-00; online 2019-04-04]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
A targeted proteomics approach reveals a serum protein signature as diagnostic biomarker for resectable gastric cancer.
Shen Q, Polom K, Williams C, ..., Roviello F, Kamali-Moghaddam M
EBioMedicine 44 (-) 322-333 [2019-06-00; online 2019-05-28]
Affinity Proteomics Uppsala [Technology development] Bioinformatics Support for Computational Resources [Service] Clinical Biomarkers [Service] Glycoproteomics and MS Proteomics [Collaborative] PLA and Single Cell Proteomics [Technology development]
PubMed DOI Crossref
A novel RAD21 p.(Gln592del) variant expands the clinical description of Cornelia de Lange syndrome type 4 - Review of the literature.
Gudmundsson S, Annerén G, Marcos-Alcalde Í, ..., Gómez-Puertas P, Bondeson ML
Eur J Med Genet 62 (6) 103526 [2019-06-00; online 2018-08-17]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
A catalog of genetic loci associated with kidney function from analyses of a million individuals.
Wuttke M, Li Y, Li M, ..., Köttgen A, Pattaro C
Nat. Genet. 51 (6) 957-972 [2019-06-00; online 2019-05-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Call for Blood—In Human Immunology
Brodin P, Duffy D, Quintana-Murci L
Immunity 50 (6) 1335-1336 [2019-06-00; online 2019-06-00]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Plasma protein profiling reveals candidate biomarkers for multiple sclerosis treatment.
Bedri SK, Nilsson OB, Fink K, ..., Grönlund H, Glaser A
PLoS ONE 14 (5) e0217208 [2019-05-29; online 2019-05-29]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
A urinary extracellular vesicle microRNA biomarker discovery pipeline; from automated extracellular vesicle enrichment by acoustic trapping to microRNA sequencing.
Ku A, Ravi N, Yang M, ..., Lilja H, Ceder Y
PLoS ONE 14 (5) e0217507 [2019-05-29; online 2019-05-29]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Serum Metabolite Markers of Dementia Through Quantitative NMR Analysis: The Importance of Threonine-Linked Metabolic Pathways.
Figueira J, Adolfsson R, Nordin Adolfsson A, Nyberg L, Öhman A
J. Alzheimers Dis. 69 (3) 763-774 [2019-05-28; online 2019-05-28]
Bioinformatics Support for Computational Resources [Service] Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
A phototherapeutic fluorescent β-cyclodextrin branched polymer delivering nitric oxide.
Malanga M, Seggio M, Kirejev V, ..., Ericson MB, Sortino S
Biomater Sci 7 (6) 2272-2276 [2019-05-28; online 2019-04-30]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
The viral protein corona directs viral pathogenesis and amyloid aggregation.
Ezzat K, Pernemalm M, Pålsson S, ..., Spetz AL, El Andaloussi S
Nat Commun 10 (1) 2331 [2019-05-27; online 2019-05-27]
Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Barcoded Consortium Infections Resolve Cell Type-Dependent Salmonella enterica Serovar Typhimurium Entry Mechanisms.
Di Martino ML, Ek V, Hardt WD, Eriksson J, Sellin ME
MBio 10 (3) - [2019-05-21; online 2019-05-21]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Distinct glycosylation in membrane proteins within neonatal versus adult myocardial tissue.
Contessotto P, Ellis BW, Jin C, ..., Kilcoyne M, Pandit A
Matrix Biol. - (-) - [2019-05-17; online 2019-05-17]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Circulating Levels of Interferon Regulatory Factor-5 Associates With Subgroups of Systemic Lupus Erythematosus Patients.
Idborg H, Zandian A, Ossipova E, ..., Svenungsson E, Jakobsson PJ
Front Immunol 10 (-) 1029 [2019-05-17; online 2019-05-17]
Affinity Proteomics Stockholm [Collaborative] Drug Discovery and Development (DDD) [Collaborative] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Ultrasensitive Immunoprofiling of Plasma Extracellular Vesicles Identifies Syndecan-1 as a Potential Tool for Minimally Invasive Diagnosis of Glioma.
Indira Chandran V, Welinder C, Månsson AS, ..., Sundgren PC, Belting M
Clin. Cancer Res. 25 (10) 3115-3127 [2019-05-15; online 2019-01-24]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Global Proteomics and Proteogenomics [Technology development] Structural Proteomics [Service]
PubMed DOI Crossref
Biomarkers of blood cadmium and incidence of cardiovascular events in non-smokers: results from a population-based proteomics study.
Borné Y, Fagerberg B, Sallsten G, ..., Barregard L, Engström G
Clin Proteomics 16 (1) 21 [2019-05-15; online 2019-05-15]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Ancient DNA from mastics solidifies connection between material culture and genetics of mesolithic hunter-gatherers in Scandinavia.
Kashuba N, Kırdök E, Damlien H, ..., Persson P, Götherström A
Commun Biol 2 (-) 185 [2019-05-15; online 2019-05-15]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mic60 exhibits a coordinated clustered distribution along and across yeast and mammalian mitochondria.
Stoldt S, Stephan T, Jans DC, ..., Hell SW, Jakobs S
Proc. Natl. Acad. Sci. U.S.A. 116 (20) 9853-9858 [2019-05-14; online 2019-04-26]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Metabolic profiling of zebrafish embryo development from blastula period to early larval stages.
Dhillon SS, Torell F, Donten M, ..., Trygg J, Lundstedt T
PLoS ONE 14 (5) e0213661 [2019-05-14; online 2019-05-14]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Genetic variation in CADM2 as a link between psychological traits and obesity.
Morris J, Bailey MES, Baldassarre D, ..., Smith DJ, Strawbridge RJ
Sci Rep 9 (1) 7339 [2019-05-14; online 2019-05-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Adult Neural Progenitor Cells Transplanted into Spinal Cord Injury Differentiate into Oligodendrocytes, Enhance Myelination, and Contribute to Recovery.
Sankavaram SR, Hakim R, Covacu R, ..., Svensson M, Brundin L
Stem Cell Reports 12 (5) 950-966 [2019-05-14; online 2019-04-25]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Automated Cell Processing for Mass Cytometry Experiments.
Mikes J, Olin A, Lakshmikanth T, Chen Y, Brodin P
Methods Mol. Biol. 1989 (-) 111-123 [2019-05-12; online 2019-05-12]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Cardiovascular organ damage in type 2 diabetes mellitus: the role of lipids and inflammation.
Kozakova M, Morizzo C, Goncalves I, ..., Nilsson J, Palombo C
Cardiovasc Diabetol 18 (1) 61 [2019-05-10; online 2019-05-10]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Wnt5a is a TLR2/4-ligand that induces tolerance in human myeloid cells.
Mehmeti M, Bergenfelz C, Källberg E, ..., André I, Leandersson K
Commun Biol 2 (1) 176 [2019-05-09; online 2019-05-09]
Structural Proteomics [Service]
PubMed DOI Crossref
Protic Ionic Liquids Based on the Alkyl-Imidazolium Cation: Effect of the Alkyl Chain Length on Structure and Dynamics.
Abdurrokhman I, Elamin K, Danyliv O, ..., Swenson J, Martinelli A
J. Phys. Chem. B 123 (18) 4044-4054 [2019-05-09; online 2019-04-30]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Periodontal Health and Oral Microbiota in Patients with Rheumatoid Arthritis.
Eriksson K, Fei G, Lundmark A, ..., Jansson L, Yucel-Lindberg T
J Clin Med 8 (5) - [2019-05-08; online 2019-05-08]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Shared Genetic Risk Factors Across Carbamazepine-Induced Hypersensitivity Reactions.
Nicoletti P, Barrett S, McEvoy L, ..., Alfirevic A, Pirmohamed M
Clin. Pharmacol. Ther. - (-) - [2019-05-07; online 2019-05-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetical Genomics of Tonic Immobility in the Chicken.
Fogelholm J, Inkabi S, Höglund A, ..., Henriksen R, Wright D
Genes 10 (5) - [2019-05-07; online 2019-05-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mass Cytometry Identifies Distinct Subsets of Regulatory T Cells and Natural Killer Cells Associated With High Risk for Type 1 Diabetes.
Barcenilla H, Åkerman L, Pihl M, Ludvigsson J, Casas R
Front Immunol 10 (-) 982 [2019-05-03; online 2019-05-03]
Cellular Immunomonitoring [Service]
PubMed DOI Crossref
Sensory receptor repertoire in cyprid antennules of the barnacle Balanus improvisus.
Abramova A, Alm Rosenblad M, Blomberg A, Larsson TA
PLoS ONE 14 (5) e0216294 [2019-05-02; online 2019-05-02]
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SpotLight Proteomics-A IgG-Enrichment Phenotype Profiling Approach with Clinical Implications.
Lundström SL, Heyder T, Wiklundh E, ..., Grunewald J, Zubarev RA
Int J Mol Sci 20 (9) 2157 [2019-05-01; online 2019-05-01]
Chemical Proteomics [Technology development]
PubMed DOI Crossref
Software engineering for scientific big data analysis.
Grüning BA, Lampa S, Vaudel M, Blankenberg D
Gigascience 8 (5) - [2019-05-01; online 2019-05-24]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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SciPipe: A workflow library for agile development of complex and dynamic bioinformatics pipelines.
Lampa S, Dahlö M, Alvarsson J, Spjuth O
Gigascience 8 (5) - [2019-05-01; online 2019-04-28]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support and Infrastructure [Technology development] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Technology development]
PubMed DOI Crossref
Prompt apoptotic response to high glucose in SGLT-expressing renal cells.
Nilsson LM, Zhang L, Bondar A, ..., Scott L, Aperia A
Am. J. Physiol. Renal Physiol. 316 (5) F1078-F1089 [2019-05-01; online 2019-03-13]
Bioinformatics Support for Computational Resources [Service] Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Identification of a non-canonical chondroitin sulfate linkage region trisaccharide.
Persson A, Nilsson J, Vorontsov E, Noborn F, Larson G
Glycobiology 29 (5) 366-371 [2019-05-01; online 2019-03-03]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
How Linked Selection Shapes the Diversity Landscape in Ficedula Flycatchers
Rettelbach A, Nater A, Ellegren H
Genetics 212 (1) 277-285 [2019-05-01; online 2019-03-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Comparative analyses identify genomic features potentially involved in the evolution of birds-of-paradise.
Prost S, Armstrong EE, Nylander J, ..., Ericson PGP, Irestedt M
Gigascience 8 (5) - [2019-05-01; online 2019-01-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Chromosomal genome assembly of the ethanol production strain CBS 11270 indicates a highly dynamic genome structure in the yeast species Brettanomyces bruxellensis.
Tiukova IA, Pettersson ME, Hoeppner MP, ..., Söderberg J, Passoth V
PLoS ONE 14 (5) e0215077 [2019-05-01; online 2019-05-01]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatial proteomics: a powerful discovery tool for cell biology.
Lundberg E, Borner GHH
Nat Rev Mol Cell Biol 20 (5) 285-302 [2019-05-00; online 2019-01-20]
Spatial Proteomics [Collaborative]
PubMed DOI Crossref
Pervasive hybridizations in the history of wheat relatives.
Glémin S, Scornavacca C, Dainat J, ..., David J, Ranwez V
Sci Adv 5 (5) eaav9188 [2019-05-00; online 2019-05-01]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Parental Education and Genetics of BMI from Infancy to Old Age: A Pooled Analysis of 29 Twin Cohorts.
Silventoinen K, Jelenkovic A, Latvala A, ..., Sørensen TIA, Kaprio J
Obesity (Silver Spring) 27 (5) 855-865 [2019-05-00; online 2019-04-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
PKCζ facilitates lymphatic metastatic spread of prostate cancer cells in a mice xenograft model
Zang G, Mu Y, Gao L, Bergh A, Landström M
Oncogene 38 (22) 4215-4231 [2019-05-00; online 2019-01-31]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Molecular orientation distribution of regenerated cellulose fibers investigated with rotor synchronized solid state NMR spectroscopy
Svenningsson L, Sparrman T, Bialik E, Bernin D, Nordstierna L
Cellulose 26 (8) 4681-4692 [2019-05-00; online 2019-04-17]
Swedish NMR Centre (SNC) [Collaborative]
DOI Crossref
Mineralogical investigations of Jamaican hematite-rich and goethite-rich bauxites using XRD and solid state 27Al and 31P MAS NMR spectroscopy
Young NJ, Coley MD, Greenaway AM
Journal of Geochemical Exploration 200 (-) 54-76 [2019-05-00; online 2019-05-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Investigation of human apoB48 metabolism using a new, integrated non-steady-state model of apoB48 and apoB100 kinetics.
Björnson E, Packard CJ, Adiels M, ..., Taskinen MR, Borén J
J. Intern. Med. 285 (5) 562-577 [2019-05-00; online 2019-03-12]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Interferon signature in patients with STAT1 gain-of-function mutation is epigenetically determined.
Kaleviste E, Saare M, Leahy TR, ..., Peterson P, Kisand K
Eur. J. Immunol. 49 (5) 790-800 [2019-05-00; online 2019-03-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Interannual variation in seasonal diatom sedimentation reveals the importance of late winter processes and their timing for sediment signal formation
Maier DB, Diehl S, Bigler C
Limnol Oceanogr 64 (3) 1186-1199 [2019-05-00; online 2019-01-31]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Helicobacter suis infection alters glycosylation and decreases the pathogen growth inhibiting effect and binding avidity of gastric mucins.
Padra M, Adamczyk B, Flahou B, ..., Karlsson NG, Lindén SK
Mucosal Immunol 12 (3) 784-794 [2019-05-00; online 2019-03-07]
Glycoproteomics and MS Proteomics [Service]
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Genotype-free estimation of allele frequencies reduces bias and improves demographic inference from RADSeq data.
Warmuth VM, Ellegren H
Mol Ecol Resour 19 (3) 586-596 [2019-05-00; online 2019-04-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Gene expression profile of extraocular muscles following resection strabismus surgery.
Rodríguez MA, Sandgren Hochhard K, Vicente A, Liu JX, Pedrosa Domellöf F
Exp. Eye Res. 182 (-) 182-193 [2019-05-00; online 2019-04-03]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Footprints of adaptive evolution revealed by whole Z chromosomes haplotypes in flycatchers.
Nadachowska-Brzyska K, Burri R, Ellegren H
Mol. Ecol. 28 (9) 2290-2304 [2019-05-00; online 2019-05-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
FET family fusion oncoproteins target the SWI/SNF chromatin remodeling complex.
Lindén M, Thomsen C, Grundevik P, ..., Ståhlberg A, Åman P
EMBO Rep. 20 (5) - [2019-05-00; online 2019-04-08]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Exome sequencing in 51 early onset non-familial CRC cases.
Thutkawkorapin J, Lindblom A, Tham E
Mol Genet Genomic Med 7 (5) e605 [2019-05-00; online 2019-02-27]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Endocytosis, intracellular fate, accumulation, and agglomeration of titanium dioxide (TiO 2) nanoparticles in the rainbow trout liver cell line RTL-W1.
Lammel T, Mackevica A, Johansson BR, Sturve J
Environ Sci Pollut Res 26 (15) 15354-15372 [2019-05-00; online 2019-03-31]
Integrated Microscopy Technologies Gothenburg [Service]
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Elevated circulating effector memory T cells but similar levels of regulatory T cells in patients with type 2 diabetes mellitus and cardiovascular disease.
Rattik S, Engelbertsen D, Wigren M, ..., Nilsson J, Björkbacka H
Diabetes and Vascular Disease Research 16 (3) 270-280 [2019-05-00; online 2018-12-21]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Dynamic pH-induced conformational changes of the PsbO protein in the fluctuating acidity of the thylakoid lumen.
Carius AB, Rogne P, Duchoslav M, ..., Samuelsson G, Shutova T
Physiol Plantarum 166 (1) 288-299 [2019-05-00; online 2019-03-18]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Dynamic evolutionary history and gene content of sex chromosomes across diverse songbirds.
Xu L, Auer G, Peona V, ..., Irestedt M, Zhou Q
Nat Ecol Evol 3 (5) 834-844 [2019-05-00; online 2019-04-01]
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DOI Crossref
Comparisons of analysis of fatty acid methyl ester (FAME) of microalgae by chromatographic techniques
Niemi C, Lage S, Gentili FG
Algal Research 39 (-) 101449 [2019-05-00; online 2019-05-00]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Axonemal doublet microtubules can split into two complete singlets in human sperm flagellum tips.
Zabeo D, Croft JT, Höög JL
FEBS Lett. 593 (9) 892-902 [2019-05-00; online 2019-04-19]
Cryo-EM [Service]
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Asthma and affective traits in adults: a genetically informative study.
Lehto K, Pedersen NL, Almqvist C, Lu Y, Brew BK
Eur. Respir. J. 53 (5) 1802142 [2019-05-00; online 2019-05-30]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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An Atlas of Vagal Sensory Neurons and Their Molecular Specialization
Kupari J, Häring M, Agirre E, Castelo-Branco G, Ernfors P
Cell Rep 27 (8) 2508-2523.e4 [2019-05-00; online 2019-05-00]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
AdipoR1 and AdipoR2 maintain membrane fluidity in most human cell types and independently of adiponectin.
Ruiz M, Ståhlman M, Borén J, Pilon M
J. Lipid Res. 60 (5) 995-1004 [2019-05-00; online 2019-03-19]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Invasive cervical tumors with high and low HPV titer represent molecular subgroups with different disease etiology.
Cui T, Enroth S, Ameur A, ..., Lindquist D, Gyllensten U
Carcinogenesis 40 (2) 269-278 [2019-04-29; online 2019-01-01]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Pyroglutamation of amyloid-βx-42 (Aβx-42) followed by Aβ1-40 deposition underlies plaque polymorphism in progressing Alzheimer's disease pathology.
Michno W, Nyström S, Wehrli P, ..., Zetterberg H, Hanrieder J
J. Biol. Chem. 294 (17) 6719-6732 [2019-04-26; online 2019-02-27]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Preeclampsia is Associated with Sex-Specific Transcriptional and Proteomic Changes in Fetal Erythroid Cells.
Masoumi Z, Maes GE, Herten K, ..., Familari M, Hansson SR
Int J Mol Sci 20 (8) - [2019-04-25; online 2019-04-25]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Somatic mutation that affects transcription factor binding upstream of CD55 in the temporal cortex of a late-onset Alzheimer disease patient
Helgadottir HT, Lundin P, Wallén Arzt E, ..., Graff C, Eriksson M
Hum Mol Genet 28 (16) 2675-2685 [2019-04-24; online 2019-04-24]
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Spatial and temporal localization of immune transcripts defines hallmarks and diversity in the tuberculosis granuloma.
Carow B, Hauling T, Qian X, ..., Nilsson M, Rottenberg ME
Nat Commun 10 (1) 1823 [2019-04-23; online 2019-04-23]
In Situ Sequencing (ISS) [Collaborative]
PubMed DOI Crossref
PAD2-Mediated Citrullination Contributes to Efficient Oligodendrocyte Differentiation and Myelination.
Falcão AM, Meijer M, Scaglione A, ..., Casaccia P, Castelo-Branco G
Cell Rep 27 (4) 1090-1102.e10 [2019-04-23; online 2019-04-25]
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PubMed DOI Crossref
EnsembleCNV: an ensemble machine learning algorithm to identify and genotype copy number variation using SNP array data.
Zhang Z, Cheng H, Hong X, ..., Wang X, Hao K
Nucleic Acids Res. 47 (7) e39 [2019-04-23; online 2019-02-06]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cobalt-doped hematite thin films for electrocatalytic water oxidation in highly acidic media.
Kwong WL, Lee CC, Shchukarev A, Messinger J
Chem. Commun. (Camb.) 55 (34) 5017-5020 [2019-04-23; online 2019-04-11]
Integrated Microscopy Technologies Umeå [Collaborative]
PubMed DOI Crossref
Mebendazole-induced M1 polarisation of THP-1 macrophages may involve DYRK1B inhibition.
Blom K, Rubin J, Berglund M, ..., Nygren P, Larsson R
BMC Res Notes 12 (1) 234 [2019-04-22; online 2019-04-22]
Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
The complex barnacle perfume: identification of waterborne pheromone homologues in Balanus improvisus and their differential expression during settlement
Abramova A, Lind U, Blomberg A, Rosenblad MA
Biofouling 35 (4) 416-428 [2019-04-21; online 2019-05-30]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Genome-Wide Association Study of Bisphosphonate-Associated Atypical Femoral Fracture.
Kharazmi M, Michaëlsson K, Schilcher J, ..., Wadelius M, Hallberg P
Calcif. Tissue Int. - (-) - [2019-04-20; online 2019-04-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
RNA Sequencing Provides Novel Insights into the Transcriptome of Aldosterone Producing Adenomas.
Backman S, Åkerström T, Maharjan R, ..., Hellman P, Björklund P
Sci Rep 9 (1) 6269 [2019-04-18; online 2019-04-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Greedy de novo motif discovery to construct motif repositories for bacterial proteomes.
Khakzad H, Malmström J, Malmström L
BMC Bioinformatics 20 (Suppl 4) 141 [2019-04-18; online 2019-04-18]
Structural Proteomics [Technology development]
DOI Crossref
A proton <i>T</i><sub>1</sub>-nuclear magnetic resonance dispersion study of water motion in snowflakes and hexagonal ice
Westlund PO
Molecular Physics 117 (7-8) 960-967 [2019-04-18; online 2018-10-30]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
The Genome of Blue-Capped Cordon-Bleu Uncovers Hidden Diversity of LTR Retrotransposons in Zebra Finch.
Boman J, Frankl-Vilches C, da Silva Dos Santos M, ..., Gahr M, Suh A
Genes 10 (4) - [2019-04-13; online 2019-04-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Neutrophil extracellular traps in the central nervous system hinder bacterial clearance during pneumococcal meningitis.
Mohanty T, Fisher J, Bakochi A, ..., Bentzer P, Linder A
Nat Commun 10 (1) 1667 [2019-04-10; online 2019-04-10]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Improved predictions of time-dependent drug-drug interactions by determination of cytosolic drug concentrations.
Filppula AM, Parvizi R, Mateus A, Baranczewski P, Artursson P
Sci Rep 9 (1) 5850 [2019-04-10; online 2019-04-10]
Drug Discovery and Development (DDD) [Technology development]
PubMed DOI Crossref
A multi-ancestry genome-wide study incorporating gene-smoking interactions identifies multiple new loci for pulse pressure and mean arterial pressure.
Sung YJ, de Las Fuentes L, Winkler TW, ..., Rao DC, Morrison AC
Hum. Mol. Genet. - (-) - [2019-04-10; online 2019-04-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SQSTM1/p62-Directed Metabolic Reprogramming Is Essential for Normal Neurodifferentiation.
Calvo-Garrido J, Maffezzini C, Schober FA, ..., Freyer C, Wredenberg A
Stem Cell Reports 12 (4) 696-711 [2019-04-09; online 2019-02-28]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Bidirectional Selection for Body Weight on Standing Genetic Variation in a Chicken Model.
Lillie M, Honaker CF, Siegel PB, Carlborg Ö
G3 (Bethesda) 9 (4) 1165-1173 [2019-04-09; online 2019-04-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The 1H NMR serum metabolomics response to a two meal challenge: a cross-over dietary intervention study in healthy human volunteers.
Rådjursöga M, Lindqvist HM, Pedersen A, ..., Ellegård L, Winkvist A
Nutr J 18 (1) 25 [2019-04-08; online 2019-04-08]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
SAMURAI (Solid-phase Assisted Mutagenesis by Uracil Restriction for Accurate Integration) for antibody affinity maturation and paratope mapping.
Hu FJ, Lundqvist M, Uhlén M, Rockberg J
Nucleic Acids Res. 47 (6) e34 [2019-04-08; online 2019-02-05]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Breast cancer quantitative proteome and proteogenomic landscape.
Johansson HJ, Socciarelli F, Vacanti NM, ..., Børresen-Dale AL, Lehtiö J
Nat Commun 10 (1) 1600 [2019-04-08; online 2019-04-08]
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PubMed DOI Crossref
A hybrid de novo genome assembly of the honeybee, Apis mellifera, with chromosome-length scaffolds.
Wallberg A, Bunikis I, Pettersson OV, ..., Robinson GE, Webster MT
BMC Genomics 20 (1) 275 [2019-04-08; online 2019-04-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Spatiotemporal dynamics of molecular pathology in amyotrophic lateral sclerosis.
Maniatis S, Äijö T, Vickovic S, ..., Bonneau R, Phatnani H
Science 364 (6435) 89-93 [2019-04-05; online 2019-04-06]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Pyridine-Fused 2-Pyridones via Povarov and A 3 Reactions: Rapid Generation of Highly Functionalized Tricyclic Heterocycles Capable of Amyloid Fibril Binding.
Singh P, Adolfsson DE, Ådén J, ..., Olofsson A, Almqvist F
J. Org. Chem. 84 (7) 3887-3903 [2019-04-05; online 2019-03-20]
Cryo-EM [Service] Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
High-Quality Library Preparation for NGS-Based Immunoglobulin Germline Gene Inference and Repertoire Expression Analysis.
Vázquez Bernat N, Corcoran M, Hardt U, ..., Martin M, Karlsson Hedestam GB
Front Immunol 10 (-) 660 [2019-04-05; online 2019-04-05]
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Exploring the Arctic Charr Intestinal Glycome: Evidence of Increased N-Glycolylneuraminic Acid Levels and Changed Host-Pathogen Interactions in Response to Inflammation.
Venkatakrishnan V, Padra JT, Sundh H, ..., Karlsson NG, Lindén SK
J. Proteome Res. 18 (4) 1760-1773 [2019-04-05; online 2019-03-19]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Osteoporosis and skeletal dysplasia caused by pathogenic variants in SGMS2.
Pekkinen M, Terhal PA, Botto LD, ..., Holthuis JC, Mäkitie O
JCI Insight 4 (7) - [2019-04-04; online 2019-04-04]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Molecular Characterization and Comparative Genomics of Clinical Hybrid Shiga Toxin-Producing and Enterotoxigenic Escherichia coli (STEC/ETEC) Strains in Sweden.
Bai X, Zhang J, Ambikan A, ..., Xiong Y, Matussek A
Sci Rep 9 (1) 5619 [2019-04-04; online 2019-04-04]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Genetic Architectures of Childhood- and Adult-Onset Asthma Are Partly Distinct.
Ferreira MAR, Mathur R, Vonk JM, ..., Koppelman GH, Almqvist C
Am. J. Hum. Genet. 104 (4) 665-684 [2019-04-04; online 2019-03-28]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A TetR-family transcription factor regulates fatty acid metabolism in the archaeal model organism Sulfolobus acidocaldarius.
Wang K, Sybers D, Maklad HR, ..., Lindås AC, Peeters E
Nat Commun 10 (1) 1542 [2019-04-04; online 2019-04-04]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Silica-based diffusion probes for use in FRAP and NMR-diffusometry
Pihl M, Kolman K, Lotsari A, ..., Lorén N, Bordes R
Journal of Dispersion Science and Technology 40 (4) 555-562 [2019-04-03; online 2018-10-08]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Proteogenomics and Hi-C reveal transcriptional dysregulation in high hyperdiploid childhood acute lymphoblastic leukemia.
Yang M, Vesterlund M, Siavelis I, ..., Lehtiö J, Paulsson K
Nat Commun 10 (1) 1519 [2019-04-03; online 2019-04-03]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service] Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Mesenchymal stem cells transplanted into spinal cord injury adopt immune cell-like characteristics.
Hakim R, Covacu R, Zachariadis V, ..., Brundin L, Svensson M
Stem Cell Res Ther 10 (1) 115 [2019-04-03; online 2019-04-03]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Focused DNA-Encoded Chemical Library for the Discovery of Inhibitors of NAD+-Dependent Enzymes.
Yuen LH, Dana S, Liu Y, ..., Schüler H, Franzini RM
J. Am. Chem. Soc. 141 (13) 5169-5181 [2019-04-03; online 2019-03-19]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
B cell profiling in malaria reveals expansion and remodelling of CD11c+ B cell subsets.
Sundling C, Rönnberg C, Yman V, ..., Persson KE, Färnert A
JCI Insight 5 (-) - [2019-04-02; online 2019-04-02]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Structural basis for adPEO-causing mutations in the mitochondrial TWINKLE helicase.
Peter B, Farge G, Pardo-Hernandez C, Tångefjord S, Falkenberg M
Hum. Mol. Genet. 28 (7) 1090-1099 [2019-04-01; online 2018-11-30]
Integrated Microscopy Technologies Gothenburg [Service]
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The biology of the cell - insights from mass cytometry.
Brodin P
FEBS J. 286 (8) 1514-1522 [2019-04-00; online 2018-11-26]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
DOI Crossref
Successful optimization of reconstruction parameters in structured illumination microscopy – A practical guide
Karras C, Smedh M, Förster R, ..., Fernandez-Rodriguez J, Heintzmann R
Optics Communications 436 (-) 69-75 [2019-04-00; online 2019-04-00]
Integrated Microscopy Technologies Gothenburg [Service]
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Selection for longer lived sperm within ejaculate reduces reproductive ageing in offspring.
Alavioon G, Cabrera Garcia A, LeChatelier M, Maklakov AA, Immler S
Evolution Letters 3 (2) 198-206 [2019-04-00; online 2019-02-14]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Post-glacial colonization routes coincide with a life-history breakpoint along a latitudinal gradient.
Luquet E, Rödin Mörch P, Cortázar-Chinarro M, ..., Höglund J, Laurila A
J. Evol. Biol. 32 (4) 356-368 [2019-04-00; online 2019-02-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Placing RNA in context and space - methods for spatially resolved transcriptomics.
Strell C, Hilscher MM, Laxman N, ..., Yokota C, Nilsson M
FEBS J. 286 (8) 1468-1481 [2019-04-00; online 2018-03-31]
In Situ Sequencing (ISS) [Technology development]
PubMed DOI Crossref
Outbreak of Methicillin-resistant Staphylococcus aureus in a Hospital Center for Children's and Women's Health in a Swedish County.
Gideskog M, Melhus Å
APMIS 127 (4) 181-186 [2019-04-00; online 2019-03-26]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Novel fibronectin mutations and expansion of the phenotype in spondylometaphyseal dysplasia with "corner fractures".
Costantini A, Valta H, Baratang NV, ..., Mäkitie O, Campeau PM
Bone 121 (-) 163-171 [2019-04-00; online 2018-12-30]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Nitrogen utilization during germination of somatic embryos of Norway spruce: revealing the importance of supplied glutamine for nitrogen metabolism
Carlsson J, Egertsdotter U, Ganeteg U, Svennerstam H
Trees 33 (2) 383-394 [2019-04-00; online 2018-11-09]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Mutation patterns in a population-based non-small cell lung cancer cohort and prognostic impact of concomitant mutations in KRAS and TP53 or STK11.
La Fleur L, Falk-Sörqvist E, Smeds P, ..., Moens L, Botling J
Lung Cancer 130 (-) 50-58 [2019-04-00; online 2019-01-09]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Multi-ancestry genome-wide gene-smoking interaction study of 387,272 individuals identifies new loci associated with serum lipids.
Bentley AR, Sung YJ, Brown MR, ..., Rotimi CN, Cupples LA
Nat. Genet. 51 (4) 636-648 [2019-04-00; online 2019-03-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Increased vascular endothelial growth factor D is associated with atrial fibrillation and ischaemic stroke.
Berntsson J, Smith JG, Johnson LSB, ..., Nilsson J, Engström G
Heart 105 (7) 553-558 [2019-04-00; online 2018-10-16]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Increase of invasive meningococcal serogroup W disease in Europe, 2013 to 2017.
Krone M, Gray S, Abad R, ..., Vogel U, Borrow R
Euro Surveill. 24 (14) - [2019-04-00; online 2019-04-11]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Gain-of-function mutation of microRNA-140 in human skeletal dysplasia.
Grigelioniene G, Suzuki HI, Taylan F, ..., Sharp PA, Kobayashi T
Nat. Med. 25 (4) 583-590 [2019-04-00; online 2019-02-25]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dynamics of Resistance Plasmids in Extended-Spectrum-β-Lactamase-Producing Enterobacteriaceae during Postinfection Colonization.
Brolund A, Rajer F, Giske CG, ..., Titelman E, Sandegren L
Antimicrob. Agents Chemother. 63 (4) - [2019-04-00; online 2019-03-27]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Deep Learning in Image Cytometry: A Review.
Gupta A, Harrison PJ, Wieslander H, ..., Sintorn IM, Wählby C
Cytometry A 95 (4) 366-380 [2019-04-00; online 2018-12-19]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
Backbone 1H, 13C, and 15N resonance assignments of BoMan26A, a β-mannanase of the glycoside hydrolase family 26 from the human gut bacterium Bacteroides ovatus.
Wernersson S, Bågenholm V, Persson C, ..., Stålbrand H, Akke M
Biomol NMR Assign 13 (1) 213-218 [2019-04-00; online 2019-02-07]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Univariate and classification analysis reveals potential diagnostic biomarkers for early stage ovarian cancer Type 1 and Type 2.
Marcišauskas S, Ulfenborg B, Kristjansdottir B, Waldemarson S, Sundfeldt K
J Proteomics 196 (-) 57-68 [2019-03-30; online 2019-01-30]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
A geographically matched control population efficiently limits the number of candidate disease-causing variants in an unbiased whole-genome analysis
Rentoft M, Svensson D, Sjödin A, ..., Melin BS, Johansson E
PLoS ONE 14 (3) e0213350 [2019-03-27; online 2019-03-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] Systems Biology [Collaborative]
PubMed DOI Crossref
Selective auxin agonists induce specific AUX/IAA protein degradation to modulate plant development.
Vain T, Raggi S, Ferro N, ..., Pauwels L, Robert S
Proc. Natl. Acad. Sci. U.S.A. 116 (13) 6463-6472 [2019-03-26; online 2019-03-08]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Improved survival prognostication of node-positive malignant melanoma patients utilizing shotgun proteomics guided by histopathological characterization and genomic data.
Betancourt LH, Pawłowski K, Eriksson J, ..., Jönsson G, Marko-Varga G
Sci Rep 9 (1) 5154 [2019-03-26; online 2019-03-26]
Structural Proteomics [Service]
PubMed DOI Crossref
High Serum sCD40 and a Distinct Colonic T Cell Profile in Ulcerative Colitis Associated With Primary Sclerosing Cholangitis.
Lampinen M, Vessby J, Fredricsson A, ..., Rorsman F, Carlson M
J Crohns Colitis 13 (3) 341-350 [2019-03-26; online 2018-11-02]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Corticosteroids protect infected cells against mycobacterial killing in vitro.
Tükenmez H, Edström I, Kalsum S, ..., Elofsson M, Larsson C
Biochem. Biophys. Res. Commun. 511 (1) 117-121 [2019-03-26; online 2019-02-14]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Thickness determines microbial community structure and function in nitrifying biofilms via deterministic assembly.
Suarez C, Piculell M, Modin O, ..., Persson F, Hermansson M
Sci Rep 9 (1) 5110 [2019-03-25; online 2019-03-25]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
A novel human in vitro papillomavirus type 16 positive tonsil cancer cell line with high sensitivity to radiation and cisplatin.
Forslund O, Sugiyama N, Wu C, ..., Wennerberg J, Ekblad L
BMC Cancer 19 (1) 265 [2019-03-25; online 2019-03-25]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Time-Resolved Study of Silicate Slag Formation During Combustion of Wheat Straw Pellets
Strandberg A, Skoglund N, Thyrel M, ..., Broström M, Backman R
Energy Fuels 33 (3) 2308-2318 [2019-03-21; online 2019-02-21]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Subsequent Event Risk in Individuals with Established Coronary Heart Disease: Design and Rationale of the GENIUS-CHD Consortium.
Patel R, Tragante V, Schmidt AF, ..., Hingorani AD, Asselbergs FW
Circ Genom Precis Med - (-) - [2019-03-21; online 2019-03-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Helicase/SUMO-targeted ubiquitin ligase Uls1 interacts with the Holliday junction resolvase Yen1.
Bauer SL, Chen J, Åström SU
PLoS ONE 14 (3) e0214102 [2019-03-21; online 2019-03-21]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Association of Chromosome 9p21 with Subsequent Coronary Heart Disease Events: A GENIUS-CHD Study of Individual Participant Data.
Patel RS, Schmidt AF, Tragante V, ..., Hingorani AD, Asselbergs FW
Circ Genom Precis Med - (-) - [2019-03-21; online 2019-03-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Characterization of Double Leached Waelz Oxide for Identification of Fluoride Mineral
Sar S, Sundqvist Ökvist L, Sparrman T, Engström F, Samuelsson C
Metals 9 (3) 361 [2019-03-20; online 2019-03-20]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Current Status and Future Prospects of Clinically Exploiting Cancer-specific Metabolism-Why Is Tumor Metabolism Not More Extensively Translated into Clinical Targets and Biomarkers?
Muthu M, Nordström A
Int J Mol Sci 20 (6) 1385 [2019-03-19; online 2019-03-19]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
An ABCA4 loss-of-function mutation causes a canine form of Stargardt disease
Mäkeläinen S, Gòdia M, Hellsand M, ..., Andersson G, Bergström TF
PLoS Genet. 15 (3) e1007873 [2019-03-19; online 2019-03-19]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Regulatory Diversification of INDEHISCENT in the Capsella Genus Directs Variation in Fruit Morphology.
Dong Y, Jantzen F, Stacey N, ..., Ljung K, Østergaard L
Curr. Biol. 29 (6) 1038-1046.e4 [2019-03-18; online 2019-02-28]
Swedish Metabolomics Centre (SMC) [Service]
DOI Crossref
Pax6 and KDM5C co-occupy a subset of developmentally critical genes including Notch signaling regulators in neural progenitors
Gaudenzi G, Dethlefsen O, Walfridsson J, Hermanson O
- - (-) - [2019-03-16; online 2019-03-16]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Interaction of toluene with polar stationary phases under conditions typical of hydrophilic interaction chromatography probed by saturation transfer difference nuclear magnetic resonance spectroscopy.
Shamshir A, Dinh NP, Jonsson T, ..., Ashiq MJ, Irgum K
Journal of Chromatography A 1588 (-) 58-67 [2019-03-15; online 2018-12-13]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Extended insight into the Mycobacterium chelonae-abscessus complex through whole genome sequencing of Mycobacterium salmoniphilum outbreak and Mycobacterium salmoniphilum-like strains.
Behra PRK, Das S, Pettersson BMF, ..., Ennis DG, Kirsebom LA
Sci Rep 9 (1) 4603 [2019-03-14; online 2019-03-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Interactome of Palmitoyl-Protein Thioesterase 1 (PPT1) Affects Neuronal Morphology and Function.
Sapir T, Segal M, Grigoryan G, ..., Segal M, Reiner O
Front Cell Neurosci 13 (-) 92 [2019-03-13; online 2019-03-13]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Surveillance of cell wall diffusion barrier integrity modulates water and solute transport in plants.
Wang P, Calvo-Polanco M, Reyt G, ..., Boursiac Y, Salt DE
Sci Rep 9 (1) 4227 [2019-03-12; online 2019-03-12]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Ancient Mitochondrial Genomes Reveal the Absence of Maternal Kinship in the Burials of Çatalhöyük People and Their Genetic Affinities.
Chyleński M, Ehler E, Somel M, ..., Juras A, Marciniak A
Genes 10 (3) - [2019-03-11; online 2019-03-11]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
In situ quantification of individual mRNA transcripts in melanocytes discloses gene regulation of relevance to speciation.
Wu C, Klaesson A, Buskas J, ..., Söderberg O, Wolf JBW
J Exp Biol 222 (Pt 5) jeb194431 [2019-03-08; online 2019-03-08]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Polymer gels with tunable ionic Seebeck coefficient for ultra-sensitive printed thermopiles.
Zhao D, Martinelli A, Willfahrt A, ..., Fabiano S, Crispin X
Nat Commun 10 (1) 1093 [2019-03-06; online 2019-03-06]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Single-Cell RNA-Seq Reveals Cellular Heterogeneity of Pluripotency Transition and X Chromosome Dynamics during Early Mouse Development.
Cheng S, Pei Y, He L, ..., Jing N, Deng Q
Cell Rep 26 (10) 2593-2607.e3 [2019-03-05; online 2019-03-07]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A microfluidic platform towards automated multiplexed in situ sequencing.
Maïno N, Hauling T, Cappi G, ..., Dupouy DG, Nilsson M
Sci Rep 9 (1) 3542 [2019-03-05; online 2019-03-05]
In Situ Sequencing (ISS) [Technology development]
PubMed DOI Crossref
Oxygen induces the expression of invasion and stress response genes in the anaerobic salmon parasite Spironucleus salmonicida.
Stairs CW, Kokla A, Ástvaldsson Á, ..., Svärd S, Ettema TJG
BMC Biol. 17 (1) 19 [2019-03-01; online 2019-03-01]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Association of Genetic Risk Factors for Psychiatric Disorders and Traits of These Disorders in a Swedish Population Twin Sample.
Taylor MJ, Martin J, Lu Y, ..., Larsson H, Lichtenstein P
JAMA Psychiatry 76 (3) 280-289 [2019-03-01; online 2018-12-20]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Whole genome sequencing of consanguineous families reveals novel pathogenic variants in intellectual disability.
Thuresson AC, Soussi Zander C, Zhao JJ, ..., Öhrner Y, Feuk L
Clin. Genet. 95 (3) 436-439 [2019-03-00; online 2018-12-07]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The high prevalence of antibiotic heteroresistance in pathogenic bacteria is mainly caused by gene amplification.
Nicoloff H, Hjort K, Levin BR, Andersson DI
Nat Microbiol 4 (3) 504-514 [2019-03-00; online 2019-02-11]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spontaneous calcium activity in metanephric mesenchymal cells regulates branching morphogenesis in the embryonic kidney.
Fontana JM, Khodus GR, Unnersjö-Jess D, ..., Aperia A, Brismar H
FASEB J. 33 (3) 4089-4096 [2019-03-00; online 2018-11-29]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Proteomic Analysis of Endothelial Cells Exposed to Ultrasmall Nanoparticles Reveals Disruption in Paracellular and Transcellular Transport.
Kuruvilla J, Bayat N, Cristobal S
Proteomics 19 (5) e1800228 [2019-03-00; online 2019-02-25]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Protein-coding variants implicate novel genes related to lipid homeostasis contributing to body-fat distribution.
Justice AE, Karaderi T, Highland HM, ..., North KE, Lindgren CM
Nat. Genet. 51 (3) 452-469 [2019-03-00; online 2019-02-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
New genetic signals for lung function highlight pathways and chronic obstructive pulmonary disease associations across multiple ancestries.
Shrine N, Guyatt AL, Erzurumluoglu AM, ..., Tobin MD, Wain LV
Nat. Genet. 51 (3) 481-493 [2019-03-00; online 2019-02-25]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide meta-analysis reveals shared new loci in systemic seropositive rheumatic diseases.
Acosta-Herrera M, Kerick M, González-Serna D, ..., Mayes MD, Martin J
Ann. Rheum. Dis. 78 (3) 311-319 [2019-03-00; online 2018-12-20]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide meta-analysis identifies new loci and functional pathways influencing Alzheimer's disease risk.
Jansen IE, Savage JE, Watanabe K, ..., Andreassen OA, Posthuma D
Nat. Genet. 51 (3) 404-413 [2019-03-00; online 2019-01-07]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Estimating the Fitness Effect of Deleterious Mutations During the Two Phases of the Life Cycle: A New Method Applied to the Root-Rot Fungus Heterobasidion parviporum.
Clergeot PH, Rode NO, Glémin S, ..., Ihrmark K, Olson Å
Genetics 211 (3) 963-976 [2019-03-00; online 2018-12-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Endosperm-specific transcriptome analysis by applying the INTACT system.
Del Toro-De León G, Köhler C
Plant Reprod 32 (1) 55-61 [2019-03-00; online 2018-12-26]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Chromosomal inversions associated with environmental adaptation in honeybees.
Christmas MJ, Wallberg A, Bunikis I, ..., Wallerman O, Webster MT
Mol. Ecol. 28 (6) 1358-1374 [2019-03-00; online 2018-12-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Asexual reproduction and growth rate: independent and plastic life history traits in Neurospora crassa.
Anderson JL, Nieuwenhuis BPS, Johannesson H
ISME J 13 (3) 780-788 [2019-03-00; online 2018-11-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A rare regulatory variant in the MEF2D gene affects gene regulation and splicing and is associated with a SLE sub-phenotype in Swedish cohorts.
Farias FHG, Dahlqvist J, Kozyrev SV, ..., Rönnblom L, Lindblad-Toh K
Eur. J. Hum. Genet. 27 (3) 432-441 [2019-03-00; online 2018-11-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A radical switch in clonality reveals a stem cell niche in the epiphyseal growth plate.
Newton PT, Li L, Zhou B, ..., Sävendahl L, Chagin AS
Nature 567 (7747) 234-238 [2019-03-00; online 2019-02-27]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Phenotypic Screening Assay Identifies Modulators of Diamond Blackfan Anemia.
Siva K, Ek F, Chen J, ..., Lundbäck T, Flygare J
SLAS DISCOVERY: Advancing Life Sciences R&D 24 (3) 304-313 [2019-03-00; online 2019-02-21]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
A High-throughput Bead-based Affinity Assay Enables Analysis of Genital Protein Signatures in Women At Risk of HIV Infection.
Månberg A, Bradley F, Qundos U, ..., Nilsson P, Broliden K
Mol. Cell Proteomics 18 (3) 461-476 [2019-03-00; online 2018-11-30]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Transcriptomics of cardiac biopsies reveals differences in patients with or without diagnostic parameters for heart failure with preserved ejection fraction.
Das S, Frisk C, Eriksson MJ, ..., Linde C, Persson B
Sci Rep 9 (1) 3179 [2019-02-28; online 2019-02-28]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Regulatory changes in pterin and carotenoid genes underlie balanced color polymorphisms in the wall lizard
Andrade P, Pinho C, Pérez i de Lanuza G, ..., Andersson L, Carneiro M
Proc Natl Acad Sci USA - (-) 201820320 [2019-02-28; online 2019-02-28]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Nanomedical Relevance of the Intermolecular Interaction Dynamics-Examples from Lysozymes and Insulins.
Zhang R, Zhang N, Mohri M, ..., Nifantiev NE, Siebert HC
ACS Omega 4 (2) 4206-4220 [2019-02-28; online 2019-02-27]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
A genome-wide association study identifies new loci for factor VII and implicates factor VII in ischemic stroke etiology.
de Vries PS, Sabater-Lleal M, Huffman JE, ..., O'Donnell CJ, Smith NL
Blood 133 (9) 967-977 [2019-02-28; online 2019-01-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Population and Single-Cell Analysis of Human Cardiogenesis Reveals Unique LGR5 Ventricular Progenitors in Embryonic Outflow Tract.
Sahara M, Santoro F, Sohlmér J, ..., Gruber P, Chien KR
Dev. Cell 48 (4) 475-490.e7 [2019-02-25; online 2019-01-31]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Longitudinal effects of aging on plasma proteins levels in older adults - associations with kidney function and hemoglobin levels.
Lind L, Sundström J, Larsson A, ..., Ärnlöv J, Ingelsson E
PLoS ONE 14 (2) e0212060 [2019-02-25; online 2019-02-25]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Recombinant Glycoprotein E of Varicella Zoster Virus Contains Glycan-Peptide Motifs That Modulate B Cell Epitopes into Discrete Immunological Signatures.
Nordén R, Nilsson J, Samuelsson E, ..., Olofsson S, Bergström T
Int J Mol Sci 20 (4) - [2019-02-22; online 2019-02-22]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
A Quantitative Analysis of Colonic Mucosal Oxylipins and Endocannabinoids in Treatment-Naïve and Deep Remission Ulcerative Colitis Patients and the Potential Link With Cytokine Gene Expression.
Diab J, Al-Mahdi R, Gouveia-Figueira S, ..., Florholmen J, Forsdahl G
Inflamm Bowel Dis 25 (3) 490-497 [2019-02-21; online 2018-11-27]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Whole-Genome Analysis of Domestic Chicken Selection Lines Suggests Segregating Variation in ERV Makeups.
Pettersson ME, Jern P
Genes 10 (2) 162 [2019-02-20; online 2019-02-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Rostania revised: testing generic delimitations in Collemataceae (Peltigerales, Lecanoromycetes).
Košuthová A, Westberg M, Tálora MAG, Wedin M
MycoKeys 47 (47) 17-33 [2019-02-20; online 2019-02-20]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Prediction of response to anti-cancer drugs becomes robust via network integration of molecular data.
Franco M, Jeggari A, Peuget S, ..., Selivanova G, Alexeyenko A
Sci Rep 9 (1) 2379 [2019-02-20; online 2019-02-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Immune-informed mucin hydrogels evade fibrotic foreign body response in vivo
Yan H, Seignez C, Hjorth M, ..., Phillipson M, Crouzier T
- - (-) - [2019-02-19; online 2019-02-19]
Spatial Proteomics [Service]
PubMed DOI Crossref
High Levels of Soluble Lectinlike Oxidized Low-Density Lipoprotein Receptor-1 Are Associated With Carotid Plaque Inflammation and Increased Risk of Ischemic Stroke.
Markstad H, Edsfeldt A, Yao Mattison I, ..., Engström G, Gonçalves I
J Am Heart Assoc 8 (4) e009874 [2019-02-19; online 2019-02-13]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Crystal Structure and Substrate Specificity of the 8-oxo-dGTP Hydrolase NUDT1 from Arabidopsis thaliana.
Jemth AS, Scaletti E, Carter M, Helleday T, Stenmark P
Biochemistry 58 (7) 887-899 [2019-02-19; online 2019-01-16]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
A deep proteome and transcriptome abundance atlas of 29 healthy human tissues.
Wang D, Eraslan B, Wieland T, ..., Hahne H, Kuster B
Mol. Syst. Biol. 15 (2) e8503 [2019-02-18; online 2019-02-18]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetics and epigenetics in primary Sjögren's syndrome.
Imgenberg-Kreuz J, Rasmussen A, Sivils K, Nordmark G
Rheumatology (Oxford) - (-) - [2019-02-15; online 2019-02-15]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Fine-Tuning of Sox17 and Canonical Wnt Coordinates the Permeability Properties of the Blood-Brain Barrier.
Corada M, Orsenigo F, Bhat GP, ..., Magnusson P, Dejana E
Circ. Res. 124 (4) 511-525 [2019-02-15; online 2018-12-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Association of the coronary artery disease risk gene GUCY1A3 with ischaemic events after coronary intervention.
Kessler T, Wolf B, Eriksson N, ..., Kastrati A, Schunkert H
Cardiovasc. Res. - (-) - [2019-02-14; online 2019-02-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Zinc depletion does not necessarily induce ribosome hibernation in mycobacteria.
Tobiasson V, Dow A, Prisic S, Amunts A
Proc. Natl. Acad. Sci. U.S.A. 116 (7) 2395-2397 [2019-02-12; online 2019-01-25]
Cryo-EM [Service]
PubMed DOI Crossref
Metabolomic and lipidomic assessment of the metabolic syndrome in Dutch middle-aged individuals reveals novel biological signatures separating health and disease.
Surowiec I, Noordam R, Bennett K, ..., Lundstedt T, van Heemst D
Metabolomics 15 (2) 23 [2019-02-12; online 2019-02-12]
Swedish Metabolomics Centre (SMC) [Service]
DOI Crossref
Synthesis of Sulfonimidamide-Based Amino Acid Building Blocks with Orthogonal Protecting Groups
Chinthakindi PK, Benediktsdottir A, Ibrahim A, ..., Chen Y, Sandström A
Eur. J. Org. Chem. 2019 (5) 1045-1057 [2019-02-07; online 2019-01-02]
Drug Discovery and Development (DDD) [Technology development]
PubMed DOI Crossref
Mass cytometry identifies distinct CD4+ T cell clusters distinguishing HIV-1-infected patients according to antiretroviral therapy initiation.
Bekele Y, Lakshmikanth T, Chen Y, ..., Brodin P, Chiodi F
JCI Insight 4 (3) - [2019-02-07; online 2019-02-07]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Interplay between Conformational Entropy and Solvation Entropy in Protein-Ligand Binding.
Verteramo ML, Stenström O, Ignjatović MM, ..., Ryde U, Akke M
J. Am. Chem. Soc. 141 (5) 2012-2026 [2019-02-06; online 2019-01-23]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Two Basidiomycete Fungi in the Cortex of Wolf Lichens.
Tuovinen V, Ekman S, Thor G, ..., Spribille T, Johannesson H
Curr. Biol. 29 (3) 476-483.e5 [2019-02-04; online 2019-01-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The genomics of major psychiatric disorders in a large pedigree from Northern Sweden.
Szatkiewicz J, Crowley JJ, Adolfsson AN, ..., Adolfsson R, Sullivan PF
Transl Psychiatry 9 (1) 60 [2019-02-04; online 2019-02-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Single-cell RNA sequencing reveals midbrain dopamine neuron diversity emerging during mouse brain development
Tiklová K, Björklund ÅK, Lahti L, ..., Parmar M, Perlmann T
Nat Commun 10 (1) 581 [2019-02-04; online 2019-02-04]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] In Situ Sequencing (ISS) [Collaborative]
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Exploring the genetics of trotting racing ability in horses using a unique Nordic horse model.
Velie BD, Lillie M, Fegraeus KJ, ..., Strand E, Lindgren G
BMC Genomics 20 (1) 104 [2019-02-04; online 2019-02-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Introgression of resistance to Rhopalosiphum padi L. from wild barley into cultivated barley facilitated by doubled haploid and molecular marker techniques.
Åhman I, Bengtsson T
Theor. Appl. Genet. - (-) - [2019-02-02; online 2019-02-02]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Protein measurements in venous plasma, earlobe capillary plasma and in plasma stored on filter paper.
Siart B, de Oliveira FMS, Shen Q, ..., Kamali-Moghaddam M, Wallner B
Anal. Biochem. 566 (-) 146-150 [2019-02-01; online 2018-11-22]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
PubMed DOI Crossref
IL-6 Signaling Blockade during CD40-Mediated Immune Activation Favors Antitumor Factors by Reducing TGF-β, Collagen Type I, and PD-L1/PD-1.
Eriksson E, Milenova I, Wenthe J, ..., Alemany R, Loskog A
J. Immunol. 202 (3) 787-798 [2019-02-01; online 2019-01-07]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
GlyConnect: Glycoproteomics Goes Visual, Interactive, and Analytical.
Alocci D, Mariethoz J, Gastaldello A, ..., Packer NH, Lisacek F
J. Proteome Res. 18 (2) 664-677 [2019-02-01; online 2019-01-15]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Disentangling the genetics of lean mass.
Karasik D, Zillikens MC, Hsu YH, ..., Kiel DP, Ohlsson C
Am. J. Clin. Nutr. 109 (2) 276-287 [2019-02-01; online 2019-02-06]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Allele-Specific Methylation of SPDEF: A Novel Moderator of Psychosocial Stress and Substance Abuse.
Tay N, Macare C, Liu Y, ..., Schumann G, IMAGEN Consortium
Am J Psychiatry 176 (2) 146-155 [2019-02-01; online 2018-12-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Whole-genome sequencing identifies complex contributions to genetic risk by variants in genes causing monogenic systemic lupus erythematosus.
Almlöf JC, Nystedt S, Leonard D, ..., Sandling JK, Syvänen AC
Hum. Genet. 138 (2) 141-150 [2019-02-00; online 2019-02-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Titanium release in peri-implantitis.
Pettersson M, Pettersson J, Johansson A, Molin Thorén M
J Oral Rehabil 46 (2) 179-188 [2019-02-00; online 2018-11-16]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Systems-level patterns emerge.
Brodin P
Nat. Rev. Immunol. 19 (2) 87-88 [2019-02-00; online 2019-01-04]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Structural Basis of Cross-Reactivity of Anti-Citrullinated Protein Antibodies.
Ge C, Xu B, Liang B, ..., Dobritzsch D, Holmdahl R
Arthritis & rheumatology (Hoboken, N.J.) 71 (2) 210-221 [2019-02-00; online 2019-01-04]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Spatial and temporal heterogeneity of mouse and human microglia at single-cell resolution.
Masuda T, Sankowski R, Staszewski O, ..., Stadelmann C, Prinz M
Nature 566 (7744) 388-392 [2019-02-00; online 2019-02-13]
Eukaryotic Single Cell Genomics (ESCG) [Service]
PubMed DOI Crossref
Recognition of Amino Acid Motifs, Rather Than Specific Proteins, by Human Plasma Cell-Derived Monoclonal Antibodies to Posttranslationally Modified Proteins in Rheumatoid Arthritis.
Steen J, Forsström B, Sahlström P, ..., Klareskog L, Malmström V
Arthritis & rheumatology (Hoboken, N.J.) 71 (2) 196-209 [2019-02-00; online 2018-08-29]
Autoimmunity and Serology Profiling [Collaborative] Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Protein profiling of fine-needle aspirates reveals subtype-associated immune signatures and involvement of chemokines in breast cancer.
Franzén B, Alexeyenko A, Kamali-Moghaddam M, ..., Landegren U, Lewensohn R
Mol Oncol 13 (2) 376-391 [2019-02-00; online 2019-01-07]
Affinity Proteomics Uppsala [Technology development] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Technology development]
PubMed DOI Crossref
Plasma Profiles of Inflammatory Markers Associated With Active Tuberculosis in Antiretroviral Therapy-Naive Human Immunodeficiency Virus-Positive Individuals.
Olsson O, Björkman P, Jansson M, ..., Carlsson F, Skogmar S
Open Forum Infect Dis 6 (2) ofz015 [2019-02-00; online 2019-01-31]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Parental legacy, demography, and admixture influenced the evolution of the two subgenomes of the tetraploid Capsella bursa-pastoris (Brassicaceae).
Kryvokhyzha D, Salcedo A, Eriksson MC, ..., Wright SI, Lascoux M
PLoS Genet. 15 (2) e1007949 [2019-02-00; online 2019-02-15]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Metformin is the key factor in elevated plasma growth differentiation factor-15 levels in type 2 diabetes: A nested, case-control study.
Natali A, Nesti L, Venturi E, ..., Nilsson J, SUMMIT consortium
Diabetes Obes Metab 21 (2) 412-416 [2019-02-00; online 2018-10-02]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Longitudinal changes in the genetic and environmental influences on the epigenetic clocks across old age: Evidence from two twin cohorts.
Jylhävä J, Hjelmborg J, Soerensen M, ..., Pedersen NL, Reynolds CA
EBioMedicine 40 (-) 710-716 [2019-02-00; online 2019-01-28]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Insights into hydrothermal aging of phosphorus-poisoned Cu-SSZ-13 for NH3-SCR
Xie K, Woo J, Bernin D, ..., Kamasamudram K, Olsson L
Applied Catalysis B: Environmental 241 (-) 205-216 [2019-02-00; online 2019-02-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Individual and stable autoantibody repertoires in healthy individuals.
Neiman M, Hellström C, Just D, ..., Uhlén M, Nilsson P
Autoimmunity 52 (1) 1-11 [2019-02-00; online 2019-03-05]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Genome-wide association analyses of risk tolerance and risky behaviors in over 1 million individuals identify hundreds of loci and shared genetic influences.
Karlsson Linnér R, Biroli P, Kong E, ..., Koellinger PD, Beauchamp JP
Nat. Genet. 51 (2) 245-257 [2019-02-00; online 2019-01-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Eleven loci with new reproducible genetic associations with allergic disease risk
Ferreira MAR, Vonk JM, Baurecht H, ..., Koppelman GH, Paternoster L
Journal of Allergy and Clinical Immunology 143 (2) 691-699 [2019-02-00; online 2019-02-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Drug sensitivity testing on patient-derived sarcoma cells predicts patient response to treatment and identifies c-Sarc inhibitors as active drugs for translocation sarcomas.
Brodin BA, Wennerberg K, Lidbrink E, ..., Kallioniemi O, Stragliotto CL
Br. J. Cancer 120 (4) 435-443 [2019-02-00; online 2019-02-12]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Comprehensive structural variation genome map of individuals carrying complex chromosomal rearrangements.
Eisfeldt J, Pettersson M, Vezzi F, ..., Carvalho CMB, Lindstrand A
PLoS Genet. 15 (2) e1007858 [2019-02-00; online 2019-02-08]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Circulating proteins as predictors of cardiovascular mortality in end-stage renal disease.
Feldreich T, Nowak C, Fall T, ..., Green D, Ärnlöv J
J Nephrol 32 (1) 111-119 [2019-02-00; online 2018-11-29]
Affinity Proteomics Stockholm [Service] Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service]
PubMed DOI Crossref
CD99 expression is strongly associated with clinical outcome in children with B-cell precursor acute lymphoblastic leukaemia.
Chen D, Camponeschi A, Wu Q, ..., Fogelstrand L, Mårtensson IL
Br. J. Haematol. 184 (3) 418-423 [2019-02-00; online 2018-11-28]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
B cell alterations during BAFF inhibition with belimumab in SLE.
Ramsköld D, Parodis I, Lakshmikanth T, ..., Gunnarsson I, Malmström V
EBioMedicine 40 (-) 517-527 [2019-02-00; online 2018-12-26]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
A Chemical Screen Identifies Compounds Limiting the Toxicity of C9ORF72 Dipeptide Repeats
Corman A, Jung B, Häggblad M, ..., Carreras-Puigvert J, Fernandez-Capetillo O
Cell Chem Biol 26 (2) 235-243.e5 [2019-02-00; online 2019-02-00]
Chemical Biology Consortium Sweden (CBCS) [Service] Spatial Proteomics [Service]
PubMed DOI Crossref
The antimicrobial protein S100A12 identified as a potential autoantigen in a subgroup of atopic dermatitis patients.
Mikus M, Johansson C, Acevedo N, Nilsson P, Scheynius A
Clin Transl Allergy 9 (-) 6 [2019-01-31; online 2019-01-31]
Autoimmunity and Serology Profiling [Collaborative] Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Pandemrix-induced narcolepsy is associated with genes related to immunity and neuronal survival.
Hallberg P, Smedje H, Eriksson N, ..., Wadelius M, Swedegene
EBioMedicine - (-) - [2019-01-30; online 2019-01-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Low Molecular Mass Myocardial Hyaluronan in Human Hypertrophic Cardiomyopathy.
Lorén CE, Dahl CP, Do L, ..., Mörner S, Hellman U
Cells 8 (2) 97 [2019-01-29; online 2019-01-29]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Proline 411 biases the conformation of the intrinsically disordered plant UVR8 photoreceptor C27 domain altering the functional properties of the peptide.
Wu M, Farkas D, Eriksson LA, Strid Å
Sci Rep 9 (1) 818 [2019-01-28; online 2019-01-28]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Photoactivated Colibactin Probes Induce Cellular DNA Damage.
Moodie LWK, Hubert M, Zhou X, ..., Wanrooij S, Hedberg C
Angew. Chem. Int. Ed. Engl. 58 (5) 1417-1421 [2019-01-28; online 2018-12-27]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Genomic regions of speciation and adaptation among three species of grouse.
Kozma R, Rödin-Mörch P, Höglund J
Sci Rep 9 (1) 812 [2019-01-28; online 2019-01-28]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Peri-arterial specification of vascular mural cells from naïve mesenchyme requires Notch signaling.
Ando K, Wang W, Peng D, ..., Mochizuki N, Betsholtz C
Development 146 (2) dev165589 [2019-01-25; online 2019-01-25]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Mercury methylating microbial communities of boreal forest soils.
Xu J, Buck M, Eklöf K, ..., Bertilsson S, Bravo AG
Sci Rep 9 (1) 518 [2019-01-24; online 2019-01-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Differential Expression Patterns of Glycolytic Enzymes and Mitochondria-Dependent Apoptosis in PCOS Patients with Endometrial Hyperplasia, an Early Hallmark of Endometrial Cancer, In Vivo and the Impact of Metformin In Vitro.
Wang T, Zhang J, Hu M, ..., Shao LR, Billig H
Int. J. Biol. Sci. 15 (3) 714-725 [2019-01-24; online 2019-01-24]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Carbonic Anhydrase 6 Gene Variation influences Oral Microbiota Composition and Caries Risk in Swedish adolescents.
Esberg A, Haworth S, Brunius C, Lif Holgerson P, Johansson I
Sci Rep 9 (1) 452 [2019-01-24; online 2019-01-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The ketogenic diet influences taxonomic and functional composition of the gut microbiota in children with severe epilepsy.
Lindefeldt M, Eng A, Darban H, ..., Dahlin M, Prast-Nielsen S
NPJ Biofilms Microbiomes 5 (-) 5 [2019-01-23; online 2019-01-23]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Systems-Level Immune Monitoring by Mass Cytometry.
Lakshmikanth T, Brodin P
Methods Mol. Biol. 1913 (-) 33-48 [2019-01-23; online 2019-01-23]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Altered human oligodendrocyte heterogeneity in multiple sclerosis
Jäkel S, Agirre E, Falcão AM, ..., Williams A, Castelo-Branco G
Nature - (-) - [2019-01-23; online 2019-01-23]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Valorization of Humic Acids by Hydrothermal Conversion into Carbonaceous Materials: Physical and Functional Properties
Kozyatnyk I, Latham KG, Jansson S
ACS Sustainable Chem. Eng. 7 (2) 2585-2592 [2019-01-22; online 2018-12-20]
Integrated Microscopy Technologies Umeå [Service] Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Multi-ancestry study of blood lipid levels identifies four loci interacting with physical activity.
Kilpeläinen TO, Bentley AR, Noordam R, ..., Rao DC, Loos RJF
Nat Commun 10 (1) 376 [2019-01-22; online 2019-01-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transformation of mature mouse B cells into malignant plasma cells in vitro via introduction of defined genetic elements.
Högstrand K, Lindvall JM, Sundblad A, Grandien A
Eur. J. Immunol. - (-) - [2019-01-21; online 2019-01-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Structure of the DP1–DP2 PolD complex bound with DNA and its implications for the evolutionary history of DNA and RNA polymerases
Raia P, Carroni M, Henry E, ..., Delarue M, Sauguet L
PLoS Biol. 17 (1) e3000122 [2019-01-18; online 2019-01-18]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Genetic and lifestyle risk factors for MRI-defined brain infarcts in a population-based setting.
Chauhan G, Adams HHH, Satizabal CL, ..., Debette S, Stroke Genetics Network (SiGN), the International Stroke Genetics Consortium (ISGC), METASTROKE, Alzheimer's Disease Genetics Consortium (ADGC), and the Neurology Working Group of the Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) Consortium
Neurology - (-) - [2019-01-16; online 2019-01-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Complement Activation Occurs at the Surface of Platelets Activated by Streptococcal M1 Protein and This Results in Phagocytosis of Platelets.
Palm F, Sjöholm K, Malmström J, Shannon O
J. Immunol. 202 (2) 503-513 [2019-01-15; online 2018-12-12]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Transcriptomic and proteomic analyses reveal new insights into the regulation of immune pathways during adenovirus type 2 infection.
Zhao H, Chen M, Valdés A, Lind SB, Pettersson U
BMC Microbiol. 19 (1) 15 [2019-01-14; online 2019-01-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The bile salt glycocholate induces global changes in gene and protein expression and activates virulence in enterotoxigenic Escherichia coli.
Joffre E, Nicklasson M, Álvarez-Carretero S, ..., Zhu B, Sjöling Å
Sci Rep 9 (1) 108 [2019-01-14; online 2019-01-14]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Rapid determination of quaternary protein structures in complex biological samples.
Hauri S, Khakzad H, Happonen L, ..., Malmström J, Malmström L
Nat Commun 10 (1) 192 [2019-01-14; online 2019-01-14]
Structural Proteomics [Technology development]
PubMed DOI Crossref
Targeted Analysis of Serum Proteins Encoded at Known Inflammatory Bowel Disease Risk Loci.
Drobin K, Assadi G, Hong MG, ..., D'Amato M, Halfvarson J
Inflamm Bowel Dis 25 (2) 306-316 [2019-01-10; online 2018-10-26]
Affinity Proteomics Stockholm [Collaborative] Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Mycobacterium tuberculosis virulence inhibitors discovered by Mycobacterium marinum high-throughput screening.
Tükenmez H, Edström I, Ummanni R, ..., Elofsson M, Larsson C
Sci Rep 9 (1) 26 [2019-01-10; online 2019-01-10]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
The genetic diversity and evolution of diatom-diazotroph associations highlights traits favoring symbiont integration.
Caputo A, Nylander JAA, Foster RA
FEMS Microbiol. Lett. - (-) - [2019-01-09; online 2019-01-09]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Diplodia Tip Blight on Its Way to the North: Drivers of Disease Emergence in Northern Europe.
Brodde L, Adamson K, Julio Camarero J, ..., Özdağ Ş, Oliva J
Front Plant Sci 9 (-) 1818 [2019-01-09; online 2019-01-09]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Decreased Snow Cover Stimulates Under-Ice Primary Producers but Impairs Methanotrophic Capacity.
Garcia SL, Szekely AJ, Bergvall C, Schattenhofer M, Peura S
mSphere 4 (1) - [2019-01-09; online 2019-01-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Fecal pollution can explain antibiotic resistance gene abundances in anthropogenically impacted environments.
Karkman A, Pärnänen K, Larsson DGJ
Nat Commun 10 (1) 80 [2019-01-08; online 2019-01-08]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Historical Genomes Reveal the Genomic Consequences of Recent Population Decline in Eastern Gorillas.
van der Valk T, Díez-Del-Molino D, Marques-Bonet T, Guschanski K, Dalén L
Curr. Biol. 29 (1) 165-170.e6 [2019-01-07; online 2018-12-27]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
AXIN1 in Plasma or Serum Is a Potential New Biomarker for Endometriosis.
Ek M, Roth B, Engström G, Ohlsson B
Int J Mol Sci 20 (1) 189 [2019-01-07; online 2019-01-07]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
The Versatility of SMRT Sequencing.
Hestand MS, Ameur A
Genes 10 (1) - [2019-01-04; online 2019-01-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Analysis of colony phase variation switch in Acinetobacter baumannii clinical isolates.
Ahmad I, Karah N, Nadeem A, Wai SN, Uhlin BE
PLoS ONE 14 (1) e0210082 [2019-01-04; online 2019-01-04]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Trans-ethnic kidney function association study reveals putative causal genes and effects on kidney-specific disease aetiologies.
Morris AP, Le TH, Wu H, ..., Humphreys BD, Franceschini N
Nat Commun 10 (1) 29 [2019-01-03; online 2019-01-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SubCellBarCode: Proteome-wide Mapping of Protein Localization and Relocalization.
Orre LM, Vesterlund M, Pan Y, ..., Fredlund E, Lehtiö J
Mol. Cell 73 (1) 166-182.e7 [2019-01-03; online 2019-01-05]
Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Technology development]
DOI Crossref
Intrinsic blinking characteristics of single colloidal CdSe-CdS/ZnS core-multishell quantum dots
Fu Y, Jussi J, Elmlund L, ..., Wang Q, Brismar H
Phys. Rev. B 99 (3) - [2019-01-02; online 2019-01-02]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Tracking the Epigenetic Clock Across the Human Life Course: A Meta-analysis of Longitudinal Cohort Data.
Marioni RE, Suderman M, Chen BH, ..., Deary IJ, Hägg S
J. Gerontol. A Biol. Sci. Med. Sci. 74 (1) 57-61 [2019-01-01; online 2018-05-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Soil organic carbon depletion and degradation in surface soil after long-term non-growing season warming in High Arctic Svalbard.
Semenchuk PR, Krab EJ, Hedenström M, ..., Ancin-Murguzur FJ, Cooper EJ
Sci. Total Environ. 646 (-) 158-167 [2019-01-01; online 2018-07-26]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
A standardized protocol for comparable analysis of GSH/GSSG by UHPLC-ESI-MSMS for human plasma.
Claeson AS, Gouveia-Figueira S, Stenlund H, Johansson AI
Journal of Chromatography B 1104 (-) 67-72 [2019-01-01; online 2018-11-10]
Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
ZBED6 negatively regulates insulin production, neuronal differentiation, and cell aggregation in MIN6 cells.
Wang X, Jiang L, Wallerman O, ..., Welsh N, Andersson L
FASEB J. 33 (1) 88-100 [2019-01-00; online 2018-06-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Tissue-specific hormone profiles from woody poplar roots under bending stress.
De Zio E, Trupiano D, Karady M, ..., Ljung K, Scippa GS
Physiol Plantarum 165 (1) 101-113 [2019-01-00; online 2018-10-15]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
The Iroquois homeobox proteins IRX3 and IRX5 have distinct roles in Wilms tumour development and human nephrogenesis.
Holmquist Mengelbier L, Lindell-Munther S, Yasui H, ..., Hopyan S, Gisselsson D
J. Pathol. 247 (1) 86-98 [2019-01-00; online 2018-11-29]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Single-Molecule Sequencing: Towards Clinical Applications.
Ameur A, Kloosterman WP, Hestand MS
Trends Biotechnol. 37 (1) 72-85 [2019-01-00; online 2018-08-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Shrunken Pore Syndrome Is Associated With Increased Levels of Atherosclerosis-Promoting Proteins.
Almén MS, Björk J, Nyman U, ..., Christensson A, Grubb A
Kidney International Reports 4 (1) 67-79 [2019-01-00; online 2018-09-13]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Near-complete phylogeny and taxonomic revision of the world's babblers (Aves: Passeriformes).
Cai T, Cibois A, Alström P, ..., Lei F, Fjeldså J
Mol. Phylogenet. Evol. 130 (-) 346-356 [2019-01-00; online 2018-10-12]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mosaic loss of chromosome Y in leukocytes matters.
Forsberg LA, Halvardson J, Rychlicka-Buniowska E, ..., Ingelsson M, Dumanski JP
Nat. Genet. 51 (1) 4-7 [2019-01-00; online 2018-10-31]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Introducing ribosomal tandem repeat barcoding for fungi.
Wurzbacher C, Larsson E, Bengtsson-Palme J, ..., Kagami M, Nilsson RH
Mol Ecol Resour 19 (1) 118-127 [2019-01-00; online 2018-10-24]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Intra- and interpatient evolution of enterovirus D68 analyzed by whole-genome deep sequencing.
Dyrdak R, Mastafa M, Hodcroft EB, Neher RA, Albert J
Virus Evol 5 (1) vez007 [2019-01-00; online 2019-04-24]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Growth differentiation factor 15 is positively associated with incidence of diabetes mellitus: the Malmö Diet and Cancer-Cardiovascular Cohort.
Bao X, Borné Y, Muhammad IF, ..., Orho-Melander M, Engström G
Diabetologia 62 (1) 78-86 [2019-01-00; online 2018-10-22]
Affinity Proteomics Stockholm [Service] Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service]
PubMed DOI Crossref
Genetic risk for neuroticism predicts emotional health depending on childhood adversity.
Lehto K, Karlsson I, Lundholm C, Pedersen NL
Psychol Med 49 (2) 260-267 [2019-01-00; online 2018-03-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exploring rare and low-frequency variants in the Saguenay-Lac-Saint-Jean population identified genes associated with asthma and allergy traits.
Morin A, Madore AM, Kwan T, ..., Pastinen T, Laprise C
Eur. J. Hum. Genet. 27 (1) 90-101 [2019-01-00; online 2018-09-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Effect of CTLA4-Ig (abatacept) treatment on T cells and B cells in peripheral blood of patients with polymyositis and dermatomyositis.
Tang Q, Ramsköld D, Krystufkova O, ..., Lundberg IE, Malmström V
Scand. J. Immunol. 89 (1) e12732 [2019-01-00; online 2018-12-09]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Cryo-EM structure of the yeast respiratory supercomplex.
Rathore S, Berndtsson J, Marin-Buera L, ..., Brzezinski P, Ott M
Nat. Struct. Mol. Biol. 26 (1) 50-57 [2019-01-00; online 2018-12-31]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Complete Genome Sequence of the Marine Hydrocarbon Degrader Alcaligenes aquatilis QD168, Isolated from Crude Oil-Polluted Sediment of Quintero Bay, Central Chile.
Durán RE, Barra-Sanhueza B, Salvà-Serra F, ..., Moore ERB, Seeger M
Microbiol Resour Announc 8 (5) - [2019-01-00; online 2019-01-31]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Auxin Function in the Brown Alga Dictyota dichotoma.
Bogaert KA, Blommaert L, Ljung K, Beeckman T, De Clerck O
Plant Physiol. 179 (1) 280-299 [2019-01-00; online 2018-11-12]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
An integrated transcriptome analysis in T-cell acute lymphoblastic leukemia links DNA methylation subgroups to dysregulated TAL1 and ANTP homeobox gene expression.
Haider Z, Larsson P, Landfors M, ..., Hultdin M, Degerman S
Cancer Med 8 (1) 311-324 [2019-01-00; online 2018-12-21]
Clinical Genomics [Collaborative] Clinical Genomics Umeå [Collaborative]
PubMed DOI Crossref
A Series of Analogues to the AT 2R Prototype Antagonist C38 Allow Fine Tuning of the Previously Reported Antagonist Binding Mode.
Isaksson R, Lindman J, Wannberg J, ..., Gising J, Larhed M
ChemistryOpen 8 (1) 114-125 [2019-01-00; online 2019-01-24]
Drug Discovery and Development (DDD) [Collaborative]
DOI Crossref
Understanding the mechanism of low temperature deactivation of Cu/SAPO-34 exposed to various amounts of water vapor in the NH3-SCR reaction
Woo J, Bernin D, Ahari H, ..., Zammit M, Olsson L
Catal. Sci. Technol. 9 (14) 3623-3636 [2019-00-00; online 2019-00-00]
Swedish NMR Centre (SNC) [Collaborative]
DOI Crossref
Trophic transfer of CuO NPs and dissolved Cu from sediment to worms to fish – a proof-of-concept study
Lammel T, Thit A, Mouneyrac C, ..., Sturve J, Selck H
Environ. Sci.: Nano 6 (4) 1140-1155 [2019-00-00; online 2019-00-00]
Integrated Microscopy Technologies Gothenburg [Service]
DOI Crossref
Pelvis Segmentation Using Multi-pass U-Net and Iterative Shape Estimation
Wang C, Connolly B, de Oliveira Lopes PF, Frangi AF, Smedby Ö
- - (-) 49-57 [2019-00-00; online 2019-01-09]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
DOI Crossref
Efficient and catalyst free synthesis of acrylic plastic precursors: methyl propionate and methyl methacrylate synthesis through reversible CO<sub>2</sub> capture
Khokarale SG, Mikkola JP
Green Chem. 21 (8) 2138-2147 [2019-00-00; online 2019-00-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Sensitive ADAR editing reporter in cancer cells enables high-throughput screening of small molecule libraries
Fritzell K, Xu LD, Otrocka M, Andréasson C, Öhman M
Nucleic Acids Res - (-) - [2018-12-22; online 2018-12-22]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
DOI Crossref
Zebrafish larvae as a model system for systematic characterization of drugs and genes in dyslipidemia and atherosclerosis
Bandaru MK, Emmanouilidou A, Ranefall P, ..., Ingelsson E, den Hoed M
- - (-) - [2018-12-20; online 2018-12-20]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
PRR14L mutations are associated with chromosome 22 acquired uniparental disomy, age-related clonal hematopoiesis and myeloid neoplasia.
Chase A, Pellagatti A, Singh S, ..., Boultwood J, Cross NCP
Leukemia - (-) - [2018-12-20; online 2018-12-20]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Targeted Delivery of Stk25 Antisense Oligonucleotides to Hepatocytes Protects Mice Against Nonalcoholic Fatty Liver Disease.
Cansby E, Nuñez-Durán E, Magnusson E, ..., Aghajan M, Mahlapuu M
Cellular and Molecular Gastroenterology and Hepatology 7 (3) 597-618 [2018-12-19; online 2018-12-19]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
PubMed DOI Crossref
Carbon's Three-Center, Four-Electron Tetrel Bond, Treated Experimentally.
Karim A, Schulz N, Andersson H, ..., Keller S, Erdélyi M
J. Am. Chem. Soc. 140 (50) 17571-17579 [2018-12-19; online 2018-12-07]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Red Fluorescent Chlamydia trachomatis Applied to Live Cell Imaging and Screening for Antibacterial Agents.
Mojica SA, Eriksson AU, Davis RA, ..., Elofsson M, Gylfe Å
Front Microbiol 9 (-) 3151 [2018-12-18; online 2018-12-18]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Rainbow Trout Maintain Intestinal Transport and Barrier Functions Following Exposure to Polystyrene Microplastics.
Ašmonaitė G, Sundh H, Asker N, Carney Almroth B
Environ. Sci. Technol. 52 (24) 14392-14401 [2018-12-18; online 2018-12-05]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
A multigene typing system for human adenoviruses reveals a new genotype in a collection of Swedish clinical isolates.
Kaján GL, Lipiec A, Bartha D, Allard A, Arnberg N
PLoS ONE 13 (12) e0209038 [2018-12-14; online 2018-12-14]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Significantly altered peripheral blood cell DNA methylation profile as a result of immediate effect of metformin use in healthy individuals.
Elbere I, Silamikelis I, Ustinova M, ..., Schiöth HB, Klovins J
Clin Epigenetics 10 (1) 156 [2018-12-13; online 2018-12-13]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transcriptional landscape of B cell precursor acute lymphoblastic leukemia based on an international study of 1,223 cases.
Li JF, Dai YT, Lilljebjörn H, ..., Chen SJ, Huang JY
Proc. Natl. Acad. Sci. U.S.A. 115 (50) E11711-E11720 [2018-12-11; online 2018-11-28]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Proteotyping bacteria: Characterization, differentiation and identification of pneumococcus and other species within the Mitis Group of the genus Streptococcus by tandem mass spectrometry proteomics.
Karlsson R, Gonzales-Siles L, Gomila M, ..., Kristiansson E, Moore ERB
PLoS ONE 13 (12) e0208804 [2018-12-10; online 2018-12-10]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Progress on Identifying and Characterizing the Human Proteome: 2018 Metrics from the HUPO Human Proteome Project.
Omenn GS, Lane L, Overall CM, ..., Baker MS, Deutsch EW
J. Proteome Res. 17 (12) 4031-4041 [2018-12-07; online 2018-08-23]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
PhenoMeNal: Processing and analysis of Metabolomics data in the Cloud.
Peters K, Bradbury J, Bergmann S, ..., Zanetti G, Steinbeck C
Gigascience - (-) - [2018-12-07; online 2018-12-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Cotranslational Folding of a Pentarepeat β-Helix Protein.
Notari L, Martínez-Carranza M, Farías-Rico JA, Stenmark P, von Heijne G
J. Mol. Biol. 430 (24) 5196-5206 [2018-12-07; online 2018-10-27]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Somatic Structural Alterations in Childhood Leukemia Can Be Backtracked in Neonatal Dried Blood Spots by Use of Whole-Genome Sequencing and Digital PCR.
Taylan F, Bang B, Öfverholm II, ..., Zachariadis V, Nordgren A
Clin. Chem. - (-) - [2018-12-05; online 2018-12-05]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Porous Cellulose Nanofiber-Based Microcapsules for Biomolecular Sensing.
Paulraj T, Wennmalm S, Riazanova AV, ..., Crespo GA, Svagan AJ
ACS Appl Mater Interfaces 10 (48) 41146-41154 [2018-12-05; online 2018-11-26]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
A Novel Inorganic Sulfur Compound Metabolizing Ferroplasma-Like Population Is Suggested to Mediate Extracellular Electron Transfer.
Ni G, Simone D, Palma D, ..., Turner S, Dopson M
Front Microbiol 9 (-) 2945 [2018-12-05; online 2018-12-05]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatially and functionally distinct subclasses of breast cancer-associated fibroblasts revealed by single cell RNA sequencing.
Bartoschek M, Oskolkov N, Bocci M, ..., Björklund Å, Pietras K
Nat Commun 9 (1) 5150 [2018-12-04; online 2018-12-04]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Membrane fluidity is regulated by the C. elegans transmembrane protein FLD-1 and its human homologs TLCD1/2.
Ruiz M, Bodhicharla R, Svensk E, ..., Boren J, Pilon M
Elife 7 (-) - [2018-12-04; online 2018-12-04]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Crystal Structures and Cytotoxicity of ent-Kaurane-Type Diterpenoids from Two Aspilia Species.
Yaouba S, Valkonen A, Coghi P, ..., Erdélyi M, Yenesew A
Molecules 23 (12) 3199 [2018-12-04; online 2018-12-04]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Transcriptional and Epigenetic Changes Influencing Skeletal Muscle Metabolism in Women With Polycystic Ovary Syndrome.
Nilsson E, Benrick A, Kokosar M, ..., Ling C, Stener-Victorin E
J. Clin. Endocrinol. Metab. 103 (12) 4465-4477 [2018-12-01; online 2018-08-17]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Impact of forced fatty acid synthesis on metabolism and physiology of Saccharomyces cerevisiae.
Gossing M, Smialowska A, Nielsen J
FEMS Yeast Res. 18 (8) - [2018-12-01; online 2018-09-01]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Whole Exome Sequencing of Patients from Multicase Families with Systemic Lupus Erythematosus Identifies Multiple Rare Variants
Delgado-Vega AM, Martínez-Bueno M, Oparina NY, ..., Kozyrev SV, Alarcón-Riquelme ME
Sci Rep 8 (1) - [2018-12-00; online 2018-06-08]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Ulvan lyase from Formosa agariphila and its applicability in depolymerisation of ulvan extracted from three different Ulva species
Konasani VR, Jin C, Karlsson NG, Albers E
Algal Research 36 (-) 106-114 [2018-12-00; online 2018-12-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Transancestral GWAS of alcohol dependence reveals common genetic underpinnings with psychiatric disorders
Walters RK, None , Polimanti R, ..., Edenberg HJ, Agrawal A
Nat Neurosci 21 (12) 1656-1669 [2018-12-00; online 2018-11-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The gut microbiome participates in transgenerational inheritance of low-temperature responses in Drosophila melanogaster.
Zare A, Johansson AM, Karlsson E, Delhomme N, Stenberg P
FEBS Lett. 592 (24) 4078-4086 [2018-12-00; online 2018-11-15]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Mutant p53-Targeting Compound APR-246 Induces ROS-Modulating Genes in Breast Cancer Cells.
Synnott NC, Madden SF, Bykov VJN, ..., Wiman KG, Duffy MJ
Transl Oncol 11 (6) 1343-1349 [2018-12-00; online 2018-09-06]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Targeting PFKFB3 radiosensitizes cancer cells and suppresses homologous recombination
Gustafsson NMS, Färnegårdh K, Bonagas N, ..., Olin T, Helleday T
Nat Commun 9 (1) - [2018-12-00; online 2018-09-24]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Service] Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
T-cell transcriptomics from peripheral blood highlights differences between polymyositis and dermatomyositis patients
Houtman M, Ekholm L, Hesselberg E, ..., Lundberg IE, Padyukov L
Arthritis Res. Ther. 20 (1) - [2018-12-00; online 2018-08-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structure of a functional obligate complex III 2IV2 respiratory supercomplex from Mycobacterium smegmatis.
Wiseman B, Nitharwal RG, Fedotovskaya O, ..., Brzezinski P, Högbom M
Nat. Struct. Mol. Biol. 25 (12) 1128-1136 [2018-12-00; online 2018-12-05]
Cryo-EM [Service]
PubMed DOI Crossref
Stereocilin gene variants associated with episodic vertigo: expansion of the DFNB16 phenotype.
Frykholm C, Klar J, Tomanovic T, Ameur A, Dahl N
Eur. J. Hum. Genet. 26 (12) 1871-1874 [2018-12-00; online 2018-09-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Somatic mutagenesis in satellite cells associates with human skeletal muscle aging
Franco I, Johansson A, Olsson K, ..., Fischer H, Eriksson M
Nat Commun 9 (1) - [2018-12-00; online 2018-02-23]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Sharing of photobionts in sympatric populations of Thamnolia and Cetraria lichens: evidence from high-throughput sequencing
Onuț-Brännström I, Benjamin M, Scofield DG, ..., Lindström ES, Johannesson H
Sci Rep 8 (1) - [2018-12-00; online 2018-03-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
RNA-sequencing reveals long-term effects of silver nanoparticles on human lung cells
Gliga AR, Di Bucchianico S, Lindvall J, Fadeel B, Karlsson HL
Sci Rep 8 (1) - [2018-12-00; online 2018-04-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Publisher Correction: A DHODH inhibitor increases p53 synthesis and enhances tumor cell killing by p53 degradation blockage
Ladds MJGW, van Leeuwen IMM, Drummond CJ, ..., McCormack E, Laín S
Nat Commun 9 (1) - [2018-12-00; online 2018-05-22]
Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Protein Profiling in Serum and Cerebrospinal Fluid Following Complex Surgery on the Thoracic Aorta Identifies Biological Markers of Neurologic Injury.
Lindblom RPF, Shen Q, Axén S, ..., Kamali-Moghaddam M, Thelin S
J. of Cardiovasc. Trans. Res. 11 (6) 503-516 [2018-12-00; online 2018-10-26]
Affinity Proteomics Uppsala [Collaborative] Bioinformatics Support for Computational Resources [Service] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
Oxidatively stressed mitochondria-mimicking membranes: A molecular insight into their organization during apoptosis.
Dingeldein APG, Sparrman T, Gröbner G
Biochimica et Biophysica Acta (BBA) - Biomembranes 1860 (12) 2644-2654 [2018-12-00; online 2018-10-05]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Molecular Investigation of the Ciliate Spirostomum semivirescens, with First Transcriptome and New Geographical Records
Hines HN, Onsbring H, Ettema TJG, Esteban GF
Protist 169 (6) 875-886 [2018-12-00; online 2018-12-00]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Linking FOXO3, NCOA3, and TCF7L2 to Ras pathway phenotypes through a genome-wide forward genetic screen in human colorectal cancer cells
Kundu S, Ali MA, Handin N, ..., Hellström M, Sjöblom T
Genome Med 10 (1) - [2018-12-00; online 2018-01-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Intramolecular 13C analysis of tree rings provides multiple plant ecophysiology signals covering decades
Wieloch T, Ehlers I, Yu J, ..., Gessler A, Schleucher J
Sci Rep 8 (1) - [2018-12-00; online 2018-03-22]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Individual Genetic Variation Might Predict Acute Skin Reactions in Women Undergoing Adjuvant Breast Cancer Radiotherapy.
Oliva D, Nilsson M, Strandéus M, ..., Laytragoon-Lewin N, Lewin F
Anticancer Res. 38 (12) 6763-6770 [2018-12-00; online 2018-12-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Image-Based Detection of Patient-Specific Drug-Induced Cell-Cycle Effects in Glioblastoma.
Matuszewski DJ, Wählby C, Krona C, Nelander S, Sintorn IM
SLAS DISCOVERY: Advancing Life Sciences R&D 23 (10) 1030-1039 [2018-12-00; online 2018-08-03]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
High-efficient bacterial production of human ApoA-I amyloidogenic variants.
Del Giudice R, Lagerstedt JO
Protein Sci. 27 (12) 2101-2109 [2018-12-00; online 2018-10-07]
Structural Proteomics [Service]
PubMed DOI Crossref
Genomic screening in rare disorders: New mutations and phenotypes, highlighting ALG14 as a novel cause of severe intellectual disability.
Kvarnung M, Taylan F, Nilsson D, ..., Nordgren A, Lundberg ES
Clin. Genet. 94 (6) 528-537 [2018-12-00; online 2018-10-15]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genomes from uncultivated prokaryotes: a comparison of metagenome-assembled and single-amplified genomes
Alneberg J, Karlsson CMG, Divne AM, ..., Andersson AF, Pinhassi J
Microbiome 6 (1) - [2018-12-00; online 2018-09-28]
Bioinformatics Support for Computational Resources [Service] Microbial Single Cell Genomics [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome sequencing and conservation genomics in the Scandinavian wolverine population
Ekblom R, Brechlin B, Persson J, ..., Flagstad Ø, Ellegren H
Conservation Biology 32 (6) 1301-1312 [2018-12-00; online 2018-09-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genetic characterization of a novel picorna-like virus in Culex spp. mosquitoes from Mozambique
Cholleti H, Hayer J, Fafetine J, Berg M, Blomström AL
Virol J 15 (1) - [2018-12-00; online 2018-04-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Gene expression correlated with delay in shell formation in larval Pacific oysters (Crassostrea gigas) exposed to experimental ocean acidification provides insights into shell formation mechanisms
De Wit P, Durland E, Ventura A, Langdon CJ
BMC Genomics 19 (1) - [2018-12-00; online 2018-02-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
GWAS and colocalization analyses implicate carotid intima-media thickness and carotid plaque loci in cardiovascular outcomes
Franceschini N, None , Giambartolomei C, ..., Casas JP, O’Donnell CJ
Nat Commun 9 (1) - [2018-12-00; online 2018-12-03]
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PubMed DOI Crossref
Extracellular nanovesicles released from the commensal yeast Malassezia sympodialis are enriched in allergens and interact with cells in human skin
Johansson HJ, Vallhov H, Holm T, ..., Lehtiö J, Scheynius A
Sci Rep 8 (1) - [2018-12-00; online 2018-06-15]
Bioinformatics Support for Computational Resources [Service] Cryo-EM [Service] Global Proteomics and Proteogenomics [Collaborative] Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Exploring benzimidazole resistance in Haemonchus contortus by next generation sequencing and droplet digital PCR
Baltrušis P, Halvarsson P, Höglund J
International Journal for Parasitology: Drugs and Drug Resistance 8 (3) 411-419 [2018-12-00; online 2018-12-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Epigenetics and early domestication: differences in hypothalamic DNA methylation between red junglefowl divergently selected for high or low fear of humans
Bélteky J, Agnvall B, Bektic L, ..., Jensen P, Guerrero-Bosagna C
Genet. Sel. Evol. 50 (1) - [2018-12-00; online 2018-04-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Eleven percent intact PGM3 in a severely immunodeficient patient with a novel splice-site mutation, a case report
Lundin KE, Wang Q, Hamasy A, ..., Ekwall O, Smith CIE
BMC Pediatr 18 (1) 285 [2018-12-00; online 2018-08-29]
Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative]
PubMed DOI Crossref
Effects of predation stress and food ration on perch gut microbiota
Zha Y, Eiler A, Johansson F, Svanbäck R
Microbiome 6 (1) - [2018-12-00; online 2018-02-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
EMBLmyGFF3: a converter facilitating genome annotation submission to European Nucleotide Archive
Norling M, Jareborg N, Dainat J
BMC Res Notes 11 (1) - [2018-12-00; online 2018-08-13]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support and Infrastructure [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
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Convergent evolution of complex genomic rearrangements in two fungal meiotic drive elements
Svedberg J, Hosseini S, Chen J, ..., Lascoux M, Johannesson H
Nat Commun 9 (1) - [2018-12-00; online 2018-10-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Comprehensive analysis of CTNNB1 in adrenocortical carcinomas: Identification of novel mutations and correlation to survival
Maharjan R, Backman S, Åkerström T, Hellman P, Björklund P
Sci Rep 8 (1) 8610 [2018-12-00; online 2018-06-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Comparative omics and feeding manipulations in chicken indicate a shift of the endocrine role of visceral fat towards reproduction
Bornelöv S, Seroussi E, Yosefi S, ..., Andersson L, Friedman-Einat M
BMC Genomics 19 (1) - [2018-12-00; online 2018-04-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Anti-Rift Valley fever virus activity in vitro, pre-clinical pharmacokinetics and oral bioavailability of benzavir-2, a broad-acting antiviral compound
Islam MK, Strand M, Saleeb M, ..., Elofsson M, Evander M
Sci Rep 8 (1) - [2018-12-00; online 2018-01-31]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Service] Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Analysis of porcine body size variation using re-sequencing data of miniature and large pigs
Reimer C, Rubin CJ, Sharifi AR, ..., Schlather M, Simianer H
BMC Genomics 19 (1) - [2018-12-00; online 2018-09-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Aberrant splicing and defective mRNA production induced by somatic spliceosome mutations in myelodysplasia
Shiozawa Y, Malcovati L, Gallì A, ..., Ogawa S, Cazzola M
Nat Commun 9 (1) - [2018-12-00; online 2018-09-07]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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A randomized controlled cross-over trial investigating the effect of anti-inflammatory diet on disease activity and quality of life in rheumatoid arthritis: the Anti-inflammatory Diet In Rheumatoid Arthritis (ADIRA) study protocol
Winkvist A, Bärebring L, Gjertsson I, Ellegård L, Lindqvist HM
Nutr J 17 (1) - [2018-12-00; online 2018-04-20]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
A novel ulvan lyase family with broad-spectrum activity from the ulvan utilisation loci of Formosa agariphila KMM 3901
Konasani VR, Jin C, Karlsson NG, Albers E
Sci Rep 8 (1) - [2018-12-00; online 2018-10-02]
Glycoproteomics and MS Proteomics [Service] Swedish NMR Centre (SNC) [Service]
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A novel derivative of the fungal antimicrobial peptide plectasin is active against Mycobacterium tuberculosis.
Tenland E, Krishnan N, Rönnholm A, ..., Robertson BD, Godaly G
Tuberculosis 113 (-) 231-238 [2018-12-00; online 2018-10-30]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
A major locus controls local adaptation and adaptive life history variation in a perennial plant
Wang J, Ding J, Tan B, ..., Street NR, Ingvarsson PK
Genome Biol. 19 (1) - [2018-12-00; online 2018-06-04]
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A drug screening assay on cancer cells chronically adapted to acidosis
Pellegrini P, Serviss JT, Lundbäck T, ..., Linder S, De Milito A
Cancer Cell Int 18 (1) - [2018-12-00; online 2018-09-25]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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A comprehensive map coupling histone modifications with gene regulation in adult dopaminergic and serotonergic neurons
Södersten E, Toskas K, Rraklli V, ..., Perlmann T, Holmberg J
Nat Commun 9 (1) - [2018-12-00; online 2018-03-26]
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Using High Content Imaging to Quantify Target Engagement in Adherent Cells.
Axelsson H, Almqvist H, Seashore-Ludlow B
J Vis Exp - (141) - [2018-11-29; online 2018-11-29]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
PubMed DOI Crossref
The Human Salivary Antimicrobial Peptide Profile according to the Oral Microbiota in Health, Periodontitis and Smoking.
Grant M, Kilsgård O, Åkerman S, ..., Malmström J, Jönsson D
J Innate Immun 11 (5) 432-444 [2018-11-28; online 2018-11-28]
Structural Proteomics [Collaborative]
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RollFISH achieves robust quantification of single-molecule RNA biomarkers in paraffin-embedded tumor tissue samples.
Wu C, Simonetti M, Rossell C, ..., Crosetto N, Nilsson M
Commun Biol 1 (-) 209 [2018-11-28; online 2018-11-28]
Advanced FISH Technologies [Technology development] In Situ Sequencing (ISS) [Technology development]
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Metabolic control of PPAR activity by aldehyde dehydrogenase regulates invasive cell behavior and predicts survival in hepatocellular and renal clear cell carcinoma.
Andrejeva D, Kugler JM, Nguyen HT, ..., Loya AC, Cohen SM
BMC Cancer 18 (1) 1180 [2018-11-28; online 2018-11-28]
Swedish NMR Centre (SNC) [Service]
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Folding pathway of an Ig domain is conserved on and off the ribosome.
Tian P, Steward A, Kudva R, ..., Clarke J, Best RB
Proc. Natl. Acad. Sci. U.S.A. 115 (48) E11284-E11293 [2018-11-27; online 2018-11-09]
Cryo-EM [Service]
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Depth and Dissolved Organic Carbon Shape Microbial Communities in Surface Influenced but Not Ancient Saline Terrestrial Aquifers.
Lopez-Fernandez M, Åström M, Bertilsson S, Dopson M
Front Microbiol 9 (-) 2880 [2018-11-27; online 2018-11-27]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The shape of the bacterial ribosome exit tunnel affects cotranslational protein folding.
Kudva R, Tian P, Pardo-Avila F, ..., Bernstein HD, von Heijne G
Elife 7 (-) - [2018-11-26; online 2018-11-26]
Cryo-EM [Service]
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Out in the Cold: Identification of Genomic Regions Associated With Cold Tolerance in the Biocontrol Fungus Clonostachys rosea Through Genome-Wide Association Mapping.
Broberg M, Dubey M, Sun MH, ..., Brandström Durling M, Karlsson M
Front Microbiol 9 (-) 2844 [2018-11-22; online 2018-11-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Cell-free DNA profiling of metastatic prostate cancer reveals microsatellite instability, structural rearrangements and clonal hematopoiesis.
Mayrhofer M, De Laere B, Whitington T, ..., Grönberg H, Lindberg J
Genome Med 10 (1) 85 [2018-11-21; online 2018-05-11]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Metatranscriptomes Reveal That All Three Domains of Life Are Active but Are Dominated by Bacteria in the Fennoscandian Crystalline Granitic Continental Deep Biosphere
Lopez-Fernandez M, Simone D, Wu X, ..., Bertilsson S, Dopson M
MBio 9 (6) - [2018-11-20; online 2018-11-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Quantitative Interpretation of Intracellular Drug Binding and Kinetics Using the Cellular Thermal Shift Assay
Seashore-Ludlow B, Axelsson H, Almqvist H, ..., Jonsson M, Lundbäck T
Biochemistry - (-) - [2018-11-19; online 2018-11-19]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
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Genome-Wide Association Studies of Estimated Fatty Acid Desaturase Activity in Serum and Adipose Tissue in Elderly Individuals: Associations with Insulin Sensitivity
Marklund M, Morris A, Mahajan A, ..., Lind L, Risérus U
Nutrients 10 (11) 1791 [2018-11-17; online 2018-11-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Small-molecule inhibitor of OGG1 suppresses proinflammatory gene expression and inflammation.
Visnes T, Cázares-Körner A, Hao W, ..., Boldogh I, Helleday T
Science 362 (6416) 834-839 [2018-11-16; online 2018-11-18]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Collaborative] Chemical Proteomics [Collaborative] Drug Discovery and Development (DDD) [Service] Protein Science Facility (PSF) [Service]
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MutT homologue 1 (MTH1) catalyzes the hydrolysis of mutagenic O6-methyl-dGTP.
Jemth AS, Gustafsson R, Bräutigam L, ..., Stenmark P, Helleday T
Nucleic Acids Res. 46 (20) 10888-10904 [2018-11-16; online 2018-10-12]
Protein Science Facility (PSF) [Service]
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Expression profiling and in situ screening of circular RNAs in human tissues.
Zaghlool A, Ameur A, Wu C, ..., Nilsson M, Feuk L
Sci Rep 8 (1) 16953 [2018-11-16; online 2018-11-16]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] In Situ Sequencing (ISS) [Technology development] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
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Diazotrophs and N2-Fixation Associated With Particles in Coastal Estuarine Waters.
Pedersen JN, Bombar D, Paerl RW, Riemann L
Front Microbiol 9 (-) 2759 [2018-11-16; online 2018-11-16]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Diet-dependent gene expression highlights the importance of Cytochrome P450 in detoxification of algal secondary metabolites in a marine isopod.
De Wit P, Yamada K, Panova M, André C, Johannesson K
Sci Rep 8 (1) 16824 [2018-11-14; online 2018-11-14]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Comparative Analysis of the Nodule Transcriptomes of Ceanothus thyrsiflorus (Rhamnaceae, Rosales) and Datisca glomerata (Datiscaceae, Cucurbitales).
Salgado MG, van Velzen R, Nguyen TV, ..., Lundin D, Pawlowski K
Front Plant Sci 9 (-) 1629 [2018-11-14; online 2018-11-14]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Satiety Factors Oleoylethanolamide, Stearoylethanolamide, and Palmitoylethanolamide in Mother's Milk Are Strongly Associated with Infant Weight at Four Months of Age-Data from the Odense Child Cohort.
Bruun S, Gouveia-Figueira S, Domellöf M, ..., Fowler CJ, Zachariassen G
Nutrients 10 (11) 1747 [2018-11-13; online 2018-11-13]
Swedish Metabolomics Centre (SMC) [Service]
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Integrative Analysis of Three RNA Sequencing Methods Identifies Mutually Exclusive Exons of MADS-Box Isoforms During Early Bud Development in Picea abies
Akhter S, Kretzschmar WW, Nordal V, ..., Emanuelsson O, Sundström JF
Front Plant Sci 9 (-) - [2018-11-13; online 2018-11-13]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Parallel plumage colour evolution and introgressive hybridization in wheatears.
Schweizer M, Warmuth V, Alaei Kakhki N, ..., Suh A, Burri R
J. Evol. Biol. - (-) - [2018-11-12; online 2018-11-12]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Disease-specific oligodendrocyte lineage cells arise in multiple sclerosis
Falcão AM, van Bruggen D, Marques S, ..., Guerreiro-Cacais AO, Castelo-Branco G
Nat Med - (-) - [2018-11-12; online 2018-11-12]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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New tools for automated high-resolution cryo-EM structure determination in RELION-3
Zivanov J, Nakane T, Forsberg BO, ..., Lindahl E, Scheres SH
Elife 7 (-) - [2018-11-09; online 2018-11-09]
Cryo-EM [Technology development]
PubMed DOI Crossref
Affinity to cellulose is a shared property among coiled-coil domains of intermediate filaments and prokaryotic intermediate filament-like proteins.
Söderholm N, Javadi A, Flores IS, Flärdh K, Sandblad L
Sci Rep 8 (1) 16524 [2018-11-08; online 2018-11-08]
Cryo-EM [Service]
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Markers of Basement Membrane Remodeling Are Associated With Higher Mortality in Patients With Known Atherosclerosis.
Holm Nielsen S, Tengryd C, Edsfeldt A, ..., Nilsson J, Goncalves I
J Am Heart Assoc 7 (21) e009193 [2018-11-06; online 2019-01-05]
Affinity Proteomics Stockholm [Service] Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service]
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Vandermonde Factorization of Hankel Matrix for Complex Exponential Signal Recovery—Application in Fast NMR Spectroscopy
Ying J, Cai JF, Guo D, ..., Chen Z, Qu X
IEEE Trans. Signal Process. 66 (21) 5520-5533 [2018-11-01; online 2018-11-01]
Swedish NMR Centre (SNC) [Service]
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Structures of two fimbrial adhesins, AtfE and UcaD, from the uropathogen Proteus mirabilis.
Jiang W, Ubhayasekera W, Pearson MM, Knight SD
Acta Crystallogr D Struct Biol 74 (Pt 11) 1053-1062 [2018-11-01; online 2018-10-29]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Computational and Statistical Analysis of Array-Based DNA Methylation Data.
Nordlund J, Bäcklin C, Raine A
Methods Mol. Biol. 1878 (-) 173-191 [2018-11-01; online 2018-11-01]
NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]
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VEGF receptor-2/neuropilin 1 trans-complex formation between endothelial and tumor cells is an independent predictor of pancreatic cancer survival
Morin E, Sjöberg E, Tjomsland V, ..., Sjöblom T, Claesson-Welsh L
J. Pathol 246 (3) 311-322 [2018-11-00; online 2018-09-04]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Upregulated BMP-Smad signaling activity in the glucuronyl C5-epimerase knock out MEF cells
Batool T, Fang J, Jansson V, ..., Moustakas A, Li JP
Cellular Signalling - (-) - [2018-11-00; online 2018-11-00]
Affinity Proteomics Uppsala [Collaborative] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
Uncovering the regional localization of inhaled salmeterol retention in the lung.
Bäckström E, Hamm G, Nilsson A, ..., Goodwin RJA, Fridén M
Drug Deliv 25 (1) 838-845 [2018-11-00; online 2018-03-29]
Spatial Mass Spectrometry [Service]
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Serum, plasma and erythrocyte membrane lipidomes in infants fed formula supplemented with bovine milk fat globule membranes.
Grip T, Dyrlund TS, Ahonen L, ..., Orešič M, Timby N
Pediatr. Res. 84 (5) 726-732 [2018-11-00; online 2018-08-04]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Replicative and non-replicative mechanisms in the formation of clustered CNVs are indicated by whole genome characterization.
Nazaryan-Petersen L, Eisfeldt J, Pettersson M, ..., Tümer Z, Lindstrand A
PLoS Genet. 14 (11) e1007780 [2018-11-00; online 2018-11-12]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Preparation of plant tissue to enable Spatial Transcriptomics profiling using barcoded microarrays.
Giacomello S, Lundeberg J
Nat Protoc 13 (11) 2425-2446 [2018-11-00; online 2018-10-26]
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One-view breast tomosynthesis versus two-view mammography in the Malmö Breast Tomosynthesis Screening Trial (MBTST): a prospective, population-based, diagnostic accuracy study
Zackrisson S, Lång K, Rosso A, ..., Tingberg A, Andersson I
The Lancet Oncology 19 (11) 1493-1503 [2018-11-00; online 2018-11-00]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Notch signaling promotes a HIF2α-driven hypoxic response in multiple tumor cell types.
Mutvei AP, Landor SK, Fox R, ..., Jin S, Lendahl U
Oncogene 37 (46) 6083-6095 [2018-11-00; online 2018-07-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Metal-free ribonucleotide reduction powered by a DOPA radical in Mycoplasma pathogens.
Srinivas V, Lebrette H, Lundin D, ..., Sjöberg BM, Högbom M
Nature 563 (7731) 416-420 [2018-11-00; online 2018-10-31]
Global Proteomics and Proteogenomics [Collaborative]
PubMed DOI Crossref
LMO7 and LIMCH1 interact with LRIG proteins in lung cancer, with prognostic implications for early-stage disease.
Karlsson T, Kvarnbrink S, Holmlund C, ..., Johansson M, Hedman H
Lung Cancer 125 (-) 174-184 [2018-11-00; online 2018-09-24]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Isomeric Separation and Recognition of Anionic and Zwitterionic N-glycans from Royal Jelly Glycoproteins.
Hykollari A, Malzl D, Eckmair B, ..., Wilson IBH, Paschinger K
Mol. Cell Proteomics 17 (11) 2177-2196 [2018-11-00; online 2018-08-13]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Glycomics@ExPASy: Bridging the Gap.
Mariethoz J, Alocci D, Gastaldello A, ..., Packer NH, Lisacek F
Mol. Cell Proteomics 17 (11) 2164-2176 [2018-11-00; online 2018-08-10]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Genomes of two archaeal endosymbionts show convergent adaptations to an intracellular lifestyle
Lind AE, Lewis WH, Spang A, ..., Embley TM, Ettema TJG
ISME J 12 (11) 2655-2667 [2018-11-00; online 2018-07-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome Analyses of >200,000 Individuals Identify 58 Loci for Chronic Inflammation and Highlight Pathways that Link Inflammation and Complex Disorders
Ligthart S, Vaez A, Võsa U, ..., Frayling TM, Slagboom EP
The American Journal of Human Genetics 103 (5) 691-706 [2018-11-00; online 2018-11-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Fine-mapping type 2 diabetes loci to single-variant resolution using high-density imputation and islet-specific epigenome maps.
Mahajan A, Taliun D, Thurner M, ..., Boehnke M, McCarthy MI
Nat. Genet. 50 (11) 1505-1513 [2018-11-00; online 2018-10-08]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Detection of autoantibodies against cancer-testis antigens in non-small cell lung cancer.
Djureinovic D, Dodig-Crnković T, Hellström C, ..., Schwenk JM, Micke P
Lung Cancer 125 (-) 157-163 [2018-11-00; online 2018-09-17]
Autoimmunity and Serology Profiling [Service] Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Convergent evolution of 11p allelic loss in multifocal Wilms tumors arising in WT1 mutation carriers.
Valind A, Wessman S, Pal N, ..., Sandstedt B, Gisselsson D
Pediatr Blood Cancer 65 (11) e27301 [2018-11-00; online 2018-07-03]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Barcoded solid-phase RNA capture for Spatial Transcriptomics profiling in mammalian tissue sections.
Salmén F, Ståhl PL, Mollbrink A, ..., Frisén J, Lundeberg J
Nat Protoc 13 (11) 2501-2534 [2018-11-00; online 2018-10-26]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Gene-level associations in suicide attempter families show overrepresentation of synaptic genes and genes differentially expressed in brain development
Sokolowski M, Wasserman J, Wasserman D
Am. J. Med. Genet. - (-) - [2018-10-31; online 2018-10-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Copper Chaperone Atox1 Interacts with Cell Cycle Proteins.
Matson Dzebo M, Blockhuys S, Valenzuela S, ..., Esbjörner EK, Wittung-Stafshede P
Computational and Structural Biotechnology Journal 16 (-) 443-449 [2018-10-31; online 2018-10-31]
Glycoproteomics and MS Proteomics [Service]
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SMAD4 Is Essential for Human Cardiac Mesodermal Precursor Cell Formation.
Xu J, Gruber PJ, Chien KR
Stem Cells - (-) - [2018-10-30; online 2018-10-30]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Quantitative proteomic characterization of the lung extracellular matrix in chronic obstructive pulmonary disease and idiopathic pulmonary fibrosis.
Åhrman E, Hallgren O, Malmström L, ..., Westergren-Thorsson G, Malmström J
J Proteomics 189 (-) 23-33 [2018-10-30; online 2018-03-01]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
E. coli HMS174(DE3) is a sustainable alternative to BL21(DE3).
Hausjell J, Weissensteiner J, Molitor C, Halbwirth H, Spadiut O
Microb. Cell Fact. 17 (1) 169 [2018-10-30; online 2018-10-30]
Protein Science Facility (PSF) [Service]
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Cigarette smoking affects microRNAs and inflammatory biomarkers in healthy individuals and an association to single nucleotide polymorphisms is indicated
Andersson BÅ, Sayardoust S, Löfgren S, Rutqvist LE, Laytragoon-Lewin N
Biomarkers - (-) 1-17 [2018-10-30; online 2018-10-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Functional and evolutionary genomic inferences in Populus through genome and population sequencing of American and European aspen
Lin YC, Wang J, Delhomme N, ..., Ingvarsson PK, Street NR
Proc Natl Acad Sci USA - (-) 201801437 [2018-10-29; online 2018-10-29]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Targeting autophagy by small molecule inhibitors of vacuolar protein sorting 34 (Vps34) improves the sensitivity of breast cancer cells to Sunitinib.
Dyczynski M, Yu Y, Otrocka M, ..., De Milito A, Pokrovskaja Tamm K
Cancer Lett. 435 (-) 32-43 [2018-10-28; online 2018-07-25]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Single-cell RNA-seq analysis reveals the platinum resistance gene COX7B and the surrogate marker CD63.
Tanaka N, Katayama S, Reddy A, ..., Oya M, Uhlén P
Cancer Med - (-) - [2018-10-26; online 2018-10-26]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Single-Stranded Nucleic Acids Regulate TLR3/4/7 Activation through Interference with Clathrin-Mediated Endocytosis.
Järver P, Dondalska A, Poux C, ..., LeGrand R, Spetz AL
Sci Rep 8 (1) 15841 [2018-10-26; online 2018-10-26]
Global Proteomics and Proteogenomics [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Role of OmpA1 and OmpA2 in Aggregatibacter actinomycetemcomitans and Aggregatibacter aphrophilus serum resistance.
Lindholm M, Min Aung K, Nyunt Wai S, Oscarsson J
Journal of Oral Microbiology 11 (1) 1536192 [2018-10-26; online 2018-10-26]
Cryo-EM [Service]
PubMed DOI Crossref
STAT3 differential scanning fluorimetry and differential scanning light scattering assays: Addressing a missing link in the characterization of STAT3 inhibitor interactions.
Desroses M, Busker S, Astorga-Wells J, ..., Grandér D, Page BDG
Journal of Pharmaceutical and Biomedical Analysis 160 (-) 80-88 [2018-10-25; online 2018-07-17]
Chemical Proteomics [Collaborative] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Detection of post-translational modifications using solid-phase proximity ligation assay.
Oliveira FMS, Mereiter S, Lönn P, ..., Reis CA, Kamali-Moghaddam M
N Biotechnol 45 (-) 51-59 [2018-10-25; online 2017-10-31]
Affinity Proteomics Uppsala [Technology development] Glycoproteomics and MS Proteomics [Technology development] PLA and Single Cell Proteomics [Technology development]
PubMed DOI Crossref
Combination of phage and Gram-positive bacterial display of human antibody repertoires enables isolation of functional high affinity binders.
Hu FJ, Volk AL, Persson H, ..., Uhlen M, Rockberg J
N Biotechnol 45 (-) 80-88 [2018-10-25; online 2017-08-01]
Drug Discovery and Development (DDD) [Technology development]
PubMed DOI Crossref
Amplification of the Melanocortin-1 Receptor in Nephrotic Syndrome Identifies a Target for Podocyte Cytoskeleton Stabilization.
Bergwall L, Wallentin H, Elvin J, ..., Nyström J, Buvall L
Sci Rep 8 (1) 15731 [2018-10-24; online 2018-10-24]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
XLSY: Extra-Large NMR Spectroscopy
Pustovalova Y, Mayzel M, Orekhov VY
Angew. Chem. Int. Ed. 57 (43) 14043-14045 [2018-10-22; online 2018-10-01]
Swedish NMR Centre (SNC) [Technology development]
PubMed DOI Crossref
Role of Thiol Reactivity for Targeting Mutant p53.
Zhang Q, Bergman J, Wiman KG, Bykov VJN
Cell Chem Biol 25 (10) 1219-1230.e3 [2018-10-18; online 2018-07-26]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Identification of Potential Plasma Biomarkers for Abdominal Aortic Aneurysm Using Tandem Mass Tag Quantitative Proteomics.
Henriksson AE, Lindqvist M, Sihlbom C, Bergström J, Bylund D
Proteomes 6 (4) - [2018-10-18; online 2018-10-18]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Looking for a Treatment for Hailey-Hailey Disease: The Importance of Being Consistent in Case Reports.
Micaroni M
J Cutan Med Surg 22 (6) 660 [2018-10-17; online 2018-10-17]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Halogen Bond Asymmetry in Solution.
Lindblad S, Mehmeti K, Veiga AX, ..., Gräfenstein J, Erdélyi M
J. Am. Chem. Soc. 140 (41) 13503-13513 [2018-10-17; online 2018-10-04]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Single-Cell Transcriptomics of Traced Epidermal and Hair Follicle Stem Cells Reveals Rapid Adaptations during Wound Healing.
Joost S, Jacob T, Sun X, ..., Sur I, Kasper M
Cell Rep 25 (3) 585-597.e7 [2018-10-16; online 2018-10-18]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatially Resolved Transcriptomics Enables Dissection of Genetic Heterogeneity in Stage III Cutaneous Malignant Melanoma
Thrane K, Eriksson H, Maaskola J, Hansson J, Lundeberg J
Cancer Res 78 (20) 5970-5979 [2018-10-15; online 2018-10-15]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transcriptomic and genomic profiling of early-stage ovarian carcinomas associated with histotype and overall survival.
Engqvist H, Parris TZ, Rönnerman EW, ..., Karlsson P, Helou K
Oncotarget 9 (80) 35162-35180 [2018-10-12; online 2018-10-12]
Bioinformatics (NBIS) [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Systems Biology [Service]
PubMed DOI Crossref
Dynamics of a Perturbed Microbial Community during Thermophilic Anaerobic Digestion of Chemically Defined Soluble Organic Compounds
Šafarič L, Shakeri Yekta S, Liu T, ..., Bastviken D, Björn A
Microorganisms 6 (4) 105 [2018-10-11; online 2018-10-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
BabA-mediated adherence of pediatric ulcerogenic H. pylori strains to gastric mucins at neutral and acidic pH.
Quintana-Hayashi MP, Rocha R, Padra M, ..., Oleastro M, Lindén SK
Virulence 9 (1) 1699-1717 [2018-10-10; online 2018-10-10]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
De Novo Assembly of Two Swedish Genomes Reveals Missing Segments from the Human GRCh38 Reference and Improves Variant Calling of Population-Scale Sequencing Data.
Ameur A, Che H, Martin M, ..., Feuk L, Gyllensten U
Genes 9 (10) 486 [2018-10-09; online 2018-10-09]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Chorea, psychosis, acanthocytosis, and prolonged survival associated with
Paucar M, Pajak A, Freyer C, ..., Wredenberg A, Svenningsson P
Neurology 91 (15) 710-712 [2018-10-09; online 2018-09-14]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
An orthotopic glioblastoma animal model suitable for high-throughput screenings.
Pudelko L, Edwards S, Balan M, ..., Helleday T, Bräutigam L
Neuro-oncology 20 (11) 1475-1484 [2018-10-09; online 2018-05-12]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
The Xerobranching Response Represses Lateral Root Formation When Roots Are Not in Contact with Water.
Orman-Ligeza B, Morris EC, Parizot B, ..., Beeckman T, Draye X
Curr. Biol. 28 (19) 3165-3173.e5 [2018-10-08; online 2018-09-27]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Enhanced validation of antibodies for research applications.
Edfors F, Hober A, Linderbäck K, ..., Forsström B, Uhlen M
Nat Commun 9 (1) 4130 [2018-10-08; online 2018-10-08]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Recurrent De Novo Heterozygous COG4 Substitution Leads to Saul-Wilson Syndrome, Disrupted Vesicular Trafficking, and Altered Proteoglycan Glycosylation.
Ferreira CR, Xia ZJ, Clément A, ..., Gahl WA, Freeze HH
Am. J. Hum. Genet. 103 (4) 553-567 [2018-10-04; online 2018-10-06]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
NormalyzerDE: Online tool for improved normalization of omics expression data and high-sensitivity differential expression analysis.
Willforss J, Chawade A, Levander F
J. Proteome Res. - (-) - [2018-10-02; online 2018-10-02]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support and Infrastructure [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
PubMed DOI Crossref
Hepatitis E Virus Genotype 3 Genomes from RNA-Positive but Serologically Negative Plasma Donors Have CUG as the Start Codon for ORF3.
Norder H, Galli C, Magnil E, ..., Nyström K, Magnius LO
Intervirology 61 (2) 96-103 [2018-10-02; online 2018-10-02]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
A systems-approach reveals human nestin is an endothelial-enriched, angiogenesis-independent intermediate filament protein.
Dusart P, Fagerberg L, Perisic L, ..., Odeberg J, Butler LM
Sci Rep 8 (1) 14668 [2018-10-02; online 2018-10-02]
Spatial Proteomics [Service]
PubMed DOI Crossref
Development and Validation of a Novel RNA Sequencing-Based Prognostic Score for Acute Myeloid Leukemia.
Wang M, Lindberg J, Klevebring D, ..., Grönberg H, Rantalainen M
J. Natl. Cancer Inst. 110 (10) 1094-1101 [2018-10-01; online 2018-03-06]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Biased Inference of Selection Due to GC-Biased Gene Conversion and the Rate of Protein Evolution in Flycatchers When Accounting for It
Bolívar P, Mugal CF, Rossi M, ..., Dutoit L, Ellegren H
- 35 (10) 2475-2486 [2018-10-01; online 2018-08-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Using Scipion for stream image processing at Cryo-EM facilities
Gómez-Blanco J, de la Rosa-Trevín JM, Marabini R, ..., Conesa P, Carazo JM
Journal of Structural Biology - (-) - [2018-10-00; online 2018-10-00]
Cryo-EM [Technology development]
PubMed DOI Crossref
Use of Vascular Assessments and Novel Biomarkers to Predict Cardiovascular Events in Type 2 Diabetes: The SUMMIT VIP Study.
Shore AC, Colhoun HM, Natali A, ..., Nilsson J, SUMMIT Consortium
Diabetes Care 41 (10) 2212-2219 [2018-10-00; online 2018-07-30]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Rapid Increase in Carriage Rates of Enterobacteriaceae Producing Extended-Spectrum β-Lactamases in Healthy Preschool Children, Sweden
Kaarme J, Riedel H, Schaal W, ..., Nevéus T, Melhus Å
Emerg. Infect. Dis. 24 (10) 1874-1881 [2018-10-00; online 2018-10-00]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
RAVEN 2.0: A versatile toolbox for metabolic network reconstruction and a case study on Streptomyces coelicolor.
Wang H, Marcišauskas S, Sánchez BJ, ..., Nielsen J, Kerkhoven EJ
PLoS Comput. Biol. 14 (10) e1006541 [2018-10-00; online 2018-10-18]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Systems Biology [Technology development]
PubMed DOI Crossref
Plasma levels of the proprotein convertase furin and incidence of diabetes and mortality.
Fernandez C, Rysä J, Almgren P, ..., Ruskoaho H, Melander O
J. Intern. Med. 284 (4) 377-387 [2018-10-00; online 2018-07-02]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Partial genomic survival of cave bears in living brown bears.
Barlow A, Cahill JA, Hartmann S, ..., Shapiro B, Hofreiter M
Nat Ecol Evol 2 (10) 1563-1570 [2018-10-00; online 2018-08-27]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mutation, methylation, and gene expression profiles in dup(1q)-positive pediatric B-cell precursor acute lymphoblastic leukemia.
Gunnarsson R, Dilorenzo S, Lundin-Ström KB, ..., Isaksson A, Johansson B
Leukemia 32 (10) 2117-2125 [2018-10-00; online 2018-03-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Ibrutinib induces rapid down-regulation of inflammatory markers and altered transcription of chronic lymphocytic leukaemia-related genes in blood and lymph nodes.
Palma M, Krstic A, Peña Perez L, ..., Månsson R, Smith CIE
Br. J. Haematol. 183 (2) 212-224 [2018-10-00; online 2018-08-20]
Affinity Proteomics Uppsala [Collaborative] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
Genome-wide binding of transcription factor ZEB1 in triple-negative breast cancer cells.
Maturi V, Enroth S, Heldin CH, Moustakas A
J. Cell. Physiol. 233 (10) 7113-7127 [2018-10-00; online 2018-05-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic architecture of traits associated with reproductive barriers in Silene: Coupling, sex chromosomes and variation.
Liu X, Karrenberg S
Mol. Ecol. 27 (19) 3889-3904 [2018-10-00; online 2018-04-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic analysis of over 1 million people identifies 535 new loci associated with blood pressure traits.
Evangelou E, Warren HR, Mosen-Ansorena D, ..., Caulfield MJ, Million Veteran Program
Nat. Genet. 50 (10) 1412-1425 [2018-10-00; online 2018-09-17]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Exploring photoinactivation of microbial biofilms using laser scanning microscopy and confined 2-photon excitation.
Thomsen H, Graf FE, Farewell A, Ericson MB
J. Biophotonics 11 (10) e201800018 [2018-10-00; online 2018-06-19]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Deep learning is combined with massive-scale citizen science to improve large-scale image classification
Sullivan DP, Winsnes CF, Åkesson L, ..., Szantner A, Lundberg E
Nat Biotechnol 36 (9) 820-828 [2018-10-00; online 2018-10-01]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Spatial Proteomics [Collaborative]
PubMed DOI Crossref
Backbone 1H, 13C, and 15N resonance assignments of the ligand binding domain of the human wildtype glucocorticoid receptor and the F602S mutant variant
Köhler C, Carlström G, Tångefjord S, ..., Edman K, Akke M
Biomol NMR Assign 12 (2) 263-268 [2018-10-00; online 2018-04-17]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Associations of Circulating Protein Levels With Lipid Fractions in the General Population.
Figarska SM, Gustafsson S, Sundström J, ..., Lind L, Ingelsson E
Arterioscler. Thromb. Vasc. Biol. 38 (10) 2505-2518 [2018-10-00; online 2018-10-26]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Ancient genomes suggest the eastern Pontic-Caspian steppe as the source of western Iron Age nomads.
Krzewińska M, Kılınç GM, Juras A, ..., Storå J, Götherström A
Sci Adv 4 (10) eaat4457 [2018-10-00; online 2018-10-03]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Alu-Alu mediated intragenic duplications in IFT81 and MATN3 are associated with skeletal dysplasias.
Pettersson M, Vaz R, Hammarsjö A, ..., Grigelioniene G, Lindstrand A
Hum. Mutat. 39 (10) 1456-1467 [2018-10-00; online 2018-08-22]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Conformational Sampling of Macrocyclic Drugs in Different Environments: Can We Find the Relevant Conformations?
Poongavanam V, Danelius E, Peintner S, ..., Ermondi G, Kihlberg J
ACS Omega 3 (9) 11742-11757 [2018-09-30; online 2018-09-24]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Interferon-α enhances the IL-12-induced STAT4 activation selectively in carriers of the STAT4 SLE risk allele rs7574865[T].
Hagberg N, Rönnblom L
Ann. Rheum. Dis. - (-) - [2018-09-29; online 2018-09-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Microbial Community and Metabolic Activity in Thiocyanate Degrading Low Temperature Microbial Fuel Cells.
Ni G, Canizales S, Broman E, ..., Sleutels T, Dopson M
Front Microbiol 9 (-) 2308 [2018-09-28; online 2018-09-28]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Male sex and the pattern of recurrent myeloid mutations are strong independent predictors of blood transfusion intensity in patients with myelodysplastic syndromes
Rydén J, Edgren G, Karimi M, ..., Hellström-Lindberg E, Höglund P
Leukemia - (-) - [2018-09-28; online 2018-09-28]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
PubMed DOI Crossref
Epigenetic influences on aging: a longitudinal genome-wide methylation study in old Swedish twins
Wang Y, Karlsson R, Lampa E, ..., Pedersen NL, Hägg S
Epigenetics - (-) - [2018-09-28; online 2018-09-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structural and biochemical characterization of the Cutibacterium acnes exo-β-1,4-mannosidase that targets the N-glycan core of host glycoproteins
Reichenbach T, Kalyani D, Gandini R, ..., Aspeborg H, Divne C
PLoS ONE 13 (9) e0204703 [2018-09-27; online 2018-09-27]
Bioinformatics Support for Computational Resources [Service] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
High-throughput metabarcoding reveals the effect of physicochemical soil properties on soil and litter biodiversity and community turnover across Amazonia.
Ritter CD, Zizka A, Roger F, ..., Nilsson RH, Antonelli A
PeerJ 6 (-) e5661 [2018-09-25; online 2018-09-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genotyping of Phytophthora infestans in eastern-Africa reveals a dominating invasive European lineage
Njoroge AW, Andersson B, Lees AK, ..., Yuen J, Pelle R
Phytopathology - (-) - [2018-09-25; online 2018-09-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
NMR Determination of the Binding Constant of Ionic Species: A Caveat.
Schulz N, Schindler S, Huber SM, Erdelyi M
J. Org. Chem. 83 (18) 10881-10886 [2018-09-21; online 2018-08-23]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Methanogens and Iron-Reducing Bacteria: the Overlooked Members of Mercury-Methylating Microbial Communities in Boreal Lakes
Bravo AG, Peura S, Buck M, ..., Björn E, Bertilsson S
Appl Environ Microbiol 84 (23) - [2018-09-21; online 2018-11-15]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Characterization of different fat depots in NAFLD using inflammation-associated proteome, lipidome and metabolome.
Lovric A, Granér M, Bjornson E, ..., Mardinoglu A, Boren J
Sci Rep 8 (1) 14200 [2018-09-21; online 2018-09-21]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Impact of spliceosome mutations on RNA splicing in myelodysplasia: dysregulated genes/pathways and clinical associations
Pellagatti A, Armstrong RN, Steeples V, ..., Smith S, Boultwood J
Blood 132 (12) 1225-1240 [2018-09-20; online 2018-06-21]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
PubMed DOI Crossref
SWI/SNF interacts with cleavage and polyadenylation factors and facilitates pre-mRNA 3' end processing.
Yu S, Jordán-Pla A, Gañez-Zapater A, ..., Östlund Farrants AK, Visa N
Nucleic Acids Res. 46 (16) 8557-8573 [2018-09-19; online 2018-06-04]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Loss of zebrafish <i>ctnnd2b</i> results in disorganised forebrain neuron clusters
Hofmeister W, Vaz R, Edwards S, Dueñas Rey A, Lindstrand A
- - (-) - [2018-09-18; online 2018-09-18]
Integrated Microscopy Technologies Stockholm
PubMed DOI Crossref
14-3-3 proteins activate Pseudomonas exotoxins-S and -T by chaperoning a hydrophobic surface.
Karlberg T, Hornyak P, Pinto AF, ..., Björkegren C, Schüler H
Nat Commun 9 (1) 3785 [2018-09-17; online 2018-09-17]
Bioinformatics Support for Computational Resources [Service] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Structural and Functional Characterization of the BcsG Subunit of the Cellulose Synthase in Salmonella typhimurium.
Sun L, Vella P, Schnell R, ..., Schneider G, Römling U
J. Mol. Biol. 430 (18 Pt B) 3170-3189 [2018-09-14; online 2018-07-12]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
TP53 outperforms other androgen receptor biomarkers to predict abiraterone or enzalutamide outcome in metastatic castration-resistant prostate cancer.
De Laere B, Oeyen S, Mayrhofer M, ..., Lindberg J, Dirix LY
Clin. Cancer Res. - (-) - [2018-09-12; online 2018-09-12]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Neuronal heterogeneity and stereotyped connectivity in the auditory afferent system.
Petitpré C, Wu H, Sharma A, ..., Hadjab S, Lallemend F
Nat Commun 9 (1) 3691 [2018-09-12; online 2018-09-12]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Continuous Immune Cell Differentiation Inferred From Single-Cell Measurements Following Allogeneic Stem Cell Transplantation.
Chen Y, Lakshmikanth T, Olin A, ..., Remberger M, Brodin P
Front Mol Biosci 5 (-) 81 [2018-09-12; online 2018-09-12]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
How Does the Sweet Violet (Viola odorata L.) Fight Pathogens and Pests - Cyclotides as a Comprehensive Plant Host Defense System.
Slazak B, Kapusta M, Strömstedt AA, ..., Kuta E, Göransson U
Front Plant Sci 9 (-) 1296 [2018-09-11; online 2018-09-11]
Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
The all-intracellular order Legionellales is unexpectedly diverse, globally distributed and lowly abundant
Graells T, Ishak H, Larsson M, Guy L
FEMS Microbiol. Ecol. - (-) - [2018-09-10; online 2018-09-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genomic and Strontium Isotope Variation Reveal Immigration Patterns in a Viking Age Town.
Krzewińska M, Kjellström A, Günther T, ..., Storå J, Götherström A
Curr. Biol. 28 (17) 2730-2738.e10 [2018-09-10; online 2018-08-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Contribution of allelic imbalance to colorectal cancer.
Palin K, Pitkänen E, Turunen M, ..., Taipale J, Aaltonen LA
Nat Commun 9 (1) 3664 [2018-09-10; online 2018-09-10]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Neuroblastoma with flat genomic profile: a question of representativity?
Valind A, Öra I, Mertens F, Gisselsson D
BMJ Case Reports 2018 (-) bcr-2018-225568 [2018-09-08; online 2018-09-08]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Higher Energy Collisional Dissociation Mass Spectrometry of Sulfated O-Linked Oligosaccharides.
Issa SMA, Vitiazeva V, Hayes CA, Karlsson NG
J. Proteome Res. 17 (9) 3259-3267 [2018-09-07; online 2018-08-13]
Glycoproteomics and MS Proteomics [Technology development]
PubMed DOI Crossref
Attached stratified mucus separates bacteria from the epithelial cells in COPD lungs.
Fernández-Blanco JA, Fakih D, Arike L, ..., Ermund A, Hansson GC
JCI Insight 3 (17) - [2018-09-06; online 2018-09-06]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
The Thomsen-Friedenreich Antigen: A Highly Sensitive and Specific Predictor of Microsatellite Instability in Gastric Cancer.
Mereiter S, Polom K, Williams C, ..., Magalhães A, Reis CA
J Clin Med 7 (9) - [2018-09-05; online 2018-09-05]
Glycoproteomics and MS Proteomics [Collaborative]
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A New Species of the γ-Proteobacterium Francisella, F. adeliensis Sp. Nov., Endocytobiont in an Antarctic Marine Ciliate and Potential Evolutionary Forerunner of Pathogenic Species
Vallesi A, Sjödin A, Petrelli D, ..., Gutiérrez G, Villalobo E
Microb Ecol 77 (3) 587-596 [2018-09-05; online 2018-09-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Neuronal Expression of Opioid Gene is Controlled by Dual Epigenetic and Transcriptional Mechanism in Human Brain.
Bazov I, Sarkisyan D, Kononenko O, ..., Yakovleva T, Bakalkin G
Cereb. Cortex 28 (9) 3129-3142 [2018-09-01; online 2017-10-03]
Bioinformatics Support for Computational Resources [Service] Fluorescence Tissue Profiling [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Interactions between monomeric CCTδ and p150 Glued: A novel function for CCTδ at the cell periphery distinct from the protein folding activity of the molecular chaperone CCT.
Echbarthi M, Vallin J, Grantham J
Exp. Cell Res. 370 (1) 137-149 [2018-09-01; online 2018-06-18]
Integrated Microscopy Technologies Gothenburg [Service]
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Draft Genome Sequence for the Tree Pathogen Phytophthora plurivora.
Vetukuri RR, Tripathy S, Malar C M, ..., Grenville-Briggs LJ, Whisson SC
Genome Biol Evol 10 (9) 2432-2442 [2018-09-01; online 2018-09-01]
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Complex Evolutionary History of Translation Elongation Factor 2 and Diphthamide Biosynthesis in Archaea and Parabasalids
Narrowe AB, Spang A, Stairs CW, ..., Miller CS, Ettema TJG
Genome Biol Evol 10 (9) 2380-2393 [2018-09-01; online 2018-08-27]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The molecular genetic basis of herbivory between butterflies and their host plants.
Nallu S, Hill JA, Don K, ..., Wheat CW, Kronforst MR
Nat Ecol Evol 2 (9) 1418-1427 [2018-09-00; online 2018-08-03]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The downfall of TBA-354 - a possible explanation for its neurotoxicity via mass spectrometric imaging.
Ntshangase S, Shobo A, Kruger HG, ..., Govender T, Baijnath S
Xenobiotica 48 (9) 938-944 [2018-09-00; online 2017-10-13]
Drug Discovery and Development (DDD) [Collaborative]
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The Protozoan Parasite Toxoplasma gondii Selectively Reprograms the Host Cell Translatome.
Leroux LP, Lorent J, Graber TE, ..., Larsson O, Jaramillo M
Infect. Immun. 86 (9) - [2018-09-00; online 2018-08-22]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Sex-biased gene expression, sexual antagonism and levels of genetic diversity in the collared flycatcher (Ficedula albicollis) genome
Dutoit L, Mugal CF, Bolívar P, ..., Gustafsson L, Ellegren H
Mol Ecol 27 (18) 3572-3581 [2018-09-00; online 2018-09-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Screening for Inhibitors of Acetaldehyde Dehydrogenase (AdhE) from Enterohemorrhagic Escherichia coli (EHEC).
Zetterström CE, Uusitalo P, Qian W, ..., Grundström C, Elofsson M
SLAS DISCOVERY: Advancing Life Sciences R&D 23 (8) 815-822 [2018-09-00; online 2018-04-09]
Chemical Biology Consortium Sweden (CBCS) [Service]
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STK25 regulates oxidative capacity and metabolic efficiency in adipose tissue.
Sütt S, Cansby E, Paul A, ..., Enerbäck S, Mahlapuu M
J Endocrinol 238 (3) 187-202 [2018-09-00; online 2018-05-24]
Integrated Microscopy Technologies Gothenburg [Service]
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Phylogenetic relationships of rollers (Coraciidae) based on complete mitochondrial genomes and fifteen nuclear genes.
Johansson US, Irestedt M, Qu Y, Ericson PGP
Mol. Phylogenet. Evol. 126 (-) 17-22 [2018-09-00; online 2018-04-06]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Membrane Fluidity Is Regulated Cell Nonautonomously by Caenorhabditiselegans PAQR-2 and Its Mammalian Homolog AdipoR2.
Bodhicharla R, Devkota R, Ruiz M, Pilon M
Genetics 210 (1) 189-201 [2018-09-00; online 2018-07-11]
Integrated Microscopy Technologies Gothenburg [Service]
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Lack of thinning effects over inter-annual changes in soil fungal community and diversity in a Mediterranean pine forest
Castaño C, Alday JG, Lindahl BD, ..., Pera J, Bonet JA
Forest Ecology and Management 424 (-) 420-427 [2018-09-00; online 2018-09-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Genome Sequence Resource for the Oomycete Taro Pathogen Phytophthora colocasiae.
Vetukuri RR, Kushwaha SK, Sen D, ..., Lamour KH, Grenville-Briggs LJ
Mol. Plant Microbe Interact. 31 (9) 903-905 [2018-09-00; online 2018-08-03]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Formation of a Secretion-Competent Protein Complex by a Dynamic Wrap-around Binding Mechanism
Gupta AA, Reinartz I, Karunanithy G, ..., Schug A, Wolf-Watz M
Journal of Molecular Biology 430 (18) 3157-3169 [2018-09-00; online 2018-09-00]
Swedish NMR Centre (SNC) [Service]
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FADD (Fas-Associated Protein With Death Domain), Caspase-3, and Caspase-8 and Incidence of Ischemic Stroke.
Muhammad IF, Borné Y, Melander O, ..., Söderholm M, Engström G
Stroke 49 (9) 2224-2226 [2018-09-00; online 2018-10-26]
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Ein Fall von Pankreaskarzinom
Löhr JM, Kordes M, Gustafsson-Liljefors M, ..., Permert J, Jäger D
Forum 33 (4) 232-235 [2018-09-00; online 2018-08-14]
Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative]
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Detailed analysis of HTT repeat elements in human blood using targeted amplification-free long-read sequencing.
Höijer I, Tsai YC, Clark TA, ..., Gyllensten U, Ameur A
Hum. Mutat. 39 (9) 1262-1272 [2018-09-00; online 2018-07-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
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Broad spectrum developmental role of Brachypodium AUX1.
van der Schuren A, Voiniciuc C, Bragg J, ..., Pauly M, Hardtke CS
New Phytol. 219 (4) 1216-1223 [2018-09-00; online 2018-06-27]
Swedish Metabolomics Centre (SMC) [Service]
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Autosomal Recessive Osteogenesis Imperfecta Caused by a Novel Homozygous COL1A2 Mutation
Costantini A, Tournis S, Kämpe A, ..., Doulgeraki A, Mäkitie O
Calcif Tissue Int 103 (3) 353-358 [2018-09-00; online 2018-03-23]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Autoantibody profiling reveals four protein candidate autoantigens associated with systemic lupus erythematosus.
Frostegård J, Hellström C, Nilsson P, Frostegård AG, Ajeganova S
Lupus 27 (10) 1670-1678 [2018-09-00; online 2018-07-24]
Autoimmunity and Serology Profiling [Service]
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A fine-needle aspiration-based protein signature discriminates benign from malignant breast lesions
Franzén B, Kamali-Moghaddam M, Alexeyenko A, ..., Landegren U, Lewensohn R
Mol Oncol 12 (9) 1415-1428 [2018-09-00; online 2018-08-09]
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The endoplasmic reticulum-resident collagen chaperone Hsp47 interacts with and promotes the secretion of decorin, fibromodulin, and lumican.
Ishikawa Y, Rubin K, Bächinger HP, Kalamajski S
J. Biol. Chem. 293 (35) 13707-13716 [2018-08-31; online 2018-07-12]
Affinity Proteomics Uppsala [Service] PLA and Single Cell Proteomics [Service]
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Sequentially acting SOX proteins orchestrate astrocyte‐ and oligodendrocyte‐specific gene expression
Klum S, Zaouter C, Alekseenko Z, ..., Muhr J, Bergsland M
EMBO Rep. - (-) e46635 [2018-08-30; online 2018-08-30]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A glutaredoxin domain fused to the radical-generating subunit of ribonucleotide reductase (RNR) functions as an efficient RNR reductant.
Rozman Grinberg I, Lundin D, Sahlin M, ..., Hofer A, Sjöberg BM
J. Biol. Chem. - (-) - [2018-08-30; online 2018-08-30]
Protein Science Facility (PSF) [Service]
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Patient-derived xenograft models reveal intratumor heterogeneity and temporal stability in neuroblastoma
Braekeveldt N, von Stedingk K, Fransson S, ..., Påhlman S, Bexell D
Cancer Res - (-) canres.0527.2018 [2018-08-28; online 2018-08-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Metabolic reprogramming of acute lymphoblastic leukemia cells in response to glucocorticoid treatment.
Dyczynski M, Vesterlund M, Björklund AC, ..., Tamm KP, Nilsson R
Cell Death Dis 9 (9) 846 [2018-08-28; online 2018-08-28]
Global Proteomics and Proteogenomics [Collaborative]
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Life history of Parnips and the evolutionary origin of gall wasps
Ronquist F, Nylander JAA, Vårdal H, Nieves-Aldrey JL
JHR 65 (-) 91-110 [2018-08-27; online 2018-08-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Exploratory Profiling of Urine MicroRNAs in the dy Mouse Model of LAMA2-CMD: Relation to Disease Progression.2J/dy2J
Moreira Soares Oliveira B, Gawlik KI, Durbeej M, Holmberg J
PLoS Curr 10 (-) - [2018-08-27; online 2018-08-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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A Protein-Based Encapsulation System with Calcium-Controlled Cargo Loading and Detachment
Lizatović R, Assent M, Barendregt A, ..., Wennmalm S, André I
Angew. Chem. Int. Ed. 57 (35) 11334-11338 [2018-08-27; online 2018-07-30]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Novel genome and genome-wide SNPs reveal early fragmentation effects in an edge-tolerant songbird population across an urbanized tropical metropolis.
Tan DJX, Chattopadhyay B, Garg KM, ..., Irestedt M, Rheindt FE
Sci Rep 8 (1) 12804 [2018-08-24; online 2018-08-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Reduced expression of PROX1 transitions glioblastoma cells into a mesenchymal gene expression subtype
Goudarzi KM, Espinoza JA, Guo M, ..., Lindström MS, Hägerstrand D
Cancer Res - (-) canres.0320.2018 [2018-08-22; online 2018-08-22]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Single-cell RNA sequencing of mouse brain and lung vascular and vessel-associated cell types.
He L, Vanlandewijck M, Mäe MA, ..., Lendahl U, Betsholtz C
Sci Data 5 (1) 180160 [2018-08-21; online 2018-08-21]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Global characterization of the Dicer-like protein DrnB roles in miRNA biogenesis in the social amoeba Dictyostelium discoideum.
Liao Z, Kjellin J, Hoeppner MP, Grabherr M, Söderbom F
RNA Biol 15 (7) 937-954 [2018-08-21; online 2018-08-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Diversity of Interneurons in the Dorsal Striatum Revealed by Single-Cell RNA Sequencing and PatchSeq.
Muñoz-Manchado AB, Bengtsson Gonzales C, Zeisel A, ..., Linnarsson S, Hjerling-Leffler J
Cell Rep 24 (8) 2179-2190.e7 [2018-08-21; online 2018-08-23]
Eukaryotic Single Cell Genomics (ESCG) [Service]
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Transcriptional Convergence of Oligodendrocyte Lineage Progenitors during Development.
Marques S, van Bruggen D, Vanichkina DP, ..., Taft RJ, Castelo-Branco G
Dev. Cell 46 (4) 504-517.e7 [2018-08-20; online 2018-08-02]
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The structure-activity relationship of the salicylimide derived inhibitors of UDP-sugar producing pyrophosphorylases.
Decker D, Öberg C, Kleczkowski LA
Plant Signal Behav 13 (8) e1507406 [2018-08-20; online 2018-08-20]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Transthyretin Interferes with Aβ Amyloid Formation by Redirecting Oligomeric Nuclei into Non-Amyloid Aggregates.
Nilsson L, Pamrén A, Islam T, ..., Gharibyan AL, Olofsson A
J. Mol. Biol. 430 (17) 2722-2733 [2018-08-17; online 2018-06-08]
Cryo-EM [Service]
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Sulfonimidamides: Synthesis and Applications in Preparative Organic Chemistry
Nandi GC, Arvidsson PI
Adv. Synth. Catal. 360 (16) 2976-3001 [2018-08-17; online 2018-05-25]
Drug Discovery and Development (DDD) [Technology development]
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Pharmacokinetic Properties of the Nephrotoxin Orellanine in Rats.
Najar D, Haraldsson B, Thorsell A, ..., Nyström J, Ebefors K
Toxins (Basel) 10 (8) - [2018-08-17; online 2018-08-17]
Glycoproteomics and MS Proteomics [Service]
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BtsCI and BseGI display sequence preference in the nucleotides flanking the recognition sequence
Rosa J, Fernandez-Gonzalez E, Ducani C, Högberg B
PLoS ONE 13 (8) e0202057 [2018-08-17; online 2018-08-17]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Protein Science Facility (PSF) [Service]
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Novel Autotrophic Organisms Contribute Significantly to the Internal Carbon Cycling Potential of a Boreal Lake
Peura S, Buck M, Aalto SL, ..., Nykänen H, Eiler A
MBio 9 (4) - [2018-08-14; online 2018-08-14]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Reduction in White Blood Cell, Neutrophil and Red Blood Cell counts Related to Gender, HLA and Islet Autoantibodies in Swedish TEDDY Children at Increased Risk for Type 1 Diabetes
Salami F, Lee HS, Freyhult E, ..., Lernmark Å, Törn C
Diabetes - (-) db180355 [2018-08-13; online 2018-08-13]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Extensive genomic diversity among Mycobacterium marinum strains revealed by whole genome sequencing
Das S, Pettersson F, Behra PRK, ..., Ennis DG, Kirsebom L
Sci. Rep. 8 (1) - [2018-08-13; online 2018-08-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Nutritional Metabolomics: Postprandial Response of Meals Relating to Vegan, Lacto-Ovo Vegetarian, and Omnivore Diets.
Rådjursöga M, Lindqvist HM, Pedersen A, ..., Ellegård L, Winkvist A
Nutrients 10 (8) 1063 [2018-08-10; online 2018-08-10]
Swedish NMR Centre (SNC) [Collaborative]
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Stationary and portable sequencing-based approaches for tracing wastewater contamination in urban stormwater systems.
Hu YOO, Ndegwa N, Alneberg J, ..., Fagerberg J, Andersson AF
Sci Rep 8 (1) 11907 [2018-08-09; online 2018-08-09]
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SURGE complex of Plasmodium falciparum in the rhoptry-neck (SURFIN4.2-RON4-GLURP) contributes to merozoite invasion.
Quintana MDP, Ch'ng JH, Zandian A, ..., Chan S, Wahlgren M
PLoS ONE 13 (8) e0201669 [2018-08-09; online 2018-08-09]
Autoimmunity and Serology Profiling [Service] Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Molecular Architecture of the Mouse Nervous System.
Zeisel A, Hochgerner H, Lönnerberg P, ..., Marklund U, Linnarsson S
Cell 174 (4) 999-1014.e22 [2018-08-09; online 2018-08-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Clonal relatedness in tumour pairs of breast cancer patients.
Biermann J, Parris TZ, Nemes S, ..., Karlsson P, Helou K
Breast Cancer Res. 20 (1) 96 [2018-08-09; online 2018-08-09]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Thermodynamics of Hg(II) Bonding to Thiol Groups in Suwannee River Natural Organic Matter Resolved by Competitive Ligand Exchange, Hg LIII-Edge EXAFS and 1H NMR Spectroscopy
Song Y, Jiang T, Liem-Nguyen V, ..., Björn E, Skyllberg U
Environ. Sci. Technol. 52 (15) 8292-8301 [2018-08-07; online 2018-07-07]
Swedish NMR Centre (SNC) [Collaborative]
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Proteomic Biomarkers for Incident Aortic Stenosis Requiring Valvular Replacement.
Ljungberg J, Janiec M, Bergdahl IA, ..., Fall T, Söderberg S
Circulation 138 (6) 590-599 [2018-08-07; online 2018-03-01]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Modeling the structural implications of an alternatively spliced Exoc3l2, a paralog of the tunneling nanotube-forming M-Sec
O’Callaghan P, Zarb Y, Noborn F, Kreuger J
PLoS ONE 13 (8) e0201557 [2018-08-07; online 2018-08-07]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Huntingtin Aggregation Impairs Autophagy, Leading to Argonaute-2 Accumulation and Global MicroRNA Dysregulation.
Pircs K, Petri R, Madsen S, ..., Barker RA, Jakobsson J
Cell Rep 24 (6) 1397-1406 [2018-08-07; online 2018-08-09]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A genetic map of ostrich Z chromosome and the role of inversions in avian sex chromosome evolution.
Papoli Yazdi H, Ellegren H
Genome Biol Evol - (-) - [2018-08-07; online 2018-08-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Sample size effects on the assessment of eukaryotic diversity and community structure in aquatic sediments using high-throughput sequencing.
Nascimento FJA, Lallias D, Bik HM, Creer S
Sci Rep 8 (1) 11737 [2018-08-06; online 2018-08-06]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Biaryl sulfonamide motifs up- or down-regulate ion channel activity by activating voltage sensors.
Liin SI, Lund PE, Larsson JE, ..., Wallner B, Elinder F
J. Gen. Physiol. 150 (8) 1215-1230 [2018-08-06; online 2018-07-12]
Chemical Biology Consortium Sweden (CBCS) [Service]
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Substrate-Induced Response in Biogas Process Performance and Microbial Community Relates Back to Inoculum Source
Liu T, Sun L, Nordberg Å, Schnürer A
Microorganisms 6 (3) 80 [2018-08-05; online 2018-08-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Impact in Plasma Metabolome as Effect of Lifestyle Intervention for Weight-Loss Reveals Metabolic Benefits in Metabolically Healthy Obese Women.
Almanza-Aguilera E, Brunius C, Bernal-Lopez MR, ..., Landberg R, Andres-Lacueva C
J. Proteome Res. 17 (8) 2600-2610 [2018-08-03; online 2018-06-28]
Swedish NMR Centre (SNC) [Service]
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Contrasting distribution patterns between aquatic and terrestrial Phytophthora species along a climatic gradient are linked to functional traits
Redondo MA, Boberg J, Stenlid J, Oliva J
ISME J - (-) - [2018-08-02; online 2018-08-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Sulfonyl Fluorides (SFs): More Than Click Reagents?
Chinthakindi PK, Arvidsson PI
Eur. J. Org. Chem. 2018 (27-28) 3648-3666 [2018-08-01; online 2018-07-06]
Drug Discovery and Development (DDD) [Technology development]
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Investigation of viable taxa in the deep terrestrial biosphere suggests high rates of nutrient recycling
Lopez-Fernandez M, Broman E, Turner S, ..., Bertilsson S, Dopson M
FEMS Microbiol. Ecol. 94 (8) - [2018-08-01; online 2018-06-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
CD93 promotes β1 integrin activation and fibronectin fibrillogenesis during tumor angiogenesis.
Lugano R, Vemuri K, Yu D, ..., Dejana E, Dimberg A
J. Clin. Invest. 128 (8) 3280-3297 [2018-08-01; online 2018-06-25]
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PubMed DOI Crossref
Stereotypic Immune System Development in Newborn Children
Olin A, Henckel E, Chen Y, ..., Bohlin K, Brodin P
Cell 174 (5) 1277-1292.e14 [2018-08-00; online 2018-08-00]
Affinity Proteomics Stockholm [Service] Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Sex-specific manifestation of genetic risk for attention deficit hyperactivity disorder in the general population.
Martin J, Taylor MJ, Rydell M, ..., Thapar A, Lichtenstein P
J Child Psychol Psychiatry 59 (8) 908-916 [2018-08-00; online 2018-02-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Scanning electron microscopy as a tool for evaluating morphology of amyloid structures formed on surface plasmon resonance chips.
Bra Nnstro M K, Gharibyan AL, Islam T, ..., Pamren A, Olofsson A
Data Brief 19 (-) 1166-1170 [2018-08-00; online 2018-05-26]
Cryo-EM [Technology development]
PubMed DOI Crossref
RNA velocity of single cells.
La Manno G, Soldatov R, Zeisel A, ..., Linnarsson S, Kharchenko PV
Nature 560 (7719) 494-498 [2018-08-00; online 2018-08-08]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Proteome‐wide analysis of phospho‐regulated PDZ domain interactions
Sundell GN, Arnold R, Ali M, ..., Chi CN, Ivarsson Y
Mol. Syst. Biol. 14 (8) e8129 [2018-08-00; online 2018-08-20]
Drug Discovery and Development (DDD) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
PrgB promotes aggregation, biofilm formation, and conjugation through DNA binding and compaction.
Schmitt A, Jiang K, Camacho MI, ..., Christie PJ, Berntsson RP
Mol. Microbiol. 109 (3) 291-305 [2018-08-00; online 2018-07-31]
Protein Science Facility (PSF) [Service]
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Prenatal arsenic exposure is associated with increased plasma IGFBP3 concentrations in 9-year-old children partly via changes in DNA methylation.
Gliga AR, Engström K, Kippler M, ..., Raqib R, Broberg K
Arch. Toxicol. 92 (8) 2487-2500 [2018-08-00; online 2018-06-08]
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Plasma Protein Profiling Reveal Osteoprotegerin as a Marker of Prognostic Impact for Colorectal Cancer
Birgisson H, Tsimogiannis K, Freyhult E, Kamali-Moghaddam M
Transl Oncol 11 (4) 1034-1043 [2018-08-00; online 2018-08-00]
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Novel Multiomics Profiling of Human Carotid Atherosclerotic Plaques and Plasma Reveals Biliverdin Reductase B as a Marker of Intraplaque Hemorrhage.
Matic LP, Jesus Iglesias M, Vesterlund M, ..., Odeberg J, Hedin U
JACC Basic Transl Sci 3 (4) 464-480 [2018-08-00; online 2018-08-01]
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Gene discovery and polygenic prediction from a genome-wide association study of educational attainment in 1.1 million individuals.
Lee JJ, Wedow R, Okbay A, ..., Benjamin DJ, Cesarini D
Nat. Genet. 50 (8) 1112-1121 [2018-08-00; online 2018-07-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Epigenetics in pediatric acute lymphoblastic leukemia.
Nordlund J, Syvänen AC
Semin. Cancer Biol. 51 (-) 129-138 [2018-08-00; online 2017-09-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Zhang EQ, Tang L, Bernin D, Jansson H
Materials and Corrosion 69 (8) 1104-1116 [2018-08-00; online 2018-03-06]
Swedish NMR Centre (SNC) [Collaborative]
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Karimi N, Cvjetkovic A, Jang SC, ..., Lötvall J, Lässer C
Cell. Mol. Life Sci. 75 (15) 2873-2886 [2018-08-00; online 2018-02-13]
Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service]
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Delineating closely related dinoflagellate lineages using phylotranscriptomics.
Annenkova NV, Ahrén D, Logares R, Kremp A, Rengefors K
J. Phycol. 54 (4) 571-576 [2018-08-00; online 2018-06-13]
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Data on the nucleotide composition of the first codons encoding the complementary determining region 3 (CDR3) in immunoglobulin heavy chains.
Thörnqvist L, Ohlin M
Data Brief 19 (-) 337-352 [2018-08-00; online 2018-05-04]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Markussen T, Happel EM, Teikari JE, ..., Middelboe M, Kisand V
Environ. Microbiol. 20 (8) 3083-3099 [2018-08-00; online 2018-09-19]
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Coenen-Stass AML, Sork H, Gatto S, ..., Wood MJA, Roberts TC
Mol Ther Nucleic Acids - (-) - [2018-08-00; online 2018-08-00]
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Lin Y, van Duyvenvoorde HA, Liu H, ..., Wit JM, Larsson O
Eur. J. Endocrinol. 179 (2) 85-95 [2018-08-00; online 2018-05-22]
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Nilsson A, Skarp A, Johansson C, ..., Engstrand L, Rautelin H
Microbiologyopen 7 (4) e00583 [2018-08-00; online 2018-02-09]
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Skogh A, Lesniak A, Sköld C, ..., Hallberg M, Sandström A
Bioorganic & Medicinal Chemistry Letters 28 (14) 2446-2450 [2018-08-00; online 2018-08-00]
Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Service]
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Acute sleep loss results in tissue-specific alterations in genome-wide DNA methylation state and metabolic fuel utilization in humans
Cedernaes J, Schönke M, Westholm JO, ..., Zierath JR, Benedict C
Sci Adv 4 (8) eaar8590 [2018-08-00; online 2018-08-22]
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A bacteriophage enzyme induces bacterial metabolic perturbation that confers a novel promiscuous function.
Jerlström Hultqvist J, Warsi O, Söderholm A, ..., Selmer M, Andersson DI
Nat Ecol Evol 2 (8) 1321-1330 [2018-08-00; online 2018-05-28]
Glycoproteomics and MS Proteomics [Collaborative]
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Alneberg J, Sundh J, Bennke C, ..., Labrenz M, Andersson AF
Sci Data 5 (-) 180146 [2018-07-31; online 2018-07-31]
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Liebmann T, Fritz N, Kruusmägi M, ..., Aperia A, Brismar H
Int J Mol Sci 19 (8) 2214 [2018-07-29; online 2018-07-29]
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Alam A, Golovliov I, Javed E, Sjöstedt A
Sci Rep 8 (1) 11324 [2018-07-27; online 2018-07-27]
Cryo-EM [Service]
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Sigeman H, Ponnikas S, Videvall E, ..., Naurin S, Hansson B
Genes 9 (8) 373 [2018-07-26; online 2018-07-26]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Mottram L, Liu J, Chavan S, ..., Svennerholm AM, Holgersson J
Sci Rep 8 (1) 11250 [2018-07-26; online 2018-07-26]
Integrated Microscopy Technologies Gothenburg [Service]
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Berner C, Bertos-Fortis M, Pinhassi J, Legrand C
Front Microbiol 9 (-) 1562 [2018-07-25; online 2018-07-25]
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Einarsdottir BO, Karlsson J, Söderberg EMV, ..., Helleday T, Nilsson JA
Cell Death Dis 9 (8) 810 [2018-07-24; online 2018-07-24]
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The psoriasis risk allele HLA-Cw0602 shows evidence of association with chronic or recurrent streptococcal tonsillitis.
Haapasalo K, Koskinen LLE, Suvilehto J, ..., Jokiranta TS, Saavalainen P
Infect. Immun. - (-) - [2018-07-23; online 2018-07-23]
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Mebendazole stimulates CD14+ myeloid cells to enhance T-cell activation and tumour cell killing.
Rubin J, Mansoori S, Blom K, ..., Nygren P, Larsson R
Oncotarget 9 (56) 30805-30813 [2018-07-20; online 2018-07-20]
Drug Discovery and Development (DDD) [Service]
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Effective Assignment of α2,3/α2,6-Sialic Acid Isomers by LC-MS/MS-Based Glycoproteomics.
Pett C, Nasir W, Sihlbom C, ..., Nilsson J, Westerlind U
Angew. Chem. Int. Ed. Engl. 57 (30) 9320-9324 [2018-07-20; online 2018-06-20]
Glycoproteomics and MS Proteomics [Technology development]
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Blomström AL, Ye X, Fossum C, Wallgren P, Berg M
Viruses 10 (7) 382 [2018-07-20; online 2018-07-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Disruption of a GATA1-binding motif upstream of XG/PBDX abolishes Xga expression and resolves the Xg blood group system.
Möller M, Lee YQ, Vidovic K, ..., Storry JR, Olsson ML
Blood 132 (3) 334-338 [2018-07-19; online 2018-05-10]
Structural Proteomics [Collaborative]
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Saravanan R, Holdbrook DA, Petrlova J, ..., Malmsten M, Schmidtchen A
Nat Commun 9 (1) 2762 [2018-07-17; online 2018-07-17]
Structural Proteomics [Service]
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Broman E, Li L, Fridlund J, ..., Legrand C, Dopson M
Microb. Ecol. - (-) - [2018-07-17; online 2018-07-17]
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Heterogeneity and interplay of the extracellular vesicle small RNA transcriptome and proteome.
Sork H, Corso G, Krjutskov K, ..., Mäger I, El Andaloussi S
Sci Rep 8 (1) 10813 [2018-07-17; online 2018-07-17]
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Molecular profiles of oxyphilic and chief cell parathyroid adenoma.
Lu M, Kjellin H, Fotouhi O, ..., Lehtiö J, Larsson C
Mol. Cell. Endocrinol. 470 (-) 84-95 [2018-07-15; online 2017-10-03]
Clinical Proteomics Mass spectrometry [Service] Global Proteomics and Proteogenomics [Service]
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SECAPR—a bioinformatics pipeline for the rapid and user-friendly processing of targeted enriched Illumina sequences, from raw reads to alignments
Andermann T, Cano Á, Zizka A, Bacon C, Antonelli A
PeerJ 6 (-) e5175 [2018-07-13; online 2018-07-13]
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Microdeletion of 7p12.1p13, including IKZF1, causes intellectual impairment, overgrowth, and susceptibility to leukaemia.
Järviaho T, Zachariadis V, Tesi B, ..., Harila-Saari A, Nordgren A
Br. J. Haematol. - (-) - [2018-07-13; online 2018-07-13]
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Bacterial Outer Membrane Vesicles Induce Vitronectin Release Into the Bronchoalveolar Space Conferring Protection From Complement-Mediated Killing.
Paulsson M, Che KF, Ahl J, ..., Lindén A, Riesbeck K
Front Microbiol 9 (-) 1559 [2018-07-13; online 2018-07-13]
Cryo-EM [Service]
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Untargeted 1H NMR-Based Metabolomics Analysis of Urine and Serum Profiles after Consumption of Lentils, Chickpeas, and Beans: An Extended Meal Study To Discover Dietary Biomarkers of Pulses.
Madrid-Gambin F, Brunius C, Garcia-Aloy M, ..., Landberg R, Andres-Lacueva C
J. Agric. Food Chem. 66 (27) 6997-7005 [2018-07-11; online 2018-07-02]
Swedish NMR Centre (SNC) [Service]
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Gastrointestinal microbiota contributes to the development of murine transfusion-related acute lung injury.
Kapur R, Kim M, Rebetz J, ..., Speck ER, Semple JW
Blood Adv 2 (13) 1651-1663 [2018-07-10; online 2018-07-12]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Autoantibody profiling in intraocular fluid of patients with uveitis.
Ten Berge JC, Schreurs MW, van Rosmalen J, Rothova A
Exp. Eye Res. 176 (-) 141-146 [2018-07-10; online 2018-07-10]
Autoimmunity and Serology Profiling [Service]
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Metabolic Profiling of Multiorgan Samples: Evaluation of MODY5/RCAD Mutant Mice.
Torell F, Bennett K, Cereghini S, ..., Trygg J, Lundstedt T
J. Proteome Res. 17 (7) 2293-2306 [2018-07-06; online 2018-06-15]
Swedish Metabolomics Centre (SMC) [Service]
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Primary glioblastoma cells for precision medicine: a quantitative portrait of genomic (in)stability during the first 30 passages.
Baskaran S, Mayrhofer M, Kultima HG, ..., Isaksson A, Nelander S
Neuro-oncology 20 (8) 1080-1091 [2018-07-05; online 2018-02-21]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Multimodal Chemical Imaging of Amyloid Plaque Polymorphism Reveals Aβ Aggregation Dependent Anionic Lipid Accumulations and Metabolism.
Michno W, Kaya I, Nyström S, ..., Zetterberg H, Hanrieder J
Anal. Chem. 90 (13) 8130-8138 [2018-07-03; online 2018-06-19]
Integrated Microscopy Technologies Gothenburg [Service]
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Enteric Species F Human Adenoviruses use Laminin-Binding Integrins as Co-Receptors for Infection of Ht-29 Cells.
Rajan A, Persson BD, Frängsmyr L, ..., Gall J, Arnberg N
Sci Rep 8 (1) 10019 [2018-07-03; online 2018-07-03]
Cryo-EM [Service]
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Human Immunodeficiency Virus-Infected Women Have High Numbers of CD103-CD8+ T Cells Residing Close to the Basal Membrane of the Ectocervical Epithelium.
Gibbs A, Buggert M, Edfeldt G, ..., Broliden K, Tjernlund A
J. Infect. Dis. 218 (3) 453-465 [2018-07-02; online 2017-12-23]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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EviNet: a web platform for network enrichment analysis with flexible definition of gene sets.
Jeggari A, Alekseenko Z, Petrov I, ..., Ericson J, Alexeyenko A
Nucleic Acids Res. 46 (W1) W163-W170 [2018-07-02; online 2018-06-13]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A synthetic diphosphoinositol phosphate analogue of inositol trisphosphate.
Riley AM, Unterlass J, Konieczny V, ..., Helleday T, Potter BVL
Med. Chem. Commun. 9 (7) 1105-1113 [2018-07-01; online 2018-06-04]
Protein Science Facility (PSF) [Service]
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The mycoparasitic fungus Clonostachys rosea responds with both common and specific gene expression during interspecific interactions with fungal prey
Nygren K, Dubey M, Zapparata A, ..., Jensen DF, Karlsson M
Evol Appl 11 (6) 931-949 [2018-07-00; online 2018-03-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The STAT4 SLE risk allele rs7574865[T] is associated with increased IL-12-induced IFN-γ production in T cells from patients with SLE.
Hagberg N, Joelsson M, Leonard D, ..., Bryceson YT, Rönnblom L
Ann. Rheum. Dis. 77 (7) 1070-1077 [2018-07-00; online 2018-02-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Porosity measurements in suspension plasma sprayed YSZ coatings using NMR cryoporometry and X-ray microscopy
Klement U, Ekberg J, Creci S, Kelly ST
J Coat Technol Res 15 (4) 753-757 [2018-07-00; online 2018-03-13]
Swedish NMR Centre (SNC) [Service]
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OLMα2 Cells Bidirectionally Modulate Learning
Siwani S, França ASC, Mikulovic S, ..., Tort ABL, Kullander K
Neuron 99 (2) 404-412.e3 [2018-07-00; online 2018-07-00]
Bioinformatics Support for Computational Resources [Service] Integrated Microscopy Technologies Stockholm [Collaborative]
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Novel gene variants associated with cardiovascular disease in systemic lupus erythematosus and rheumatoid arthritis.
Leonard D, Svenungsson E, Dahlqvist J, ..., Criswell LA, Rönnblom L
Ann. Rheum. Dis. 77 (7) 1063-1069 [2018-07-00; online 2018-03-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Multiplexed fluorescence microscopy reveals heterogeneity among stromal cells in mouse bone marrow sections
Holzwarth K, Köhler R, Philipsen L, ..., Niesner RA, Hauser AE
Cytometry 93 (9) 876-888 [2018-07-00; online 2018-08-14]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Increased Neuronal Differentiation of Neural Progenitor Cells Derived from Phosphovimentin-Deficient Mice.
Chen M, Puschmann TB, Marasek P, ..., Wilhelmsson U, Pekny M
Mol Neurobiol 55 (7) 5478-5489 [2018-07-00; online 2017-09-27]
Integrated Microscopy Technologies Gothenburg [Service]
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Identification of inhibitors of Tartrate-resistant acid phosphatase (TRAP/ACP5) activity by small-molecule screening.
Reithmeier A, Lundbäck T, Haraldsson M, ..., Gustavsson AL, Andersson G
Chem Biol Drug Des 92 (1) 1255-1271 [2018-07-00; online 2018-03-30]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Genotype-Phenotype Correlation of PLOD2 Skeletal Dysplasias Using Structural Information.
Tham E, Grigelionis G, Hammarsjö A, Grigelioniene G
J. Bone Miner. Res. 33 (7) 1377-1378 [2018-07-00; online 2018-06-07]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Genome-wide association meta-analysis in 269,867 individuals identifies new genetic and functional links to intelligence.
Savage JE, Jansen PR, Stringer S, ..., Wright MJ, Posthuma D
Nat. Genet. 50 (7) 912-919 [2018-07-00; online 2018-06-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Detection of novel syntrophic acetate-oxidizing bacteria from biogas processes by continuous acetate enrichment approaches.
Westerholm M, Müller B, Singh A, Karlsson Lindsjö O, Schnürer A
Microb Biotechnol 11 (4) 680-693 [2018-07-00; online 2017-12-04]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Complete genome sequence of the marine Rhodococcus sp. H-CA8f isolated from Comau fjord in Northern Patagonia, Chile.
Undabarrena A, Salvà-Serra F, Jaén-Luchoro D, ..., Seeger M, Cámara B
Marine Genomics 40 (-) 13-17 [2018-07-00; online 2018-02-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Calcium-activated Chloride Channel Regulator 1 (CLCA1) Controls Mucus Expansion in Colon by Proteolytic Activity.
Nyström EEL, Birchenough GMH, van der Post S, ..., Hansson GC, Johansson MEV
EBioMedicine 33 (-) 134-143 [2018-07-00; online 2018-06-07]
Integrated Microscopy Technologies Gothenburg [Service]
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CRISPR-Cas9 genome editing induces a p53-mediated DNA damage response.
Haapaniemi E, Botla S, Persson J, Schmierer B, Taipale J
Nat. Med. 24 (7) 927-930 [2018-07-00; online 2018-06-11]
CRISPR Functional Genomics [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Protein Science Facility (PSF) [Service]
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Bioconda: sustainable and comprehensive software distribution for the life sciences
Grüning B, Dale R, Sjödin A, ..., Valieris R, Köster J
Nat Methods 15 (7) 475-476 [2018-07-00; online 2018-07-02]
Bioinformatics (NBIS) [Technology development] Bioinformatics Long-term Support WABI [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
DOI Crossref
Assessment of titanium dioxide nanoparticle toxicity in the rainbow trout (Onchorynchus mykiss) liver and gill cell lines RTL-W1 and RTgill-W1 under particular consideration of nanoparticle stability and interference with fluorometric assays
Lammel T, Sturve J
NanoImpact 11 (-) 1-19 [2018-07-00; online 2018-07-00]
Integrated Microscopy Technologies Gothenburg [Service]
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A protein activity assay to measure global transcription factor activity reveals determinants of chromatin accessibility.
Wei B, Jolma A, Sahu B, ..., Taipale M, Taipale J
Nat. Biotechnol. 36 (6) 521-529 [2018-07-00; online 2018-05-21]
Global Proteomics and Proteogenomics [Collaborative]
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A heterogeneous response of liver and skeletal muscle fat to the combination of a Paleolithic diet and exercise in obese individuals with type 2 diabetes: a randomised controlled trial
Otten J, Stomby A, Waling M, ..., Hauksson J, Olsson T
Diabetologia 61 (7) 1548-1559 [2018-07-00; online 2018-04-26]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
A freshwater diatom challenged by Zn: Biochemical, physiological and metabolomic responses of Tabellaria flocculosa(Roth) Kützing.
Gonçalves S, Kahlert M, Almeida SFP, Figueira E
Environ Pollut 238 (-) 959-971 [2018-07-00; online 2018-04-28]
Swedish Metabolomics Centre (SMC) [Service]
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LC-MS/MS characterization of xyloside-primed glycosaminoglycans with cytotoxic properties reveals structural diversity and novel glycan modifications.
Persson A, Gomez Toledo A, Vorontsov E, ..., Nilsson J, Larson G
J. Biol. Chem. 293 (26) 10202-10219 [2018-06-29; online 2018-05-08]
Glycoproteomics and MS Proteomics [Collaborative]
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Model Communities Hint at Promiscuous Metabolic Linkages between Ubiquitous Free-Living Freshwater Bacteria.
Garcia SL, Buck M, Hamilton JJ, ..., McMahon KD, Eiler A
mSphere 3 (3) - [2018-06-27; online 2018-05-30]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Confined photo-release of nitric oxide with simultaneous two-photon fluorescence tracking in a cellular system.
Thomsen H, Marino N, Conoci S, Sortino S, Ericson MB
Sci Rep 8 (1) 9753 [2018-06-27; online 2018-06-27]
Integrated Microscopy Technologies Gothenburg [Service]
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appreci8: a pipeline for precise variant calling integrating 8 tools
Sandmann S, Karimi M, de Graaf AO, ..., Jansen JH, Dugas M
- - (-) - [2018-06-26; online 2018-06-26]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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The contribution of common genetic risk variants for ADHD to a general factor of childhood psychopathology.
Brikell I, Larsson H, Lu Y, ..., Lichtenstein P, Martin J
Mol. Psychiatry - (-) - [2018-06-22; online 2018-06-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Properties of Amyloid-β Fibrils Are Determined by their Path of Formation.
Brännström K, Islam T, Gharibyan AL, ..., Pamrén A, Olofsson A
J. Mol. Biol. 430 (13) 1940-1949 [2018-06-22; online 2018-05-09]
Cryo-EM [Service]
PubMed DOI Crossref
In Vitro Evolution of Antibodies Inspired by In Vivo Evolution
Persson H, Kirik U, Thörnqvist L, ..., Levander F, Ohlin M
Front Immunol 9 (-) - [2018-06-21; online 2018-06-21]
Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Spatial maps of prostate cancer transcriptomes reveal an unexplored landscape of heterogeneity
Berglund E, Maaskola J, Schultz N, ..., Helleday T, Lundeberg J
Nat Commun 9 (1) 2419 [2018-06-20; online 2018-06-20]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Simultaneous determination of ribonucleoside and deoxyribonucleoside triphosphates in biological samples by hydrophilic interaction liquid chromatography coupled with tandem mass spectrometry.
Kong Z, Jia S, Chabes AL, ..., Moritz T, Chabes A
Nucleic Acids Res. 46 (11) e66 [2018-06-20; online 2018-03-20]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Gut microbiota regulates maturation of the adult enteric nervous system via enteric serotonin networks.
De Vadder F, Grasset E, Mannerås Holm L, ..., Olofsson LE, Bäckhed F
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Integrated Microscopy Technologies Gothenburg [Service]
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Gene expression profiling of periodontitis-affected gingival tissue by spatial transcriptomics.
Lundmark A, Gerasimcik N, Båge T, ..., Lundeberg J, Yucel-Lindberg T
Sci Rep 8 (1) 9370 [2018-06-19; online 2018-06-19]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Novel genetic associations for blood pressure identified via gene-alcohol interaction in up to 570K individuals across multiple ancestries.
Feitosa MF, Kraja AT, Chasman DI, ..., Province MA, Levy D
PLoS ONE 13 (6) e0198166 [2018-06-18; online 2018-06-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Gouveia M, Figueira J, Jardim MG, ..., Rissanen K, Rodrigues J
Molecules 23 (6) 1471 [2018-06-17; online 2018-06-17]
Swedish NMR Centre (SNC) [Collaborative]
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Gunasekera S, Fernandes-Cerqueira C, Wennmalm S, ..., Jakobsson PJ, Göransson U
ACS Chem. Biol. 13 (6) 1525-1535 [2018-06-15; online 2018-04-09]
Bioinformatics Support for Computational Resources [Service] Integrated Microscopy Technologies Stockholm [Collaborative] Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Plant Hormonomics: Multiple Phytohormone Profiling by Targeted Metabolomics
Šimura J, Antoniadi I, Široká J, ..., Ljung K, Novák O
Plant Physiol. 177 (2) 476-489 [2018-06-13; online 2018-04-27]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Investigating Holocene human population history in North Asia using ancient mitogenomes.
Kılınç GM, Kashuba N, Yaka R, ..., Storå J, Götherström A
Sci Rep 8 (1) 8969 [2018-06-12; online 2018-06-12]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Multi-ethnic genome-wide association study for atrial fibrillation.
Roselli C, Chaffin MD, Weng LC, ..., Lunetta KL, Ellinor PT
Nat. Genet. 50 (9) 1225-1233 [2018-06-11; online 2018-06-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Modular ssDNA binding and inhibition of telomerase activity by designer PPR proteins.
Spåhr H, Chia T, Lingford JP, ..., Filipovska A, Rackham O
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Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
High similarity in the microbiota of cold-water sponges of the Genus
Cárdenas CA, González-Aravena M, Font A, ..., Malmberg M, Bongcam-Rudloff E
PeerJ 6 (-) e4935 [2018-06-07; online 2018-06-07]
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PubMed DOI Crossref
Higher Concentrations of BCAAs and 3-HIB Are Associated with Insulin Resistance in the Transition from Gestational Diabetes to Type 2 Diabetes.
Andersson-Hall U, Gustavsson C, Pedersen A, ..., Joelsson L, Holmäng A
Journal of Diabetes Research 2018 (-) 4207067 [2018-06-05; online 2018-06-05]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Four evolutionary trajectories underlie genetic intratumoral variation in childhood cancer
Karlsson J, Valind A, Holmquist Mengelbier L, ..., Bexell D, Gisselsson D
Nat Genet 50 (7) 944-950 [2018-06-04; online 2018-06-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Active and inactive β1 integrins segregate into distinct nanoclusters in focal adhesions.
Spiess M, Hernandez-Varas P, Oddone A, ..., Lakadamyali M, Strömblad S
J. Cell Biol. 217 (6) 1929-1940 [2018-06-04; online 2018-04-09]
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Presence of Aedes and Anopheles mosquito larvae is correlated to bacteria found in domestic water-storage containers
Nilsson LKJ, Sharma A, Bhatnagar RK, Bertilsson S, Terenius O
FEMS Microbiol. Ecol. 94 (6) - [2018-06-01; online 2018-03-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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Schmidt R, Durling MB, de Jager V, ..., Karlsson M, Garbeva P
FEMS Microbiol. Ecol. 94 (6) - [2018-06-01; online 2018-04-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
γ-glutamyl transpeptidase deficiency caused by a large homozygous intragenic deletion in GGT1.
Darin N, Leckström K, Sikora P, ..., Almén G, Asin-Cayuela J
Eur. J. Hum. Genet. 26 (6) 808-817 [2018-06-00; online 2018-02-26]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] Clinical Genomics Stockholm [Service]
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Tsirigos KD, Govindarajan S, Bassot C, ..., Shu N, Elofsson A
Current Opinion in Structural Biology 50 (-) 9-17 [2018-06-00; online 2018-06-00]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
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Porseryd T, Reyhanian Caspillo N, Volkova K, ..., Olsson PE, Porsch-Hällström I
General and Comparative Endocrinology 262 (-) 44-58 [2018-06-00; online 2018-06-00]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Streptococcus pyogenes Infection and the Human Proteome with a Special Focus on the Immunoglobulin G-cleaving Enzyme IdeS.
Karlsson CAQ, Järnum S, Winstedt L, ..., Linder A, Malmström JA
Mol. Cell Proteomics 17 (6) 1097-1111 [2018-06-00; online 2018-03-06]
Structural Proteomics [Technology development]
PubMed DOI Crossref
Paternally expressed imprinted genes associate with hybridization barriers in Capsella
Lafon-Placette C, Hatorangan MR, Steige KA, ..., Slotte T, Köhler C
NPLANTS 4 (6) 352-357 [2018-06-00; online 2018-05-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Neuronal atlas of the dorsal horn defines its architecture and links sensory input to transcriptional cell types.
Häring M, Zeisel A, Hochgerner H, ..., Linnarsson S, Ernfors P
Nat. Neurosci. 21 (6) 869-880 [2018-06-00; online 2018-04-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Neuronal Aβ42 is enriched in small vesicles at the presynaptic side of synapses.
Yu Y, Jans DC, Winblad B, Tjernberg LO, Schedin-Weiss S
Life Sci. Alliance 1 (3) e201800028 [2018-06-00; online 2018-06-14]
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DOI Crossref
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Leistner K, Kumar A, Kamasamudram K, Olsson L
Catalysis Today 307 (-) 55-64 [2018-06-00; online 2018-06-00]
Bioinformatics Support for Computational Resources [Service] Swedish NMR Centre (SNC) [Service]
DOI Crossref
Liquid Norbornadiene Photoswitches for Solar Energy Storage
Dreos A, Wang Z, Udmark J, ..., Nielsen MB, Moth-Poulsen K
Adv. Energy Mater. 8 (18) 1703401 [2018-06-00; online 2018-03-25]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Genomewide binding of transcription factor Snail1 in triple-negative breast cancer cells
Maturi V, Morén A, Enroth S, Heldin CH, Moustakas A
Mol Oncol 12 (7) 1153-1174 [2018-06-00; online 2018-05-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Expression of ribosomal and actin network proteins and immunochemotherapy resistance in diffuse large B cell lymphoma patients
Bram Ednersson S, Stenson M, Stern M, ..., Hasselblom S, Andersson PO
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Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service]
PubMed
Development and Utility of a Birth Defects Surveillance Toolkit.
Flores AL, Turay K, Valencia D, ..., Groisman B, Mastroiacovo P
J Glob Health Perspect 0 (-) - [2018-06-00; online 2018-06-14]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Design, synthesis and evaluation of potent and selective inhibitors of mono-(ADP-ribosyl)transferases PARP10 and PARP14
Holechek J, Lease R, Thorsell AG, ..., Schüler H, Ferraris D
Bioorganic & Medicinal Chemistry Letters 28 (11) 2050-2054 [2018-06-00; online 2018-06-00]
Bioinformatics Support for Computational Resources [Service] Protein Science Facility (PSF) [Service]
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J. Am. Soc. Mass Spectrom. 29 (6) 1065-1074 [2018-06-00; online 2018-04-11]
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PubMed DOI Crossref
Circadian clock components control daily growth activities by modulating cytokinin levels and cell division-associated gene expression in Populus trees.
Edwards KD, Takata N, Johansson M, ..., Ljung K, Eriksson ME
Plant Cell Environ. 41 (6) 1468-1482 [2018-06-00; online 2018-04-15]
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Assessing Cu impacts on freshwater diatoms: biochemical and metabolomic responses of Tabellaria flocculosa (Roth) Kützing
Gonçalves S, Kahlert M, Almeida SFP, Figueira E
Science of The Total Environment 625 (-) 1234-1246 [2018-06-00; online 2018-06-00]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
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A novel ECEL1 mutation expands the phenotype of distal arthrogryposis multiplex congenita type 5D to include pretibial vertical skin creases.
Stattin EL, Johansson J, Gudmundsson S, ..., Bondeson ML, Wilbe M
Am. J. Med. Genet. A 176 (6) 1405-1410 [2018-06-00; online 2018-04-16]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed
A genome scan for quantitative trait loci affecting average daily gain and Kleiber ratio in Baluchi Sheep.
Pasandideh M, Rahimi-Mianji G, Gholizadeh M
J. Genet. 97 (2) 493-503 [2018-06-00; online 2018-06-23]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Equilibrative nucleoside transporter 1 gene polymorphisms and clinical outcomes following acute coronary syndromes: findings from the PLATelet inhibition and patient Outcomes (PLATO) study.
Parker WAE, Eriksson N, Becker RC, ..., Storey RF, PLATO Investigators
Platelets - (-) 1-10 [2018-05-31; online 2018-05-31]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Discovery of SNPs for individual identification by reduced representation sequencing of moose (Alces alces).
Blåhed IM, Königsson H, Ericsson G, Spong G
PLoS ONE 13 (5) e0197364 [2018-05-30; online 2018-05-30]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Common genetic variation in the autoimmune regulator (AIRE) locus is associated with autoimmune Addison's disease in Sweden.
Eriksson D, Bianchi M, Landegren N, ..., Rosengren Pielberg G, Kämpe O
Sci Rep 8 (1) 8395 [2018-05-30; online 2018-05-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Study of 300,486 individuals identifies 148 independent genetic loci influencing general cognitive function.
Davies G, Lam M, Harris SE, ..., Lencz T, Deary IJ
Nat Commun 9 (1) 2098 [2018-05-29; online 2018-05-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Diminished CXCR5 expression in peripheral blood of patients with Sjögren's syndrome may relate to both genotype and salivary gland homing
Aqrawi LA, Ivanchenko M, Björk A, ..., Skarstein K, Wahren-Herlenius M
Clin Exp Immunol 192 (3) 259-270 [2018-05-25; online 2018-03-24]
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Kynurenine pathway is altered in patients with SLE and associated with severe fatigue.
Åkesson K, Pettersson S, Ståhl S, ..., Svenungsson E, Idborg H
Lupus Sci Med 5 (1) e000254 [2018-05-23; online 2018-05-23]
Swedish NMR Centre (SNC) [Collaborative]
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SWI/SNF regulates half of its targets without the need of ATP-driven nucleosome remodeling by Brahma.
Jordán-Pla A, Yu S, Waldholm J, ..., Östlund Farrants AK, Visa N
BMC Genomics 19 (1) 367 [2018-05-18; online 2018-05-18]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Pseudouridylation of tRNA-Derived Fragments Steers Translational Control in Stem Cells.
Guzzi N, Cieśla M, Ngoc PCT, ..., Hsieh AC, Bellodi C
Cell 173 (5) 1204-1216.e26 [2018-05-17; online 2018-04-05]
Structural Proteomics [Service]
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Quantitation of Endogenous Metabolites in Mouse Tumors Using Mass-Spectrometry Imaging.
Swales JG, Dexter A, Hamm G, ..., Critchlow SE, Goodwin RJA
Anal. Chem. 90 (10) 6051-6058 [2018-05-15; online 2018-04-26]
Spatial Mass Spectrometry [Technology development]
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Inflammatory biomarker profiling in classical orthostatic hypotension: Insights from the SYSTEMA cohort.
Johansson M, Ricci F, Aung N, ..., Melander O, Fedorowski A
Int. J. Cardiol. 259 (-) 192-197 [2018-05-15; online 2018-03-27]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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A mass spectrometry imaging approach for investigating how drug-drug interactions influence drug blood-brain barrier permeability.
Vallianatou T, Strittmatter N, Nilsson A, ..., Goodwin RJA, Andrén PE
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Spatial Mass Spectrometry [Technology development]
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A genome-wide association study of IgM antibody against phosphorylcholine: shared genetics and phenotypic relationship to chronic lymphocytic leukemia.
Chen X, Gustafsson S, Whitington T, ..., Frostegård J, Magnusson PKE
Hum. Mol. Genet. 27 (10) 1809-1818 [2018-05-15; online 2018-03-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Transcriptomic analysis of the harvested endothelial cells in a swine model of mechanical thrombectomy.
Jaff N, Grankvist R, Muhl L, ..., Eriksson U, Holmin S
Neuroradiology - (-) - [2018-05-14; online 2018-05-14]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Soil microclimate changes affect soil fungal communities in a Mediterranean pine forest
Castaño C, Lindahl BD, Alday JG, ..., Pera J, Bonet JA
New Phytol - (-) - [2018-05-14; online 2018-05-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Habitual coffee consumption and cognitive function: a Mendelian randomization meta-analysis in up to 415,530 participants.
Zhou A, Taylor AE, Karhunen V, ..., Llewellyn DJ, Hyppönen E
Sci Rep 8 (1) 7526 [2018-05-14; online 2018-05-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Impact of Dynamically Exposed Polarity on Permeability and Solubility of Chameleonic Drugs Beyond the Rule of 5
Rossi Sebastiano M, Doak BC, Backlund M, ..., Matsson P, Kihlberg J
J. Med. Chem. 61 (9) 4189-4202 [2018-05-10; online 2018-04-02]
Chemical Biology Consortium Sweden (CBCS) [Service] Drug Discovery and Development (DDD) [Service]
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Humanizing Miniature Hearts through 4-Flow Cannulation Perfusion Decellularization and Recellularization.
Nguyen DT, O'Hara M, Graneli C, ..., Althage M, Heydarkhan-Hagvall S
Sci Rep 8 (1) 7458 [2018-05-10; online 2018-05-10]
Integrated Microscopy Technologies Gothenburg [Service]
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Modulation of gene transcription and epigenetics of colon carcinoma cells by bacterial membrane vesicles.
Vdovikova S, Gilfillan S, Wang S, ..., Wai SN, Hurtado A
Sci Rep 8 (1) 7434 [2018-05-09; online 2018-05-09]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Genome-wide multi-omics profiling of the 8p11-p12 amplicon in breast carcinoma.
Parris TZ, Rönnerman EW, Engqvist H, ..., Karlsson P, Helou K
Oncotarget 9 (35) 24140-24154 [2018-05-08; online 2018-05-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide association meta-analysis of circulating odd-numbered chain saturated fatty acids: Results from the CHARGE Consortium.
de Oliveira Otto MC, Lemaitre RN, Sun Q, ..., Siscovick DS, Mozaffarian D
PLoS ONE 13 (5) e0196951 [2018-05-08; online 2018-05-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Time-resolved transcriptome and proteome landscape of human regulatory T cell (Treg) differentiation reveals novel regulators of FOXP3.
Schmidt A, Marabita F, Kiani NA, ..., Lahesmaa R, Tegnér J
BMC Biol. 16 (1) 47 [2018-05-07; online 2018-05-07]
Global Proteomics and Proteogenomics [Collaborative]
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Ligation of free HMGB1 to TLR2 in the absence of ligand is negatively regulated by the C-terminal tail domain.
Aucott H, Sowinska A, Harris HE, Lundback P
Mol. Med. 24 (1) 19 [2018-05-04; online 2018-05-04]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
The GTPase domain of gamma-tubulin is required for normal mitochondrial function and spatial organization.
Lindström L, Li T, Malycheva D, ..., Rosselló CA, Alvarado-Kristensson M
Commun Biol 1 (1) 37 [2018-05-03; online 2018-05-03]
Integrated Microscopy Technologies Gothenburg [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The structure of the N-terminal module of the cell wall hydrolase RipA and its role in regulating catalytic activity.
Steiner EM, Lyngsø J, Guy JE, ..., Schneider G, Schnell R
Proteins - (-) - [2018-05-02; online 2018-05-02]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Multiplexed Antigen Bead Arrays for the Assessment of Antibody Selectivity and Epitope Mapping.
Ayoglu B, Nilsson P, Schwenk JM
Methods Mol. Biol. 1785 (-) 239-248 [2018-05-02; online 2018-05-02]
Affinity Proteomics Stockholm [Technology development] Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
High-Density Antigen Microarrays for the Assessment of Antibody Selectivity and Off-Target Binding.
Sjöberg R, Andersson E, Hellström C, ..., Nilsson P, Ayoglu B
Methods Mol. Biol. 1785 (-) 231-238 [2018-05-02; online 2018-05-02]
Affinity Proteomics Stockholm [Technology development] Autoimmunity and Serology Profiling [Technology development] Bioinformatics Support for Computational Resources [Service]
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O6-methylguanine–induced transcriptional mutagenesis reduces p53 tumor-suppressor function
Ezerskyte M, Paredes JA, Malvezzi S, ..., Scicchitano DA, Dreij K
Proc. Natl. Acad. Sci. U.S.A. 115 (18) 4731-4736 [2018-05-01; online 2018-04-17]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Extended and Continuous Decline in Effective Population Size Results in Low Genomic Diversity in the World's Rarest Hyena Species, the Brown Hyena.
Westbury MV, Hartmann S, Barlow A, ..., Dalén L, Hofreiter M
Mol. Biol. Evol. 35 (5) 1225-1237 [2018-05-01; online 2018-03-13]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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BAP1 induces cell death via interaction with 14-3-3 in neuroblastoma.
Sime W, Niu Q, Abassi Y, ..., Fu H, Massoumi R
Cell Death Dis 9 (5) 458 [2018-05-01; online 2018-05-01]
Structural Proteomics [Service]
PubMed DOI Crossref
Array profiling reveals contribution of Cthrc1 to growth of the denervated rat urinary bladder.
Zhu B, Ekman M, Svensson D, ..., Uvelius B, Swärd K
Am. J. Physiol. Renal Physiol. 314 (5) F893-F905 [2018-05-01; online 2018-01-10]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Uterine progesterone signaling is a target for metformin therapy in PCOS-like rats.
Hu M, Zhang Y, Feng J, ..., Shao LR, Billig H
J Endocrinol 237 (2) 123-137 [2018-05-00; online 2018-03-13]
Integrated Microscopy Technologies Gothenburg [Service]
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Transcription profiling of peripheral B cells in antibody-positive primary Sjögren's syndrome reveals upregulated expression of CX3CR1 and a type I and type II interferon signature.
Imgenberg-Kreuz J, Sandling JK, Björk A, ..., Syvänen AC, Nordmark G
Scand. J. Immunol. 87 (5) e12662 [2018-05-00; online 2018-04-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Sulfasalazine-Induced Agranulocytosis Is Associated With the Human Leukocyte Antigen Locus.
Wadelius M, Eriksson N, Kreutz R, ..., Hallberg P, EuDAC
Clin. Pharmacol. Ther. 103 (5) 843-853 [2018-05-00; online 2017-09-28]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Pretreatment of anaerobic digester samples by hydrochloric acid for solution-state 1 H and 13 C NMR spectroscopic characterization of organic matter
Shakeri Yekta S, Hedenström M, Stehr JE, ..., Hertkorn N, Björn A
Chemosphere 199 (-) 201-209 [2018-05-00; online 2018-05-00]
Swedish NMR Centre (SNC) [Collaborative]
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Potentials and pitfalls of inverse fluorescence correlation spectroscopy
Wennmalm S
Methods 140-141 (-) 23-31 [2018-05-00; online 2018-05-00]
Integrated Microscopy Technologies Stockholm [Technology development]
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Molecular barcoding of viral vectors enables mapping and optimization of mRNAtrans-splicing
Davidsson M, Díaz-Fernández P, Torroba M, ..., Lundberg C, Björklund T
RNA 24 (5) 673-687 [2018-05-00; online 2018-01-31]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mitochondrial Translation Efficiency Controls Cytoplasmic Protein Homeostasis
Suhm T, Kaimal JM, Dawitz H, ..., Andréasson C, Ott M
Cell Metabolism - (-) - [2018-05-00; online 2018-05-00]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Microenvironmental control of breast cancer subtype elicited through paracrine platelet-derived growth factor-CC signaling.
Roswall P, Bocci M, Bartoschek M, ..., Eriksson U, Pietras K
Nat. Med. 24 (4) 463-473 [2018-05-00; online 2018-03-12]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
DOI Crossref
Increasing sorghum yields by seed treatment with an aqueous extract of the plant Eclipta alba may involve a dual mechanism of hydropriming and suppression of fungal pathogens
Zida PE, Néya BJ, Stokholm MS, ..., Sérémé P, Lund OS
Crop Protection 107 (-) 48-55 [2018-05-00; online 2018-05-00]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of novel diagnostic biomarkers for deep venous thrombosis.
Memon AA, Sundquist K, PirouziFard M, ..., Sundquist J, Zöller B
Br. J. Haematol. 181 (3) 378-385 [2018-05-00; online 2018-04-19]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Host genetic variation strongly influences the microbiome structure and function in fungal fruiting-bodies
Pent M, Hiltunen M, Põldmaa K, ..., Ryberg M, Bahram M
Environ Microbiol 20 (5) 1641-1650 [2018-05-00; online 2018-03-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide association analyses identify 44 risk variants and refine the genetic architecture of major depression.
Wray NR, Ripke S, Mattheisen M, ..., Sullivan PF, Major Depressive Disorder Working Group of the Psychiatric Genomics Consortium
Nat. Genet. 50 (5) 668-681 [2018-05-00; online 2018-04-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Fatal demyelinating disease is induced by monocyte-derived macrophages in the absence of TGF-β signaling
Lund H, Pieber M, Parsa R, ..., Zhang XM, Harris RA
Nat. Immunol. 19 (5) 1-7 [2018-05-00; online 2018-04-16]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Ethylene signaling induces gelatinous layers with typical features of tension wood in hybrid aspen.
Felten J, Vahala J, Love J, ..., Mellerowicz EJ, Sundberg B
New Phytol. 218 (3) 999-1014 [2018-05-00; online 2018-03-12]
Cryo-EM [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Editorial and Review: 29th ASMS Sanibel Conference on Mass Spectrometry-Peptidomics: Bridging the Gap between Proteomics and Metabolomics by MS.
Li L, Andrén PE, Sweedler JV
J. Am. Soc. Mass Spectrom. 29 (5) 801-806 [2018-05-00; online 2018-04-07]
Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
Darkened Leaves Use Different Metabolic Strategies for Senescence and Survival.
Law SR, Chrobok D, Juvany M, ..., Gardeström P, Keech O
Plant Physiol. 177 (1) 132-150 [2018-05-00; online 2018-03-09]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
DNA methylation mapping identifies gene regulatory effects in patients with systemic lupus erythematosus.
Imgenberg-Kreuz J, Carlsson Almlöf J, Leonard D, ..., Syvänen AC, Sandling JK
Ann. Rheum. Dis. 77 (5) 736-743 [2018-05-00; online 2018-02-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Combined BET bromodomain and CDK2 inhibition in MYC-driven medulloblastoma.
Bolin S, Borgenvik A, Persson CU, ..., Weishaupt H, Swartling FJ
Oncogene 37 (21) 2850-2862 [2018-05-00; online 2018-03-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Abstract 472: Identifying and Characterizing Causal Genes in GWAS-identified Loci for Triglyceride Levels Using High-throughput, Image-based Screens in Zebrafish Larvae
von der Heyde B, Masiero M, Emmanouilidou A, Klingström T, den Hoed M
Arterioscler. Thromb. Vasc. Biol. 38 (Suppl_1) - [2018-05-00; online 2018-05-00]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
Ultra-rapid auxin metabolite profiling for high-throughput mutant screening in Arabidopsis.
Pencík A, Casanova-Sáez R, Pilarová V, ..., Ljung K, Novák O
J. Exp. Bot. 69 (10) 2569-2579 [2018-04-27; online 2018-03-08]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Rebooting Human Immunology.
Davis MM, Brodin P
Annu. Rev. Immunol. 36 (-) 843-864 [2018-04-26; online 2018-02-28]
Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Significant loss of mitochondrial diversity within the last century due to extinction of peripheral populations in eastern gorillas.
van der Valk T, Sandoval-Castellanos E, Caillaud D, ..., Dalén L, Guschanski K
Sci Rep 8 (1) 6551 [2018-04-25; online 2018-04-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Quantification of endogenous and exogenous protein expressions of Na,K-ATPase with super-resolution PALM/STORM imaging.
Bernhem K, Blom H, Brismar H
PLoS ONE 13 (4) e0195825 [2018-04-25; online 2018-04-25]
Bioinformatics Support for Computational Resources [Service] Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
Experimental validation of predicted cancer genes using FRET
Guala D, Bernhem K, Blal HA, ..., Brismar H, Sonnhammer ELL
Methods Appl. Fluoresc. 6 (3) 035007 [2018-04-25; online 2018-04-25]
Bioinformatics Support for Computational Resources [Service] Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Repeated evolution of self-compatibility for reproductive assurance.
Nieuwenhuis BPS, Tusso S, Bjerling P, ..., Wolf JBW, Immler S
Nat Commun 9 (1) 1639 [2018-04-24; online 2018-04-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-Guided Analysis of Clostridium ultunense and Comparative Genomics Reveal Different Strategies for Acetate Oxidation and Energy Conservation in Syntrophic Acetate-Oxidising Bacteria
Manzoor S, Schnürer A, Bongcam-Rudloff E, Müller B
Genes 9 (4) 225 [2018-04-23; online 2018-04-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Autophagic flux blockage by accumulation of weakly basic tenovins leads to elimination of B-Raf mutant tumour cells that survive vemurafenib
Ladds MJGW, Pastor-Fernández A, Popova G, ..., Bhatia R, Laín S
PLoS ONE 13 (4) e0195956 [2018-04-23; online 2018-04-23]
Drug Discovery and Development (DDD) [Service]
DOI Crossref
Human erythrocyte-derived nanovesicles can readily be loaded with doxorubicin and act as anticancer agents.
Dubois L, None , Löf L, ..., Ronquist G, Ronquist KG
Cancer Res Front 4 (1) 13-26 [2018-04-20; online 2018-04-20]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
PubMed DOI Crossref
Full Mitogenomes in the Critically Endangered Kākāpō Reveal Major Post-Glacial and Anthropogenic Effects on Neutral Genetic Diversity.
Dussex N, von Seth J, Robertson BC, Dalén L
Genes 9 (4) 220 [2018-04-19; online 2018-04-19]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A GWAS meta-analysis from 5 population-based cohorts implicates ion channel genes in the pathogenesis of irritable bowel syndrome.
Bonfiglio F, Henström M, Nag A, ..., Zhernakova A, D'Amato M
Neurogastroenterol. Motil. - (-) e13358 [2018-04-19; online 2018-04-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic and Environmental Contributions to the Covariation Between Cardiometabolic Traits.
Chen X, Kuja-Halkola R, Chang Z, ..., Pedersen NL, Magnusson PKE
J Am Heart Assoc 7 (9) - [2018-04-18; online 2018-04-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Expression of scavenger receptor MARCO defines a targetable tumor-associated macrophage subset in non-small cell lung cancer.
La Fleur L, Boura VF, Alexeyenko A, ..., Karlsson MCI, Botling J
Int. J. Cancer - (-) - [2018-04-18; online 2018-04-18]
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PubMed DOI Crossref
Data quality of whole genome bisulfite sequencing on Illumina platforms.
Raine A, Liljedahl U, Nordlund J
PLoS ONE 13 (4) e0195972 [2018-04-18; online 2018-04-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Complete Remission with Reduction of High-Risk Clones following Haploidentical NK-Cell Therapy against MDS and AML
Björklund AT, Carlsten M, Sohlberg E, ..., Ljunggren HG, Malmberg KJ
Clin. Cancer Res. 24 (8) 1834-1844 [2018-04-15; online 2018-02-14]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
PubMed DOI Crossref
Transcriptome profiling of the interconnection of pathways involved in malignant transformation and response to hypoxia.
Danielsson F, Fasterius E, Sullivan D, ..., Williams C, Lundberg E
Oncotarget 9 (28) 19730-19744 [2018-04-13; online 2018-04-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Granule-stored MUC5B mucins are packed by the non-covalent formation of N-terminal head-to-head tetramers.
Trillo-Muyo S, Nilsson HE, Recktenwald CV, ..., Hebert H, Hansson GC
J. Biol. Chem. 293 (15) 5746-5754 [2018-04-13; online 2018-02-13]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Rice auxin influx carrier OsAUX1 facilitates root hair elongation in response to low external phosphate.
Giri J, Bhosale R, Huang G, ..., Swarup R, Bennett MJ
Nat Commun 9 (1) 1408 [2018-04-12; online 2018-04-12]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Crystal Structure of Botulinum Neurotoxin A2 in Complex with the Human Protein Receptor SV2C Reveals Plasticity in Receptor Binding.
Gustafsson R, Zhang S, Masuyer G, Dong M, Stenmark P
Toxins (Basel) 10 (4) - [2018-04-12; online 2018-04-12]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
A mechanistic framework for auxin dependent Arabidopsis root hair elongation to low external phosphate.
Bhosale R, Giri J, Pandey BK, ..., Bennett MJ, Swarup R
Nat Commun 9 (1) 1409 [2018-04-12; online 2018-04-12]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Two distinct DNA sequences recognized by transcription factors represent enthalpy and entropy optima.
Morgunova E, Yin Y, Das PK, ..., Nilsson L, Taipale J
Elife 7 (-) - [2018-04-11; online 2018-04-11]
Bioinformatics Support for Computational Resources [Service] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Expression levels of long non-coding RNAs are prognostic for AML outcome.
Mer AS, Lindberg J, Nilsson C, ..., Lehmann S, Rantalainen M
J Hematol Oncol 11 (1) 52 [2018-04-07; online 2018-04-07]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Allele-selective RUNX1 binding regulates P1 blood group status by transcriptional control of A4GALT.
Westman JS, Stenfelt L, Vidovic K, ..., Kjellström S, Olsson ML
Blood 131 (14) 1611-1616 [2018-04-05; online 2018-02-08]
Structural Proteomics [Service]
PubMed DOI Crossref
Female-specific Association Between Variants on Chromosome 9 and Self-reported Diagnosis of Irritable Bowel Syndrome.
Bonfiglio F, Zheng T, Garcia-Etxebarria K, ..., Zhernakova A, D'Amato M
Gastroenterology - (-) - [2018-04-04; online 2018-04-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Abundant fish protein inhibits α-synuclein amyloid formation.
Werner T, Kumar R, Horvath I, Scheers N, Wittung-Stafshede P
Sci Rep 8 (1) 5465 [2018-04-03; online 2018-04-03]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Structure of the chloroplast ribosome with chl-RRF and hibernation-promoting factor
Perez Boerema A, Aibara S, Paul B, ..., Lindahl E, Amunts A
NPLANTS 4 (4) 212-217 [2018-04-02; online 2018-04-02]
Cryo-EM [Service]
PubMed DOI Crossref
An Application-Directed, Versatile DNA FISH Platform for Research and Diagnostics.
Gelali E, Custodio J, Girelli G, ..., Crosetto N, Bienko M
Methods Mol. Biol. 1766 (-) 303-333 [2018-04-02; online 2018-04-02]
Advanced FISH Technologies [Technology development]
PubMed DOI Crossref
Transcriptional Roadmap to Seasonal Variation in Wood Formation of Norway Spruce.
Jokipii-Lukkari S, Delhomme N, Schiffthaler B, ..., Street NR, Tuominen H
Plant Physiol. 176 (4) 2851-2870 [2018-04-00; online 2018-02-27]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The neuroendocrine phenotype, genomic profile and therapeutic sensitivity of GEPNET cell lines. Correction
Hofving T, Arvidsson Y, Almobarak B, ..., Johanson V, Nilsson O
Endocr Relat Cancer 25 (4) X1-X2 [2018-04-00; online 2018-04-00]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
The functional 3'-end of immunoglobulin heavy chain variable (IGHV) genes.
Thörnqvist L, Ohlin M
Mol. Immunol. 96 (-) 61-68 [2018-04-00; online 2018-02-28]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structural and functional studies of Spr1654: an essential aminotransferase in teichoic acid biosynthesis in
Han X, Sun R, Sandalova T, Achour A
Open Biol 8 (4) - [2018-04-00; online 2018-04-20]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Refining the accuracy of validated target identification through coding variant fine-mapping in type 2 diabetes.
Mahajan A, Wessel J, Willems SM, ..., Rotter JI, McCarthy MI
Nat. Genet. 50 (4) 559-571 [2018-04-00; online 2018-04-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
RNA Sequencing of Stentor Cell Fragments Reveals Transcriptional Changes during Cellular Regeneration
Onsbring H, Jamy M, Ettema TJG
Current Biology 28 (8) 1281-1288.e3 [2018-04-00; online 2018-04-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Multiancestry genome-wide association study of 520,000 subjects identifies 32 loci associated with stroke and stroke subtypes.
Malik R, Chauhan G, Traylor M, ..., Debette S, Dichgans M
Nat. Genet. 50 (4) 524-537 [2018-04-00; online 2018-03-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Modulation of saturation and chain length of fatty acids in Saccharomyces cerevisiae for production of cocoa butter-like lipids
Bergenholm D, Gossing M, Wei Y, Siewers V, Nielsen J
Biotechnol. Bioeng. 115 (4) 932-942 [2018-04-00; online 2018-01-24]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Long Non-Coding RNAs Associated with Metabolic Traits in Human White Adipose Tissue.
Gao H, Kerr A, Jiao H, ..., Dahlman I, Arner P
EBioMedicine 30 (-) 248-260 [2018-04-00; online 2018-03-15]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Know your farmer: Ancient origins and multiple independent domestications of ambrosia beetle fungal cultivars
Vanderpool D, Bracewell RR, McCutcheon JP
Mol Ecol 27 (8) 2077-2094 [2018-04-00; online 2017-11-23]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of Potential MR-Derived Biomarkers for Tumor Tissue Response to 177Lu-Octreotate Therapy in an Animal Model of Small Intestine Neuroendocrine Tumor.
Montelius M, Spetz J, Jalnefjord O, ..., Ljungberg M, Forssell-Aronsson E
Transl Oncol 11 (2) 193-204 [2018-04-00; online 2018-01-11]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Identification of Poly(ADP-Ribose) Polymerase Macrodomain Inhibitors Using an AlphaScreen Protocol
Ekblad T, Verheugd P, Lindgren AE, ..., Elofsson M, Schüler H
SLAS DISCOVERY: Advancing Life Sciences R&D 23 (4) 353-362 [2018-04-00; online 2018-01-09]
Chemical Biology Consortium Sweden (CBCS) [Service] Protein Science Facility (PSF) [Collaborative]
PubMed DOI Crossref
GABA Regulates Release of Inflammatory Cytokines From Peripheral Blood Mononuclear Cells and CD4 + T Cells and Is Immunosuppressive in Type 1 Diabetes
Bhandage AK, Jin Z, Korol SV, ..., Kamali-Moghaddam M, Birnir B
EBioMedicine 30 (-) 283-294 [2018-04-00; online 2018-04-00]
Affinity Proteomics Uppsala [Collaborative] Bioinformatics Support for Computational Resources [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
Effects of fixation on electrophysiology and structure of human jejunal villi.
Casselbrant A, Helander HF
Microsc Res Tech 81 (4) 376-383 [2018-04-00; online 2018-01-11]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Differential removal of human pathogenic viruses from sewage by conventional and ozone treatments.
Wang H, Sikora P, Rutgersson C, ..., Larsson DGJ, Norder H
International Journal of Hygiene and Environmental Health 221 (3) 479-488 [2018-04-00; online 2018-02-01]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Confocal super-resolution imaging of the glomerular filtration barrier enabled by tissue expansion
Unnersjö-Jess D, Scott L, Sevilla SZ, ..., Blom H, Brismar H
Kidney International 93 (4) 1008-1013 [2018-04-00; online 2018-04-00]
Bioinformatics Support for Computational Resources [Service] Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
An in vitro evaluation of browser and grazer fermentation efficiency and microbiota using European moose spring and summer foods
Krizsan SJ, Mateos-Rivera A, Bertilsson S, ..., Gidlund H, Huhtanen P
Ecol Evol 8 (8) 4183-4196 [2018-04-00; online 2018-03-31]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Improved efficiency of in situ protein analysis by proximity ligation using UnFold probes.
Klaesson A, Grannas K, Ebai T, ..., Söderberg O, Landegren U
Sci Rep 8 (1) 5400 [2018-03-29; online 2018-03-29]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
PubMed DOI Crossref
Evaluation of the ISL1 gene in the pathogenesis of bladder exstrophy in a Swedish cohort.
Arkani S, Cao J, Lundin J, ..., Matsson H, Nordenskjöld A
Hum Genome Var 5 (-) 18009 [2018-03-29; online 2018-03-29]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Strong impact on plasma protein profiles by precentrifugation delay but not by repeated freeze-thaw cycles, as analyzed using multiplex proximity extension assays.
Shen Q, Björkesten J, Galli J, ..., Tybring G, Landegren U
Clin. Chem. Lab. Med. 56 (4) 582-594 [2018-03-28; online 2017-10-19]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
PubMed DOI Crossref
Four millennia of Iberian biomolecular prehistory illustrate the impact of prehistoric migrations at the far end of Eurasia.
Valdiosera C, Günther T, Vera-Rodríguez JC, ..., Smith CI, Jakobsson M
Proc. Natl. Acad. Sci. U.S.A. 115 (13) 3428-3433 [2018-03-27; online 2018-03-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Changes in methylation within the STK32B promoter are associated with an increased risk for generalized anxiety disorder in adolescents.
Ciuculete DM, Boström AE, Tuunainen AK, ..., Mwinyi J, Schiöth HB
J Psychiatr Res 102 (-) 44-51 [2018-03-26; online 2018-03-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
AMYCNE: Confident copy number assessment using whole genome sequencing data.
Eisfeldt J, Nilsson D, Andersson-Assarsson JC, Lindstrand A
PLoS ONE 13 (3) e0189710 [2018-03-26; online 2018-03-26]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Protein Expression in Tonsillar and Base of Tongue Cancer and in Relation to Human Papillomavirus (HPV) and Clinical Outcome.
Ramqvist T, Näsman A, Franzén B, ..., Dalianis T, Munck-Wikland E
Int J Mol Sci 19 (4) 978 [2018-03-25; online 2018-03-25]
Affinity Proteomics Uppsala [Collaborative] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Multiscale patterns and drivers of arbuscular mycorrhizal fungal communities in the roots and root-associated soil of a wild perennial herb
Rasmussen PU, Hugerth LW, Blanchet FG, ..., Lindahl BD, Tack AJM
New Phytol - (-) - [2018-03-24; online 2018-03-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Meta-Analysis of Genome-Wide Association Studies of Growth Differentiation Factor-15 Concentration in Blood.
Jiang J, Thalamuthu A, Ho JE, ..., Sachdev PS, Mather KA
Front Genet 9 (-) 97 [2018-03-23; online 2018-03-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Reducing Pericyte-Derived Scarring Promotes Recovery after Spinal Cord Injury.
Dias DO, Kim H, Holl D, ..., Göritz C, Frisén J
Cell 173 (1) 153-165.e22 [2018-03-22; online 2018-03-01]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Peptide ion channel toxins from the bootlace worm, the longest animal on Earth.
Jacobsson E, Andersson HS, Strand M, ..., Tytgat J, Göransson U
Sci Rep 8 (1) 4596 [2018-03-22; online 2018-03-22]
Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
Introduction of Intrinsic Kinetics of Protein-Ligand Interactions and Their Implications for Drug Design.
Linkuvienė V, Talibov VO, Danielson UH, Matulis D
J. Med. Chem. 61 (6) 2292-2302 [2018-03-22; online 2018-03-02]
Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Molecular mechanism of ATP versus GTP selectivity of adenylate kinase
Rogne P, Rosselin M, Grundström C, ..., Sauer UH, Wolf-Watz M
Proc Natl Acad Sci USA 115 (12) 3012-3017 [2018-03-20; online 2018-03-05]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
A Space Efficient Direct Access Data Compression Approach for Mass Spectrometry Imaging.
Källback P, Nilsson A, Shariatgorji M, Andrén PE
Anal. Chem. 90 (6) 3676-3682 [2018-03-20; online 2018-03-08]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Myopathy With SQSTM1 and TIA1 Variants: Clinical and Pathological Features.
Niu Z, Pontifex CS, Berini S, ..., Pfeffer G, Milone M
Front Neurol 9 (-) 147 [2018-03-19; online 2018-03-19]
Spatial Proteomics [Service]
PubMed DOI Crossref
ILF2 and ILF3 are autoantigens in canine systemic autoimmune disease.
Bremer HD, Landegren N, Sjöberg R, ..., Kämpe O, Hansson-Hamlin H
Sci Rep 8 (1) 4852 [2018-03-19; online 2018-03-19]
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Single molecule real-time (SMRT) sequencing comes of age: applications and utilities for medical diagnostics.
Ardui S, Ameur A, Vermeesch JR, Hestand MS
Nucleic Acids Res. 46 (5) 2159-2168 [2018-03-16; online 2018-02-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Recurrent, low-frequency coding variants contributing to colorectal cancer in the Swedish population.
Jiao X, Liu W, Mahdessian H, ..., Dunlop M, Lindblom A
PLoS ONE 13 (3) e0193547 [2018-03-16; online 2018-03-16]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A DHODH inhibitor increases p53 synthesis and enhances tumor cell killing by p53 degradation blockage.
Ladds MJGW, van Leeuwen IMM, Drummond CJ, ..., McCormack E, Laín S
Nat Commun 9 (1) 1107 [2018-03-16; online 2018-03-16]
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Protein profiling in serum after traumatic brain injury in rats reveals potential injury markers.
Thelin EP, Just D, Frostell A, ..., Nilsson P, Bellander BM
Behav. Brain Res. 340 (-) 71-80 [2018-03-15; online 2016-08-31]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Clinical Presentation of a Complex Neurodevelopmental Disorder Caused by Mutations in ADNP.
Van Dijck A, Vulto-van Silfhout AT, Cappuyns E, ..., Vandeweyer G, Kooy RF
Biol. Psychiatry - (-) - [2018-03-15; online 2018-03-15]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Transcriptional stimulation of rate-limiting components of the autophagic pathway improves plant fitness.
Minina EA, Moschou PN, Vetukuri RR, ..., Hofius D, Bozhkov PV
J. Exp. Bot. 69 (6) 1415-1432 [2018-03-14; online 2018-01-25]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Ethylene-Related Gene Expression Networks in Wood Formation.
Seyfferth C, Wessels B, Jokipii-Lukkari S, ..., Felten J, Tuominen H
Front Plant Sci 9 (-) 272 [2018-03-14; online 2018-03-14]
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High-resolution detection of chromosomal rearrangements in leukemias through mate pair whole genome sequencing.
Tran AN, Taylan F, Zachariadis V, ..., Nilsson D, Barbany G
PLoS ONE 13 (3) e0193928 [2018-03-12; online 2018-03-12]
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Increased thermal stability of nanocellulose composites by functionalization of the sulfate groups on cellulose nanocrystals with azetidinium ions
Börjesson M, Sahlin K, Bernin D, Westman G
J. Appl. Polym. Sci. 135 (10) 45963 [2018-03-10; online 2017-11-08]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Clinical Value of RNA Sequencing-Based Classifiers for Prediction of the Five Conventional Breast Cancer Biomarkers: A Report From the Population-Based Multicenter Sweden Cancerome Analysis Network-Breast Initiative.
Brueffer C, Vallon-Christersson J, Grabau D, ..., Borg Å, Saal LH
JCO Precision Oncology 2 (2) 1-18 [2018-03-09; online 2018-03-09]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Biological annotation of genetic loci associated with intelligence in a meta-analysis of 87,740 individuals.
Coleman JRI, Bryois J, Gaspar HA, ..., Posthuma D, Breen G
Mol. Psychiatry - (-) - [2018-03-08; online 2018-03-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The Interaction Modes of Haloimidazolium Salts in Solution.
Schulz N, Sokkar P, Engelage E, ..., Sanchez-Garcia E, Huber SM
Chemistry 24 (14) 3464-3473 [2018-03-07; online 2017-12-28]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Genome-wide analysis yields new loci associating with aortic valve stenosis.
Helgadottir A, Thorleifsson G, Gretarsdottir S, ..., Holm H, Stefansson K
Nat Commun 9 (1) 987 [2018-03-07; online 2018-03-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Global analysis of A-to-I RNA editing reveals association with common disease variants
Franzén O, Ermel R, Sukhavasi K, ..., Schadt EE, Björkegren JLM
PeerJ 6 (-) e4466 [2018-03-06; online 2018-03-06]
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PubMed DOI Crossref
CEP128 Localizes to the Subdistal Appendages of the Mother Centriole and Regulates TGF-β/BMP Signaling at the Primary Cilium.
Mönnich M, Borgeskov L, Breslin L, ..., Larsen LA, Pedersen LB
Cell Rep 22 (10) 2584-2592 [2018-03-06; online 2018-03-08]
Integrated Microscopy Technologies Stockholm [Service] Spatial Proteomics [Collaborative]
PubMed DOI Crossref
An Integrated Understanding of the Rapid Metabolic Benefits of a Carbohydrate-Restricted Diet on Hepatic Steatosis in Humans.
Mardinoglu A, Wu H, Bjornson E, ..., Taskinen MR, Borén J
Cell Metab. 27 (3) 559-571.e5 [2018-03-06; online 2018-02-15]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
The Immunogenicity of a Proline-Substituted Altered Peptide Ligand toward the Cancer-Associated TEIPP Neoepitope Trh4 Is Unrelated to Complex Stability.
Hafstrand I, Doorduijn EM, Sun R, ..., van Hall T, Achour A
J. Immunol. - (-) - [2018-03-05; online 2018-03-05]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
DNA methylation holds prognostic information in relapsed precursor B-cell acute lymphoblastic leukemia.
Borssén M, Nordlund J, Haider Z, ..., Lönnerholm G, Degerman S
Clin Epigenetics 10 (-) 31 [2018-03-05; online 2018-03-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Transcriptome analysis of embryonic domains in Norway spruce reveals potential regulators of suspensor cell death.
Reza SH, Delhomme N, Street NR, ..., Minina EA, Bozhkov PV
PLoS ONE 13 (3) e0192945 [2018-03-02; online 2018-03-02]
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PubMed DOI Crossref
NMR Study of Rcf2 Reveals an Unusual Dimeric Topology in Detergent Micelles.
Zhou S, Pettersson P, Brzezinski P, Ädelroth P, Mäler L
ChemBioChem 19 (5) 444-447 [2018-03-02; online 2018-01-25]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Discovery of coding regions in the human genome by integrated proteogenomics analysis workflow.
Zhu Y, Orre LM, Johansson HJ, ..., Branca RMM, Lehtiö J
Nat Commun 9 (1) 903 [2018-03-02; online 2018-03-02]
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Striatal Tyrosine Hydroxylase Is Stimulated via TAAR1 by 3-Iodothyronamine, But Not by Tyramine or β-Phenylethylamine.
Zhang X, Mantas I, Alvarsson A, ..., Chergui K, Svenningsson P
Front Pharmacol 9 (-) 166 [2018-03-01; online 2018-03-01]
Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
Sexual dimorphism in the width of the mouse synaptonemal complex
Agostinho A, Kouznetsova A, Hernández-Hernández A, ..., Brismar H, Höög C
J Cell Sci 131 (5) jcs212548 [2018-03-01; online 2018-02-02]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Impact of genetic risk loci for multiple sclerosis on expression of proximal genes in patients.
James T, Lindén M, Morikawa H, ..., Gomez-Cabrero D, Kockum I
Hum. Mol. Genet. 27 (5) 912-928 [2018-03-01; online 2018-01-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genomic signatures of 60 years of bidirectional selection for 8-week body weight in chickens
Lillie M, Sheng ZY, Honaker CF, ..., Siegel PB, Carlborg Ö
Poult. Sci. 97 (3) 781-790 [2018-03-01; online 2017-12-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic variants influencing phenotypic variance heterogeneity.
Ek WE, Rask-Andersen M, Karlsson T, ..., Gyllensten U, Johansson Å
Hum. Mol. Genet. 27 (5) 799-810 [2018-03-01; online 2018-01-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Large-Scale Multi-ancestry Genome-wide Study Accounting for Smoking Behavior Identifies Multiple Significant Loci for Blood Pressure.
Sung YJ, Winkler TW, de Las Fuentes L, ..., Rao DC, Chasman DI
Am. J. Hum. Genet. 102 (3) 375-400 [2018-03-01; online 2018-02-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The neuroendocrine phenotype, genomic profile and therapeutic sensitivity of GEPNET cell lines.
Hofving T, Arvidsson Y, Almobarak B, ..., Johanson V, Nilsson O
Endocr. Relat. Cancer 25 (3) 367-380 [2018-03-00; online 2018-02-16]
Integrated Microscopy Technologies Gothenburg [Service]
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The fungus that came in from the cold: dry rot’s pre-adapted ability to invade buildings
Balasundaram SV, Hess J, Durling MB, ..., Eastwood DC, Skrede I
ISME J 12 (3) 791-801 [2018-03-00; online 2018-01-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Relicts of the lost arc: High-throughput sequencing of the Eutrichomyias rowleyi (Aves: Passeriformes) holotype uncovers an ancient biogeographic link between the Philippines and Fiji.
Jønsson KA, Blom MPK, Päckert M, Ericson PGP, Irestedt M
Mol. Phylogenet. Evol. 120 (-) 28-32 [2018-03-00; online 2017-12-02]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Proteomic Profiling for Cardiovascular Biomarker Discovery in Orthostatic Hypotension.
Johansson M, Ricci F, Aung N, ..., Melander O, Fedorowski A
Hypertension 71 (3) 465-472 [2018-03-00; online 2018-01-02]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Nubbin isoform antagonism governs Drosophila intestinal immune homeostasis.
Lindberg BG, Tang X, Dantoft W, ..., Lindvall JM, Engström Y
PLoS Pathog. 14 (3) e1006936 [2018-03-00; online 2018-03-02]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Molecularly imprinted polymers synthesized via template immobilization on fumed silica nanoparticles for the enrichment of phosphopeptides.
Duarte M, Subedi P, Yilmaz E, ..., Laurell T, Ekström S
J. Mol. Recognit. 31 (3) - [2018-03-00; online 2017-10-12]
Structural Proteomics [Service]
PubMed DOI Crossref
Lipids Shape the Electron Acceptor-Binding Site of the Peripheral Membrane Protein Dihydroorotate Dehydrogenase
Costeira-Paulo J, Gault J, Popova G, ..., Marklund EG, Landreh M
Cell Chem Biol 25 (3) 309-317.e4 [2018-03-00; online 2018-03-00]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Geobacteraceae are important members of mercury-methylating microbial communities of sediments impacted by waste water releases
Bravo AG, Zopfi J, Buck M, ..., Poté J, Cosio C
ISME J 12 (3) 802-812 [2018-03-00; online 2018-01-10]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Galectin-3 levels relate in children to total body fat, abdominal fat, body fat distribution, and cardiac size.
Dencker M, Arvidsson D, Karlsson MK, ..., Andersen LB, Thorsson O
Eur J Pediatr 177 (3) 461-467 [2018-03-00; online 2018-01-11]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
DOI Crossref
Fungal community shifts underpin declining mycelial production and turnover across a <i>Pinus sylvestris</i> chronosequence
Hagenbo A, Kyaschenko J, Clemmensen KE, Lindahl BD, Fransson P
J Ecol 106 (2) 490-501 [2018-03-00; online 2018-02-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Functional metagenomics reveals a novel carbapenem-hydrolyzing mobile beta-lactamase from Indian river sediments contaminated with antibiotic production waste
Marathe NP, Janzon A, Kotsakis SD, ..., Kristiansson E, Larsson DGJ
Environment International 112 (-) 279-286 [2018-03-00; online 2018-03-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
First de novo whole genome sequencing and assembly of the pink-footed goose.
Pujolar JM, Dalén L, Olsen RA, Hansen MM, Madsen J
Genomics 110 (2) 75-79 [2018-03-00; online 2017-08-30]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cleaner fish escape salmon farms and hybridize with local wrasse populations
Faust E, Halvorsen KT, Andersen P, Knutsen H, André C
R. Soc. open sci. 5 (3) 171752 [2018-03-00; online 2018-03-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cardiovascular disease in systemic lupus erythematosus is associated with increased levels of biomarkers reflecting receptor-activated apoptosis.
Wigren M, Svenungsson E, Mattisson IY, ..., Fredrikson GN, Nilsson J
Atherosclerosis 270 (-) 1-7 [2018-03-00; online 2018-01-17]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
DOI Crossref
Affinity of charcoals for different forms of radioactive organic iodine
Aneheim E, Bernin D, Foreman MRS
Nuclear Engineering and Design 328 (-) 228-240 [2018-03-00; online 2018-03-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Current applications of antibody microarrays.
Chen Z, Dodig-Crnković T, Schwenk JM, Tao SC
Clin Proteomics 15 (-) 7 [2018-02-28; online 2018-02-28]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Yale School of Public Health Symposium on tissue imaging mass spectrometry: illuminating phenotypic heterogeneity and drug disposition at the molecular level.
Charkoftaki G, Rattray NJW, Andrén PE, ..., Johnson CH, Vasiliou V
Hum Genomics 12 (1) 10 [2018-02-27; online 2018-02-27]
Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
The ZBED6–IGF2 axis has a major effect on growth of skeletal muscle and internal organs in placental mammals
Younis S, Schönke M, Massart J, ..., Zierath JR, Andersson L
Proc Natl Acad Sci USA 115 (9) E2048-E2057 [2018-02-27; online 2018-02-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Brain Tissue Sample Stabilization and Extraction Strategies for Neuropeptidomics.
Fridjonsdottir E, Nilsson A, Wadensten H, Andrén PE
Methods Mol. Biol. 1719 (-) 41-49 [2018-02-25; online 2018-02-25]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Targeted Long-Read Sequencing of a Locus Under Long-Term Balancing Selection in Capsella
Bachmann JA, Tedder A, Laenen B, Steige KA, Slotte T
G3 (Bethesda) 8 (4) 1327-1333 [2018-02-23; online 2018-02-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Disruption of Accumbens and Thalamic White Matter Connectivity Revealed by Diffusion Tensor Tractography in Young Men with Genetic Risk for Obesity
Olivo G, Latini F, Wiemerslage L, Larsson EM, Schiöth HB
Front Hum Neurosci 12 (-) - [2018-02-22; online 2018-02-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A molecular atlas of cell types and zonation in the brain vasculature.
Vanlandewijck M, He L, Mäe MA, ..., Lendahl U, Betsholtz C
Nature 554 (7693) 475-480 [2018-02-22; online 2018-02-14]
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PubMed DOI Crossref
In Situ Target Engagement Studies in Adherent Cells
Axelsson H, Almqvist H, Otrocka M, ..., Lundbäck T, Seashore-Ludlow B
ACS Chem. Biol. - (-) - [2018-02-21; online 2018-02-21]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Technology development]
PubMed DOI Crossref
Structural and Biophysical Characterization of Human EXTL3: Domain Organization, Glycosylation, and Solution Structure.
Awad W, Kjellström S, Svensson Birkedal G, Mani K, Logan DT
Biochemistry 57 (7) 1166-1177 [2018-02-20; online 2018-02-05]
Structural Proteomics [Service]
PubMed DOI Crossref
Antibodies in children with malaria to PfEMP1, RIFIN and SURFIN expressed at the Plasmodium falciparum parasitized red blood cell surface.
Quintana MDP, Ch'ng JH, Moll K, ..., Qundos U, Wahlgren M
Sci Rep 8 (1) 3262 [2018-02-19; online 2018-02-19]
Autoimmunity and Serology Profiling [Service] Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Two novel colorectal cancer risk loci in the region on chromosome 9q22.32
Thutkawkorapin J, Mahdessian H, Barber T, ..., Jiao X, Lindblom A
Oncotarget 9 (13) - [2018-02-16; online 2018-01-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mesenchymal stem cell-derived exosomes have altered microRNA profiles and induce osteogenic differentiation depending on the stage of differentiation.
Wang X, Omar O, Vazirisani F, Thomsen P, Ekström K
PLoS ONE 13 (2) e0193059 [2018-02-15; online 2018-02-15]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Drug Target Commons: A Community Effort to Build a Consensus Knowledge Base for Drug-Target Interactions.
Tang J, Tanoli ZU, Ravikumar B, ..., Wennerberg K, Aittokallio T
Cell Chem Biol 25 (2) 224-229.e2 [2018-02-15; online 2017-12-21]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Irreversible inhibition of cytosolic thioredoxin reductase 1 as a mechanistic basis for anticancer therapy.
Stafford WC, Peng X, Olofsson MH, ..., Linder S, Arnér ESJ
Sci Transl Med 10 (428) - [2018-02-14; online 2018-02-16]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Affinity proteomic profiling of plasma for proteins associated to area-based mammographic breast density.
Byström S, Eklund M, Hong MG, ..., Schwenk JM, Gabrielson M
Breast Cancer Res. 20 (1) 14 [2018-02-14; online 2018-02-14]
Affinity Proteomics Stockholm [Collaborative] Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Educated natural killer cells show dynamic movement of the activating receptor NKp46 and confinement of the inhibitory receptor Ly49A
Staaf E, Hedde PN, Bagawath Singh S, ..., Gratton E, Johansson S
Sci. Signal. 11 (517) eaai9200 [2018-02-13; online 2018-02-13]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Dispersed Uniform Nanoparticles from a Macroscopic Organosilica Powder.
Church TL, Bernin D, Garcia-Bennett AE, Hedin N
Langmuir 34 (6) 2274-2281 [2018-02-13; online 2018-02-05]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Advancing the immunoaffinity platform AFFIRM to targeted measurements of proteins in serum in the pg/ml range.
Säll A, Corbee D, Vikström S, ..., Persson H, Waldemarson S
PLoS ONE 13 (2) e0189116 [2018-02-13; online 2018-02-13]
Drug Discovery and Development (DDD) [Technology development]
PubMed DOI Crossref
Proteomic analyses identify prognostic biomarkers for pancreatic ductal adenocarcinoma.
Hu D, Ansari D, Pawłowski K, ..., Marko-Varga G, Andersson R
Oncotarget 9 (11) 9789-9807 [2018-02-09; online 2018-01-03]
Structural Proteomics [Service]
PubMed DOI Crossref
The DNA Methylome of the Hyperthermoacidophilic Crenarchaeon Sulfolobus acidocaldarius
Couturier M, Lindås AC
Front Microbiol 9 (-) - [2018-02-08; online 2018-02-08]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A novel monoclonal antibody targeting carboxymethyllysine, an advanced glycation end product in atherosclerosis and pancreatic cancer.
Wendel U, Persson N, Risinger C, ..., Jansson B, Blixt O
PLoS ONE 13 (2) e0191872 [2018-02-08; online 2018-02-08]
Structural Proteomics [Service]
PubMed DOI Crossref
Vascular Endothelial Growth Factor D, Pulmonary Congestion, and Incidence of Heart Failure.
Borné Y, Gränsbo K, Nilsson J, ..., Smith JG, Engström G
J. Am. Coll. Cardiol. 71 (5) 580-582 [2018-02-06; online 2018-02-07]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
MYCN-amplified neuroblastoma maintains an aggressive and undifferentiated phenotype by deregulation of estrogen and NGF signaling.
Dzieran J, Rodriguez Garcia A, Westermark UK, ..., Lehtiö J, Arsenian-Henriksson M
Proc. Natl. Acad. Sci. U.S.A. 115 (6) E1229-E1238 [2018-02-06; online 2018-01-26]
Global Proteomics and Proteogenomics [Collaborative]
PubMed DOI Crossref
Kynurenic Acid and Gpr35 Regulate Adipose Tissue Energy Homeostasis and Inflammation.
Agudelo LZ, Ferreira DMS, Cervenka I, ..., Berggren PO, Ruas JL
Cell Metab. 27 (2) 378-392.e5 [2018-02-06; online 2018-02-08]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Human NUDT22 Is a UDP-Glucose/Galactose Hydrolase Exhibiting a Unique Structural Fold.
Carter M, Jemth AS, Carreras-Puigvert J, ..., Helleday T, Stenmark P
Structure 26 (2) 295-303.e6 [2018-02-06; online 2018-02-08]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Crystal Structures and Inhibitor Interactions of Mouse and Dog MTH1 Reveal Species-Specific Differences in Affinity.
Narwal M, Jemth AS, Gustafsson R, ..., Helleday T, Stenmark P
Biochemistry 57 (5) 593-603 [2018-02-06; online 2018-01-16]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Ten steps to get started in Genome Assembly and Annotation
Dominguez Del Angel V, Hjerde E, Sterck L, ..., Binzer-Panchal M, Lantz H
F1000Res 7 (-) 148 [2018-02-05; online 2018-02-05]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support and Infrastructure [Technology development] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Technology development] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Interferon γ treatment increases endocannabinoid and related N-acylethanolamine levels in T84 human colon carcinoma cells
Alhouayek M, Rankin L, Gouveia-Figueira S, Fowler CJ
British Journal of Pharmacology - (-) - [2018-02-05; online 2018-02-05]
Swedish Metabolomics Centre (SMC) [Service]
DOI Crossref
CheckQC: Quick quality control of Illumina sequencing runs
Åslin M, Brandt M, Dahlberg J
JOSS 3 (22) 556 [2018-02-05; online 2018-02-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
A Common Peptidolytic Mechanism for Targeting Peptide Degradation in Mitochondria and Chloroplasts.
Kmiec B, Branca RMM, Murcha MW, ..., Glaser E, Teixeira PF
Mol Plant 11 (2) 342-345 [2018-02-05; online 2017-11-26]
Clinical Proteomics Mass spectrometry [Service] Global Proteomics and Proteogenomics [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Mechanism of Peptide Binding and Cleavage by the Human Mitochondrial Peptidase Neurolysin.
Teixeira PF, Masuyer G, Pinho CM, ..., Stenmark P, Glaser E
J. Mol. Biol. 430 (3) 348-362 [2018-02-02; online 2017-11-26]
Clinical Proteomics Mass spectrometry [Service] Global Proteomics and Proteogenomics [Service]
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Novel ATP-cone-driven allosteric regulation of ribonucleotide reductase via the radical-generating subunit.
Rozman Grinberg I, Lundin D, Hasan M, ..., Logan DT, Sjöberg BM
Elife 7 (-) - [2018-02-01; online 2018-02-01]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Multi-omics Reveals the Lifestyle of the Acidophilic, Mineral-Oxidizing Model Species Leptospirillum ferriphilum T.
Christel S, Herold M, Bellenberg S, ..., Poetsch A, Dopson M
Appl. Environ. Microbiol. 84 (3) e02091-17 [2018-02-01; online 2018-01-17]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Isolated myelosarcoma is characterized by recurrent NFE2 mutations and concurrent preleukemic clones in the bone marrow.
Lazarevic V, Orsmark-Pietras C, Lilljebjörn H, ..., Juliusson G, Fioretos T
Blood 131 (5) 577-581 [2018-02-01; online 2017-11-30]
Clinical Genomics [Collaborative] Clinical Genomics Lund [Collaborative]
PubMed DOI Crossref
Human Adenovirus Infection Causes Cellular E3 Ubiquitin Ligase MKRN1 Degradation Involving the Viral Core Protein pVII.
Inturi R, Mun K, Singethan K, Schreiner S, Punga T
J. Virol. 92 (3) - [2018-02-01; online 2018-01-17]
Affinity Proteomics Uppsala [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
De novo mutations implicate novel genes in systemic lupus erythematosus.
Pullabhatla V, Roberts AL, Lewis MJ, ..., Syvänen AC, Vyse TJ
Hum. Mol. Genet. 27 (3) 421-429 [2018-02-01; online 2017-11-28]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
U-CAN: a prospective longitudinal collection of biomaterials and clinical information from adult cancer patients in Sweden.
Glimelius B, Melin B, Enblad G, ..., Palmqvist R, Sjöblom T
Acta Oncol 57 (2) 187-194 [2018-02-00; online 2017-06-20]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Transposon-derived small RNAs triggered by miR845 mediate genome dosage response in Arabidopsis
Borges F, Parent JS, van Ex F, ..., Köhler C, Martienssen RA
Nat Genet 50 (2) 186-192 [2018-02-00; online 2018-01-15]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The discovery of the virulence gene ToxA in the wheat and barley pathogen Bipolaris sorokiniana.
McDonald MC, Ahren D, Simpfendorfer S, Milgate A, Solomon PS
Mol. Plant Pathol. 19 (2) 432-439 [2018-02-00; online 2017-03-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
DOI Crossref
The Influence of Heat Treatments on the Porosity of Suspension Plasma-Sprayed Yttria-Stabilized Zirconia Coatings
Ekberg J, Ganvir A, Klement U, Creci S, Nordstierna L
J Therm Spray Tech 27 (3) 391-401 [2018-02-00; online 2018-01-04]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Targeted proteomic analysis of habitual coffee consumption.
Cornelis MC, Gustafsson S, Ärnlöv J, ..., Lind L, Ingelsson E
J. Intern. Med. 283 (2) 200-211 [2018-02-00; online 2017-11-16]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
T cells are influenced by a long non-coding RNA in the autoimmune associated PTPN2 locus
Houtman M, Shchetynsky K, Chemin K, ..., Malmström V, Padyukov L
Journal of Autoimmunity 90 (-) 28-38 [2018-02-00; online 2018-02-00]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Small molecule PGC-1α1 protein stabilizers induce adipocyte Ucp1 expression and uncoupled mitochondrial respiration
Pettersson-Klein AT, Izadi M, Ferreira DMS, ..., Griffin PR, Ruas JL
Mol Metab - (-) - [2018-02-00; online 2018-02-00]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Slow evolution of sex-biased genes in the reproductive tissue of the dioecious plant Salix viminalis
Darolti I, Wright AE, Pucholt P, Berlin S, Mank JE
Mol Ecol 27 (3) 694-708 [2018-02-00; online 2018-01-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Red meat intake in chronic kidney disease patients: Two sides of the coin
Mafra D, Borges NA, Cardozo LFMdF, ..., Lindholm B, Stenvinkel P
Nutrition 46 (-) 26-32 [2018-02-00; online 2018-02-00]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Quantitative image analysis of protein expression and colocalisation in skin sections
Zhang H, Ericsson M, Virtanen M, ..., Vahlquist A, Törmä H
Exp Dermatol 27 (2) 196-199 [2018-02-00; online 2018-01-09]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service]
PubMed DOI Crossref
Probing the activity of a recombinant Zn2+ -transporting P-type ATPase.
Ravishankar H, Barth A, Andersson M
Biopolymers 109 (2) - [2018-02-00; online 2017-11-23]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Paternal easiRNAs regulate parental genome dosage in Arabidopsis
Martinez G, Wolff P, Wang Z, ..., Slotkin RK, Köhler C
Nat Genet 50 (2) 193-198 [2018-02-00; online 2018-01-15]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Megakaryocytes harbour the del(5q) abnormality despite complete clinical and cytogenetic remission induced by lenalidomide treatment
Scharenberg C, Jansson M, Saft L, Hellström-Lindberg E
Br J Haematol 180 (4) 526-533 [2018-02-00; online 2018-01-29]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
DOI Crossref
Life after tree death: Does restored dead wood host different fungal communities to natural woody substrates?
Pasanen H, Junninen K, Boberg J, ..., Stenlid J, Kouki J
Forest Ecology and Management 409 (-) 863-871 [2018-02-00; online 2018-02-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
In situ protein detection with enhanced specificity using DNA-conjugated antibodies and proximity ligation.
Zieba A, Ponten F, Uhlén M, Landegren U
Mod. Pathol. 31 (2) 253-263 [2018-02-00; online 2017-09-22]
Affinity Proteomics Uppsala [Technology development] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] PLA and Single Cell Proteomics [Technology development] Tissue Profiling [Collaborative]
PubMed DOI Crossref
Gene expression profiling across ontogenetic stages in the wood white (Leptidea sinapis) reveals pathways linked to butterfly diapause regulation.
Leal L, Talla V, Källman T, ..., Vila R, Backström N
Mol. Ecol. 27 (4) 935-948 [2018-02-00; online 2018-02-26]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Formation of mercury methylation hotspots as a consequence of forestry operations
Eklöf K, Bishop K, Bertilsson S, ..., Kronberg RM, Bravo AG
Science of The Total Environment 613-614 (-) 1069-1078 [2018-02-00; online 2018-02-00]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Establishment of Photosynthesis through Chloroplast Development Is Controlled by Two Distinct Regulatory Phases.
Dubreuil C, Jin X, Barajas-López JD, ..., Small I, Strand Å
Plant Physiol. 176 (2) 1199-1214 [2018-02-00; online 2017-06-16]
Cryo-EM [Service]
PubMed DOI Crossref
Dispersal timing determines the importance of priority effects in bacterial communities
Svoboda P, Lindström ES, Ahmed Osman O, Langenheder S
ISME J 12 (2) 644-646 [2018-02-00; online 2017-10-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Copy Number Variation Analysis of 100 Twin Pairs Enriched for Neurodevelopmental Disorders.
Stamouli S, Anderlid BM, Willfors C, ..., Tammimies K, Bölte S
Twin Res Hum Genet 21 (1) 1-11 [2018-02-00; online 2018-01-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Conserved properties of dentate gyrus neurogenesis across postnatal development revealed by single-cell RNA sequencing.
Hochgerner H, Zeisel A, Lönnerberg P, Linnarsson S
Nat. Neurosci. 21 (2) 290-299 [2018-02-00; online 2018-01-15]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Bacterial secretion of D-arginine controls environmental microbial biodiversity.
Alvarez L, Aliashkevich A, de Pedro MA, Cava F
ISME J 12 (2) 438-450 [2018-02-00; online 2017-10-13]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
DOI Crossref
Archaeal community changes in Lateglacial lake sediments: Evidence from ancient DNA
Ahmed E, Parducci L, Unneberg P, ..., Slotte T, Wohlfarth B
Quaternary Science Reviews 181 (-) 19-29 [2018-02-00; online 2018-02-00]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
PubMed DOI Crossref
Activating FGFR1 Mutations in Sporadic Pheochromocytomas.
Welander J, Łysiak M, Brauckhoff M, ..., Söderkvist P, Gimm O
World J Surg 42 (2) 482-489 [2018-02-00; online 2017-11-22]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A convenient transesterification method for synthesis of AT2 receptor ligands with improved stability in human liver microsomes
Wannberg J, Isaksson R, Bremberg U, ..., Hallberg M, Larhed M
Bioorganic & Medicinal Chemistry Letters 28 (3) 519-522 [2018-02-00; online 2018-02-00]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
A DNA methylation biomarker of alcohol consumption.
Liu C, Marioni RE, Hedman ÅK, ..., Ingelsson E, Levy D
Mol. Psychiatry 23 (2) 422-433 [2018-02-00; online 2016-11-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Pulmonary fibrosis in vivo displays increased p21 expression reduced by 5-HT2B receptor antagonists in vitro - a potential pathway affecting proliferation.
Löfdahl A, Rydell-Törmänen K, Larsson-Callerfelt A, Wenglén C, Westergren-Thorsson G
Sci Rep 8 (1) 1927 [2018-01-31; online 2018-01-31]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
A Single Bout of Electroacupuncture Remodels Epigenetic and Transcriptional Changes in Adipose Tissue in Polycystic Ovary Syndrome.
Kokosar M, Benrick A, Perfilyev A, ..., Ling C, Stener-Victorin E
Sci Rep 8 (1) 1878 [2018-01-30; online 2018-01-30]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Metabolome dynamics of diapause in the butterfly Pieris napi: distinguishing maintenance, termination and post-diapause phases.
Lehmann P, Pruisscher P, Koštál V, ..., Wheat CW, Gotthard K
J Exp Biol 221 (Pt 2) - [2018-01-25; online 2018-01-25]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
PubMed DOI Crossref
Innate immune alterations are elicited in microglial cells before plaque deposition in the Alzheimer's disease mouse model 5xFAD.
Boza-Serrano A, Yang Y, Paulus A, Deierborg T
Sci Rep 8 (1) 1550 [2018-01-24; online 2018-01-24]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
In Situ Analyses Directly in Diarrheal Stool Reveal Large Variations in Bacterial Load and Active Toxin Expression of Enterotoxigenic Escherichia coli and Vibrio cholerae
Begum YA, Rydberg HA, Thorell K, ..., Qadri F, Sjöling Å
mSphere 3 (1) e00517-17 [2018-01-24; online 2018-01-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetical genomics of growth in a chicken model.
Johnsson M, Henriksen R, Höglund A, ..., Jensen P, Wright D
BMC Genomics 19 (1) 72 [2018-01-23; online 2018-01-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Demography and mating system shape the genome-wide impact of purifying selection in Arabis alpina.
Laenen B, Tedder A, Nowak MD, ..., Coupland G, Slotte T
Proc. Natl. Acad. Sci. U.S.A. 115 (4) 816-821 [2018-01-23; online 2018-01-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Targeted NUDT5 inhibitors block hormone signaling in breast cancer cells.
Page BDG, Valerie NCK, Wright RHG, ..., Beato M, Helleday T
Nat Commun 9 (1) 250 [2018-01-17; online 2018-01-17]
Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Service] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Genome-wide association study in 79,366 European-ancestry individuals informs the genetic architecture of 25-hydroxyvitamin D levels.
Jiang X, O'Reilly PF, Aschard H, ..., Kraft P, Kiel DP
Nat Commun 9 (1) 260 [2018-01-17; online 2018-01-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Alpha-actinin of the chlorarchiniophyte Bigelowiella natans.
Backman L
PeerJ 6 (-) e4288 [2018-01-17; online 2018-01-17]
Cryo-EM [Service]
PubMed DOI Crossref
Spotty Carotid Plaques Are Associated with Inflammation and the Occurrence of Cerebrovascular Symptoms.
Halak S, Östling G, Edsfeldt A, ..., Gonçalves I, Asciutto G
Cerebrovasc Dis Extra 8 (1) 16-25 [2018-01-15; online 2018-01-15]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Complete genomic and transcriptional landscape analysis using third-generation sequencing: a case study of Saccharomyces cerevisiae CEN.PK113-7D
Jenjaroenpun P, Wongsurawat T, Pereira R, ..., Nielsen J, Nookaew I
Nucleic Acids Res - (-) - [2018-01-13; online 2018-01-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Rapid hybrid speciation in Darwin’s finches
Lamichhaney S, Han F, Webster MT, ..., Grant BR, Grant PR
Science 359 (6372) 224-228 [2018-01-12; online 2017-11-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Meta-analysis of exome array data identifies six novel genetic loci for lung function.
Jackson VE, Latourelle JC, Wain LV, ..., Tobin MD, London SJ
Wellcome Open Res 3 (-) 4 [2018-01-12; online 2018-01-12]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of shared genetic variants between schizophrenia and lung cancer.
Zuber V, Jönsson EG, Frei O, ..., Mills IG, Andreassen OA
Sci Rep 8 (1) 674 [2018-01-12; online 2018-01-12]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Global Acetylome of the Human Pathogen Vibrio cholerae V52 Reveals Lysine Acetylation of Major Transcriptional Regulators.
Jers C, Ravikumar V, Lezyk M, ..., Wai SN, Mijakovic I
Front. Cell. Infect. Microbiol. 7 (-) 537 [2018-01-11; online 2018-01-11]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Splicing of platelet resident pre-mRNAs upon activation by physiological stimuli results in functionally relevant proteome modifications.
Nassa G, Giurato G, Cimmino G, ..., Weisz A, Tarallo R
Sci Rep 8 (1) 498 [2018-01-11; online 2018-01-11]
Global Proteomics and Proteogenomics [Collaborative]
PubMed DOI Crossref
Sample handling of gastric tissue and O-glycan alterations in paired gastric cancer and non-tumorigenic tissues.
Adamczyk B, Jin C, Polom K, ..., Roviello F, Karlsson NG
Sci Rep 8 (1) 242 [2018-01-10; online 2018-01-10]
Glycoproteomics and MS Proteomics [Technology development]
PubMed DOI Crossref
Bifidobacteria or Fiber Protects against Diet-Induced Microbiota-Mediated Colonic Mucus Deterioration.
Schroeder BO, Birchenough GMH, Ståhlman M, ..., Hansson GC, Bäckhed F
Cell Host Microbe 23 (1) 27-40.e7 [2018-01-10; online 2017-12-21]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
A protein interaction network centered on leucine-rich repeats and immunoglobulin-like domains 1 (LRIG1) regulates growth factor receptors
Faraz M, Herdenberg C, Holmlund C, Henriksson R, Hedman H
J. Biol. Chem. - (-) jbc.M117.807487 [2018-01-09; online 2018-01-09]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Discovering viral genomes in human metagenomic data by predicting unknown protein families.
Barrientos-Somarribas M, Messina DN, Pou C, ..., Andersson B, Sonnhammer ELL
Sci Rep 8 (1) 28 [2018-01-08; online 2018-01-08]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Comprehensive Mass Spectrometric Survey of Streptococcus pyogenes Subcellular Proteomes.
Wilk L, Happonen L, Malmström J, Herwald H
J. Proteome Res. 17 (1) 600-617 [2018-01-05; online 2017-12-04]
Structural Proteomics [Service]
PubMed DOI Crossref
The ATPase activity of Asna1/TRC40 is required for pancreatic progenitor cell survival.
Norlin S, Parekh V, Edlund H
Development 145 (1) dev154468 [2018-01-03; online 2018-01-03]
Cryo-EM [Service]
PubMed DOI Crossref
Evaluating vacquinol-1 in rats carrying glioblastoma models RG2 and NS1
Ahlstedt J, Förnvik K, Zolfaghari S, ..., Salford LG, Redebrandt HN
Oncotarget - (-) - [2018-01-03; online 2018-01-03]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Analysis of the hybrid genomes of two field isolates of the soil-borne fungal species Verticillium longisporum.
Fogelqvist J, Tzelepis G, Bejai S, ..., Schwelm A, Dixelius C
BMC Genomics 19 (1) 14 [2018-01-03; online 2018-01-03]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A multi-omics approach reveals function of Secretory Carrier-Associated Membrane Proteins in wood formation of​ ​​Populus​​ ​trees.
Obudulu O, Mähler N, Skotare T, ..., Trygg J, Tuominen H
BMC Genomics 19 (1) 11 [2018-01-03; online 2018-01-03]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Differential impact of RB status on E2F1 reprogramming in human cancer.
McNair C, Xu K, Mandigo AC, ..., Brown M, Knudsen KE
J. Clin. Invest. 128 (1) 341-358 [2018-01-02; online 2017-12-04]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Angiopoietin-1 deficiency increases renal capillary rarefaction and tubulointerstitial fibrosis in mice
Loganathan K, Salem Said E, Winterrowd E, ..., Quaggin SE, Jeansson M
PLoS ONE 13 (1) e0189433 [2018-01-02; online 2018-01-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SMLocalizer, a GPU accelerated ImageJ plugin for single molecule localization microscopy
Bernhem K, Brismar H
Bioinformatics 34 (1) 137-138 [2018-01-01; online 2017-09-04]
Bioinformatics Support for Computational Resources [Service] Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
Metabolism and Whole-Body Fat Oxidation Following Postexercise Carbohydrate or Protein Intake.
Andersson-Hall U, Pettersson S, Edin F, ..., Malmodin D, Madsen K
International Journal of Sport Nutrition and Exercise Metabolism 28 (1) 37-45 [2018-01-01; online 2018-01-17]
Swedish NMR Centre (SNC) [Collaborative]
DOI Crossref
Metabolic and functional phenotypic profiling of Drosophila melanogaster reveals reduced sex differentiation under stressful environmental conditions
Ørsted M, Malmendal A, Muñoz J, Kristensen TN
Biol J Linn Soc Lond 123 (1) 155-162 [2018-01-01; online 2017-10-31]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Cytokine Autoantibody Screening in the Swedish Addison Registry Identifies Patients With Undiagnosed APS1
Eriksson D, Dalin F, Eriksson GN, ..., Munoz KD, None
J. Clin. Endocrinol. Metab. 103 (1) 179-186 [2018-01-01; online 2017-10-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Viral metagenomics reveals the presence of highly divergent quaranjavirus in Rhipicephalus ticks from Mozambique
Cholleti H, Hayer J, Mulandane FC, ..., Berg M, Blomström AL
Infect Ecol Epidemiol 8 (1) 1478585 [2018-01-00; online 2018-05-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Urban landscape genomics identifies fine-scale gene flow patterns in an avian invasive.
Low GW, Chattopadhyay B, Garg KM, ..., Wu S, Rheindt FE
Heredity (Edinb) 120 (2) 138-153 [2018-01-00; online 2017-12-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The SubCons webserver: A user friendly web interface for state-of-the-art subcellular localization prediction.
Salvatore M, Shu N, Elofsson A
Protein Sci. 27 (1) 195-201 [2018-01-00; online 2017-10-24]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
DOI Crossref
Surface treatment of cellulose nanocrystals (CNC): effects on dispersion rheology
Sahlin K, Forsgren L, Moberg T, ..., Rigdahl M, Westman G
Cellulose 25 (1) 331-345 [2018-01-00; online 2017-11-28]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Solid and fluid segments within the same molecule of stratum corneum ceramide lipid.
Pham QD, Mojumdar EH, Gooris GS, ..., Sparr E, Topgaard D
Quart. Rev. Biophys. 51 (-) e7 [2018-01-00; online 2018-01-01]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Single-molecule DNA sequencing of acute myeloid leukemia and myelodysplastic syndromes with multiple TP53 alterations.
Lodé L, Ameur A, Coste T, ..., Lavabre-Bertrand T, Soussi T
Haematologica 103 (1) e13-e16 [2018-01-00; online 2017-10-27]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Protein-altering variants associated with body mass index implicate pathways that control energy intake and expenditure in obesity.
Turcot V, Lu Y, Highland HM, ..., MAGIC Investigators , Understanding Society Scientific Group
Nat. Genet. 50 (1) 26-41 [2018-01-00; online 2017-12-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Population genomics of Mesolithic Scandinavia: Investigating early postglacial migration routes and high-latitude adaptation.
Günther T, Malmström H, Svensson EM, ..., Götherström A, Jakobsson M
PLoS Biol. 16 (1) e2003703 [2018-01-00; online 2018-01-09]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Perspectives on NMR studies of CO2 adsorption
Bernin D, Hedin N
Current Opinion in Colloid & Interface Science 33 (-) 53-62 [2018-01-00; online 2018-01-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Normalization of mass spectrometry data (NOMAD).
Murie C, Sandri B, Sandberg AS, ..., Wendt C, Larsson O
Adv Biol Regul 67 (-) 128-133 [2018-01-00; online 2017-11-20]
Clinical Proteomics Mass spectrometry [Service] Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Natural product inspired library synthesis - Identification of 2,3-diarylbenzofuran and 2,3-dihydrobenzofuran based inhibitors of Chlamydia trachomatis
Saleeb M, Mojica S, Eriksson AU, ..., Gylfe Å, Elofsson M
European Journal of Medicinal Chemistry 143 (-) 1077-1089 [2018-01-00; online 2018-01-00]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Minimizing inequality in access to precision medicine in breast cancer by real-time population-based molecular analysis in the SCAN-B initiative.
Rydén L, Loman N, Larsson C, ..., Saal LH, Borg Å
Br J Surg 105 (2) e158-e168 [2018-01-00; online 2018-01-18]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Lund [Collaborative]
PubMed DOI Crossref
MicroRNA expression profiles in non‑epithelial ovarian tumors.
Chang RK, Li X, Mu N, ..., Larsson C, Lui WO
Int. J. Oncol. 52 (1) 55-66 [2018-01-00; online 2017-11-10]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Leucocyte recruitment and molecular fortification of keratinocytes triggered by streptococcal M1 protein.
Persson ST, Hauri S, Malmström J, Herwald H
Cell. Microbiol. 20 (1) - [2018-01-00; online 2017-10-19]
Structural Proteomics [Service]
PubMed DOI Crossref
Homozygosity for a missense variant in COMP gene associated with severe pseudoachondroplasia
Tariq M, Khan TN, Lundin L, ..., Dahl N, Klar J
Clin Genet 93 (1) 182-186 [2018-01-00; online 2017-11-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Herpesvirus deconjugases inhibit the IFN response by promoting TRIM25 autoubiquitination and functional inactivation of the RIG-I signalosome.
Gupta S, Ylä-Anttila P, Callegari S, ..., Delecluse HJ, Masucci MG
PLoS Pathog. 14 (1) e1006852 [2018-01-00; online 2018-01-22]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Genomic consequences of intensive inbreeding in an isolated wolf population
Kardos M, Åkesson M, Fountain T, ..., Wikenros C, Ellegren H
Nat Ecol Evol 2 (1) 124-131 [2018-01-00; online 2017-11-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exome sequencing reveals NAA15 and PUF60 as candidate genes associated with intellectual disability.
Zhao JJ, Halvardson J, Zander CS, ..., Thuresson AC, Feuk L
Am. J. Med. Genet. B Neuropsychiatr. Genet. 177 (1) 10-20 [2018-01-00; online 2017-10-09]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Epigenetic Changes in the CRH Gene are Related to Severity of Suicide Attempt and a General Psychiatric Risk Score in Adolescents.
Jokinen J, Boström AE, Dadfar A, ..., Åsberg M, Schiöth HB
EBioMedicine 27 (-) 123-133 [2018-01-00; online 2017-12-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Complex effects of mammalian grazing on extramatrical mycelial biomass in the Scandes forest-tundra ecotone
Vowles T, Lindwall F, Ekblad A, ..., Ryberg M, Björk RG
Ecol Evol 8 (2) 1019-1030 [2018-01-00; online 2017-12-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Clofazimine protects against Mycobacterium tuberculosis dissemination in the central nervous system following aerosol challenge in a murine model.
Baijnath S, Moodley C, Ngcobo B, ..., Pym A, Govender T
International Journal of Antimicrobial Agents 51 (1) 77-81 [2018-01-00; online 2017-08-24]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Circulating proteins as predictors of incident heart failure in the elderly.
Stenemo M, Nowak C, Byberg L, ..., Fall T, Ärnlöv J
Eur. J. Heart Fail. 20 (1) 55-62 [2018-01-00; online 2017-10-02]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Characterization of gamma-tubulin filaments in mammalian cells.
Lindström L, Alvarado-Kristensson M
Biochimica et Biophysica Acta (BBA) - Molecular Cell Research 1865 (1) 158-171 [2018-01-00; online 2017-10-16]
Integrated Microscopy Technologies Gothenburg [Service]
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Abundant recent activity of retrovirus-like retrotransposons within and among flycatcher species implies a rich source of structural variation in songbird genomes
Suh A, Smeds L, Ellegren H
Mol Ecol 27 (1) 99-111 [2018-01-00; online 2017-12-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Whole Slide Image Registration for the Study of Tumor Heterogeneity
Solorzano L, Almeida GM, Mesquita B, ..., Oliveira C, Wählby C
- - (-) 95-102 [2018-00-00; online 2018-09-14]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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The CO<sub>2</sub>capturing ability of cellulose dissolved in NaOH(aq) at low temperature
Gunnarsson M, Bernin D, Östlund Å, Hasani M
Green Chem. 20 (14) 3279-3286 [2018-00-00; online 2018-00-00]
Swedish NMR Centre (SNC) [Collaborative]
DOI Crossref
The CO2 capturing ability of cellulose dissolved in NaOH(aq) at low temperature
Gunnarsson M, Bernin D, Östlund Å, Hasani M
Green Chem. 20 (14) 3279-3286 [2018-00-00; online 2018-00-00]
Swedish NMR Centre (SNC) [Collaborative]
DOI Crossref
Synthesis of novel 1,2,4-thiadiazinane 1,1-dioxides via three component SuFEx type reaction
Khumalo MF, Akpan ED, Chinthakindi PK, ..., Naicker T, Arvidsson PI
RSC Adv. 8 (65) 37503-37507 [2018-00-00; online 2018-00-00]
Drug Discovery and Development (DDD) [Technology development]
DOI Crossref
Phylogeny, species delimitation and revision of Pleioluma (Sapotaceae) in New Caledonia, a frequently gynodioecious genus
Swenson U, Nylander JAA, Munzinger J
Aust. Systematic Bot. 31 (2) 120 [2018-00-00; online 2018-00-00]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
DOI Crossref
Orange is the new white: rapid curing of an ethylene-glycidyl methacrylate copolymer with a Ti-bisphenolate type catalyst
Mauri M, Svenningsson L, Hjertberg T, ..., Prieto O, Müller C
Polym. Chem. 9 (13) 1710-1718 [2018-00-00; online 2018-00-00]
Swedish NMR Centre (SNC) [Service]
DOI Crossref
Optimising methods for the recovery and quantification of di- and tripeptides in soil
Jämtgård S, Robinson N, Moritz T, Colgrave ML, Schmidt S
Soil Res. 56 (4) 404 [2018-00-00; online 2018-00-00]
Swedish Metabolomics Centre (SMC) [Service]
DOI Crossref
Improved Reconstruction of Low Intensity Magnetic Resonance Spectroscopy With Weighted Low Rank Hankel Matrix Completion
Guo D, Qu X
IEEE Access 6 (-) 4933-4940 [2018-00-00; online 2018-00-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
High-fidelity spectroscopy reconstruction in accelerated NMR
Qu X, Qiu T, Guo D, ..., Orekhov V, Chen Z
Chem. Commun. 54 (78) 10958-10961 [2018-00-00; online 2018-00-00]
Swedish NMR Centre (SNC) [Technology development]
DOI Crossref
High purity and viability cell separation of a bacterivorous jakobid flagellate based on a steep velocity gradient induced soft inertial force
Deng P, Fu CJ, Wu Z
RSC Adv. 8 (62) 35512-35520 [2018-00-00; online 2018-00-00]
Microbial Single Cell Genomics [Service]
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Efficient C–C coupling of bio-based furanics and carbonyl compounds to liquid hydrocarbon precursors over lignosulfonate derived acidic carbocatalysts
Konwar LJ, Samikannu A, Mäki-Arvela P, Mikkola JP
Catal. Sci. Technol. 8 (9) 2449-2459 [2018-00-00; online 2018-00-00]
Swedish NMR Centre (SNC) [Service]
DOI Crossref
Effect of various structure directing agents (SDAs) on low-temperature deactivation of Cu/SAPO-34 during NH<sub>3</sub>-SCR reaction
Woo J, Leistner K, Bernin D, ..., Zammit M, Olsson L
Catal. Sci. Technol. 8 (12) 3090-3106 [2018-00-00; online 2018-00-00]
Swedish NMR Centre (SNC) [Collaborative]
DOI Crossref
Effect of various structure directing agents (SDAs) on low-temperature deactivation of Cu/SAPO-34 during NH3-SCR reaction
Woo J, Leistner K, Bernin D, ..., Zammit M, Olsson L
Catal. Sci. Technol. 8 (12) 3090-3106 [2018-00-00; online 2018-00-00]
Bioinformatics Support for Computational Resources [Service] Swedish NMR Centre (SNC) [Service]
DOI Crossref
An unexpected re-arrangement of the antibiotic carbapenem core to new 1,4-diazepin-5-one scaffolds
Peters BK, Razuwika R, Samipillai M, ..., Govender T, Naicker T
RSC Adv. 8 (1) 190-193 [2018-00-00; online 2018-00-00]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
InSiDDe: A Server for Designing Artificial Disordered Proteins.
Schramm A, Lieutaud P, Gianni S, Longhi S, Bignon C
Int J Mol Sci 19 (1) - [2017-12-29; online 2017-12-29]
Protein Science Facility (PSF) [Service]
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Targeted copy number screening highlights an intragenic deletion of WDR63 as the likely cause of human occipital encephalocele and abnormal CNS development in zebrafish.
Hofmeister W, Pettersson M, Kurtoglu D, ..., Gustavsson P, Lindstrand A
Hum. Mutat. - (-) - [2017-12-28; online 2017-12-28]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Methylation-based estimated biological age and cardiovascular disease
Lind L, Ingelsson E, Sundström J, Siegbahn A, Lampa E
Eur J Clin Invest - (-) e12872 [2017-12-27; online 2017-12-27]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Chemical and microbiological evaluation of novel chemical treatment methods for acid sulfate soils.
Högfors-Rönnholm E, Christel S, Dalhem K, ..., Österholm P, Dopson M
Sci. Total Environ. 625 (-) 39-49 [2017-12-26; online 2017-12-26]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Reading and editing the Pleurodeles waltl genome reveals novel features of tetrapod regeneration.
Elewa A, Wang H, Talavera-López C, ..., Andersson B, Simon A
Nat Commun 8 (1) 2286 [2017-12-22; online 2017-12-22]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Low Concentrations of Vitamin C Reduce the Synthesis of Extracellular Polymers and Destabilize Bacterial Biofilms.
Pandit S, Ravikumar V, Abdel-Haleem AM, ..., Westerlund F, Mijakovic I
Front Microbiol 8 (-) 2599 [2017-12-22; online 2017-12-22]
Glycoproteomics and MS Proteomics [Service]
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Common founder effects of hereditary hemochromatosis, Wilson´s disease, the long QT syndrome and autosomal recessive deafness caused by two novel mutations in the WHRN and TMC1 genes.
Olsson KS, Wålinder O, Jansson U, ..., Raha-Chowdhury R, Williams R
Hereditas 154 (1) 16 [2017-12-19; online 2017-12-19]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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A family-based genome-wide association study of chronic rhinosinusitis with nasal polyps implicates several genes in the disease pathogenesis
Bohman A, Juodakis J, Oscarsson M, ..., Bende M, Torinsson Naluai Å
PLoS ONE 12 (12) e0185244 [2017-12-18; online 2017-12-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A chemical screen identifies trifluoperazine as an inhibitor of glioblastoma growth.
Pinheiro T, Otrocka M, Seashore-Ludlow B, ..., Simon A, Kirkham M
Biochem. Biophys. Res. Commun. 494 (3-4) 477-483 [2017-12-16; online 2017-10-21]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Targeting tumor cells based on Phosphodiesterase 3A expression.
Nazir M, Senkowski W, Nyberg F, ..., Larsson R, Fryknäs M
Exp. Cell Res. 361 (2) 308-315 [2017-12-15; online 2017-10-26]
Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Discovery of the fourth mobile sulfonamide resistance gene.
Razavi M, Marathe NP, Gillings MR, ..., Kristiansson E, Joakim Larsson DG
Microbiome 5 (1) 160 [2017-12-15; online 2017-12-15]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Cancer risk susceptibility loci in a Swedish population.
Liu W, Jiao X, Thutkawkorapin J, Mahdessian H, Lindblom A
Oncotarget 8 (66) 110300-110310 [2017-12-15; online 2017-11-25]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Gene expression and risk of leukemic transformation in myelodysplasia.
Shiozawa Y, Malcovati L, Gallì A, ..., Cazzola M, Ogawa S
Blood 130 (24) 2642-2653 [2017-12-14; online 2017-11-02]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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CELSR2 is a candidate susceptibility gene in idiopathic scoliosis
Einarsdottir E, Grauers A, Wang J, ..., Kere J, Gerdhem P
PLoS ONE 12 (12) e0189591 [2017-12-14; online 2017-12-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Transcriptomics and Targeted Proteomics Analysis to Gain Insights Into the Immune-control Mechanisms of HIV-1 Infected Elite Controllers.
Zhang W, Ambikan AT, Sperk M, ..., Sönnerborg A, Neogi U
EBioMedicine - (-) - [2017-12-12; online 2017-12-12]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Comparative cell cycle transcriptomics reveals synchronization of developmental transcription factor networks in cancer cells
Boström J, Sramkova Z, Salašová A, ..., Altun M, Andäng M
PLoS ONE 12 (12) e0188772 [2017-12-11; online 2017-12-11]
Spatial Proteomics [Collaborative]
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Characterization of the Giardia intestinalis secretome during interaction with human intestinal epithelial cells: The impact on host cells
Ma’ayeh SY, Liu J, Peirasmaki D, ..., Bergquist J, Svärd SG
PLoS Negl Trop Dis 11 (12) e0006120 [2017-12-11; online 2017-12-11]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Genomic and phenotypic characteristics of Swedish C. jejuni water isolates.
Nilsson A, Johansson C, Skarp A, ..., Engstrand L, Rautelin H
PLoS ONE 12 (12) e0189222 [2017-12-07; online 2017-12-07]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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A Unique ISR Program Determines Cellular Responses to Chronic Stress.
Guan BJ, van Hoef V, Jobava R, ..., Larsson O, Hatzoglou M
Mol. Cell 68 (5) 885-900.e6 [2017-12-07; online 2017-12-09]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Magnesium induces preconditioning of the neonatal brain via profound mitochondrial protection
Koning G, Leverin AL, Nair S, ..., Mallard C, Hagberg H
J Cereb Blood Flow Metab 39 (6) 1038-1055 [2017-12-05; online 2017-12-05]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Heterogeneous Patterns of Genetic Diversity and Differentiation in European and Siberian Chiffchaff ( Phylloscopus collybita abietinus/P. tristis).
Talla V, Kalsoom F, Shipilina D, Marova I, Backström N
G3 (Bethesda) 7 (12) 3983-3998 [2017-12-04; online 2017-12-04]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The Human Plasma Proteome Draft of 2017: Building on the Human Plasma PeptideAtlas from Mass Spectrometry and Complementary Assays.
Schwenk JM, Omenn GS, Sun Z, ..., Moritz RL, Deutsch EW
J. Proteome Res. 16 (12) 4299-4310 [2017-12-01; online 2017-10-10]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Metabolome and transcriptome profiling reveal new insights into somatic embryo germination in Norway spruce (Picea abies).
Dobrowolska I, Businge E, Abreu IN, Moritz T, Egertsdotter U
Tree Physiol 37 (12) 1752-1766 [2017-12-01; online 2017-10-07]
Swedish Metabolomics Centre (SMC) [Service]
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Towards repositioning of quinacrine for treatment of acute myeloid leukemia - Promising synergies and in vivo effects.
Eriksson A, Chantzi E, Fryknäs M, ..., Höglund M, Larsson R
Leuk Res 63 (-) 41-46 [2017-12-00; online 2017-10-28]
Drug Discovery and Development (DDD) [Service]
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The oxylipin and endocannabidome responses in acute phase Plasmodium falciparum malaria in children
Surowiec I, Gouveia-Figueira S, Orikiiriza J, ..., Normark J, Trygg J
Malar. J. 16 (1) - [2017-12-00; online 2017-09-08]
Swedish Metabolomics Centre (SMC) [Service]
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The dynamic dimer structure of the chaperone Trigger Factor
Morgado L, Burmann BM, Sharpe T, Mazur A, Hiller S
Nat Commun 8 (1) - [2017-12-00; online 2017-12-08]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Structural basis for dolichylphosphate mannose biosynthesis
Gandini R, Reichenbach T, Tan TC, Divne C
Nat Commun 8 (1) - [2017-12-00; online 2017-07-25]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Shared genetic origin of asthma, hay fever and eczema elucidates allergic disease biology.
Ferreira MA, Vonk JM, Baurecht H, ..., Koppelman GH, Paternoster L
Nat. Genet. 49 (12) 1752-1757 [2017-12-00; online 2017-10-30]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Rho-kinase inhibitor Y-27632 and hypoxia synergistically enhance chondrocytic phenotype and modify S100 protein profiles in human chondrosarcoma cells
Piltti J, Bygdell J, Fernández-Echevarría C, Marcellino D, Lammi MJ
Sci Rep 7 (1) - [2017-12-00; online 2017-06-16]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
RNA-sequence data normalization through in silico prediction of reference genes: the bacterial response to DNA damage as case study
Berghoff BA, Karlsson T, Källman T, Wagner EGH, Grabherr MG
BioData Mining 10 (1) - [2017-12-00; online 2017-09-05]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Plasma stem cell factor levels are associated with risk of cardiovascular disease and death.
Björkbacka H, Yao Mattisson I, Wigren M, ..., Engström G, Nilsson J
J. Intern. Med. 282 (6) 508-521 [2017-12-00; online 2017-09-21]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Overexpression of PaNAC03, a stress induced NAC gene family transcription factor in Norway spruce leads to reduced flavonol biosynthesis and aberrant embryo development
Dalman K, Wind JJ, Nemesio-Gorriz M, ..., Ezcurra I, Elfstrand M
BMC Plant Biol. 17 (1) - [2017-12-00; online 2017-01-06]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Novel risk genes for systemic lupus erythematosus predicted by random forest classification
Almlöf JC, Alexsson A, Imgenberg-Kreuz J, ..., Sandling JK, Syvänen AC
Sci Rep 7 (1) - [2017-12-00; online 2017-07-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mutational and putative neoantigen load predict clinical benefit of adoptive T cell therapy in melanoma
Lauss M, Donia M, Harbst K, ..., Svane IM, Jönsson G
Nat Commun 8 (1) - [2017-12-00; online 2017-11-23]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Multiple genotypes within aecial clusters in Puccinia graminis and Puccinia coronata: improved understanding of the biology of cereal rust fungi
Berlin A, Samils B, Andersson B
Fungal Biol Biotechnol 4 (1) - [2017-12-00; online 2017-05-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mitogenome evolution in the last surviving woolly mammoth population reveals neutral and functional consequences of small population size.
Pečnerová P, Palkopoulou E, Wheat CW, ..., Díez-Del-Molino D, Dalén L
Evolution Letters 1 (6) 292-303 [2017-12-00; online 2017-11-28]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Mechanistic Insights into Autoinhibition of the Oncogenic Chromatin Remodeler ALC1
Lehmann LC, Hewitt G, Aibara S, ..., Boulton SJ, Deindl S
Molecular Cell 68 (5) 847-859.e7 [2017-12-00; online 2017-12-00]
Cryo-EM [Service] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Mapping of leptin and its syntenic genes to chicken chromosome 1p
Seroussi E, Pitel F, Leroux S, ..., Anderson L, Friedman-Einat M
BMC Genet. 18 (1) - [2017-12-00; online 2017-08-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
MALDIViz: A Comprehensive Informatics Tool for MALDI-MS Data Visualization and Analysis.
Jagadeesan KK, Ekström S
SLAS DISCOVERY: Advancing Life Sciences R&D 22 (10) 1246-1252 [2017-12-00; online 2017-08-21]
Structural Proteomics [Service]
PubMed DOI Crossref
Low-dose γ-secretase inhibition increases secretion of Aβ peptides and intracellular oligomeric Aβ.
Agholme L, Clarin M, Gkanatsiou E, ..., Portelius E, Zetterberg H
Molecular and Cellular Neuroscience 85 (-) 211-219 [2017-12-00; online 2017-11-08]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Large-scale suppression of recombination predates genomic rearrangements in Neurospora tetrasperma
Sun Y, Svedberg J, Hiltunen M, Corcoran P, Johannesson H
Nat Commun 8 (1) - [2017-12-00; online 2017-10-26]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Influence of pulsed and continuous substrate inputs on freshwater bacterial community composition and functioning in bioreactors
Ricão Canelhas M, Andersson M, Eiler A, Lindström ES, Bertilsson S
Environ Microbiol 19 (12) 5078-5087 [2017-12-00; online 2017-12-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Inflammatory infiltrates in parathyroid tumors.
Haglund F, Hallström BM, Nilsson IL, ..., Juhlin CC, Larsson C
Eur. J. Endocrinol. 177 (6) 445-453 [2017-12-00; online 2017-08-30]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Increasing the permeability of Escherichia coli using MAC13243
Muheim C, Götzke H, Eriksson AU, ..., Nørholm MHH, Daley DO
Sci Rep 7 (1) - [2017-12-00; online 2017-12-15]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Identification and description of three families with familial Alzheimer disease that segregate variants in the SORL1 gene
Thonberg H, Chiang HH, Lilius L, ..., Rönnbäck A, Graff C
Acta Neuropathol Commun 5 (1) - [2017-12-00; online 2017-06-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Highly sensitive and specific protein detection via combined capillary isoelectric focusing and proximity ligation
Padhan N, Yan J, Boge A, ..., Claesson-Welsh L, Landegren U
Sci Rep 7 (1) - [2017-12-00; online 2017-05-04]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
PubMed DOI Crossref
High levels of cerebrospinal fluid chemokines point to the presence of neuroinflammation in peripheral neuropathic pain: a cross-sectional study of 2 cohorts of patients compared with healthy controls.
Bäckryd E, Lind AL, Thulin M, ..., Gerdle B, Gordh T
Pain 158 (12) 2487-2495 [2017-12-00; online 2017-09-21]
Affinity Proteomics Stockholm [Service] Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service]
PubMed DOI Crossref
Genome-wide standing variation facilitates long-term response to bidirectional selection for antibody response in chickens
Lillie M, Sheng Z, Honaker CF, ..., Siegel PB, Carlborg Ö
BMC Genomics 18 (1) - [2017-12-00; online 2017-01-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic- and Lifestyle-dependent Dental Caries Defined by the Acidic Proline-rich Protein Genes PRH1 and PRH2
Strömberg N, Esberg A, Sheng N, ..., Danielsson K, Källestål C
EBioMedicine 26 (-) 38-46 [2017-12-00; online 2017-12-00]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Filter Plate-Based Screening of MIP SPE Materials for Capture of the Biomarker Pro-Gastrin-Releasing Peptide.
Jagadeesan KK, Rossetti C, Abdel Qader A, ..., Laurell T, Ekström S
SLAS DISCOVERY: Advancing Life Sciences R&D 22 (10) 1253-1261 [2017-12-00; online 2017-01-31]
Structural Proteomics [Service]
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Elevated Markers of Death Receptor-Activated Apoptosis are Associated with Increased Risk for Development of Diabetes and Cardiovascular Disease.
Mattisson IY, Björkbacka H, Wigren M, ..., Almgren P, Nilsson J
EBioMedicine 26 (-) 187-197 [2017-12-00; online 2017-11-24]
Affinity Proteomics Stockholm [Service] Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service]
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Draft genome of the brown-rot fungus Fomitopsis pinicola GR9-4
Kancherla RP, Durling MB, Stenlid J, Högberg N
Data Brief 15 (-) 496-500 [2017-12-00; online 2017-12-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Development of an efficient route for combined recycling of PET and cotton from mixed fabrics
Palme A, Peterson A, de la Motte H, Theliander H, Brelid H
Text Cloth Sustain 3 (1) - [2017-12-00; online 2017-02-22]
Swedish NMR Centre (SNC) [Service]
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Detection of QTL for greasy fleece weight in sheep using a 50 K single nucleotide polymorphism chip
Ebrahimi F, Gholizadeh M, Rahimi-Mianji G, Farhadi A
Trop Anim Health Prod 49 (8) 1657-1662 [2017-12-00; online 2017-08-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Correspondence on Lovell et al.: identification of chicken genes previously assumed to be evolutionarily lost
Bornelöv S, Seroussi E, Yosefi S, ..., Friedman-Einat M, Andersson L
Genome Biol. 18 (1) - [2017-12-00; online 2017-06-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Comparison of laccase-catalyzed cross-linking of organosolv lignin and lignosulfonates
Gillgren T, Hedenström M, Jönsson LJ
International Journal of Biological Macromolecules 105 (-) 438-446 [2017-12-00; online 2017-12-00]
Swedish NMR Centre (SNC) [Collaborative]
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Combined genome and transcriptome sequencing to investigate the plant cell wall degrading enzyme system in the thermophilic fungus Malbranchea cinnamomea
Hüttner S, Nguyen TT, Granchi Z, ..., Thanh VN, Olsson L
Biotechnol Biofuels 10 (1) - [2017-12-00; online 2017-11-13]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Brassinosteroid signaling-dependent root responses to prolonged elevated ambient temperature
Martins S, Montiel-Jorda A, Cayrel A, ..., Ljung K, Vert G
Nat Commun 8 (1) - [2017-12-00; online 2017-08-21]
Swedish Metabolomics Centre (SMC) [Service]
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Automated Training of Deep Convolutional Neural Networks for Cell Segmentation
Sadanandan SK, Ranefall P, Le Guyader S, Wählby C
Sci Rep 7 (1) - [2017-12-00; online 2017-08-10]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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Autoantibodies against aldehyde-modified collagen type IV are associated with risk of development of myocardial infarction.
Vallejo J, Dunér P, Fredrikson GN, Nilsson J, Bengtsson E
J. Intern. Med. 282 (6) 496-507 [2017-12-00; online 2017-09-25]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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An essential regulatory function of the DnaK chaperone dictates the decision between proliferation and maintenance in Caulobacter crescentus.
Schramm FD, Heinrich K, Thüring M, Bernhardt J, Jonas K
PLoS Genet. 13 (12) e1007148 [2017-12-00; online 2017-12-27]
Global Proteomics and Proteogenomics [Service]
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Agonist-induced dimer dissociation as a macromolecular step in G protein-coupled receptor signaling
Petersen J, Wright SC, Rodríguez D, ..., Carlsson J, Schulte G
Nat Commun 8 (1) - [2017-12-00; online 2017-08-09]
Fluorescence Correlation Spectroscopy [Collaborative] Integrated Microscopy Technologies Stockholm [Service]
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A female Viking warrior confirmed by genomics.
Hedenstierna-Jonson C, Kjellström A, Zachrisson T, ..., Götherström A, Storå J
Am. J. Phys. Anthropol. 164 (4) 853-860 [2017-12-00; online 2017-09-08]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family
Carreras-Puigvert J, Zitnik M, Jemth AS, ..., Zupan B, Helleday T
Nat Commun 8 (1) - [2017-12-00; online 2017-11-16]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Drug Discovery and Development (DDD) [Collaborative] Protein Science Facility (PSF) [Service]
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A short feature vector for image matching: The Log-Polar Magnitude feature descriptor.
Matuszewski DJ, Hast A, Wählby C, Sintorn IM
PLoS ONE 12 (11) e0188496 [2017-11-30; online 2017-11-30]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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Intra-tumor heterogeneity in breast cancer has limited impact on transcriptomic-based molecular profiling.
Karthik GM, Rantalainen M, Stålhammar G, ..., Bergh J, Hartman J
BMC Cancer 17 (1) 802 [2017-11-29; online 2017-11-29]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Evidence that circulating proteins are more promising than miRNAs for identification of patients with squamous cell carcinoma of the tongue.
Boldrup L, Troiano G, Gu X, ..., Wang L, Nylander K
Oncotarget 8 (61) 103437-103448 [2017-11-28; online 2017-09-30]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Bliss and Loewe interaction analyses of clinically relevant drug combinations in human colon cancer cell lines reveal complex patterns of synergy and antagonism.
Kashif M, Andersson C, Mansoori S, ..., Nygren P, Gustafsson MG
Oncotarget 8 (61) 103952-103967 [2017-11-28; online 2017-10-19]
Drug Discovery and Development (DDD) [Service]
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STRT-seq-2i: dual-index 5' single cell and nucleus RNA-seq on an addressable microwell array.
Hochgerner H, Lönnerberg P, Hodge R, ..., Zeisel A, Linnarsson S
Sci Rep 7 (1) 16327 [2017-11-27; online 2017-11-27]
Cellular Immunomonitoring [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Regulatory coiled-coil domains promote head-to-head assemblies of AAA+ chaperones essential for tunable activity control.
Carroni M, Franke KB, Maurer M, ..., Bukau B, Mogk A
Elife 6 (-) - [2017-11-22; online 2017-11-22]
Cryo-EM [Collaborative]
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Genome-Based Sexing Provides Clues about Behavior and Social Structure in the Woolly Mammoth.
Pečnerová P, Díez-Del-Molino D, Dussex N, ..., Vartanyan S, Dalén L
Curr. Biol. 27 (22) 3505-3510.e3 [2017-11-20; online 2017-11-02]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dog ownership and the risk of cardiovascular disease and death - a nationwide cohort study.
Mubanga M, Byberg L, Nowak C, ..., Ingelsson E, Fall T
Sci Rep 7 (1) 15821 [2017-11-17; online 2017-11-17]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Combined transcriptome and translatome analyses reveal a role for tryptophan-dependent auxin biosynthesis in the control of DOG1-dependent seed dormancy
Bai B, Novák O, Ljung K, Hanson J, Bentsink L
New Phytol - (-) - [2017-11-15; online 2017-11-15]
Swedish Metabolomics Centre (SMC) [Service]
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Novel KIAA0753 mutations extend the phenotype of skeletal ciliopathies.
Hammarsjö A, Wang Z, Vaz R, ..., Grigelioniene G, Ikegawa S
Sci Rep 7 (1) 15585 [2017-11-14; online 2017-11-14]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Diffusion in Ionic Liquid–Cellulose Solutions during Coagulation in Water: Mass Transport and Coagulation Rate Measurements
Hedlund A, Köhnke T, Theliander H
Macromolecules 50 (21) 8707-8719 [2017-11-14; online 2017-10-17]
Swedish NMR Centre (SNC) [Service]
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Female mice lacking Pald1 exhibit endothelial cell apoptosis and emphysema.
Egaña I, Kaito H, Nitzsche A, ..., Hellström M, German Mouse Clinic Consortium
Sci Rep 7 (1) 15453 [2017-11-13; online 2017-11-13]
Clinical Proteomics Mass spectrometry [Service] Global Proteomics and Proteogenomics [Collaborative]
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Antibody Heavy Chain Variable Domains of Different Germline Gene Origins Diversify through Different Paths
Kirik U, Persson H, Levander F, Greiff L, Ohlin M
Front Immunol 8 (-) - [2017-11-13; online 2017-11-13]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Drug Discovery and Development (DDD) [Collaborative]
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Integrative analysis of genome-wide gene copy number changes and gene expression in non-small cell lung cancer.
Jabs V, Edlund K, König H, ..., Hengstler JG, Micke P
PLoS ONE 12 (11) e0187246 [2017-11-07; online 2017-11-07]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Adipocyte Expression of SLC19A1 Links DNA Hypermethylation to Adipose Tissue Inflammation and Insulin Resistance
Petrus P, Bialesova L, Checa A, ..., Gao H, Rydén M
- - (-) - [2017-11-07; online 2017-11-07]
Protein Science Facility (PSF) [Service]
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Genomic Analyses of Pre-European Conquest Human Remains from the Canary Islands Reveal Close Affinity to Modern North Africans.
Rodríguez-Varela R, Günther T, Krzewińska M, ..., Götherström A, Girdland-Flink L
Curr. Biol. 27 (21) 3396-3402.e5 [2017-11-06; online 2017-10-26]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Southern African ancient genomes estimate modern human divergence to 350,000 to 260,000 years ago.
Schlebusch CM, Malmström H, Günther T, ..., Lombard M, Jakobsson M
Science 358 (6363) 652-655 [2017-11-03; online 2017-09-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
RNA-Seq de novo assembly and differential transcriptome analysis of the nematode Ascaridia galli in relation to in vivo exposure to flubendazole
Martis MM, Tarbiat B, Tydén E, Jansson DS, Höglund J
PLoS ONE 12 (11) e0185182 [2017-11-03; online 2017-11-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Unique case of cerebrotendinous xanthomatosis revisited: All the mutations responsible for this disease are present in the CYP27A1 gene.
Jiao H, Olin M, Hansson M, ..., Angelin B, Björkhem I
J. Intern. Med. - (-) - [2017-11-02; online 2017-11-02]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Untreated urban waste contaminates Indian river sediments with resistance genes to last resort antibiotics.
Marathe NP, Pal C, Gaikwad SS, ..., Kristiansson E, Larsson DGJ
Water Res. 124 (-) 388-397 [2017-11-01; online 2017-07-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
Highly HIV-exposed HIV uninfected Kenyan female sex workers display a thick ectocervical epithelium
Röhl M, Lajoie J, Tjernlund A, ..., Fowke KR, Broliden K
HIV&Hepatitis Nordic Conference, Stockholm, 2017-09-27-29 - (-) - [2017-11-01]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
Cryo-EM reconstruction of the chlororibosome to 3.2 Å resolution within 24 h
Forsberg BO, Aibara S, Kimanius D, ..., Lindahl E, Amunts A
Int Union Crystallogr J IUCr J Int Union Cryst J IUCrJ 4 (6) 723-727 [2017-11-01; online 2017-09-22]
Cryo-EM [Service]
PubMed DOI Crossref
Whole mitochondrial genome capture from faecal samples and museum-preserved specimens.
van der Valk T, Lona Durazo F, Dalén L, Guschanski K
Mol Ecol Resour 17 (6) e111-e121 [2017-11-00; online 2017-08-03]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Type B Response Regulators Act As Central Integrators in Transcriptional Control of the Auxin Biosynthesis Enzyme TAA1
Yan Z, Liu X, Ljung K, ..., Wang M, Tao Y
Plant Physiol. 175 (3) 1438-1454 [2017-11-00; online 2017-09-20]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
SweGen: a whole-genome data resource of genetic variability in a cross-section of the Swedish population.
Ameur A, Dahlberg J, Olason P, ..., Magnusson PK, Gyllensten U
Eur. J. Hum. Genet. 25 (11) 1253-1260 [2017-11-00; online 2017-08-23]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]
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Registration free automatic identification of gold fiducial markers in MRI target delineation images for prostate radiotherapy.
Gustafsson C, Korhonen J, Persson E, ..., Nyholm T, Olsson LE
Med Phys 44 (11) 5563-5574 [2017-11-00; online 2017-09-11]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
PubMed DOI Crossref
Rare X Chromosome Abnormalities in Systemic Lupus Erythematosus and Sjögren's Syndrome.
Sharma R, Harris VM, Cavett J, ..., Sivils KL, Scofield RH
Arthritis & rheumatology (Hoboken, N.J.) 69 (11) 2187-2192 [2017-11-00; online 2017-10-12]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Quantitative high-content/high-throughput microscopy analysis of lipid droplets in subject-specific adipogenesis models.
Bombrun M, Gao H, Ranefall P, ..., Arner P, Wählby C
Cytometry A 91 (11) 1068-1077 [2017-11-00; online 2017-10-14]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
Proteomic Analysis of Phytophthora infestans Reveals the Importance of Cell Wall Proteins in Pathogenicity
Resjö S, Brus M, Ali A, ..., Grenville-Briggs L, Andreasson E
Mol Cell Proteomics 16 (11) 1958-1971 [2017-11-00; online 2017-09-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Ninety-nine de novo assembled genomes from the moose (Alces alces) rumen microbiome provide new insights into microbial plant biomass degradation.
Svartström O, Alneberg J, Terrapon N, ..., Aspeborg H, Andersson AF
ISME J 11 (11) 2538-2551 [2017-11-00; online 2017-07-21]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Integrative studies implicate matrix metalloproteinase-12 as a culprit gene for large-artery atherosclerotic stroke
Mahdessian H, Perisic Matic L, Lengquist M, ..., Mälarstig A, None
J Intern Med 282 (5) 429-444 [2017-11-00; online 2017-08-28]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
High abundance and expression of transposases in bacteria from the Baltic Sea.
Vigil-Stenman T, Ininbergs K, Bergman B, Ekman M
ISME J 11 (11) 2611-2623 [2017-11-00; online 2017-07-21]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genotype-based recall to study metabolic effects of genetic variation: a pilot study of PPARG Pro12Ala carriers.
Kamble PG, Gustafsson S, Pereira MJ, ..., Eriksson JW, Ingelsson E
Ups. J. Med. Sci. 122 (4) 234-242 [2017-11-00; online 2018-01-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Demographic inference from whole-genome and RAD sequencing data suggests alternating human impacts on goose populations since the last ice age.
Pujolar JM, Dalén L, Hansen MM, Madsen J
Mol. Ecol. 26 (22) 6270-6283 [2017-11-00; online 2017-11-03]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
An Expanded Genome-Wide Association Study of Type 2 Diabetes in Europeans
Scott RA, Scott LJ, Mägi R, ..., McCarthy MI, Prokopenko I
Diabetes 66 (11) 2888-2902 [2017-11-00; online 2017-05-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A novel approach using long-read sequencing and ddPCR to investigate gonadal mosaicism and estimate recurrence risk in two families with developmental disorders.
Wilbe M, Gudmundsson S, Johansson J, ..., Frykholm C, Bondeson ML
Prenat. Diagn. 37 (11) 1146-1154 [2017-11-00; online 2017-10-17]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
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A nonsense mutation in CEP55 defines a new locus for a Meckel-like syndrome, an autosomal recessive lethal fetal ciliopathy.
Bondeson ML, Ericson K, Gudmundsson S, ..., Frykholm C, Wilbe M
Clin. Genet. 92 (5) 510-516 [2017-11-00; online 2017-05-03]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service] Tissue Profiling [Collaborative]
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Vitamin and Amino Acid Auxotrophy in Anaerobic Consortia Operating under Methanogenic Conditions
Hubalek V, Buck M, Tan B, ..., Bertilsson S, Eiler A
mSystems 2 (5) e00038-17 [2017-10-31; online 2017-10-31]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Orellanine specifically targets renal clear cell carcinoma.
Buvall L, Hedman H, Khramova A, ..., Haraldsson B, Nyström J
Oncotarget 8 (53) 91085-91098 [2017-10-31; online 2017-07-25]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Institutional profile: the national Swedish academic drug discovery & development platform at SciLifeLab.
Arvidsson PI, Sandberg K, Sakariassen KS
Future Sci. OA 3(2), FSO176 (2) - [2017-10-30; online 2017-04-07]
Drug Discovery and Development (DDD) [Technology development]
PubMed DOI Crossref
Exome-wide association study of plasma lipids in >300,000 individuals.
Liu DJ, Peloso GM, Yu H, ..., Willer CJ, Kathiresan S
Nat. Genet. - (-) - [2017-10-30; online 2017-10-30]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Microbial mineralization of cellulose in frozen soils.
Segura JH, Nilsson MB, Haei M, ..., Schleucher J, Öquist MG
Nat Commun 8 (1) 1154 [2017-10-27; online 2017-10-27]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Combined x-ray crystallography and computational modeling approach to investigate the Hsp90 C-terminal peptide binding to FKBP51.
Kumar R, Moche M, Winblad B, Pavlov PF
Sci Rep 7 (1) 14288 [2017-10-27; online 2017-10-27]
Protein Science Facility (PSF) [Collaborative]
PubMed DOI Crossref
Thiol-ene-epoxy thermoset for low-temperature bonding to biofunctionalized microarray surfaces.
Zhou XC, Sjöberg R, Druet A, ..., Haraldsson T, Carlborg CF
Lab Chip 17 (21) 3672-3681 [2017-10-25; online 2017-10-05]
Affinity Proteomics Stockholm [Technology development] Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
Efficient protein production by yeast requires global tuning of metabolism.
Huang M, Bao J, Hallström BM, Petranovic D, Nielsen J
Nat Commun 8 (1) 1131 [2017-10-25; online 2017-10-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Crystal structures of OrfX2 and P47 from a Botulinum neurotoxin OrfX type gene cluster.
Gustafsson R, Berntsson RP, Martínez-Carranza M, ..., Johnson EA, Stenmark P
FEBS Lett. - (-) - [2017-10-25; online 2017-10-25]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Polysome-profiling in small tissue samples.
Liang S, Bellato HM, Lorent J, ..., Hajj GNM, Larsson O
Nucleic Acids Res. - (-) - [2017-10-23; online 2017-10-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Below-ground organic matter accumulation along a boreal forest fertility gradient relates to guild interaction within fungal communities
Kyaschenko J, Clemmensen KE, Karltun E, Lindahl BD
Ecol Lett - (-) - [2017-10-22; online 2017-10-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Proteomic analysis of cell cycle progression in asynchronous cultures, including mitotic subphases, using PRIMMUS.
Ly T, Whigham A, Clarke R, ..., Wadsworth P, Lamond AI
Elife 6 (-) - [2017-10-20; online 2017-10-20]
Spatial Proteomics [Collaborative]
PubMed DOI Crossref
Effects of long-term low oxygen tension in human chondrosarcoma cells
Piltti J, Bygdell J, Qu C, Lammi MJ
J. Cell. Biochem. - (-) - [2017-10-18; online 2017-10-18]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
Zebrafish larvae as a model system for high-throughput, image-based screens in diabetes and insulin resistance
Emmanouilidou A, Ranefall P, Bandaru M, ..., Ingelsson E, den Hoed M
ASHG 2017 Annual Meeting - The American Society of Human Genetics - (-) - [2017-10-17; online 2017-10-17]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
Zebrafish larvae as a model system for high-throughput, image-based genetic screens in cardiometabolic diseases
den Hoed M, Emmanouilidou A, Bandaru M, ..., Larsson A, Ingelsson E
ASHG 2017 Annual Meeting - The American Society of Human Genetics - (-) - [2017-10-17; online 2017-10-17]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
Large-scale validation of zebrafish larvae as a model system for genetic screens in dyslipidaemia, atherosclerosis and coronary artery disease
Bandaru M, Emmanouilidou A, Ranefall P, ..., Ingelsson E, den Hoed M
ASHG 2017 Annual Meeting - The American Society of Human Genetics - (-) - [2017-10-17; online 2017-10-17]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
Glycoforest 1.0.
Horlacher O, Jin C, Alocci D, ..., Karlsson NG, Lisacek F
Anal. Chem. 89 (20) 10932-10940 [2017-10-17; online 2017-09-25]
Glycoproteomics and MS Proteomics [Technology development]
PubMed DOI Crossref
Glioblastoma and glioblastoma stem cells are dependent on functional MTH1.
Pudelko L, Rouhi P, Sanjiv K, ..., Helleday T, Bräutigam L
Oncotarget 8 (49) 84671-84684 [2017-10-17; online 2017-07-20]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Extracellular vesicles from human pancreatic islets suppress human islet amyloid polypeptide amyloid formation.
Ribeiro D, Horvath I, Heath N, ..., Forslöw A, Wittung-Stafshede P
Proc. Natl. Acad. Sci. U.S.A. 114 (42) 11127-11132 [2017-10-17; online 2017-10-02]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
RANK rewires energy homeostasis in lung cancer cells and drives primary lung cancer.
Rao S, Sigl V, Wimmer RA, ..., Dougall W, Penninger JM
Genes Dev. 31 (20) 2099-2112 [2017-10-15; online 2017-11-08]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Delivery of cyclodextrin polymers to bacterial biofilms - An exploratory study using rhodamine labelled cyclodextrins and multiphoton microscopy.
Thomsen H, Benkovics G, Fenyvesi É, ..., Malanga M, Ericson MB
Int J Pharm 531 (2) 650-657 [2017-10-15; online 2017-06-06]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Solid-phase extraction of the alcohol abuse biomarker phosphatidylethanol using newly synthesized polymeric sorbent materials containing quaternary heterocyclic groups.
Duarte M, Jagadeesan KK, Billing J, ..., Laurell T, Ekström S
Journal of Chromatography A 1519 (-) 1-8 [2017-10-13; online 2017-08-25]
Structural Proteomics [Service]
PubMed DOI Crossref
Proteolytic signatures define unique thrombin-derived peptides present in human wound fluid in vivo.
Saravanan R, Adav SS, Choong YK, ..., Sze SK, Schmidtchen A
Sci Rep 7 (1) 13136 [2017-10-13; online 2017-10-13]
Structural Proteomics [Service]
PubMed DOI Crossref
Lubricin binds cartilage proteins, cartilage oligomeric matrix protein, fibronectin and collagen II at the cartilage surface.
Flowers SA, Zieba A, Örnros J, ..., Kamali-Moghaddam M, Karlsson NG
Sci Rep 7 (1) 13149 [2017-10-13; online 2017-10-13]
Affinity Proteomics Uppsala [Collaborative] Glycoproteomics and MS Proteomics [Collaborative] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
Entirely enzymatic nanofabrication of DNA–protein conjugates
Bernardinelli G, Högberg B
Nucleic Acids Res 45 (18) e160-e160 [2017-10-13; online 2017-08-16]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
De novo design and synthesis of a 30-cistron translation-factor module
Shepherd TR, Du L, Liljeruhm J, ..., Yomo T, Forster AC
Nucleic Acids Res 45 (18) 10895-10905 [2017-10-13; online 2017-09-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatial detection of fetal marker genes expressed at low level in adult human heart tissue.
Asp M, Salmén F, Ståhl PL, ..., Linde C, Lundeberg J
Sci Rep 7 (1) 12941 [2017-10-11; online 2017-10-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Diatoms dominate the eukaryotic metatranscriptome during spring in coastal 'dead zone' sediments.
Broman E, Sachpazidou V, Dopson M, Hylander S
Proc. Biol. Sci. 284 (1864) - [2017-10-11; online 2017-10-06]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Chemical Proteomics for Target Discovery of Head-to-Tail Cyclized Mini-Proteins
Hellinger R, Thell K, Vasileva M, ..., Becker CW, Gruber CW
Front. Chem. 5 (-) - [2017-10-11; online 2017-10-11]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
CRISPR/Cas9 screening using unique molecular identifiers.
Schmierer B, Botla SK, Zhang J, ..., Kivioja T, Taipale J
Mol. Syst. Biol. 13 (10) 945 [2017-10-09; online 2017-10-09]
CRISPR Functional Genomics [Technology development]
PubMed DOI Crossref
Subphenotypes of inflammatory bowel disease are characterized by specific serum protein profiles.
Andersson E, Bergemalm D, Kruse R, ..., Repsilber D, Halfvarson J
PLoS ONE 12 (10) e0186142 [2017-10-05; online 2017-10-05]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Late presenting atypical severe combined immunodeficiency (SCID) associated with a novel missense mutation in DCLRE1C.
Sundin M, Uhlin M, Gaballa A, ..., Marits P, Nilsson J
Pediatr Allergy Immunol - (-) - [2017-10-05; online 2017-10-05]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Chromatin and Single-Cell RNA-Seq Profiling Reveal Dynamic Signaling and Metabolic Transitions during Human Spermatogonial Stem Cell Development.
Guo J, Grow EJ, Yi C, ..., Hotaling JM, Cairns BR
Cell Stem Cell 21 (4) 533-546.e6 [2017-10-05; online 2017-10-07]
Tissue Profiling [Collaborative]
DOI Crossref
Motivating students with authentic science experiences: changes in motivation for school science
Hellgren JM, Lindberg S
Research in Science & Technological Education 35 (4) 409-426 [2017-10-02; online 2017-05-03]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
PubMed DOI Crossref
Identification and characterization of the novel colonization factor CS30 based on whole genome sequencing in enterotoxigenic Escherichia coli (ETEC).
von Mentzer A, Tobias J, Wiklund G, ..., Sjöling Å, Svennerholm AM
Sci Rep 7 (1) 12514 [2017-10-02; online 2017-10-02]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
The Evolution of Dark Matter in the Mitogenome of Seed Beetles
Sayadi A, Immonen E, Tellgren-Roth C, Arnqvist G
Genome Biol Evol 9 (10) 2697-2706 [2017-10-01; online 2017-09-27]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Shaping the Tumor Stroma and Sparking Immune Activation by CD40 and 4-1BB Signaling Induced by an Armed Oncolytic Virus
Eriksson E, Milenova I, Wenthe J, ..., Alemany R, Loskog A
Clin. Cancer Res. 23 (19) 5846-5857 [2017-10-01; online 2017-05-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Rapid Increase in Genome Size as a Consequence of Transposable Element Hyperactivity in Wood-White (Leptidea) Butterflies.
Talla V, Suh A, Kalsoom F, ..., Wiklund C, Backström N
Genome Biol Evol 9 (10) 2491-2505 [2017-10-01; online 2017-10-06]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Profiling of in vitro activities of urea-based inhibitors against cysteine synthases from Mycobacterium tuberculosis.
Brunner K, Steiner EM, Reshma RS, ..., Schnell R, Schneider G
Bioorg. Med. Chem. Lett. 27 (19) 4582-4587 [2017-10-01; online 2017-08-19]
Chemical Biology Consortium Sweden (CBCS) [Service] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
GlyTouCan: an accessible glycan structure repository.
Tiemeyer M, Aoki K, Paulson J, ..., Narimatsu H, Aoki-Kinoshita KF
Glycobiology 27 (10) 915-919 [2017-10-01; online 2017-09-20]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
DNA methylation profiles in red blood cells of adult hens correlate with their rearing conditions
Pértille F, Brantsæter M, Nordgreen J, ..., Jensen P, Guerrero-Bosagna C
J Exp Biol 220 (19) 3579-3587 [2017-10-01; online 2017-08-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A MIR4646 associated methylation locus is hypomethylated in adolescent depression.
Boström AE, Ciuculete DM, Attwood M, ..., Mwinyi J, Schiöth HB
J Affect Disord 220 (-) 117-128 [2017-10-01; online 2017-05-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Validation of risk stratification models in acute myeloid leukemia using sequencing-based molecular profiling.
Wang M, Lindberg J, Klevebring D, ..., Lehmann S, Grönberg H
Leukemia 31 (10) 2029-2036 [2017-10-00; online 2017-02-07]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Tumor SHB gene expression affects disease characteristics in human acute myeloid leukemia.
Jamalpour M, Li X, Cavelier L, ..., Höglund M, Welsh M
Tumour Biol. 39 (10) 1010428317720643 [2017-10-00; online 2017-10-07]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Tumor Necrosis Factor Receptor 1 and 2 Are Associated With Risk of Intracerebral Hemorrhage.
Svensson EH, Söderholm M, Abul-Kasim K, Engström G
Stroke 48 (10) 2710-2715 [2017-10-00; online 2017-08-22]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Transcriptomic and Proteomic Profiling Provides Insight into Mesangial Cell Function in IgA Nephropathy.
Liu P, Lassén E, Nair V, ..., Ebefors K, Nyström J
J. Am. Soc. Nephrol. 28 (10) 2961-2972 [2017-10-00; online 2017-06-23]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
The evolutionary history of the DMRT3 ‘Gait keeper’ haplotype
Staiger EA, Almén MS, Promerová M, ..., Rubin CJ, Andersson L
Anim Genet 48 (5) 551-559 [2017-10-00; online 2017-07-25]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The cagE gene sequence as a diagnostic marker to identify JP2 and non-JP2 highly leukotoxic Aggregatibacter actinomycetemcomitans serotype b strains.
Johansson A, Claesson R, Höglund Åberg C, Haubek D, Oscarsson J
J. Periodont. Res. 52 (5) 903-912 [2017-10-00; online 2017-04-10]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Structures of the human mitochondrial ribosome in native states of assembly
Brown A, Rathore S, Kimanius D, ..., Amunts A, Ramakrishnan V
Nat Struct Mol Biol 24 (10) 866-869 [2017-10-00; online 2017-09-11]
Cryo-EM [Service]
DOI Crossref
Spheroid Segmentation Using Multiscale Deep Adversarial Networks
Sadanandan SK, Karlsson J, Wahlby C
The IEEE International Conference on Computer Vision (ICCV), 2017 - (-) 36-41 [2017-10-00; online 2017-10-00]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
Reduced cell surface levels of GPI-linked markers in a new case with PIGG loss of function.
Zhao JJ, Halvardson J, Knaus A, ..., Thuresson AC, Feuk L
Hum. Mutat. 38 (10) 1394-1401 [2017-10-00; online 2017-06-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Quantitative interactions between the biocontrol fungus Phlebiopsis gigantea, the forest pathogen Heterobasidion annosum and the fungal community inhabiting Norway spruce stumps
Oliva J, Messal M, Wendt L, Elfstrand M
Forest Ecology and Management 402 (-) 253-264 [2017-10-00; online 2017-10-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Protective Effect of Intravitreal Administration of Exosomes Derived from Mesenchymal Stem Cells on Retinal Ischemia.
Moisseiev E, Anderson JD, Oltjen S, ..., Nolta JA, Park SS
Current Eye Research 42 (10) 1358-1367 [2017-10-00; online 2017-06-21]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Novel genetic loci associated HLA-B*08:01 positive myasthenia gravis
Varade J, Wang N, Lim CK, ..., Xu X, Hammarström L
Journal of Autoimmunity - (-) - [2017-10-00; online 2017-10-00]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
NorWood: a gene expression resource for evo-devo studies of conifer wood development.
Jokipii-Lukkari S, Sundell D, Nilsson O, ..., Street NR, Tuominen H
New Phytol. 216 (2) 482-494 [2017-10-00; online 2017-02-10]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
N-Acylated Derivatives of Sulfamethoxazole Block Chlamydia Fatty Acid Synthesis and Interact with FabF.
Mojica SA, Salin O, Bastidas RJ, ..., Elofsson M, Gylfe Å
Antimicrob. Agents Chemother. 61 (10) e00716-17 [2017-10-00; online 2017-09-22]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Multivariate strategy for the sample selection and integration of multi-batch data in metabolomics
Surowiec I, Johansson E, Torell F, ..., Jakobsson PJ, Trygg J
Metabolomics 13 (10) - [2017-10-00; online 2017-08-24]
Swedish Metabolomics Centre (SMC) [Technology development]
Hormonal contraceptive use affects HIV susceptibility: mechanisms revealed by image analysis
Edfeldt G , Lajoie J , Röhl M , Tjernlund A
Scand J Immunol 86 (4) 249-350 [2017-10-00; online 2017-09-27]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
GDF-15 and TRAIL-R2 are powerful predictors of long-term mortality in patients with acute myocardial infarction.
Skau E, Henriksen E, Wagner P, ..., Siegbahn A, Leppert J
Eur J Prev Cardiol 24 (15) 1576-1583 [2017-10-00; online 2017-08-01]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Eosinophil Cationic Protein, Carotid Plaque, and Incidence of Stroke.
Sundström J, Söderholm M, Borné Y, ..., Orho-Melander M, Engström G
Stroke 48 (10) 2686-2692 [2017-10-00; online 2017-09-13]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
DOI Crossref
Deep Convolutional Neural Networks for Detecting Cellular Changes Due to Malignancy
Forslid G, Wieslander H, Bengtsson E, ..., Stark CR, Sadanandan SK
The IEEE International Conference on Computer Vision (ICCV), 2017 - (-) - [2017-10-00; online 2017-10-00]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
Conflicting results from mitochondrial genomic data challenge current views of Rubiaceae phylogeny
Rydin C, Wikström N, Bremer B
Am. J. Bot. 104 (10) 1522-1532 [2017-10-00; online 2017-10-18]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Comprehensive analysis of NMR data using advanced line shape fitting
Niklasson M, Otten R, Ahlner A, ..., Petzold K, Lundström P
J Biomol NMR 69 (2) 93-99 [2017-10-00; online 2017-10-17]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Cetuximab sensitivity of head and neck squamous cell carcinoma xenografts is associated with treatment-induced reduction in EGFR, pEGFR, and pSrc.
Jedlinski A, Garvin S, Johansson A, ..., Ponten F, Roberg K
J. Oral Pathol. Med. 46 (9) 717-724 [2017-10-00; online 2017-01-28]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Breast cancer in young women and prognosis: How important are proliferation markers?
Fredholm H, Magnusson K, Lindström LS, ..., Frisell J, Fredriksson I
Eur. J. Cancer 84 (-) 278-289 [2017-10-00; online 2017-08-29]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Bioinformatory-assisted analysis of next-generation sequencing data for precision medicine in pancreatic cancer.
Malgerud L, Lindberg J, Wirta V, ..., Grönberg H, Löhr JM
Mol Oncol 11 (10) 1413-1429 [2017-10-00; online 2017-08-08]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Artificial Selection Response due to Polygenic Adaptation from a Multilocus, Multiallelic Genetic Architecture
Zan Y, Sheng Z, Lillie M, ..., Siegel PB, Carlborg Ö
- 34 (10) 2678-2689 [2017-10-00; online 2017-07-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Antibody Affinity Against 2009 A/H1N1 Influenza and Pandemrix Vaccine Nucleoproteins Differs Between Childhood Narcolepsy Patients and Controls.
Lind A, Freyhult E, Ramelius A, ..., Elding Larsson H, Lernmark Å
Viral Immunol. 30 (8) 590-600 [2017-10-00; online 2017-08-10]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Alterations of c-di-GMP turnover proteins modulate semi-constitutive rdar biofilm formation in commensal and uropathogenic Escherichia coli.
Cimdins A, Simm R, Li F, ..., Brauner A, Römling U
Microbiologyopen 6 (5) - [2017-10-00; online 2017-09-15]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Identification of the PAK4 interactome reveals PAK4 phosphorylation of N-WASP and promotion of Arp2/3-dependent actin polymerization.
Zhao M, Spiess M, Johansson HJ, ..., Lehtiö J, Strömblad S
Oncotarget 8 (44) 77061-77074 [2017-09-29; online 2017-08-18]
Clinical Proteomics Mass spectrometry [Service] Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
A Drosophila female pheromone elicits species-specific long-range attraction via an olfactory channel with dual specificity for sex and food.
Lebreton S, Borrero-Echeverry F, Gonzalez F, ..., Becher PG, Witzgall P
BMC Biol. 15 (1) 88 [2017-09-29; online 2017-09-29]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
The cryo-EM structure of hibernating 100S ribosome dimer from pathogenic Staphylococcus aureus
Matzov D, Aibara S, Basu A, ..., Amunts A, Yonath AE
Nat Commun 8 (1) 723 [2017-09-28; online 2017-09-28]
Cryo-EM [Service]
PubMed DOI Crossref
Identification of a novel proinsulin-associated SNP and demonstration that proinsulin is unlikely to be a causal factor in subclinical vascular remodelling using Mendelian randomisation.
Strawbridge RJ, Silveira A, Hoed MD, ..., Hamsten A, IMPROVE study group
Atherosclerosis 266 (-) 196-204 [2017-09-28; online 2017-09-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Epidemiological characterization of a nosocomial outbreak of extended spectrum β-lactamase Escherichia coli ST-131 confirms the clinical value of core genome multilocus sequence typing
Woksepp H, Ryberg A, Berglind L, Schön T, Söderman J
APMIS - (-) - [2017-09-28; online 2017-09-28]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Validating Missing Proteins in Human Sperm Cells by Targeted Mass-Spectrometry- and Antibody-based Methods.
Carapito C, Duek P, Macron C, ..., Lane L, Pineau C
J. Proteome Res. - (-) - [2017-09-26; online 2017-09-26]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Novel spirocyclic systems via multicomponent aza-Diels-Alder reaction.
Llona-Minguez S, Throup A, Steiner E, ..., Jenmalm-Jensen A, Helleday T
Org. Biomol. Chem. 15 (37) 7758-7764 [2017-09-26; online 2017-09-12]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Anti-mycobacterial activity correlates with altered DNA methylation pattern in immune cells from BCG-vaccinated subjects.
Verma D, Parasa VR, Raffetseder J, ..., Netea M, Lerm M
Sci Rep 7 (1) 12305 [2017-09-26; online 2017-09-26]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic risk scores and family history as predictors of schizophrenia in Nordic registers.
Lu Y, Pouget JG, Andreassen OA, ..., Werge T, Sullivan PF
Psychol Med - (-) 1-9 [2017-09-25; online 2017-09-25]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The human protein atlas: A spatial map of the human proteome.
Thul PJ, Lindskog C
Protein Sci. - (-) - [2017-09-23; online 2017-09-23]
Tissue Profiling [Technology development]
PubMed DOI Crossref
The regulation of hydroxysteroid 17β-dehydrogenase type 1 and 2 gene expression in breast cancer cell lines by estradiol, dihydrotestosterone, microRNAs, and genes related to breast cancer.
Hilborn E, Stål O, Alexeyenko A, Jansson A
Oncotarget 8 (37) 62183-62194 [2017-09-22; online 2017-07-10]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
New oncogenic subtypes in pediatric B-cell precursor acute lymphoblastic leukemia.
Lilljebjörn H, Fioretos T
Blood 130 (12) 1395-1401 [2017-09-21; online 2017-08-04]
Clinical Genomics [Collaborative] Clinical Genomics Lund [Collaborative]
PubMed DOI Crossref
Cu/Zn Superoxide Dismutase Forms Amyloid Fibrils under Near-Physiological Quiescent Conditions: The Roles of Disulfide Bonds and Effects of Denaturant.
Khan MAI, Respondek M, Kjellström S, ..., Linse S, Akke M
ACS Chem Neurosci 8 (9) 2019-2026 [2017-09-20; online 2017-06-20]
Structural Proteomics [Service]
PubMed DOI Crossref
Major transcriptional changes observed in the Fulani, an ethnic group less susceptible to malaria.
Quin JE, Bujila I, Chérif M, ..., Nebie I, Östlund Farrants AK
Elife 6 (-) - [2017-09-19; online 2017-09-19]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The complete genome sequence of human adenovirus 84, a highly recombinant new Human mastadenovirus D type with a unique fiber gene.
Kaján GL, Kajon AE, Pinto AC, Bartha D, Arnberg N
Virus Res. 242 (-) 79-84 [2017-09-18; online 2017-09-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Tartrate-resistant acid phosphatase (TRAP/ACP5) promotes metastasis-related properties via TGFβ2/TβR and CD44 in MDA-MB-231 breast cancer cells.
Reithmeier A, Panizza E, Krumpel M, ..., Ek-Rylander B, Andersson G
BMC Cancer 17 (1) 650 [2017-09-15; online 2017-09-15]
Clinical Proteomics Mass spectrometry [Service] Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Metabolic profiles from two different breakfast meals characterized by 1H NMR-based metabolomics.
Rådjursöga M, Karlsson GB, Lindqvist HM, ..., Ellegård L, Winkvist A
Food Chem 231 (-) 267-274 [2017-09-15; online 2017-03-27]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Effects of tumour necrosis factor α upon the metabolism of the endocannabinoid anandamide in prostate cancer cells.
Karlsson J, Gouveia-Figueira S, Alhouayek M, Fowler CJ
PLoS ONE 12 (9) e0185011 [2017-09-14; online 2017-09-14]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Correction to Piperazin-1-ylpyridazine Derivatives Are a Novel Class of Human dCTP Pyrophosphatase 1 Inhibitors.
Llona-Minguez S, Höglund A, Ghassemian A, ..., Scobie M, Helleday T
J. Med. Chem. 60 (17) 7614 [2017-09-14; online 2017-09-01]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Acute doses of caffeine shift nervous system cell expression profiles toward promotion of neuronal projection growth.
Yu NY, Bieder A, Raman A, ..., Daub CO, Kere J
Sci Rep 7 (1) 11458 [2017-09-13; online 2017-09-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mass Cytometry Identifies Distinct Lung CD4+ T Cell Patterns in Löfgren's Syndrome and Non-Löfgren's Syndrome Sarcoidosis.
Kaiser Y, Lakshmikanth T, Chen Y, ..., Achour A, Grunewald J
Front Immunol 8 (-) 1130 [2017-09-12; online 2017-09-12]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Impact of common genetic determinants of Hemoglobin A1c on type 2 diabetes risk and diagnosis in ancestrally diverse populations: A transethnic genome-wide meta-analysis
Wheeler E, Leong A, Liu CT, ..., None , None
PLoS Med. 14 (9) e1002383 [2017-09-12; online 2017-09-12]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Deficiency in Calcium-Binding Protein S100A4 Impairs the Adjuvant Action of Cholera Toxin.
Sun JB, Holmgren J, Larena M, ..., Bresnick AR, Xiang Z
Front Immunol 8 (-) 1119 [2017-09-11; online 2017-09-11]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Copper chaperone ATOX1 regulates pluripotency factor OCT4 in preimplantation mouse embryos.
Celauro E, Mukaj A, Fierro-González JC, Wittung-Stafshede P
Biochem. Biophys. Res. Commun. 491 (1) 147-153 [2017-09-09; online 2017-07-12]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Impact of N-methylation of the substance P 1-7 amide on anti-allodynic effect in mice after peripheral administration.
Skogh A, Lesniak A, Gaugaz FZ, ..., Hallberg M, Sandström A
Eur J Pharm Sci 109 (-) 533-540 [2017-09-05; online 2017-09-05]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Capturing LTA 4 hydrolase in action: Insights to the chemistry and dynamics of chemotactic LTB4 synthesis.
Stsiapanava A, Samuelsson B, Haeggström JZ
Proc. Natl. Acad. Sci. U.S.A. 114 (36) 9689-9694 [2017-09-05; online 2017-08-21]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Auxin minimum triggers the developmental switch from cell division to cell differentiation in the Arabidopsis root.
Di Mambro R, De Ruvo M, Pacifici E, ..., Grieneisen VA, Sabatini S
Proc. Natl. Acad. Sci. U.S.A. 114 (36) E7641-E7649 [2017-09-05; online 2017-08-22]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Fluorescent CRISPR Adaptation Reporter for rapid quantification of spacer acquisition.
Amlinger L, Hoekzema M, Wagner EGH, Koskiniemi S, Lundgren M
Sci Rep 7 (1) 10392 [2017-09-04; online 2017-09-04]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Analysing Microbial Community Composition through Amplicon Sequencing: From Sampling to Hypothesis Testing.
Hugerth LW, Andersson AF
Front Microbiol 8 (-) 1561 [2017-09-04; online 2017-09-04]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The U2AF1S34F mutation induces lineage-specific splicing alterations in myelodysplastic syndromes.
Yip BH, Steeples V, Repapi E, ..., Pellagatti A, Boultwood J
J. Clin. Invest. 127 (9) 3557 [2017-09-01; online 2017-09-01]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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The TLR2 Antagonist Staphylococcal Superantigen-Like Protein 3 Acts as a Virulence Factor to Promote Bacterial Pathogenicity in vivo.
Koymans KJ, Goldmann O, Karlsson CAQ, ..., van Strijp JAG, Medina E
J Innate Immun 9 (6) 561-573 [2017-09-01; online 2017-09-01]
Structural Proteomics [Service]
PubMed DOI Crossref
The Huperzia selago Shoot Tip Transcriptome Sheds New Light on the Evolution of Leaves.
Evkaikina AI, Berke L, Romanova MA, ..., Pawlowski K, Voitsekhovskaja OV
Genome Biol Evol 9 (9) 2444-2460 [2017-09-01; online 2017-09-29]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Retention of seed trees fails to lifeboat ectomycorrhizal fungal diversity in harvested Scots pine forests.
Varenius K, Lindahl BD, Dahlberg A
FEMS Microbiol. Ecol. 93 (9) - [2017-09-01; online 2017-09-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Multifocus structured illumination microscopy for fast volumetric super-resolution imaging
Abrahamsson S, Blom H, Agostinho A, ..., Heintzmann R, Brismar H
Biomed. Opt. Express 8 (9) 4135 [2017-09-01; online 2017-08-17]
Integrated Microscopy Technologies Stockholm [Technology development]
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Genome Characterization of Oleaginous Aspergillus oryzae BCC7051: A Potential Fungal-Based Platform for Lipid Production.
Thammarongtham C, Nookaew I, Vorapreeda T, ..., Jeennor S, Laoteng K
Curr. Microbiol. - (-) - [2017-09-01; online 2017-09-01]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A practical guide to build de-novo assemblies for single tissues of non-model organisms: the example of a Neotropical frog
Montero-Mendieta S, Grabherr M, Lantz H, ..., Webster MT, Vilà C
PeerJ 5 (-) e3702 [2017-09-01; online 2017-09-01]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The relative contribution of DNA methylation and genetic variants on protein biomarkers for human diseases.
Ahsan M, Ek WE, Rask-Andersen M, ..., Gyllensten U, Johansson Å
PLoS Genet. 13 (9) e1007005 [2017-09-00; online 2017-09-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The adiponectin receptor AdipoR2 and its Caenorhabditis elegans homolog PAQR-2 prevent membrane rigidification by exogenous saturated fatty acids.
Devkota R, Svensk E, Ruiz M, ..., Borén J, Pilon M
PLoS Genet. 13 (9) e1007004 [2017-09-00; online 2017-09-08]
Integrated Microscopy Technologies Gothenburg [Service]
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The Abl-1 Kinase is Dispensable for NK Cell Inhibitory Signalling and is not Involved in Murine NK Cell Education.
Ganesan S, Luu TT, Chambers BJ, ..., Kadri N, Höglund P
Scand. J. Immunol. 86 (3) 135-142 [2017-09-00; online 2017-06-13]
Cellular Immunomonitoring [Collaborative]
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Serotonin, ATRX, and DAXX Expression in Pituitary Adenomas: Markers in the Differential Diagnosis of Neuroendocrine Tumors of the Sellar Region.
Casar-Borota O, Botling J, Granberg D, ..., Pontén F, Trouillas J
Am. J. Surg. Pathol. 41 (9) 1238-1246 [2017-09-00; online 2017-07-19]
Tissue Profiling [Collaborative]
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Regulation of gene expression is associated with tolerance of the Arctic copepod Calanus glacialis to CO2-acidified sea water
Bailey A, De Wit P, Thor P, ..., Thompson C, Hop H
Ecol Evol 7 (18) 7145-7160 [2017-09-00; online 2017-08-02]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Proteomics in Hypothermia as Adjunctive Therapy in Patients with ST-Segment Elevation Myocardial Infarction: A CHILL-MI Substudy.
Mohammad MA, Noc M, Lang I, ..., Metzler B, Erlinge D
Ther Hypothermia Temp Manag 7 (3) 152-161 [2017-09-00; online 2017-03-02]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Measurement of protein backbone 13CO and 15N relaxation dispersion at high resolution
Mayzel M, Ahlner A, Lundström P, Orekhov VY
J Biomol NMR 69 (1) 1-12 [2017-09-00; online 2017-09-01]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Genome scale metabolic modeling of cancer.
Nilsson A, Nielsen J
Metab. Eng. 43 (Pt B) 103-112 [2017-09-00; online 2016-11-04]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Systems Biology [Technology development]
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Enhanced Secondary- and Hormone Metabolism in Leaves of Arbuscular Mycorrhizal Medicago truncatula
Adolfsson L, Nziengui H, Abreu IN, ..., Schoefs B, Spetea C
Plant Physiol. 175 (1) 392-411 [2017-09-00; online 2017-07-11]
Swedish Metabolomics Centre (SMC) [Service]
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Effect of food intake on 92 neurological biomarkers in plasma.
Dencker M, Björgell O, Hlebowicz J
Brain Behav 7 (9) e00747 [2017-09-00; online 2017-08-01]
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Cartilage oligomeric matrix protein neoepitope in the synovial fluid of horses with acute lameness: A new biomarker for the early stages of osteoarthritis.
Skiöldebrand E, Ekman S, Mattsson Hultén L, ..., Sihlbom C, Rüetschi U
Equine Vet. J. 49 (5) 662-667 [2017-09-00; online 2017-02-28]
Glycoproteomics and MS Proteomics [Service]
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Cartilage oligomeric matrix protein forms protein complexes with synovial lubricin via non-covalent and covalent interactions.
Flowers SA, Kalamajski S, Ali L, ..., Karlsson NG, Jin C
Osteoarthr. Cartil. 25 (9) 1496-1504 [2017-09-00; online 2017-04-01]
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Analytically Sensitive Protein Detection in Microtiter Plates by Proximity Ligation with Rolling Circle Amplification
Ebai T, Souza de Oliveira FM, Löf L, ..., Landegren U, Kamali-Moghaddam M
Clinical Chemistry 63 (9) 1497-1505 [2017-09-00; online 2017-06-30]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
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A CRISPR-Cas9 Generated MDCK Cell Line Expressing Human MDR1 Without Endogenous Canine MDR1 (cABCB1): An Improved Tool for Drug Efflux Studies.
Karlgren M, Simoff I, Backlund M, ..., Oswald S, Artursson P
J Pharm Sci 106 (9) 2909-2913 [2017-09-00; online 2017-04-24]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Technology development] Drug Discovery and Development (DDD) [Technology development] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Silencing FLI or targeting CD13/ANPEP lead to dephosphorylation of EPHA2, a mediator of BRAF inhibitor resistance, and induce growth arrest or apoptosis in melanoma cells.
Azimi A, Tuominen R, Costa Svedman F, ..., Hansson J, Egyhazi Brage S
Cell Death Dis 8 (8) e3029 [2017-08-31; online 2017-08-31]
Clinical Proteomics Mass spectrometry [Service] Global Proteomics and Proteogenomics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Neuroblastoma patient-derived xenograft cells cultured in stem-cell promoting medium retain tumorigenic and metastatic capacities but differentiate in serum.
Persson CU, von Stedingk K, Bexell D, ..., Påhlman S, Wigerup C
Sci Rep 7 (1) 10274 [2017-08-31; online 2017-08-31]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A genomic exploration identifies mechanisms that may explain adverse cardiovascular effects of COX-2 inhibitors.
Brænne I, Willenborg C, Tragante V, ..., Erdmann J, Schunkert H
Sci Rep 7 (1) 10252 [2017-08-31; online 2017-08-31]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Importance of N- and C-terminal residues of substance P 1-7 for alleviating allodynia in mice after peripheral administration.
Skogh A, Lesniak A, Gaugaz FZ, ..., Hallberg M, Sandström A
Eur J Pharm Sci 106 (-) 345-351 [2017-08-30; online 2017-06-03]
Drug Discovery and Development (DDD) [Collaborative]
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Synthetic lethality between androgen receptor signalling and the PARP pathway in prostate cancer.
Asim M, Tarish F, Zecchini HI, ..., Neal D, Helleday T
Nat Commun 8 (1) 374 [2017-08-29; online 2017-08-29]
Advanced FISH Technologies [Collaborative]
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Mass Cytometry and Topological Data Analysis Reveal Immune Parameters Associated with Complications after Allogeneic Stem Cell Transplantation.
Lakshmikanth T, Olin A, Chen Y, ..., Omazic B, Brodin P
Cell Rep 20 (9) 2238-2250 [2017-08-29; online 2017-08-31]
Cellular Immunomonitoring [Technology development]
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Quantitative proteomic characterization of lung-MSC and bone marrow-MSC using DIA-mass spectrometry.
Rolandsson Enes S, Åhrman E, Palani A, ..., Malmström J, Westergren-Thorsson G
Sci Rep 7 (1) 9316 [2017-08-24; online 2017-08-24]
Structural Proteomics [Service]
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Nitrogen uptake and assimilation in proliferating embryogenic cultures of Norway spruce-Investigating the specific role of glutamine.
Carlsson J, Svennerstam H, Moritz T, Egertsdotter U, Ganeteg U
PLoS ONE 12 (8) e0181785 [2017-08-24; online 2017-08-24]
Swedish Metabolomics Centre (SMC) [Service]
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Identification of NCAN as a candidate gene for developmental dyslexia.
Einarsdottir E, Peyrard-Janvid M, Darki F, ..., Leinonen E, Kere J
Sci Rep 7 (1) 9294 [2017-08-24; online 2017-08-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Clonal Evolution of Autoreactive Germinal Centers.
Degn SE, van der Poel CE, Firl DJ, ..., Victora GD, Carroll MC
Cell 170 (5) 913-926.e19 [2017-08-24; online 2017-08-26]
Autoimmunity and Serology Profiling [Service]
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Cerium oxide nanoparticles inhibit differentiation of neural stem cells.
Gliga AR, Edoff K, Caputo F, ..., Ceccatelli S, Fadeel B
Sci Rep 7 (1) 9284 [2017-08-24; online 2017-08-24]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Integrated Microscopy Technologies Stockholm [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mitochondrial genome of the North African Sahara Honeybee, Apis mellifera sahariensis (Hymenoptera: Apidae).
Haddad N, Adjlane N, Loucif-Ayad W, ..., Al-Nakeeb K, Sicheritz-Ponten T
Mitochondrial DNA Part B 2 (2) 548-549 [2017-08-22; online 2017-08-22]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genomic correlates of glatiramer acetate adverse cardiovascular effects lead to a novel locus mediating coronary risk
Brænne I, Zeng L, Willenborg C, ..., None , None
PLoS ONE 12 (8) e0182999 [2017-08-22; online 2017-08-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A specific antibody to detect transcription factor T-Pit: a reliable marker of corticotroph cell differentiation and a tool to improve the classification of pituitary neuroendocrine tumours.
Sjöstedt E, Bollerslev J, Mulder J, ..., Pontén F, Casar-Borota O
Acta Neuropathol. - (-) - [2017-08-19; online 2017-08-19]
Tissue Profiling [Collaborative]
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Identification of bacterial biofilm and the Staphylococcus aureus derived protease, staphopain, on the skin surface of patients with atopic dermatitis.
Sonesson A, Przybyszewska K, Eriksson S, ..., Potempa J, Schmidtchen A
Sci Rep 7 (1) 8689 [2017-08-18; online 2017-08-18]
Structural Proteomics [Service]
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A pathology atlas of the human cancer transcriptome.
Uhlen M, Zhang C, Lee S, ..., Mardinoglu A, Ponten F
Science 357 (6352) eaan2507 [2017-08-18; online 2017-08-19]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Tissue Profiling [Technology development]
PubMed DOI Crossref
SF3B1-initiating mutations in MDS-RSs target lymphomyeloid hematopoietic stem cells
Mortera-Blanco T, Dimitriou M, Woll PS, ..., Jacobsen SEW, Hellström-Lindberg E
Blood 130 (7) 881-890 [2017-08-17; online 2017-06-20]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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Tea and coffee consumption in relation to DNA methylation in four European cohorts.
Ek WE, Tobi EW, Ahsan M, ..., Johansson Å, Epigenome-Wide Association Study Consortium
Hum. Mol. Genet. 26 (16) 3221-3231 [2017-08-15; online 2017-05-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SubCons: a new ensemble method for improved human subcellular localization predictions.
Salvatore M, Warholm P, Shu N, Basile W, Elofsson A
Bioinformatics 33 (16) 2464-2470 [2017-08-15; online 2017-04-14]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Diverse heterocyclic scaffolds as dCTP pyrophosphatase 1 inhibitors. Part 1: Triazoles, triazolopyrimidines, triazinoindoles, quinoline hydrazones and arylpiperazines.
Llona-Minguez S, Häggblad M, Martens U, ..., Scobie M, Helleday T
Bioorg. Med. Chem. Lett. 27 (16) 3897-3904 [2017-08-15; online 2017-06-16]
Drug Discovery and Development (DDD) [Collaborative]
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Circulating GDF-15 levels predict future secondary manifestations of cardiovascular disease explicitly in women but not men with atherosclerosis.
Gohar A, Gonçalves I, Vrijenhoek J, ..., Björkbacka H, de Jager SCA
Int. J. Cardiol. 241 (-) 430-436 [2017-08-15; online 2017-03-22]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Transcriptome sequencing in pediatric acute lymphoblastic leukemia identifies fusion genes associated with distinct DNA methylation profiles.
Marincevic-Zuniga Y, Dahlberg J, Nilsson S, ..., Nordlund J, Syvänen AC
J Hematol Oncol 10 (1) 148 [2017-08-14; online 2017-08-14]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The Sydney Heart Bank: improving translational research while eliminating or reducing the use of animal models of human heart disease.
Dos Remedios CG, Lal SP, Li A, ..., Linke W, van der Velden J
Biophys Rev - (-) - [2017-08-14; online 2017-08-14]
Tissue Profiling [Collaborative]
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Mucin-Inspired Lubrication on Hydrophobic Surfaces
Käsdorf BT, Weber F, Petrou G, ..., Crouzier T, Lieleg O
Biomacromolecules 18 (8) 2454-2462 [2017-08-14; online 2017-07-03]
Protein Science Facility (PSF) [Service]
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Drift, selection, or migration? Processes affecting genetic differentiation and variation along a latitudinal gradient in an amphibian.
Cortázar-Chinarro M, Lattenkamp EZ, Meyer-Lucht Y, ..., Laurila A, Höglund J
BMC Evol. Biol. 17 (1) 189 [2017-08-14; online 2017-08-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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High RBM3 expression is associated with an improved survival and oxaliplatin response in patients with metastatic colorectal cancer.
Siesing C, Sorbye H, Dragomir A, ..., Glimelius B, Eberhard J
PLoS ONE 12 (8) e0182512 [2017-08-11; online 2017-08-11]
Tissue Profiling [Collaborative]
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Genomic exploration of the diversity, ecology, and evolution of the archaeal domain of life
Spang A, Caceres EF, Ettema TJG
Science 357 (6351) eaaf3883 [2017-08-11; online 2017-08-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Shifts in coastal sediment oxygenation cause pronounced changes in microbial community composition and associated metabolism.
Broman E, Sjöstedt J, Pinhassi J, Dopson M
Microbiome 5 (1) 96 [2017-08-09; online 2017-08-09]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Rho-associated kinase is a therapeutic target in neuroblastoma.
Dyberg C, Fransson S, Andonova T, ..., Johnsen JI, Wickström M
Proc. Natl. Acad. Sci. U.S.A. 114 (32) E6603-E6612 [2017-08-08; online 2017-07-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Use of Proteomics To Investigate Kidney Function Decline over 5 Years.
Carlsson AC, Ingelsson E, Sundström J, ..., Lind L, Ärnlöv J
Clin J Am Soc Nephrol 12 (8) 1226-1235 [2017-08-07; online 2017-07-21]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
PLS3 Deletions Lead to Severe Spinal Osteoporosis and Disturbed Bone Matrix Mineralization.
Kämpe AJ, Costantini A, Levy-Shraga Y, ..., Grasemann C, Mäkitie O
J. Bone Miner. Res. - (-) - [2017-08-04; online 2017-08-04]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
Membrane trafficking under the microscope, what new imaging technologies have brought to light
Fernandez-Rodriguez J, Nilsson T
CRC Press 1st Edition (-) - [2017-08-01]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Diverse heterocyclic scaffolds as dCTP pyrophosphatase 1 inhibitors. Part 2: Pyridone- and pyrimidinone-derived systems.
Llona-Minguez S, Häggblad M, Martens U, ..., Scobie M, Helleday T
Bioorg. Med. Chem. Lett. 27 (15) 3219-3225 [2017-08-01; online 2017-06-15]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Comparison of four DNA extraction methods for comprehensive assessment of 16S rRNA bacterial diversity in marine biofilms using high-throughput sequencing
Corcoll N, Österlund T, Sinclair L, ..., Backhaus T, Eriksson KM
FEMS Microbiol. Lett. 364 (14) - [2017-08-01; online 2017-06-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Whole-genome patterns of linkage disequilibrium across flycatcher populations clarify the causes and consequences of fine-scale recombination rate variation in birds
Kawakami T, Mugal CF, Suh A, ..., Smeds L, Ellegren H
Mol Ecol 26 (16) 4158-4172 [2017-08-00; online 2017-07-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The structure of the tetanus toxin reveals pH-mediated domain dynamics.
Masuyer G, Conrad J, Stenmark P
EMBO Rep. 18 (8) 1306-1317 [2017-08-00; online 2017-06-23]
Cryo-EM [Service]
PubMed DOI Crossref
The anticancer effect of mebendazole may be due to M1 monocyte/macrophage activation via ERK1/2 and TLR8-dependent inflammasome activation.
Blom K, Senkowski W, Jarvius M, ..., Nygren P, Larsson R
Immunopharmacol Immunotoxicol 39 (4) 199-210 [2017-08-00; online 2017-05-04]
Drug Discovery and Development (DDD) [Service]
DOI Crossref
Switchable ionic liquids enable efficient nanofibrillation of wood pulp
Berglund L, Anugwom I, Hedenström M, ..., Mikkola JP, Oksman K
Cellulose 24 (8) 3265-3279 [2017-08-00; online 2017-06-06]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Structural pathway of regulated substrate transfer and threading through an Hsp100 disaggregase.
Deville C, Carroni M, Franke KB, ..., Mogk A, Saibil HR
Sci Adv 3 (8) e1701726 [2017-08-00; online 2017-08-04]
Cryo-EM [Service]
PubMed DOI Crossref
Site-specific gene expression analysis of implant-near cells in a soft tissue infection model - Application of laser microdissection to study biomaterial-associated infection.
Svensson S, Trobos M, Omar O, Thomsen P
J. Biomed. Mater. Res. 105 (8) 2210-2217 [2017-08-00; online 2017-05-10]
Integrated Microscopy Technologies Gothenburg [Service]
DOI Crossref
Regional genetic differentiation in the blue mussel from the Baltic Sea area
Larsson J, Lind EE, Corell H, ..., Smolarz K, Lönn M
Estuarine, Coastal and Shelf Science 195 (-) 98-109 [2017-08-00; online 2017-08-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Rates of gene flow in a freshwater snail and the evolution of phenotypic plasticity
Hollander J, Ahlgren J, Brönmark C
Biol J Linn Soc Lond 121 (4) 764-770 [2017-08-00; online 2017-06-01]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Poorly known microbial taxa dominate the microbiome of permafrost thaw ponds
Wurzbacher C, Nilsson RH, Rautio M, Peura S
ISME J 11 (8) 1938-1941 [2017-08-00; online 2017-04-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Objective automated quantification of fluorescence signal in histological sections of rat lens
Talebizadeh N, Hagström NZ, Yu Z, ..., Söderberg P, Wählby C
Cytometry 91 (8) 815-821 [2017-08-00; online 2017-05-11]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
Northeast African genomic variation shaped by the continuity of indigenous groups and Eurasian migrations.
Hollfelder N, Schlebusch CM, Günther T, ..., Hassan HY, Jakobsson M
PLoS Genet. 13 (8) e1006976 [2017-08-00; online 2017-08-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Molecular composition and distribution of gap junctions in the sensory epithelium of the human cochlea-a super-resolution structured illumination microscopy (SR-SIM) study.
Liu W, Li H, Edin F, ..., Pfaller K, Rask-Andersen H
Ups. J. Med. Sci. 122 (3) 160-170 [2017-08-00; online 2017-05-17]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Low-Frequency Synonymous Coding Variation in CYP2R1 Has Large Effects on Vitamin D Levels and Risk of Multiple Sclerosis
Manousaki D, Dudding T, Haworth S, ..., Timpson NJ, Richards JB
The American Journal of Human Genetics 101 (2) 227-238 [2017-08-00; online 2017-08-00]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Low temperature, autotrophic microbial denitrification using thiosulfate or thiocyanate as electron donor.
Broman E, Jawad A, Wu X, ..., Sundkvist JE, Dopson M
Biodegradation 28 (4) 287-301 [2017-08-00; online 2017-06-02]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Investigation of calcium-dependent activity and conformational dynamics of zebra fish 12-lipoxygenase
Mittal M, Hasan M, Balagunaseelan N, ..., Haeggström JZ, Rinaldo-Matthis A
Biochimica et Biophysica Acta (BBA) - General Subjects 1861 (8) 2099-2111 [2017-08-00; online 2017-08-00]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Genomewide patterns of variation in genetic diversity are shared among populations, species and higher-order taxa
Vijay N, Weissensteiner M, Burri R, ..., Ellegren H, Wolf JBW
Mol Ecol 26 (16) 4284-4295 [2017-08-00; online 2017-06-27]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Genome-Wide Association Study of Angioedema Induced by Ace Inhibitors or Arbs in Sweden
Wadelius M, Eriksson N, Johansson C, ..., Magnusson PKE, Hallberg P
Clinical Therapeutics 39 (8) e76 [2017-08-00; online 2017-08-00]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic differences between willow warbler migratory phenotypes are few and cluster in large haplotype blocks
Lundberg M, Liedvogel M, Larson K, ..., Åkesson S, Bensch S
Evolution Letters 1 (3) 155-168 [2017-08-00; online 2017-06-16]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Gene Expression Profiling of Large Cell Lung Cancer Links Transcriptional Phenotypes to the New Histological WHO 2015 Classification
Karlsson A, Brunnström H, Micke P, ..., Planck M, Staaf J
Journal of Thoracic Oncology 12 (8) 1257-1267 [2017-08-00; online 2017-08-00]
Clinical Genomics [Service] Clinical Genomics Lund [Service] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Dual herbivore attack and herbivore density affect metabolic profiles of Brassica nigra leaves
Ponzio C, Papazian S, Albrectsen BR, Dicke M, Gols R
Plant, Cell & Environment 40 (8) 1356-1367 [2017-08-00; online 2017-02-24]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Differences in genetic and environmental variation in adult BMI by sex, age, time period, and region: an individual-based pooled analysis of 40 twin cohorts
Silventoinen K, Jelenkovic A, Sund R, ..., Sørensen TI, Kaprio J
Am J Clin Nutr 106 (2) 457-466 [2017-08-00; online 2017-07-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Data on haplotype-supported immunoglobulin germline gene inference.
Kirik U, Greiff L, Levander F, Ohlin M
Data Brief 13 (-) 620-640 [2017-08-00; online 2017-06-27]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Comprehensive Profiling of the Androgen Receptor in Liquid Biopsies from Castration-resistant Prostate Cancer Reveals Novel Intra-AR Structural Variation and Splice Variant Expression Patterns.
De Laere B, van Dam PJ, Whitington T, ..., Grönberg H, Lindberg J
Eur. Urol. 72 (2) 192-200 [2017-08-00; online 2017-01-16]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
CKM Glu83Gly Is Associated With Blunted Creatine Kinase Variation, but Not With Myalgia.
Siddiqui MK, Veluchamy A, Maroteau C, ..., Palmer CNA, PREDICTION-ADR Consortium
Circ Cardiovasc Genet 10 (4) e001737 [2017-08-00; online 2017-08-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Bioinformatic processing of RAD‐seq data dramatically impacts downstream population genetic inference
Shafer ABA, Peart CR, Tusso S, ..., Wheat CW, Wolf JBW
Methods Ecol Evol 8 (8) 907-917 [2017-08-00; online 2016-11-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Aeromonas salmonicida Growth in Response to Atlantic Salmon Mucins Differs between Epithelial Sites, Is Governed by Sialylated and N-Acetylhexosamine-Containing O-Glycans, and Is Affected by Ca2.
Padra JT, Sundh H, Sundell K, ..., Karlsson NG, Lindén SK
Infect. Immun. 85 (8) - [2017-08-00; online 2017-07-19]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
A MUTYH germline mutation is associated with small intestinal neuroendocrine tumors.
Dumanski JP, Rasi C, Björklund P, ..., Hellman P, Tiensuu Janson E
Endocr. Relat. Cancer 24 (8) 427-443 [2017-08-00; online 2017-06-20]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dual action of bacteriocin PLNC8 αβ through inhibition of Porphyromonas gingivalis infection and promotion of cell proliferation.
Bengtsson T, Zhang B, Selegård R, ..., Aili D, Khalaf H
Pathog Dis 75 (5) - [2017-07-31; online 2017-06-13]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Solution NMR structure of the TRIM21 B-box2 and identification of residues involved in its interaction with the RING domain
Wallenhammar A, Anandapadamanaban M, Lemak A, ..., Wallner B, Sunnerhagen M
PLoS ONE 12 (7) e0181551 [2017-07-28; online 2017-07-28]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Isoflavones and Rotenoids from the Leaves of Millettia oblata ssp. teitensis
Deyou T, Marco M, Heydenreich M, ..., Yenesew A, Erdélyi M
J. Nat. Prod. 80 (7) 2060-2066 [2017-07-28; online 2017-06-30]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Droplet Barcode Sequencing for targeted linked-read haplotyping of single DNA molecules.
Redin D, Borgström E, He M, ..., Käller M, Ahmadian A
Nucleic Acids Res. 45 (13) e125 [2017-07-27; online 2017-05-20]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
PLS3 sequencing in childhood-onset primary osteoporosis identifies two novel disease-causing variants.
Kämpe AJ, Costantini A, Mäkitie RE, ..., Jiao H, Mäkitie O
Osteoporos Int - (-) - [2017-07-26; online 2017-07-26]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Biophysical characterization of the calmodulin-like domain of Plasmodium falciparum calcium dependent protein kinase 3
Andresen C, Niklasson M, Cassman Eklöf S, Wallner B, Lundström P
PLoS ONE 12 (7) e0181721 [2017-07-26; online 2017-07-26]
Protein Science Facility (PSF) [Service] Swedish NMR Centre (SNC) [Service]
DOI Crossref
About structural changes of lignin during kraft cooking and the kinetics of delignification
Mattsson C, Hasani M, Dang B, Mayzel M, Theliander H
Holzforschung 71 (7-8) 545-553 [2017-07-26; online 2017-07-26]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Untargeted screening for novel autoantibodies with prognostic value in first-episode psychosis.
Zandian A, Wingård L, Nilsson H, ..., Nilsson P, Persson MAA
Transl Psychiatry 7 (7) e1177 [2017-07-25; online 2017-07-25]
Autoimmunity and Serology Profiling [Collaborative] Tissue Profiling [Collaborative]
PubMed DOI Crossref
Recent increased identification and transmission of HIV-1 unique recombinant forms in Sweden.
Neogi U, Siddik AB, Kalaghatgi P, ..., Marrone G, Sönnerborg A
Sci Rep 7 (1) 6371 [2017-07-25; online 2017-07-25]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Prediction of intracellular exposure bridges the gap between target- and cell-based drug discovery
Mateus A, Gordon LJ, Wayne GJ, ..., Hann MM, Artursson P
Proc Natl Acad Sci USA 114 (30) E6231-E6239 [2017-07-25; online 2017-07-12]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
PubMed DOI Crossref
Mass Spectrometry Imaging proves differential absorption profiles of well-characterised permeability markers along the crypt-villus axis.
Nilsson A, Peric A, Strimfors M, ..., Andrén PE, Hilgendorf C
Sci Rep 7 (1) 6352 [2017-07-25; online 2017-07-25]
Spatial Mass Spectrometry [Service]
PubMed DOI Crossref
Haploid selection within a single ejaculate increases offspring fitness
Alavioon G, Hotzy C, Nakhro K, ..., Maklakov AA, Immler S
Proc Natl Acad Sci USA 114 (30) 8053-8058 [2017-07-25; online 2017-07-11]
Genome Engineering Zebrafish [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Continuous immunotypes describe human immune variation and predict diverse responses.
Kaczorowski KJ, Shekhar K, Nkulikiyimfura D, ..., Chakraborty AK, Brodin P
Proc. Natl. Acad. Sci. U.S.A. 114 (30) E6097-E6106 [2017-07-25; online 2017-07-10]
Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Combined epigenetic and differentiation-based treatment inhibits neuroblastoma tumor growth and links HIF2α to tumor suppression.
Westerlund I, Shi Y, Toskas K, ..., Schlisio S, Holmberg J
Proc. Natl. Acad. Sci. U.S.A. 114 (30) E6137-E6146 [2017-07-25; online 2017-07-10]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Novel Blood Pressure Locus and Gene Discovery Using Genome-Wide Association Study and Expression Data Sets From Blood and the Kidney.
Wain LV, Vaez A, Jansen R, ..., Caulfield MJ, Ehret GB
Hypertension 70 (3) e4-e19 [2017-07-24; online 2017-07-24]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Large meta-analysis of genome-wide association studies identifies five loci for lean body mass.
Zillikens MC, Demissie S, Hsu YH, ..., Ohlsson C, Kiel DP
Nat Commun 8 (1) 80 [2017-07-19; online 2017-07-19]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Tuning Metabolome Coverage in Reversed Phase LC-MS Metabolomics of MeOH Extracted Samples Using the Reconstitution Solvent Composition.
Lindahl A, Sääf S, Lehtiö J, Nordström A
Anal. Chem. 89 (14) 7356-7364 [2017-07-18; online 2017-06-28]
Clinical Proteomics Mass spectrometry [Service] Global Proteomics and Proteogenomics [Service] Swedish Metabolomics Centre (SMC) [Technology development]
PubMed DOI Crossref
Targeted sequencing of tonsillar and base of tongue cancer and human papillomavirus positive unknown primary of the head and neck reveals prognostic effects of mutated FGFR3
Bersani C, Sivars L, Haeggblom L, ..., Ramqvist T, Dalianis T
Oncotarget - (-) - [2017-07-18; online 2017-02-09]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Transcriptional profiling of the rat nucleus accumbens after modest or high alcohol exposure.
Morud J, Ashouri A, Larsson E, Ericson M, Söderpalm B
PLoS ONE 12 (7) e0181084 [2017-07-17; online 2017-07-17]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transancestral mapping and genetic load in systemic lupus erythematosus.
Langefeld CD, Ainsworth HC, Cunninghame Graham DS, ..., Gaffney PM, Vyse TJ
Nat Commun 8 (-) 16021 [2017-07-17; online 2017-07-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Loss of DIP2C in RKO cells stimulates changes in DNA methylation and epithelial-mesenchymal transition.
Larsson C, Ali MA, Pandzic T, ..., He L, Sjöblom T
BMC Cancer 17 (1) 487 [2017-07-17; online 2017-07-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Association analyses based on false discovery rate implicate new loci for coronary artery disease
Nelson CP, Goel A, Butterworth AS, ..., Watkins H, Deloukas P
Nat Genet 49 (9) 1385-1391 [2017-07-17; online 2017-07-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Analysis of aquaporins from the euryhaline barnacle Balanus improvisus reveals differential expression in response to changes in salinity.
Lind U, Järvå M, Alm Rosenblad M, ..., Hedfalk K, Blomberg A
PLoS ONE 12 (7) e0181192 [2017-07-17; online 2017-07-17]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Moderate Expression of SEC16 Increases Protein Secretion by Saccharomyces cerevisiae.
Bao J, Huang M, Petranovic D, Nielsen J
Appl. Environ. Microbiol. 83 (14) - [2017-07-15; online 2017-06-30]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Does antifouling paint select for antibiotic resistance?
Flach CF, Pal C, Svensson CJ, ..., Tysklind M, Larsson DG
Sci. Total Environ. 590-591 (-) 461-468 [2017-07-15; online 2017-03-08]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Prediction and modeling of pre-analytical sampling errors as a strategy to improve plasma NMR metabolomics data
Brunius C, Pedersen A, Malmodin D, ..., Tybring G, Landberg R
Bioinformatics - (-) - [2017-07-14; online 2017-07-14]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Lipid Driven Nanodomains in Giant Lipid Vesicles are Fluid and Disordered.
Koukalová A, Amaro M, Aydogan G, ..., Hof M, Šachl R
Sci Rep 7 (1) 5460 [2017-07-14; online 2017-07-14]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
A TRPV1-to-secretagogin regulatory axis controls pancreatic β-cell survival by modulating protein turnover.
Malenczyk K, Girach F, Szodorai E, ..., Groop L, Harkany T
EMBO J. 36 (14) 2107-2125 [2017-07-14; online 2017-06-21]
Fluorescence Tissue Profiling [Collaborative]
PubMed DOI Crossref
Lansoprazole-sulfide, pharmacokinetics of this promising anti-tuberculous agent
Mdanda S, Baijnath S, Shobo A, ..., Naicker T, Govender T
Biomedical Chromatography - (-) e4035 [2017-07-13; online 2017-07-13]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Genotype–covariate interaction effects and the heritability of adult body mass index
Robinson MR, English G, Moser G, ..., Cesarini D, Visscher PM
Nat Genet 49 (8) 1174-1181 [2017-07-10; online 2017-07-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Multipotent peripheral glial cells generate neuroendocrine cells of the adrenal medulla.
Furlan A, Dyachuk V, Kastriti ME, ..., Ernfors P, Adameyko I
Science 357 (6346) - [2017-07-07; online 2017-07-08]
Eukaryotic Single Cell Genomics (ESCG) [Service]
PubMed DOI Crossref
Anti-citrullinated protein antibodies cause arthritis by cross-reactivity to joint cartilage.
Ge C, Tong D, Liang B, ..., Dobritzsch D, Holmdahl R
JCI Insight 2 (13) - [2017-07-06; online 2017-07-06]
Autoimmunity and Serology Profiling [Service] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
High-Density Serum/Plasma Reverse Phase Protein Arrays.
Hellström C, Dodig-Crnković T, Hong MG, ..., Nilsson P, Sjöberg R
Methods Mol. Biol. 1619 (-) 229-238 [2017-07-05; online 2017-07-05]
Affinity Proteomics Stockholm [Technology development] Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
Detection of Extracellular Vesicles Using Proximity Ligation Assay with Flow Cytometry Readout-ExoPLA.
Löf L, Arngården L, Ebai T, ..., Söderberg O, Kamali-Moghaddam M
Curr Protoc Cytom 81 (-) 4.8.1-4.8.10 [2017-07-05; online 2017-07-05]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
PubMed DOI Crossref
Bead-Based and Multiplexed Immunoassays for Protein Profiling via Sequential Affinity Capture.
Birgersson E, Schwenk JM, Ayoglu B
Methods Mol. Biol. 1619 (-) 45-54 [2017-07-05; online 2017-07-05]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Paternal personality and social status influence offspring activity in zebrafish.
Zajitschek S, Herbert-Read JE, Abbasi NM, Zajitschek F, Immler S
BMC Evol. Biol. 17 (1) 157 [2017-07-03; online 2017-07-03]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Niche-mediated depletion of the normal hematopoietic stem cell reservoir by Flt3-ITD-induced myeloproliferation.
Mead AJ, Neo WH, Barkas N, ..., Nerlov C, Jacobsen SEW
J. Exp. Med. 214 (7) 2005-2021 [2017-07-03; online 2017-06-21]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Mineral Type Structures Soil Microbial Communities
Ahmed E, Hugerth LW, Logue JB, ..., Andersson AF, Holmström SJM
Geomicrobiology Journal 34 (6) 538-545 [2017-07-03; online 2016-11-22]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Isoelectric point-based fractionation by HiRIEF coupled to LC-MS allows for in-depth quantitative analysis of the phosphoproteome.
Panizza E, Branca RMM, Oliviusson P, Orre LM, Lehtiö J
Sci Rep 7 (1) 4513 [2017-07-03; online 2017-07-03]
Clinical Proteomics Mass spectrometry [Service] Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Structure-metabolism-relationships in the microsomal clearance of piperazin-1-ylpyridazines.
Llona-Minguez S, Ghassemian A, Baranczewski P, ..., Scobie M, Helleday T
Med. Chem. Commun. 8 (7) 1553-1560 [2017-07-01; online 2017-07-04]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Interspecific Plastome Recombination Reflects Ancient Reticulate Evolution in Picea (Pinaceae).
Sullivan AR, Schiffthaler B, Thompson SL, Street NR, Wang XR
Mol. Biol. Evol. 34 (7) 1689-1701 [2017-07-01; online 2017-04-07]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetics of phenotypic plasticity and biomass traits in hybrid willows across contrasting environments and years
Berlin S, Hallingbäck HR, Beyer F, ..., Weih M, Rönnberg-Wästljung AC
- 120 (1) 87-100 [2017-07-01; online 2017-04-25]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Epitope mapping of a new anti-Tn antibody detecting gastric cancer cells.
Persson N, Stuhr-Hansen N, Risinger C, ..., Jansson B, Blixt O
Glycobiology 27 (7) 635-645 [2017-07-01; online 2017-04-19]
Structural Proteomics [Service]
PubMed DOI Crossref
Wholegrain oat diet changes the expression of genes associated with intestinal bile acid transport.
Andersson KE, Chawade A, Thuresson N, ..., Olsson O, Hellstrand P
Mol Nutr Food Res 61 (7) - [2017-07-00; online 2017-03-30]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Three-dimensional structures and functional studies of two GH43 arabinofuranosidases from Weissella sp. strain 142 and Lactobacillus brevis.
Linares-Pastén JA, Falck P, Albasri K, ..., Logan DT, Karlsson EN
FEBS J. 284 (13) 2019-2036 [2017-07-00; online 2017-06-18]
Structural Proteomics [Service]
PubMed DOI Crossref
Stability of Proteins in Dried Blood Spot Biobanks
Björkesten J, Enroth S, Shen Q, ..., Kamali-Moghaddam M, Landegren U
Mol Cell Proteomics 16 (7) 1286-1296 [2017-07-00; online 2017-05-13]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
PubMed DOI Crossref
Relations between lipoprotein(a) concentrations, LPA genetic variants, and the risk of mortality in patients with established coronary heart disease: a molecular and genetic association study
Zewinger S, Kleber ME, Tragante V, ..., März W, Speer T
The Lancet Diabetes & Endocrinology 5 (7) 534-543 [2017-07-00; online 2017-07-00]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Reaching the limits of prognostication in non-small cell lung cancer: an optimized biomarker panel fails to outperform clinical parameters.
Grinberg M, Djureinovic D, Brunnström HR, ..., Rahnenführer J, Micke P
Mod. Pathol. 30 (7) 964-977 [2017-07-00; online 2017-03-10]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] Tissue Profiling [Collaborative]
PubMed DOI Crossref
Primary familial brain calcification linked to deletion of 5' noncoding region of SLC20A2.
Pasanen P, Mäkinen J, Myllykangas L, ..., Pöyhönen M, Baumann P
Acta Neurol. Scand. 136 (1) 59-63 [2017-07-00; online 2016-10-10]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Parallel antibody germline gene and haplotype analyses support the validity of immunoglobulin germline gene inference and discovery.
Kirik U, Greiff L, Levander F, Ohlin M
Mol. Immunol. 87 (-) 12-22 [2017-07-00; online 2017-04-04]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Integrative Genomics Identifies the Molecular Basis of Resistance to Azacitidine Therapy in Myelodysplastic Syndromes
Unnikrishnan A, Papaemmanuil E, Beck D, ..., Campbell PJ, Pimanda JE
Cell Rep 20 (3) 572-585 [2017-07-00; online 2017-07-00]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
PubMed DOI Crossref
Genomewide analysis of admixture and adaptation in the Africanized honeybee.
Nelson RM, Wallberg A, Simões ZLP, Lawson DJ, Webster MT
Mol. Ecol. 26 (14) 3603-3617 [2017-07-00; online 2017-04-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide association meta-analysis of 78,308 individuals identifies new loci and genes influencing human intelligence.
Sniekers S, Stringer S, Watanabe K, ..., van Duijn CM, Posthuma D
Nat. Genet. 49 (7) 1107-1112 [2017-07-00; online 2017-05-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
EGR2 mutations define a new clinically aggressive subgroup of chronic lymphocytic leukemia
Young E, Noerenberg D, Mansouri L, ..., Rosenquist R, Damm F
Leukemia 31 (7) 1547-1554 [2017-07-00; online 2017-01-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Design and synthesis of potent inhibitors of the mono(ADP-ribosyl)transferase, PARP14
Upton K, Meyers M, Thorsell AG, ..., Schüler H, Ferraris D
Bioorganic & Medicinal Chemistry Letters 27 (13) 2907-2911 [2017-07-00; online 2017-07-00]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
D-methionine interferes with non-typeable Haemophilus influenzae peptidoglycan synthesis during growth and biofilm formation.
Dawe H, Berger E, Sihlbom C, ..., Faust SN, Allan RN
Microbiology (Reading, Engl.) 163 (7) 1093-1104 [2017-07-00; online 2017-07-21]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Close Encounters – Probing Proximal Proteins in Live or Fixed Cells
Lönn P, Landegren U
Trends in Biochemical Sciences 42 (7) 504-515 [2017-07-00; online 2017-07-00]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
PubMed DOI Crossref
Blood transcriptomes and de novo identification of candidate loci for mating success in lekking great snipe (Gallinago media)
Höglund J, Wang B, Saether SA, ..., Kålås JA, Ekblom R
Mol Ecol 26 (13) 3458-3471 [2017-07-00; online 2017-04-28]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Low-Frequency Inactivating AKT2 Variant Enriched in the Finnish Population Is Associated With Fasting Insulin Levels and Type 2 Diabetes Risk.
Manning A, Highland HM, Gasser J, ..., Gloyn AL, Lindgren CM
Diabetes 66 (7) 2019-2032 [2017-07-00; online 2017-03-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
2b-RAD genotyping for population genomic studies of Chagas disease vectors: Rhodnius ecuadoriensis in Ecuador.
Hernandez-Castro LE, Paterno M, Villacís AG, ..., Grijalva MJ, Llewellyn MS
PLoS Negl Trop Dis 11 (7) e0005710 [2017-07-00; online 2017-07-19]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Moderate nucleotide diversity in the Atlantic herring is associated with a low mutation rate
Feng C, Pettersson M, Lamichhaney S, ..., Folkvord A, Andersson L
Elife 6 (-) - [2017-06-30; online 2017-06-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The wolf reference genome sequence (Canis lupus lupus) and its implications for Canis spp. population genomics.
Gopalakrishnan S, Samaniego Castruita JA, Sinding MS, ..., Dalén L, Gilbert MTP
BMC Genomics 18 (1) 495 [2017-06-29; online 2017-06-29]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
New Promises of Chemical Proteomics for Drug Development
Gaetani M, Zubarev RA
Novel Approaches in Drug Designing & Development 2 (1) 555579 [2017-06-27]
Chemical Proteomics [Technology development]
PubMed DOI Crossref
Halogen Bonding: A Powerful Tool for Modulation of Peptide Conformation
Danelius E, Andersson H, Jarvoll P, ..., Gräfenstein J, Erdélyi M
Biochemistry 56 (25) 3265-3272 [2017-06-27; online 2017-06-12]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Identification of a Sjögren's syndrome susceptibility locus at OAS1 that influences isoform switching, protein expression, and responsiveness to type I interferons
Li H, Reksten TR, Ice JA, ..., Sivils KL, None
PLoS Genet. 13 (6) e1006820 [2017-06-22; online 2017-06-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Functional metabolomics as a tool to analyze Mediator function and structure in plants.
Davoine C, Abreu IN, Khajeh K, ..., Moritz T, Björklund S
PLoS ONE 12 (6) e0179640 [2017-06-22; online 2017-06-22]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Identifying Bird Remains Using Ancient DNA Barcoding.
Dalén L, Lagerholm VK, Nylander JAA, ..., Irestedt M, Stewart JR
Genes 8 (6) 169 [2017-06-21; online 2017-06-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Identification of novel small molecules that inhibit STAT3-dependent transcription and function.
Kolosenko I, Yu Y, Busker S, ..., Page BDG, Grander D
PLoS ONE 12 (6) e0178844 [2017-06-21; online 2017-06-21]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Systems Biology of Metabolism.
Nielsen J
Annu. Rev. Biochem. 86 (1) 245-275 [2017-06-20; online 2017-03-08]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Systems Biology [Technology development]
PubMed DOI Crossref
Leucine Biosynthesis Is Involved in Regulating High Lipid Accumulation in Yarrowia lipolytica.
Kerkhoven EJ, Kim YM, Wei S, ..., Metz TO, Nielsen J
MBio 8 (3) - [2017-06-20; online 2017-06-20]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Global Kinetic Mechanism of Microsomal Glutathione Transferase 1 and Insights into Dynamic Enzyme Activation.
Spahiu L, Ålander J, Ottosson-Wadlund A, ..., Armstrong RN, Morgenstern R
Biochemistry 56 (24) 3089-3098 [2017-06-20; online 2017-06-09]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Combining Flow and Mass Cytometry in the Search for Biomarkers in Chronic Graft-versus-Host Disease.
Stikvoort A, Chen Y, Rådestad E, ..., Brodin P, Uhlin M
Front Immunol 8 (-) 717 [2017-06-19; online 2017-06-19]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Establishment of photosynthesis is controlled by two distinct regulatory phases
Dubreuil C, Jin X, Barajas-López JdD, ..., Small ID, Strand A
Plant Physiol. - (-) pp.00435.2017 [2017-06-16; online 2017-06-16]
Cryo-EM [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Protein expression in tension wood formation monitored at high tissue resolution in Populus
Bygdell J, Srivastava V, Obudulu O, ..., Mellerowicz EJ, Wingsle G
- 68 (13) 3405-3417 [2017-06-15; online 2017-06-13]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Microbial Community Structure in a Serpentine-Hosted Abiotic Gas Seepage at the Chimaera Ophiolite, Turkey.
Neubeck A, Sun L, Müller B, ..., Broman C, Schnürer A
Appl. Environ. Microbiol. 83 (12) - [2017-06-15; online 2017-05-31]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Stimulated Emission Depletion Microscopy.
Blom H, Widengren J
Chem. Rev. 117 (11) 7377-7427 [2017-06-14; online 2017-03-06]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
Ranking and characterization of established BMI and lipid associated loci as candidates for gene-environment interactions
Shungin D, Deng WQ, Varga TV, ..., Franks PW, None
PLoS Genet. 13 (6) e1006812 [2017-06-14; online 2017-06-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic loci associated with heart rate variability and their effects on cardiac disease risk.
Nolte IM, Munoz ML, Tragante V, ..., Snieder H, de Geus EJC
Nat Commun 8 (-) 15805 [2017-06-14; online 2017-06-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structural basis for ligand binding to an enzyme by a conformational selection pathway.
Kovermann M, Grundström C, Sauer-Eriksson AE, Sauer UH, Wolf-Watz M
Proc. Natl. Acad. Sci. U.S.A. 114 (24) 6298-6303 [2017-06-13; online 2017-05-30]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Four simple recommendations to encourage best practices in research software
Jiménez RC, Kuzak M, Alhamdoosh M, ..., Watson-Haigh NS, Crouch S
F1000Res 6 (-) 876 [2017-06-13; online 2017-06-13]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support and Infrastructure [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
PubMed DOI Crossref
A community proposal to integrate proteomics activities in ELIXIR
Vizcaíno JA, Walzer M, Jiménez RC, ..., Martens L, Kohlbacher O
F1000Res 6 (-) 875 [2017-06-13; online 2017-06-13]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support and Infrastructure [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
PubMed DOI Crossref
Alterations of anti-inflammatory lipids in plasma from women with chronic widespread pain - a case control study.
Stensson N, Ghafouri B, Gerdle B, Ghafouri N
Lipids Health Dis 16 (1) 112 [2017-06-12; online 2017-06-12]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Functional and Compositional Stability of Bacterial Metacommunities in Response to Salinity Changes
Berga M, Zha Y, Székely AJ, Langenheder S
Front Microbiol 8 (-) - [2017-06-08; online 2017-06-08]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SNX10 gene mutation leading to osteopetrosis with dysfunctional osteoclasts.
Stattin EL, Henning P, Klar J, ..., Wikström J, Lerner UH
Sci Rep 7 (1) 3012 [2017-06-07; online 2017-06-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Fast and general tests of genetic interaction for genome-wide association studies
Frånberg M, Strawbridge RJ, Hamsten A, ..., Sennblad B, None
PLoS Comput. Biol. 13 (6) e1005556 [2017-06-06; online 2017-06-06]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Effect of food intake on 92 biomarkers for cardiovascular disease.
Dencker M, Gårdinger Y, Björgell O, Hlebowicz J
PLoS ONE 12 (6) e0178656 [2017-06-06; online 2017-06-06]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Mass spectrometry imaging identifies palmitoylcarnitine as an immunological mediator during Salmonella Typhimurium infection.
Hulme HE, Meikle LM, Wessel H, ..., Burchmore R, Wall DM
Sci Rep 7 (1) 2786 [2017-06-05; online 2017-06-05]
Spatial Mass Spectrometry [Service]
PubMed DOI Crossref
Mast Cell Infiltration in Human Brain Metastases Modulates the Microenvironment and Contributes to the Metastatic Potential.
Roy A, Libard S, Weishaupt H, ..., Alafuzoff I, Tchougounova E
Front Oncol 7 (-) 115 [2017-06-02; online 2017-06-02]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Large-Scale Identification of Common Trait and Disease Variants Affecting Gene Expression.
Hauberg ME, Zhang W, Giambartolomei C, ..., Björkegren JLM, Roussos P
Am. J. Hum. Genet. 100 (6) 885-894 [2017-06-01; online 2017-05-25]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Injury Leads to the Appearance of Cells with Characteristics of Both Microglia and Astrocytes in Mouse and Human Brain.
Wilhelmsson U, Andersson D, de Pablo Y, ..., Pekny M, Pekna M
Cereb. Cortex 27 (6) 3360-3377 [2017-06-01; online 2017-04-12]
Fluorescence Tissue Profiling [Collaborative] Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Genome Sequence of Roseovarius mucosus Strain SMR3, Isolated from a Culture of the Diatom Skeletonema marinoi.
Töpel M, Pinder MIM, Johansson ON, ..., Godhe A, Clarke AK
Genome Announc 5 (22) - [2017-06-01; online 2017-06-01]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Coordinated nitrogen and carbon remobilization for nitrate assimilation in leaf, sheath and root and associated cytokinin signals during early regrowth of Lolium perenne.
Roche J, Turnbull MH, Guo Q, ..., Jameson PE, Love J
Ann. Bot. 119 (8) 1353-1364 [2017-06-01; online 2017-03-24]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Typing and Characterization of Bacteria Using Bottom-up Tandem Mass Spectrometry Proteomics.
Boulund F, Karlsson R, Gonzales-Siles L, ..., Moore ERB, Kristiansson E
Mol. Cell Proteomics 16 (6) 1052-1063 [2017-06-00; online 2017-04-18]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Tumoral cubilin is a predictive marker for treatment of renal cancer patients with sunitinib and sorafenib.
Niinivirta M, Enblad G, Edqvist PH, ..., Dragomir A, Ullenhag GJ
J. Cancer Res. Clin. Oncol. 143 (6) 961-970 [2017-06-00; online 2017-03-04]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
The transcriptome of the avian malaria parasite Plasmodium ashfordi displays host-specific gene expression.
Videvall E, Cornwallis CK, Ahrén D, ..., Valkiūnas G, Hellgren O
Mol. Ecol. 26 (11) 2939-2958 [2017-06-00; online 2017-04-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
The effects of thawing on the plasma metabolome: evaluating differences between thawed plasma and multi-organ samples
Torell F, Bennett K, Rännar S, ..., Lundstedt T, Trygg J
Metabolomics 13 (6) - [2017-06-00; online 2017-04-17]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Synthetic approaches to radiochemical probes for imaging of bacterial infections
Dutta J, Naicker T, Ebenhan T, ..., Arvidsson PI, Govender T
European Journal of Medicinal Chemistry 133 (-) 287-308 [2017-06-00; online 2017-06-00]
Drug Discovery and Development (DDD) [Collaborative]
DOI Crossref
Separating the effects of forage source and field microbiota on silage fermentation quality and aerobic stability
Mogodiniyai Kasmaei K, Dicksved J, Spörndly R, Udén P
Grass Forage Sci 72 (2) 281-289 [2017-06-00; online 2016-06-06]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
On the bridge over the translational valley of death: interview with Per I Arvidsson.
Arvidsson PI
Future Science OA 3 (2) FSO183 [2017-06-00; online 2017-04-10]
Drug Discovery and Development (DDD) [Technology development]
PubMed DOI Crossref
No evidence for MHC class II-based non-random mating at the gametic haplotype in Atlantic salmon
Promerová M, Alavioon G, Tusso S, Burri R, Immler S
Heredity 118 (6) 563-567 [2017-06-00; online 2017-01-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Methylation of HPA axis related genes in men with hypersexual disorder
Jokinen J, Boström AE, Chatzittofis A, ..., Arver S, Schiöth HB
Psychoneuroendocrinology 80 (-) 67-73 [2017-06-00; online 2017-06-00]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Metabolite quantification by NMR and LC-MS/MS reveals differences between unstimulated, stimulated, and pure parotid saliva
Figueira J, Gouveia-Figueira S, Öhman C, ..., Nording ML, Öhman A
Journal of Pharmaceutical and Biomedical Analysis 140 (-) 295-300 [2017-06-00; online 2017-06-00]
Swedish Metabolomics Centre (SMC) [Service] Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Lower inflammatory markers in women with antenatal depression brings the M1/M2 balance into focus from a new direction
Edvinsson Å, Bränn E, Hellgren C, ..., Cunningham JL, Sundström-Poromaa I
Psychoneuroendocrinology 80 (-) 15-25 [2017-06-00; online 2017-06-00]
Affinity Proteomics Uppsala [Collaborative] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
Levels of oxylipins, endocannabinoids and related lipids in plasma before and after low-level exposure to acrolein in healthy individuals and individuals with chemical intolerance
Claeson AS, Gouveia-Figueira S, Häggström J, Fowler CJ, Nording ML
Prostaglandins, Leukotrienes and Essential Fatty Acids (PLEFA) 121 (-) 60-67 [2017-06-00; online 2017-06-00]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Large-scale analyses of common and rare variants identify 12 new loci associated with atrial fibrillation.
Christophersen IE, Rienstra M, Roselli C, ..., Ellinor PT, AFGen Consortium
Nat. Genet. 49 (6) 946-952 [2017-06-00; online 2017-04-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification and characterization of inhibitors of UDP-glucose and UDP-sugar pyrophosphorylases for in vivo studies.
Decker D, Öberg C, Kleczkowski LA
Plant J. 90 (6) 1093-1107 [2017-06-00; online 2017-04-13]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Gene flow, ancient polymorphism, and ecological adaptation shape the genomic landscape of divergence among Darwin's finches
Han F, Lamichhaney S, Grant BR, ..., Andersson L, Webster MT
Genome Res. 27 (6) 1004-1015 [2017-06-00; online 2017-04-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Draft genome of the oomycete pathogen Phytophthora cactorum strain LV007 isolated from European beech (Fagus sylvatica).
Grenville-Briggs LJ, Kushwaha SK, Cleary MR, ..., Chawade A, Vetukuri RR
Genom Data 12 (-) 155-156 [2017-06-00; online 2017-05-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Downregulation of RWA genes in hybrid aspen affects xylan acetylation and wood saccharification.
Pawar PM, Ratke C, Balasubramanian VK, ..., Jönsson LJ, Mellerowicz EJ
New Phytol. 214 (4) 1491-1505 [2017-06-00; online 2017-03-03]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Contribution of different bacterial dispersal sources to lakes: Population and community effects in different seasons
Comte J, Berga M, Severin I, Logue JB, Lindström ES
Environ Microbiol 19 (6) 2391-2404 [2017-06-00; online 2017-05-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Chemisorption of air CO2 on cellulose: an overlooked feature of the cellulose/NaOH(aq) dissolution system
Gunnarsson M, Theliander H, Hasani M
Cellulose 24 (6) 2427-2436 [2017-06-00; online 2017-04-12]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
An automated method measures variability in P-glycoprotein and ABCG2 densities across brain regions and brain matter.
Kannan P, Schain M, Kretzschmar WW, ..., Hall MD, Mulder J
J. Cereb. Blood Flow Metab. - (-) 271678X16660984 [2017-06-00; online 2016-08-05]
Fluorescence Tissue Profiling [Technology development]
PubMed DOI Crossref
Affinity Proteomics Exploration of Melanoma Identifies Proteins in Serum with Associations to T-Stage and Recurrence.
Byström S, Fredolini C, Edqvist PH, ..., Pontén F, Schwenk JM
Transl Oncol 10 (3) 385-395 [2017-06-00; online 2017-04-20]
Affinity Proteomics Stockholm [Collaborative] Tissue Profiling [Collaborative]
PubMed DOI Crossref
A missense variant in ITPR1 provides evidence for autosomal recessive SCA29 with asymptomatic cerebellar hypoplasia in carriers
Klar J, Ali Z, Farooq M, ..., Baig SM, Dahl N
Eur J Hum Genet 25 (7) 848-853 [2017-06-00; online 2017-05-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A DNA methylation site within the KLF13 gene is associated with orexigenic processes based on neural responses and ghrelin levels.
Wiemerslage L, Islam R, van der Kamp C, ..., Benedict C, Schiöth HB
Int J Obes (Lond) 41 (6) 990-994 [2017-06-00; online 2017-02-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
High-affinity recognition of the human C-reactive protein independent of phosphocholine.
Yang J, Gustavsson AL, Haraldsson M, ..., Norberg T, Baltzer L
Org. Biomol. Chem. 15 (21) 4644-4654 [2017-05-31; online 2017-05-18]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Expression of CD226 is associated to but not required for NK cell education.
Wagner AK, Kadri N, Snäll J, ..., Kärre K, Chambers BJ
Nat Commun 8 (-) 15627 [2017-05-31; online 2017-05-31]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Genetic susceptibility to cardiovascular disease and risk of dementia.
Karlsson IK, Ploner A, Song C, ..., Pedersen NL, Hägg S
Transl Psychiatry 7 (5) e1142 [2017-05-30; online 2017-05-30]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A subcellular map of the human proteome.
Thul PJ, Åkesson L, Wiking M, ..., Uhlén M, Lundberg E
Science 356 (6340) - [2017-05-26; online 2017-05-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Spatial Proteomics [Collaborative]
PubMed DOI Crossref
Type 2 diabetes and obesity induce similar transcriptional reprogramming in human myocytes.
Väremo L, Henriksen TI, Scheele C, ..., Pedersen BK, Nielsen J
Genome Med 9 (1) 47 [2017-05-25; online 2017-05-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Piperazin-1-ylpyridazine Derivatives Are a Novel Class of Human dCTP Pyrophosphatase 1 Inhibitors.
Llona-Minguez S, Höglund A, Ghassemian A, ..., Scobie M, Helleday T
J. Med. Chem. 60 (10) 4279-4292 [2017-05-25; online 2017-05-16]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Collaborative] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Draft Genome Sequence of the Mycoparasitic Oomycete Pythium oligandrum Strain CBS 530.74.
Kushwaha SK, Vetukuri RR, Grenville-Briggs LJ
Genome Announc 5 (21) - [2017-05-25; online 2017-05-25]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Apoptotic Bax at Oxidatively Stressed Mitochondrial Membranes: Lipid Dynamics and Permeabilization.
Dingeldein APG, Pokorná Š, Lidman M, ..., Hof M, Gröbner G
Biophysical Journal 112 (10) 2147-2158 [2017-05-23; online 2017-05-26]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Neuroproteomic Profiling of Cerebrospinal Fluid (CSF) by Multiplexed Affinity Arrays.
Häggmark-Månberg A, Nilsson P, Schwenk JM
Methods Mol. Biol. 1598 (-) 247-254 [2017-05-17; online 2017-05-17]
Affinity Proteomics Stockholm [Technology development] Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
ProQ3D: improved model quality assessments using deep learning.
Uziela K, Menéndez Hurtado D, Shu N, Wallner B, Elofsson A
Bioinformatics 33 (10) 1578-1580 [2017-05-15; online 2017-01-06]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Whole blood gene expression in adolescent chronic fatigue syndrome: an exploratory cross-sectional study suggesting altered B cell differentiation and survival.
Nguyen CB, Alsøe L, Lindvall JM, ..., Nilsen H, Wyller VB
J Transl Med 15 (1) 102 [2017-05-11; online 2017-05-11]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Genome Sequence of a Bovine Rhinitis B Virus Identified in Cattle in Sweden
Blomström AL, Oma V, Khatri M, ..., Berg M, Myrmel M
Genome Announc 5 (19) e00172-17 [2017-05-11; online 2017-05-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
TIDDIT, an efficient and comprehensive structural variant caller for massive parallel sequencing data.
Eisfeldt J, Vezzi F, Olason P, Nilsson D, Lindstrand A
F1000Res 6 (-) 664 [2017-05-10; online 2017-05-10]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Reproducible diagnostic metabolites in plasma from typhoid fever patients in Asia and Africa
Näsström E, Parry CM, Vu Thieu NT, ..., Antti H, Baker S
Elife 6 (-) - [2017-05-09; online 2017-05-09]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Influence of Glycosylation on Interfacial Properties of Recombinant Mucins: Adsorption, Surface Forces, and Friction.
An J, Jin C, Dėdinaitė A, ..., Karlsson NG, Claesson PM
Langmuir 33 (18) 4386-4395 [2017-05-09; online 2017-04-26]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Spatially resolved transcriptome profiling in model plant species.
Giacomello S, Salmén F, Terebieniec BK, ..., Street NR, Lundeberg J
NPLANTS 3 (-) 17061 [2017-05-08; online 2017-05-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Regulation of PfEMP1-VAR2CSA translation by a Plasmodium translation-enhancing factor.
Chan S, Frasch A, Mandava CS, ..., Sanyal S, Wahlgren M
Nat Microbiol 2 (-) 17068 [2017-05-08; online 2017-05-08]
Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Screening and Validation of Novel Biomarkers in Osteoarticular Pathologies by Comprehensive Combination of Protein Array Technologies.
Sierra-Sánchez Á, Garrido-Martín D, Lourido L, ..., Blanco F, Fuentes M
J. Proteome Res. 16 (5) 1890-1899 [2017-05-05; online 2017-04-17]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
QTL mapping of stress related gene expression in a cross between domesticated chickens and ancestral red junglefowl.
Fallahsharoudi A, de Kock N, Johnsson M, ..., Wright D, Jensen P
Mol. Cell. Endocrinol. 446 (-) 52-58 [2017-05-05; online 2017-02-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Impact of cytosine methylation on DNA binding specificities of human transcription factors
Yin Y, Morgunova E, Jolma A, ..., Vinson C, Taipale J
Science 356 (6337) eaaj2239 [2017-05-05; online 2017-05-04]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Regulating plant physiology with organic electronics
Poxson DJ, Karady M, Gabrielsson R, ..., Simon DT, Berggren M
Proc Natl Acad Sci USA 114 (18) 4597-4602 [2017-05-02; online 2017-04-18]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
PDE2A2 regulates mitochondria morphology and apoptotic cell death via local modulation of cAMP/PKA signalling.
Monterisi S, Lobo MJ, Livie C, ..., Micaroni M, Zaccolo M
Elife 6 (-) - [2017-05-02; online 2017-05-02]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Mechanistic characterization of a copper containing thiosemicarbazone with potent antitumor activity.
Karlsson H, Fryknäs M, Strese S, ..., Larsson R, Nygren P
Oncotarget 8 (18) 30217-30234 [2017-05-02; online 2017-04-19]
Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Glioblastoma Cell Malignancy and Drug Sensitivity Are Affected by the Cell of Origin.
Jiang Y, Marinescu VD, Xie Y, ..., Nelander S, Uhrbom L
Cell Rep 19 (5) 1080-1081 [2017-05-02; online 2017-05-04]
Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Two extended haplotype blocks are associated with adaptation to high altitude habitats in East African honey bees.
Wallberg A, Schöning C, Webster MT, Hasselmann M
PLoS Genet. 13 (5) e1006792 [2017-05-00; online 2017-05-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transcriptomics and methylomics of CD4-positive T cells in arsenic-exposed women.
Engström K, Wojdacz TK, Marabita F, ..., Vahter M, Broberg K
Arch. Toxicol. 91 (5) 2067-2078 [2017-05-00; online 2016-11-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Three-dimensional functional human neuronal networks in uncompressed low-density electrospun fiber scaffolds.
Jakobsson A, Ottosson M, Zalis MC, ..., Johansson UE, Johansson F
Nanomedicine 13 (4) 1563-1573 [2017-05-00; online 2017-01-05]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
DOI Crossref
The effect of temperature and substrate quality on the carbon use efficiency of saprotrophic decomposition
Öquist MG, Erhagen B, Haei M, ..., Schleucher J, Nilsson MB
Plant Soil 414 (1-2) 113-125 [2017-05-00; online 2016-11-26]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
The chloroplast genome of Ephedra foeminea (Ephedraceae, Gnetales), an entomophilous gymnosperm endemic to the Mediterranean area.
Hou C, Wikström N, Rydin C
Mitochondrial DNA A DNA Mapp Seq Anal 28 (3) 330-331 [2017-05-00; online 2015-12-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structural Diversity of Human Gastric Mucin Glycans.
Jin C, Kenny DT, Skoog EC, ..., Lindén SK, Karlsson NG
Mol. Cell Proteomics 16 (5) 743-758 [2017-05-00; online 2017-05-04]
Affinity Proteomics Uppsala [Service] Glycoproteomics and MS Proteomics [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Loss of chromosome Y (LOY) in blood cells is associated with increased risk for disease and mortality in aging men
Forsberg LA
Hum Genet 136 (5) 657-663 [2017-05-00; online 2017-04-19]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Inflammatory markers in late pregnancy in association with postpartum depression-A nested case-control study.
Bränn E, Papadopoulos F, Fransson E, ..., Sundström-Poromaa I, Skalkidou A
Psychoneuroendocrinology 79 (-) 146-159 [2017-05-00; online 2017-02-28]
Affinity Proteomics Uppsala [Collaborative] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
Induction of functional dopamine neurons from human astrocytes in vitro and mouse astrocytes in a Parkinson's disease model.
Rivetti di Val Cervo P, Romanov RA, Spigolon G, ..., Fisone G, Arenas E
Nat. Biotechnol. 35 (5) 444-452 [2017-05-00; online 2017-04-10]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Immune Biomarkers on the Radar—Comprehensive “Immunograms” for Multimodal Treatment Prediction
Botling J, Sandelin M
Journal of Thoracic Oncology 12 (5) 770-772 [2017-05-00; online 2017-05-00]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
High levels of the AR-V7 Splice Variant and Co-Amplification of the Golgi Protein Coding YIPF6 in AR Amplified Prostate Cancer Bone Metastases.
Djusberg E, Jernberg E, Thysell E, ..., Brattsand M, Wikström P
Prostate 77 (6) 625-638 [2017-05-00; online 2017-02-01]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Genomic repertoire of the Woeseiaceae/JTB255, cosmopolitan and abundant core members of microbial communities in marine sediments.
Mußmann M, Pjevac P, Krüger K, Dyksma S
ISME J 11 (5) 1276-1281 [2017-05-00; online 2017-01-06]
Microbial Single Cell Genomics [Service]
PubMed DOI Crossref
Further evidence for specific IFIH1 mutation as a cause of Singleton-Merten syndrome with phenotypic heterogeneity.
Pettersson M, Bergendal B, Norderyd J, ..., Nordgren A, Lindstrand A
Am. J. Med. Genet. A 173 (5) 1396-1399 [2017-05-00; online 2017-03-20]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
FADD, Caspase-3, and Caspase-8 and Incidence of Coronary Events.
Xue L, Borné Y, Mattisson IY, ..., Nilsson J, Engström G
Arterioscler. Thromb. Vasc. Biol. 37 (5) 983-989 [2017-05-00; online 2017-03-16]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Contrasting patterns of cytokinins between years in senescing aspen leaves
Edlund E, Novak O, Karady M, Ljung K, Jansson S
Plant, Cell & Environment 40 (5) 622-634 [2017-05-00; online 2017-03-27]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Comparative genomics and expression levels of hydrophobins from eight mycorrhizal genomes.
Rineau F, Lmalem H, Ahren D, ..., Martin F, Colpaert JV
Mycorrhiza 27 (4) 383-396 [2017-05-00; online 2017-01-09]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Combination of short-read, long-read, and optical mapping assemblies reveals large-scale tandem repeat arrays with population genetic implications.
Weissensteiner MH, Pang AWC, Bunikis I, ..., Suh A, Wolf JBW
Genome Res. 27 (5) 697-708 [2017-05-00; online 2017-03-30]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]
DOI Crossref
Brodie vs Hummers graphite oxides for preparation of multi-layered materials
Talyzin AV, Mercier G, Klechikov A, ..., Opitz A, Moons E
Carbon 115 (-) 430-440 [2017-05-00; online 2017-05-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Bayesian Inference of Allele-Specific Gene Expression Indicates Abundant Cis-Regulatory Variation in Natural Flycatcher Populations
Wang M, Uebbing S, Ellegren H
Genome Biol Evol 9 (5) 1266-1279 [2017-05-00; online 2017-05-01]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Absolute Quantification of Protein and mRNA Abundances Demonstrate Variability in Gene-Specific Translation Efficiency in Yeast
Lahtvee PJ, Sánchez BJ, Smialowska A, ..., Gatto F, Nielsen J
Cell Syst 4 (5) 495-504.e5 [2017-05-00; online 2017-05-00]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
A Preliminary Report: Radical Surgery and Stem Cell Transplantation for the Treatment of Patients With Pancreatic Cancer.
Omazic B, Ayoglu B, Löhr M, ..., Maeurer MJ, Ringden O
J. Immunother. 40 (4) 132-139 [2017-05-00; online 2017-03-25]
Affinity Proteomics Stockholm [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Mitochondrial genome divergence between beluga whales in Baffin Bay and the Sea of Okhotsk.
Skovrind M, Samaniego Castruita JA, Heide-Jørgensen MP, Dalén L, Lorenzen E
Mitochondrial DNA Part B 2 (1) 257-258 [2017-04-28; online 2017-04-28]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic Profile of Ductal Adenocarcinoma of the Prostate.
Seipel AH, Whitington T, Delahunt B, ..., Lindberg J, Egevad L
Hum. Pathol. - (-) - [2017-04-27; online 2017-04-27]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Does the sex of one's co-twin affect height and BMI in adulthood? A study of dizygotic adult twins from 31 cohorts.
Bogl LH, Jelenkovic A, Vuoksimaa E, ..., Silventoinen K, Kaprio J
Biol Sex Differ 8 (-) 14 [2017-04-27; online 2017-04-27]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide meta-analysis of 241,258 adults accounting for smoking behaviour identifies novel loci for obesity traits
Justice AE, Winkler TW, Feitosa MF, ..., North KE, Cupples LA
Nat Commun 8 (-) 14977 [2017-04-26; online 2017-04-26]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Corrigendum: MTH1 inhibition eradicates cancer by preventing sanitation of the dNTP pool.
Gad H, Koolmeister T, Jemth AS, ..., Scobie M, Ulrika Warpman Berglund &Thomas Helleday
Nature 544 (7651) 508 [2017-04-26; online 2017-04-28]
Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Correlation of histopathologic characteristics to protein expression and function in malignant melanoma.
Welinder C, Pawłowski K, Szasz AM, ..., Wieslander E, Marko-Varga G
PLoS ONE 12 (4) e0176167 [2017-04-26; online 2017-04-26]
Structural Proteomics [Service]
PubMed DOI Crossref
Parallel adaptive evolution of geographically distant herring populations on both sides of the North Atlantic Ocean
Lamichhaney S, Fuentes-Pardo AP, Rafati N, ..., Ruzzante DE, Andersson L
Proc Natl Acad Sci USA 114 (17) E3452-E3461 [2017-04-25; online 2017-04-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Comprehensive mapping of the effects of azacitidine on DNA methylation, repressive/permissive histone marks and gene expression in primary cells from patients with MDS and MDS-related disease.
Tobiasson M, Abdulkadir H, Lennartsson A, ..., Hellström-Lindberg E, Ungerstedt J
Oncotarget 8 (17) 28812-28825 [2017-04-25; online 2017-04-22]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Genomic analyses identify hundreds of variants associated with age at menarche and support a role for puberty timing in cancer risk
Day FR, Thompson DJ, Helgason H, ..., Ong KK, Perry JRB
Nat Genet 49 (6) 834-841 [2017-04-24; online 2017-04-24]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Influence of Hydroxyapatite Nanoparticle Morphology on Embryonic Development in a Zebrafish Exposure Model.
Pujari-Palmer S, Lu X, Karlsson Ott M
Nanomaterials (Basel) 7 (4) - [2017-04-22; online 2017-04-22]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Respiratory chain complex III deficiency due to mutated BCS1L: a novel phenotype with encephalomyopathy, partially phenocopied in a Bcs1l mutant mouse model.
Tegelberg S, Tomašić N, Kallijärvi J, ..., Eklund EA, Fellman V
Orphanet J Rare Dis 12 (1) 73 [2017-04-20; online 2017-04-20]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Persistent Effects of Developmental Exposure to 17α-Ethinylestradiol on the Zebrafish (Danio rerio) Brain Transcriptome and Behavior
Porseryd T, Volkova K, Reyhanian Caspillo N, ..., Dinnetz P, Porsh Hällström I
Front. Behav. Neurosci. 11 (-) - [2017-04-20; online 2017-04-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
In muro deacetylation of xylan affects lignin properties and improves saccharification of aspen wood.
Pawar PM, Derba-Maceluch M, Chong SL, ..., Jönsson LJ, Mellerowicz EJ
Biotechnol Biofuels 10 (1) 98 [2017-04-20; online 2017-04-20]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Gain-of-function SAMD9L mutations cause a syndrome of cytopenia, immunodeficiency, MDS, and neurological symptoms.
Tesi B, Davidsson J, Voss M, ..., Cammenga J, Bryceson YT
Blood 129 (16) 2266-2279 [2017-04-20; online 2017-02-15]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Adenovirus-mediated CD40L gene transfer increases Teffector/Tregulatory cell ratio and upregulates death receptors in metastatic melanoma patients.
Schiza A, Wenthe J, Mangsbo S, ..., Loskog A, Ullenhag G
J Transl Med 15 (1) 79 [2017-04-20; online 2017-04-20]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Synthesis and characterization of poly-3-((2,5-hydroquinone)vinyl)-1H-pyrrole: investigation on backbone/pendant interactions in a conducting redox polymer.
Huang H, Karlsson C, Strømme M, Gogoll A, Sjödin M
Phys Chem Chem Phys 19 (16) 10427-10435 [2017-04-19; online 2017-04-06]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Histology-Compatible MALDI Mass Spectrometry Based Imaging of Neuronal Lipids for Subsequent Immunofluorescent Staining.
Kaya I, Michno W, Brinet D, ..., Zetterberg H, Hanrieder J
Anal. Chem. 89 (8) 4685-4694 [2017-04-18; online 2017-04-06]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Conversion of Glycerol to 3-Hydroxypropanoic Acid by Genetically Engineered Bacillus subtilis.
Kalantari A, Chen T, Ji B, ..., Goelzer A, Mijakovic I
Front Microbiol 8 (-) 638 [2017-04-18; online 2017-04-18]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Oriented clonal cell dynamics enables accurate growth and shaping of vertebrate cartilage
Kaucka M, Zikmund T, Tesarova M, ..., Fried K, Adameyko I
Elife 6 (-) - [2017-04-17; online 2017-04-17]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Anaerobic Methanotrophic Archaea of the ANME-2d Cluster Are Active in a Low-sulfate, Iron-rich Freshwater Sediment.
Weber HS, Habicht KS, Thamdrup B
Front Microbiol 8 (-) 619 [2017-04-12; online 2017-04-12]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Adaptation to infectious disease exposure in indigenous Southern African populations.
Owers KA, Sjödin P, Schlebusch CM, ..., Soodyall H, Jakobsson M
Proc. Biol. Sci. 284 (1852) 20170226 [2017-04-12; online 2017-04-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SnoN Stabilizes the SMAD3/SMAD4 Protein Complex
Walldén K, Nyman T, Hällberg BM
Sci Rep 7 (-) 46370 [2017-04-11; online 2017-04-11]
Protein Science Facility (PSF) [Collaborative]
PubMed DOI Crossref
Serglycin as a potential biomarker for glioma: association of serglycin expression, extent of mast cell recruitment and glioblastoma progression.
Roy A, Attarha S, Weishaupt H, ..., Pontén F, Tchougounova E
Oncotarget 8 (15) 24815-24827 [2017-04-11; online 2017-04-28]
Tissue Profiling [Collaborative]
Multi-label prediction of subcellular localization in confocal images using deep neural networks
Winsnes CF, Sullivan DP, Smith K, Lundberg E
Molecular Biology of the Cell 27 (-) - [2017-04-10; online 2017-04-10]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
Large-scale genome-wide analysis identifies genetic variants associated with cardiac structure and function
Wild PS, Felix JF, Schillert A, ..., Vasan RS, Dörr M
J Clin Invest. 127 (5) 1798-1812 [2017-04-10; online 2017-04-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SPlinted Ligation Adapter Tagging (SPLAT), a novel library preparation method for whole genome bisulphite sequencing.
Raine A, Manlig E, Wahlberg P, Syvänen AC, Nordlund J
Nucleic Acids Res. 45 (6) e36 [2017-04-07; online 2016-12-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Genome-wide identification of physically clustered genes suggests chromatin-level co-regulation in male reproductive development in Arabidopsis thaliana
Reimegård J, Kundu S, Pendle A, ..., Sundström JF, Emanuelsson O
Nucleic Acids Res 45 (6) 3253-3265 [2017-04-07; online 2017-02-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Draft Genome Sequences of Six Strains of Streptococcus pneumoniae from Serotypes 5, 6A, 6B, 18C, 19A, and 23F.
Jakobsson HE, Salvà-Serra F, Thorell K, ..., Kristiansson E, Moore ER
Genome Announc 5 (14) - [2017-04-06; online 2017-04-06]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Complete Genome Sequences of the Xylose-Fermenting Candida intermedia Strains CBS 141442 and PYCC 4715
Moreno AD, Tellgren-Roth C, Soler L, ..., Olsson L, Geijer C
Genome Announc 5 (14) e00138-17 [2017-04-06; online 2017-04-06]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
dUTPase inhibition augments replication defects of 5-Fluorouracil.
Hagenkort A, Paulin CBJ, Desroses M, ..., Scobie M, Helleday T
Oncotarget 8 (14) 23713-23726 [2017-04-04; online 2017-04-21]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Flow Cytometric Measurement of Blood Cells with BCR-ABL1 Fusion Protein in Chronic Myeloid Leukemia.
Löf L, Arngården L, Olsson-Strömberg U, ..., Landegren U, Kamali-Moghaddam M
Sci Rep 7 (1) 623 [2017-04-04; online 2017-04-04]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
PubMed DOI Crossref
Sulfonimidamides in Medicinal and Agricultural Chemistry
Chinthakindi PK, Naicker T, Thota N, ..., Kruger HG, Arvidsson PI
Angew. Chem. Int. Ed. 56 (15) 4100-4109 [2017-04-03; online 2017-02-23]
Drug Discovery and Development (DDD) [Technology development]
PubMed DOI Crossref
Global analysis of biosynthetic gene clusters reveals vast potential of secondary metabolite production in Penicillium species.
Nielsen JC, Grijseels S, Prigent S, ..., Workman M, Nielsen J
Nat Microbiol 2 (-) 17044 [2017-04-03; online 2017-04-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Total body fat, abdominal fat, body fat distribution and surrogate markers for health related to adipocyte fatty acid-binding protein (FABP4) in children.
Dencker M, Danielson A, Karlsson MK, ..., Andersen LB, Thorsson O
J Pediatr Endocrinol Metab 30 (4) 375-382 [2017-04-01; online 2017-01-14]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Somatic Ephrin Receptor Mutations Are Associated with Metastasis in Primary Colorectal Cancer.
Mathot L, Kundu S, Ljungström V, ..., Nilsson M, Sjöblom T
Cancer Res. 77 (7) 1730-1740 [2017-04-01; online 2017-01-20]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Membrane-Depolarizing Channel Blockers Induce Selective Glioma Cell Death by Impairing Nutrient Transport and Unfolded Protein/Amino Acid Responses.
Niklasson M, Maddalo G, Sramkova Z, ..., Enger PØ, Andäng M
Cancer Res. 77 (7) 1741-1752 [2017-04-01; online 2017-01-13]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Interactions of Freshwater Cyanobacteria with Bacterial Antagonists
Osman OA, Beier S, Grabherr M, Bertilsson S
Appl. Environ. Microbiol. 83 (7) e02634-16 [2017-04-01; online 2017-01-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification and quantification of even and odd chained 5-n alkylresorcinols, branched chain-alkylresorcinols and methylalkylresorcinols in Quinoa (Chenopodium quinoa).
Ross AB, Svelander C, Karlsson G, Savolainen OI
Food Chem 220 (-) 344-351 [2017-04-01; online 2016-10-05]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Green listed—a CRISPR screen tool
Panda SK, Boddul SV, Jiménez-Andrade GY, ..., Fernandez-Ricaud L, Wermeling F
Bioinformatics 33 (7) 1099-1100 [2017-04-01; online 2016-12-19]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Discrimination of pancreatic cancer and pancreatitis by LC-MS metabolomics.
Lindahl A, Heuchel R, Forshed J, ..., Löhr M, Nordström A
Metabolomics 13 (5) 61 [2017-04-01; online 2017-04-01]
Clinical Proteomics Mass spectrometry [Service] Global Proteomics and Proteogenomics [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Whole-Genome Bisulfite Sequencing of Human Pancreatic Islets Reveals Novel Differentially Methylated Regions in Type 2 Diabetes Pathogenesis
Volkov P, Bacos K, Ofori JK, ..., Rönn T, Ling C
Diabetes 66 (4) 1074-1085 [2017-04-00; online 2017-01-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The minimum information required for a glycomics experiment (MIRAGE) project: improving the standards for reporting glycan microarray-based data.
Liu Y, McBride R, Stoll M, ..., Feizi T, Smith DF
Glycobiology 27 (4) 280-284 [2017-04-00; online 2016-11-22]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
The anti-inflammatory compound palmitoylethanolamide inhibits prostaglandin and hydroxyeicosatetraenoic acid production by a macrophage cell line
Gabrielsson L, Gouveia-Figueira S, Häggström J, Alhouayek M, Fowler CJ
Pharmacol Res Perspect 5 (2) e00300 [2017-04-00; online 2017-02-27]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Shift in fungal communities and associated enzyme activities along an age gradient of managed Pinus sylvestris stands
Kyaschenko J, Clemmensen KE, Hagenbo A, Karltun E, Lindahl BD
ISME J 11 (4) 863-874 [2017-04-00; online 2017-01-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Porosity investigation of yttria-stabilized zirconia topcoats using NMR cryoporometry
Ekberg J, Nordstierna L, Klement U
Surface and Coatings Technology 315 (-) 468-474 [2017-04-00; online 2017-04-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Neonatal Cord Blood Oxylipins and Exposure to Particulate Matter in the Early-Life Environment: An ENVIRONAGE Birth Cohort Study.
Martens DS, Gouveia S, Madhloum N, ..., Nording M, Nawrot TS
Environ. Health Perspect. 125 (4) 691-698 [2017-04-00; online 2016-11-05]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Mapping of 79 loci for 83 plasma protein biomarkers in cardiovascular disease.
Folkersen L, Fauman E, Sabater-Lleal M, ..., Hamsten A, Mälarstig A
PLoS Genet. 13 (4) e1006706 [2017-04-00; online 2017-04-03]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] Clinical Biomarkers [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Lipid response patterns in acute phase paediatric Plasmodium falciparum malaria
Orikiiriza J, Surowiec I, Lindquist E, ..., Trygg J, Normark J
Metabolomics 13 (4) - [2017-04-00; online 2017-02-23]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Intranasal C3a treatment ameliorates cognitive impairment in a mouse model of neonatal hypoxic-ischemic brain injury.
Morán J, Stokowska A, Walker FR, ..., Hagberg H, Pekna M
Exp. Neurol. 290 (-) 74-84 [2017-04-00; online 2017-01-04]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Induction of Apoptosis in Intestinal Toxicity to a Histone Deacetylase Inhibitor in a Phase I Study with Pelvic Radiotherapy.
Kalanxhi E, Risberg K, Barua IS, ..., Flatmark K, Ree AH
Cancer Res Treat 49 (2) 374-386 [2017-04-00; online 2016-08-05]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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HRDetect is a predictor of BRCA1 and BRCA2 deficiency based on mutational signatures.
Davies H, Glodzik D, Morganella S, ..., Stratton MR, Nik-Zainal S
Nat. Med. 23 (4) 517-525 [2017-04-00; online 2017-03-13]
Clinical Genomics [Collaborative] Clinical Genomics Lund [Collaborative]
PubMed DOI Crossref
Genomic analysis reveals the presence of a class D beta-lactamase with broad substrate specificity in animal bite associated Capnocytophaga species.
Zangenah S, Andersson AF, Özenci V, Bergman P
Eur. J. Clin. Microbiol. Infect. Dis. 36 (4) 657-662 [2017-04-00; online 2016-12-03]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Gene co-expression network connectivity is an important determinant of selective constraint.
Mähler N, Wang J, Terebieniec BK, ..., Street NR, Hvidsten TR
PLoS Genet. 13 (4) e1006402 [2017-04-00; online 2017-04-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Frequent low-level mutations of protein kinase D2 in angiolipoma
Hofvander J, Arbajian E, Stenkula KG, ..., Hornick JL, Mertens F
J. Pathol 241 (5) 578-582 [2017-04-00; online 2017-02-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
FZD10-Gα13 signalling axis points to a role of FZD10 in CNS angiogenesis.
Hot B, Valnohova J, Arthofer E, ..., Mulder J, Schulte G
Cell. Signal. 32 (-) 93-103 [2017-04-00; online 2017-01-24]
Fluorescence Tissue Profiling [Collaborative]
PubMed DOI Crossref
Epigenome-wide DNA methylation study of IgE concentration in relation to self-reported allergies.
Ek WE, Ahsan M, Rask-Andersen M, ..., Gyllensten U, Johansson Å
Epigenomics 9 (4) 407-418 [2017-04-00; online 2017-03-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Effects of dietary inclusion of the yeasts Saccharomyces cerevisiae and Wickerhamomyces anomalus on gut microbiota of rainbow trout
Huyben D, Nyman A, Vidaković A, ..., Dicksved J, Lundh T
Aquaculture 473 (-) 528-537 [2017-04-00; online 2017-04-00]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Editorial for the special issue on "Golgi-related human disorders".
Micaroni M
Tissue and Cell 49 (2 Pt A) 131-132 [2017-04-00; online 2017-03-28]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Combined immunodeficiency and hypoglycemia associated with mutations in hypoxia upregulated 1.
Haapaniemi EM, Fogarty CL, Keskitalo S, ..., Seppänen M, Kere J
J. Allergy Clin. Immunol. 139 (4) 1391-1393.e11 [2017-04-00; online 2016-12-04]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Cardiometabolic biomarkers are predictors of readmission and death in patients hospitalized for acute dyspnea.
Lund N, Gränsbo K, Wernersson C, Melander O
The American Journal of Emergency Medicine 35 (4) 610-614 [2017-04-00; online 2016-12-22]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
An assessment of the importance of exposure routes to the uptake and internal localisation of fluorescent nanoparticles in zebrafish (Danio rerio), using light sheet microscopy.
Skjolding LM, Ašmonaitė G, Jølck RI, ..., Baun A, Sturve J
Nanotoxicology 11 (3) 351-359 [2017-04-00; online 2017-03-29]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
A Large Inversion Involving GNAS Exon A/B and All Exons Encoding Gsα Is Associated With Autosomal Dominant Pseudohypoparathyroidism Type Ib (PHP1B).
Grigelioniene G, Nevalainen PI, Reyes M, ..., Mäkitie O, Jüppner H
J. Bone Miner. Res. 32 (4) 776-783 [2017-04-00; online 2017-02-24]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genomic structure of the horse major histocompatibility complex class II region resolved using PacBio long-read sequencing technology
Viļuma A, Mikko S, Hahn D, ..., Andersson G, Bergström TF
Sci Rep 7 (-) 45518 [2017-03-31; online 2017-03-31]
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Improvement of identification methods for honeybee specific Lactic Acid Bacteria; future approaches.
Lamei S, Hu YO, Olofsson TC, ..., Forsgren E, Vásquez A
PLoS ONE 12 (3) e0174614 [2017-03-27; online 2017-03-27]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Light-sensing via hydrogen peroxide and a peroxiredoxin.
Bodvard K, Peeters K, Roger F, ..., Käll M, Molin M
Nat Commun 8 (1) 14791 [2017-03-24; online 2017-03-24]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Potential for hydrogen-oxidizing chemolithoautotrophic and diazotrophic populations to initiate biofilm formation in oligotrophic, deep terrestrial subsurface waters.
Wu X, Pedersen K, Edlund J, ..., Bertilsson S, Dopson M
Microbiome 5 (1) 37 [2017-03-23; online 2017-03-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
NEArender: an R package for functional interpretation of 'omics' data via network enrichment analysis.
Jeggari A, Alexeyenko A
BMC Bioinformatics 18 (Suppl 5) 118 [2017-03-23; online 2017-03-23]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Draft Genome Sequence of the Mycoparasitic Oomycete Pythium periplocum Strain CBS 532.74.
Kushwaha SK, Vetukuri RR, Grenville-Briggs LJ
Genome Announc 5 (12) - [2017-03-23; online 2017-03-23]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The evolutionary and phylogeographic history of woolly mammoths: a comprehensive mitogenomic analysis.
Chang D, Knapp M, Enk J, ..., Hofreiter M, Shapiro B
Sci Rep 7 (-) 44585 [2017-03-22; online 2017-03-22]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Atrophin controls developmental signaling pathways via interactions with Trithorax-like
Yeung K, Boija A, Karlsson E, ..., Mannervik M, McNeill H
Elife 6 (-) - [2017-03-22; online 2017-03-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Quantification of HER2 and estrogen receptor heterogeneity in breast cancer by single-molecule RNA fluorescence in situ hybridization.
Annaratone L, Simonetti M, Wernersson E, ..., Sapino A, Crosetto N
Oncotarget 8 (12) 18680-18698 [2017-03-21; online 2017-04-21]
Advanced FISH Technologies [Collaborative]
PubMed DOI Crossref
Proteogenomics produces comprehensive and highly accurate protein-coding gene annotation in a complete genome assembly of Malassezia sympodialis.
Zhu Y, Engström PG, Tellgren-Roth C, ..., Scheynius A, Lehtiö J
Nucleic Acids Res. 45 (5) 2629-2643 [2017-03-17; online 2017-01-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Proteomics Mass spectrometry [Technology development] Global Proteomics and Proteogenomics [Technology development] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
PATZ1 down-regulates FADS1 by binding to rs174557 and is opposed by SP1/SREBP1c.
Pan G, Ameur A, Enroth S, ..., Gyllensten U, Wadelius C
Nucleic Acids Res. 45 (5) 2408-2422 [2017-03-17; online 2016-12-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Chromosome and Megaplasmid Sequences of Borrelia anserina (Sakharoff 1891), the Agent of Avian Spirochetosis and Type Species of the Genus
Elbir H, Sitlani P, Bergström S, Barbour AG
Genome Announc 5 (11) e00018-17 [2017-03-16; online 2017-03-16]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Altered expression of maize PLASTOCHRON1 enhances biomass and seed yield by extending cell division duration
Sun X, Cahill J, Van Hautegem T, ..., Inzé D, Nelissen H
Nat Commun 8 (-) 14752 [2017-03-16; online 2017-03-16]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Revertant mosaicism repairs skin lesions in a patient with keratitis-ichthyosis-deafness syndrome by second-site mutations in connexin 26.
Gudmundsson S, Wilbe M, Ekvall S, ..., Törmä H, Bondeson ML
Hum. Mol. Genet. 26 (6) 1070-1077 [2017-03-15; online 2017-02-06]
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PubMed DOI Crossref
Endocytic turnover of Rab8 controls cell polarization.
Vidal-Quadras M, Holst MR, Francis MK, ..., Martín-Belmonte F, Lundmark R
J. Cell. Sci. 130 (6) 1147-1157 [2017-03-15; online 2017-01-30]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Microbial community assembly and evolution in subseafloor sediment
Starnawski P, Bataillon T, Ettema TJG, ..., Schramm A, Kjeldsen KU
Proc Natl Acad Sci USA 114 (11) 2940-2945 [2017-03-14; online 2017-02-27]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of Triazolothiadiazoles as Potent Inhibitors of the dCTP Pyrophosphatase 1.
Llona-Minguez S, Höglund A, Wiita E, ..., Scobie M, Helleday T
J. Med. Chem. 60 (5) 2148-2154 [2017-03-09; online 2017-02-15]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Discovery of circulating proteins associated to knee radiographic osteoarthritis.
Lourido L, Ayoglu B, Fernández-Tajes J, ..., Nilsson P, Blanco FJ
Sci Rep 7 (1) 137 [2017-03-09; online 2017-03-09]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Peptide Functionalized Gold Nanoparticles as a Stimuli Responsive Contrast Medium in Multiphoton Microscopy.
Borglin J, Selegård R, Aili D, Ericson MB
Nano Lett. 17 (3) 2102-2108 [2017-03-08; online 2017-02-23]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Life-Saving Degeneracy in the Human Immune System.
Brodin P
Cell Host Microbe 21 (3) 309-310 [2017-03-08; online 2017-03-11]
Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Diverse origin of mitochondrial lineages in Iron Age Black Sea Scythians.
Juras A, Krzewińska M, Nikitin AG, ..., Dabert M, Götherström A
Sci Rep 7 (-) 43950 [2017-03-07; online 2017-03-07]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structure determination of a major facilitator peptide transporter: Inward facing PepTSt from Streptococcus thermophilus crystallized in space group P3121.
Quistgaard EM, Martinez Molledo M, Löw C
PLoS ONE 12 (3) e0173126 [2017-03-06; online 2017-03-06]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Postnatal development of the small intestinal mucosa drives age-dependent, regio-selective susceptibility to Escherichia coli K1 infection.
Birchenough GM, Dalgakiran F, Witcomb LA, ..., Hansson GC, Taylor PW
Sci Rep 7 (1) 83 [2017-03-06; online 2017-03-06]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Method to Visualize and Analyze Membrane Interacting Proteins by Transmission Electron Microscopy
B. Kumar R, Zhu L, Hebert H, Jegerschöld C
J Vis Exp - (121) - [2017-03-05; online 2017-03-05]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Antibody Validation by Immunoprecipitation Followed by Mass Spectrometry Analysis.
Persson H, Preger C, Marcon E, Lengqvist J, Gräslund S
Methods Mol. Biol. 1575 (-) 175-187 [2017-03-04; online 2017-03-04]
Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Whole-Proteome Peptide Microarrays for Profiling Autoantibody Repertoires within Multiple Sclerosis and Narcolepsy.
Zandian A, Forsström B, Häggmark-Månberg A, ..., Nilsson P, Ayoglu B
J. Proteome Res. 16 (3) 1300-1314 [2017-03-03; online 2017-02-09]
Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
Evidence of both systemic inflammation and neuroinflammation in fibromyalgia patients, as assessed by a multiplex protein panel applied to the cerebrospinal fluid and to plasma.
Bäckryd E, Tanum L, Lind AL, Larsson A, Gordh T
J Pain Res 10 (-) 515-525 [2017-03-03; online 2017-03-03]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Toward a Self-Updating Platform for Estimating Rates of Speciation and Migration, Ages, and Relationships of Taxa.
Antonelli A, Hettling H, Condamine FL, ..., Oxelman B, Vos RA
Syst. Biol. 66 (2) 152-166 [2017-03-01; online 2016-09-13]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
SpeciesGeoCoder: Fast Categorization of Species Occurrences for Analyses of Biodiversity, Biogeography, Ecology, and Evolution.
Töpel M, Zizka A, Calió MF, ..., Silvestro D, Antonelli A
Syst. Biol. 66 (2) 145-151 [2017-03-01; online 2016-08-04]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Mating Changes Sexually Dimorphic Gene Expression in the Seed Beetle Callosobruchus maculatus.
Immonen E, Sayadi A, Bayram H, Arnqvist G
Genome Biol Evol 9 (3) 677-699 [2017-03-01; online 2017-04-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Complete mitochondrial genome of the Oriental Hornet, Vespa orientalis F. (Hymenoptera: Vespidae).
Haddad NJ, Al-Nakeeb K, Petersen B, ..., Blom N, Sicheritz-Pontén T
Mitochondrial DNA Part B 2 (1) 139-140 [2017-03-01; online 2017-03-01]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Use of a proximity extension assay proteomics chip to discover new biomarkers associated with albuminuria.
Carlsson AC, Sundström J, Carrero JJ, ..., Lind L, Ärnlöv J
Eur J Prev Cardiol 24 (4) 340-348 [2017-03-00; online 2016-10-28]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Tracing Cellular Origin of Human Exosomes Using Multiplex Proximity Extension Assays
Larssen P, Wik L, Czarnewski P, ..., Gabrielsson S, Kamali-Moghaddam M
Mol Cell Proteomics 16 (3) 502-511 [2017-03-00; online 2017-01-22]
Affinity Proteomics Uppsala [Technology development] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] PLA and Single Cell Proteomics [Technology development]
PubMed DOI Crossref
Towards a whole-genome sequence for rye (Secale cereale L.).
Bauer E, Schmutzer T, Barilar I, ..., Schön CC, Scholz U
Plant J. 89 (5) 853-869 [2017-03-00; online 2016-11-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Strain improvement of Pichia kudriavzevii TY13 for raised phytase production and reduced phosphate repression.
Qvirist L, Vorontsov E, Veide Vilg J, Andlid T
Microb Biotechnol 10 (2) 341-353 [2017-03-00; online 2016-10-28]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Stool frequency is associated with gut microbiota composition.
Hadizadeh F, Walter S, Belheouane M, ..., Franke A, D'Amato M
Gut 66 (3) 559-560 [2017-03-00; online 2016-05-20]
Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative]
PubMed DOI Crossref
Signs of ongoing inflammation in female patients with chronic widespread pain: A multivariate, explorative, cross-sectional study of blood samples.
Gerdle B, Ghafouri B, Ghafouri N, Bäckryd E, Gordh T
Medicine 96 (9) e6130 [2017-03-00; online 2017-03-02]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Reducing VEGF-B Signaling Ameliorates Renal Lipotoxicity and Protects against Diabetic Kidney Disease
Falkevall A, Mehlem A, Palombo I, ..., Nash A, Eriksson U
Cell Metabolism 25 (3) 713-726 [2017-03-00; online 2017-03-00]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Phylogenetic analysis of Monascus and new species from honey, pollen and nests of stingless bees
Barbosa RN, Leong SL, Vinnere-Pettersson O, ..., Oliveira NT, Houbraken J
Studies in Mycology 86 (-) 29-51 [2017-03-00; online 2017-03-00]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Overexpression of protein kinase STK25 in mice exacerbates ectopic lipid accumulation, mitochondrial dysfunction and insulin resistance in skeletal muscle.
Chursa U, Nuñez-Durán E, Cansby E, ..., Sihlbom C, Mahlapuu M
Diabetologia 60 (3) 553-567 [2017-03-00; online 2016-12-16]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Metapopulation theory identifies biogeographical patterns among core and satellite marine bacteria scaling from tens to thousands of kilometers.
Lindh MV, Sjöstedt J, Ekstam B, ..., Legrand C, Pinhassi J
Environ. Microbiol. 19 (3) 1222-1236 [2017-03-00; online 2017-02-06]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Inferring Individual Inbreeding and Demographic History from Segments of Identity by Descent in Ficedula Flycatcher Genome Sequences
Kardos M, Qvarnström A, Ellegren H
Genetics 205 (3) 1319-1334 [2017-03-00; online 2017-01-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
High GC content causes orphan proteins to be intrinsically disordered.
Basile W, Sachenkova O, Light S, Elofsson A
PLoS Comput. Biol. 13 (3) e1005375 [2017-03-00; online 2017-03-29]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Genomic Variation in IbA10G2 and Other Patient-Derived Cryptosporidium hominis Subtypes.
Sikora P, Andersson S, Winiecka-Krusnell J, ..., Beser J, Arrighi RB
J. Clin. Microbiol. 55 (3) 844-858 [2017-03-00; online 2016-12-21]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Discovery of new biomarkers for atrial fibrillation using a custom-made proteomics chip.
Lind L, Sundström J, Stenemo M, Hagström E, Ärnlöv J
Heart 103 (5) 377-382 [2017-03-00; online 2016-09-08]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Development of [(11)C]/[(3)H]THK-5351 - A potential novel carbon-11 tau imaging PET radioligand.
Stepanov V, Svedberg M, Jia Z, ..., Nordberg A, Halldin C
Nucl. Med. Biol. 46 (-) 50-53 [2017-03-00; online 2016-12-26]
Fluorescence Tissue Profiling [Collaborative]
PubMed DOI Crossref
Damaged reward areas in human alcoholics: neuronal proportion decline and astrocyte activation.
Sarkisyan D, Bazov I, Watanabe H, ..., Yakovleva T, Bakalkin G
Acta Neuropathol. 133 (3) 485-487 [2017-03-00; online 2017-01-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
DNA methylation profiling of pediatric B-cell lymphoblastic leukemia with KMT2A rearrangement identifies hypomethylation at enhancer sites.
Bergmann AK, Castellano G, Alten J, ..., Schrappe M, Siebert R
Pediatr Blood Cancer 64 (3) - [2017-03-00; online 2016-10-27]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Binding and processing of β-lactam antibiotics by the transpeptidase LdtMt2fromMycobacterium tuberculosis
Steiner EM, Schneider G, Schnell R
FEBS J 284 (5) 725-741 [2017-03-00; online 2017-02-08]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Antibody-encoding repertoires of bone marrow and peripheral blood—a focus on IgE
Levin M, Levander F, Palmason R, Greiff L, Ohlin M
Journal of Allergy and Clinical Immunology 139 (3) 1026-1030 [2017-03-00; online 2017-03-00]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Anaesthetic-induced cardioprotection in an experimental model of the Takotsubo syndrome - isoflurane vs. propofol.
Oras J, Redfors B, Ali A, ..., Omerovic E, Ricksten SE
Acta Anaesthesiol Scand 61 (3) 309-321 [2017-03-00; online 2017-01-22]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Amino acid transporter mutants of Arabidopsis provides evidence that a non-mycorrhizal plant acquires organic nitrogen from agricultural soil.
Ganeteg U, Ahmad I, Jämtgård S, ..., Schmidt S, Näsholm T
Plant Cell Environ. 40 (3) 413-423 [2017-03-00; online 2016-12-13]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
A genetic risk score is significantly associated with statin therapy response in the elderly population.
Ciuculete DM, Bandstein M, Benedict C, ..., Schiöth HB, Mwinyi J
Clin. Genet. 91 (3) 379-385 [2017-03-00; online 2016-12-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Assessing the Ability of Spectroscopic Methods to Determine the Difference in the Folding Propensities of Highly Similar β-Hairpins
Andersson H, Danelius E, Jarvoll P, ..., Brath U, Erdélyi M
ACS Omega 2 (2) 508-516 [2017-02-28; online 2017-02-13]
Swedish NMR Centre (SNC) [Service]
DOI Crossref
Measuring true localization accuracy in super resolution microscopy with DNA-origami nanostructures
Reuss M, Fördős F, Blom H, ..., Högberg B, Brismar H
New J. Phys. 19 (2) 025013 [2017-02-27; online 2017-02-27]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
Flavonoids fromErythrina schliebenii
Nyandoro SS, Munissi JJE, Kombo M, ..., Rissanen K, Erdélyi M
J. Nat. Prod. 80 (2) 377-383 [2017-02-24; online 2017-01-23]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Evaluating Variant Calling Tools for Non-Matched Next-Generation Sequencing Data.
Sandmann S, de Graaf AO, Karimi M, ..., Jansen JH, Dugas M
Sci Rep 7 (-) 43169 [2017-02-24; online 2017-02-24]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Epitopes of anti-RIFIN antibodies and characterization of rif-expressing Plasmodium falciparum parasites by RNA sequencing.
Ch'ng JH, Sirel M, Zandian A, ..., Qundos U, Wahlgren M
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Characterization of the Ruler Protein Interaction Interface on the Substrate Specificity Switch Protein in the Yersinia Type III Secretion System.
Ho O, Rogne P, Edgren T, ..., Login FH, Wolf-Watz M
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J. Med. Chem. 60 (4) 1262-1271 [2017-02-23; online 2016-12-21]
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Defining the human copper proteome and analysis of its expression variation in cancers.
Blockhuys S, Celauro E, Hildesjö C, ..., Fierro-González JC, Wittung-Stafshede P
Metallomics 9 (2) 112-123 [2017-02-22; online 2016-12-13]
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Covariation in levels of nucleotide diversity in homologous regions of the avian genome long after completion of lineage sorting
Dutoit L, Vijay N, Mugal CF, ..., Wolf J, Ellegren H
Proc. R. Soc. B 284 (1849) 20162756 [2017-02-22; online 2017-02-15]
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Clonal reversal of ageing-associated stem cell lineage bias via a pluripotent intermediate.
Wahlestedt M, Erlandsson E, Kristiansen T, ..., Martin-Gonzalez J, Bryder D
Nat Commun 8 (-) 14533 [2017-02-22; online 2017-02-22]
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RhoA knockout fibroblasts lose tumor-inhibitory capacity in vitro and promote tumor growth in vivo.
Alkasalias T, Alexeyenko A, Hennig K, ..., Gad AK, Pavlova T
Proc. Natl. Acad. Sci. U.S.A. 114 (8) E1413-E1421 [2017-02-21; online 2017-02-07]
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Three Chalconoids and a Pterocarpene from the Roots of Tephrosia aequilata.
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Molecules 22 (2) 318 [2017-02-20; online 2017-02-20]
Swedish NMR Centre (SNC) [Service]
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Methane Production in Dairy Cows Correlates with Rumen Methanogenic and Bacterial Community Structure.
Danielsson R, Dicksved J, Sun L, ..., Schnürer A, Bertilsson J
Front Microbiol 8 (-) 226 [2017-02-17; online 2017-02-17]
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The mitochondrial genome sequences of the round goby and the sand goby reveal patterns of recent evolution in gobiid fish.
Adrian-Kalchhauser I, Svensson O, Kutschera VE, ..., Blomberg A, Burkhardt-Holm P
BMC Genomics 18 (1) 177 [2017-02-16; online 2017-02-16]
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Comparison of whole genome amplification techniques for human single cell exome sequencing.
Borgström E, Paterlini M, Mold JE, Frisen J, Lundeberg J
PLoS ONE 12 (2) e0171566 [2017-02-16; online 2017-02-16]
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Genome-wide Association for Major Depression Through Age at Onset Stratification: Major Depressive Disorder Working Group of the Psychiatric Genomics Consortium.
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Biol. Psychiatry 81 (4) 325-335 [2017-02-15; online 2016-08-16]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Distinct Anaerobic Bacterial Consumers of Cellobiose-Derived Carbon in Boreal Fens with Different CO2/CH4 Production Ratios
Juottonen H, Eiler A, Biasi C, ..., Yrjälä K, Fritze H
Appl. Environ. Microbiol. 83 (4) e02533-16 [2017-02-15; online 2016-12-02]
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Kaya I, Brinet D, Michno W, ..., Blennow K, Hanrieder J
ACS Chem Neurosci 8 (2) 347-355 [2017-02-15; online 2017-01-10]
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Crystal Structure of the Emerging Cancer Target MTHFD2 in Complex with a Substrate-Based Inhibitor.
Gustafsson R, Jemth AS, Gustafsson NM, ..., Helleday T, Stenmark P
Cancer Res. 77 (4) 937-948 [2017-02-15; online 2016-11-29]
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Correlated/non-correlated ion dynamics of charge-neutral ion couples: the origin of ionicity in ionic liquids.
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Phys Chem Chem Phys 19 (7) 4975-4988 [2017-02-15; online 2017-01-12]
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Zeigler Allen L, McCrow JP, Ininbergs K, ..., Bergman B, Venter JC
mSystems 2 (1) - [2017-02-14; online 2017-02-14]
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Fasterius E, Raso C, Kennedy S, ..., Uhlén M, Al-Khalili Szigyarto C
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Genetic and Functional Study of L-Type Amino Acid Transporter 1 in Schizophrenia.
Comasco E, Vumma R, Toffoletto S, ..., Jönsson EG, Venizelos N
Neuropsychobiology 74 (2) 96-103 [2017-02-11; online 2017-02-11]
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Detection of Somatic Mutations in Gastroenteropancreatic Neuroendocrine Tumors Using Targeted Deep Sequencing
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AR 37 (2) 705-712 [2017-02-10; online 2017-02-10]
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microRNAs with AAGUGC seed motif constitute an integral part of an oncogenic signaling network.
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Oncogene 36 (6) 731-745 [2017-02-09; online 2016-08-01]
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Rare and low-frequency coding variants alter human adult height.
Marouli E, Graff M, Medina-Gomez C, ..., Deloukas P, Lettre G
Nature 542 (7640) 186-190 [2017-02-09; online 2017-02-01]
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IL-8 predicts early mortality in patients with acute hypercapnic respiratory failure treated with noninvasive positive pressure ventilation.
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Cell Discov 3 (1) 16052 [2017-02-07; online 2017-02-07]
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The Arabidopsis bZIP11 transcription factor links low-energy signalling to auxin-mediated control of primary root growth
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PLoS Genet. 13 (2) e1006607 [2017-02-03; online 2017-02-03]
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Samad MS, Bertilsson S
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Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Posttranscriptional Regulation in Adenovirus Infected Cells.
Zhao H, Konzer A, Mi J, ..., Pettersson U, Lind SB
J. Proteome Res. 16 (2) 872-888 [2017-02-03; online 2016-12-13]
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Photochemically Induced Aryl Azide Rearrangement: Solution NMR Spectroscopic Identification of the Rearrangement Product
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J. Org. Chem. 82 (3) 1812-1816 [2017-02-03; online 2017-01-23]
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Drug Discovery and Development (DDD) [Technology development]
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Endocrinology 158 (2) 239-251 [2017-02-01; online 2016-12-03]
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Schou MF, Kristensen TN, Pedersen A, ..., Loeschcke V, Malmendal A
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Swedish NMR Centre (SNC) [Collaborative]
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Sennblad B, Basu S, Mazur J, ..., Trégouët DA, Sabater-Lleal M
Hum. Mol. Genet. 26 (3) 637-649 [2017-02-01; online 2017-01-06]
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Boles U, Pinto RC, David S, Abdullah AS, Henein MY
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Gianfrancesco MA, Glymour MM, Walter S, ..., Alfredsson L, Barcellos LF
Am. J. Epidemiol. 185 (3) 162-171 [2017-02-01; online 2017-01-12]
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Whole-Genome Sequencing of Cytogenetically Balanced Chromosome Translocations Identifies Potentially Pathological Gene Disruptions and Highlights the Importance of Microhomology in the Mechanism of Formation.
Nilsson D, Pettersson M, Gustavsson P, ..., Carvalho CMB, Lindstrand A
Hum. Mutat. 38 (2) 180-192 [2017-02-00; online 2016-12-05]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Abrouk M, Balcárková B, Šimková H, ..., Doležel J, Valárik M
Plant Biotechnol. J. 15 (2) 249-256 [2017-02-00; online 2016-08-12]
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Targeting SAMHD1 with the Vpx protein to improve cytarabine therapy for hematological malignancies.
Herold N, Rudd SG, Ljungblad L, ..., Helleday T, Schaller T
Nat. Med. 23 (2) 256-263 [2017-02-00; online 2017-01-09]
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PCSK9 genetic variants and risk of type 2 diabetes: a mendelian randomisation study.
Schmidt AF, Swerdlow DI, Holmes MV, ..., UCLEB consortium , Sattar N
Lancet Diabetes Endocrinol 5 (2) 97-105 [2017-02-00; online 2016-12-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Opioid precursor protein isoform is targeted to the cell nuclei in the human brain.
Kononenko O, Bazov I, Watanabe H, ..., Yakovleva T, Bakalkin G
Biochimica et Biophysica Acta (BBA) - General Subjects 1861 (2) 246-255 [2017-02-00; online 2016-11-10]
Fluorescence Tissue Profiling [Collaborative]
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Novel seminal fluid proteins in the seed beetle Callosobruchus maculatus identified by a proteomic and transcriptomic approach.
Bayram H, Sayadi A, Goenaga J, Immonen E, Arnqvist G
Insect Mol. Biol. 26 (1) 58-73 [2017-02-00; online 2016-10-24]
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Molecular interrogation of hypothalamic organization reveals distinct dopamine neuronal subtypes.
Romanov RA, Zeisel A, Bakker J, ..., Horvath TL, Harkany T
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Fluorescence Tissue Profiling [Collaborative]
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Celepli N, Sundh J, Ekman M, ..., Bergman B, Ininbergs K
Environ. Microbiol. 19 (2) 673-686 [2017-02-00; online 2017-01-27]
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Massive parallel sequencing questions the pathogenic role of missense variants in dilated cardiomyopathy
Dalin MG, Engström PG, Ivarsson EG, ..., Andersson B, Bergo MO
International Journal of Cardiology 228 (-) 742-748 [2017-02-00; online 2017-02-00]
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Identification of new TRIP12 variants and detailed clinical evaluation of individuals with non-syndromic intellectual disability with or without autism.
Bramswig NC, Lüdecke HJ, Pettersson M, ..., Kleefstra T, Wieczorek D
Hum. Genet. 136 (2) 179-192 [2017-02-00; online 2016-11-15]
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Genetic and Targeted eQTL Mapping Reveals Strong Candidate Genes Modulating the Stress Response During Chicken Domestication
Fallahsharoudi A, de Kock N, Johnsson M, ..., Wright D, Jensen P
G3 (Bethesda) 7 (2) 497-504 [2017-02-00; online 2016-12-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Evolution of bird genomes-a transposon's-eye view.
Kapusta A, Suh A
Ann. N. Y. Acad. Sci. 1389 (1) 164-185 [2017-02-00; online 2016-12-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Evidence for three genetic loci involved in both anorexia nervosa risk and variation of body mass index.
Hinney A, Kesselmeier M, Jall S, ..., Müller TD, Hebebrand J
Mol. Psychiatry 22 (2) 192-201 [2017-02-00; online 2016-05-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Effects of microbe- and mussel-based diets on the gut microbiota in Arctic charr ( Salvelinus alpinus )
Nyman A, Huyben D, Lundh T, Dicksved J
Aquaculture Reports 5 (-) 34-40 [2017-02-00; online 2017-02-00]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Distinct global binding patterns of the Wilms tumor gene 1 (WT1) -KTS and +KTS isoforms in leukemic cells.
Ullmark T, Järvstråt L, Sandén C, ..., Nilsson B, Gullberg U
Haematologica 102 (2) 336-345 [2017-02-00; online 2016-09-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Defense Responses in Aspen with Altered Pectin Methylesterase Activity Reveal the Hormonal Inducers of Tyloses
Leśniewska J, Öhman D, Krzesłowska M, ..., Moritz T, Mellerowicz EJ
Plant Physiol. 173 (2) 1409-1419 [2017-02-00; online 2016-12-06]
Swedish Metabolomics Centre (SMC) [Service]
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Complement peptide C3a stimulates neural plasticity after experimental brain ischaemia.
Stokowska A, Atkins AL, Morán J, ..., Dragunow M, Pekna M
Brain 140 (2) 353-369 [2017-02-00; online 2016-12-12]
Integrated Microscopy Technologies Gothenburg [Service]
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Characterization of Glycan Structures of Chondroitin Sulfate-Glycopeptides Facilitated by Sodium Ion-Pairing and Positive Mode LC-MS/MS.
Nilsson J, Noborn F, Gomez Toledo A, ..., Sihlbom C, Larson G
J. Am. Soc. Mass Spectrom. 28 (2) 229-241 [2017-02-00; online 2016-11-21]
Glycoproteomics and MS Proteomics [Technology development]
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Associations of defect mismatch repair genes with prognosis and heredity in sporadic colorectal cancer.
Ghanipour L, Jirström K, Sundström M, Glimelius B, Birgisson H
Eur J Surg Oncol 43 (2) 311-321 [2017-02-00; online 2016-11-12]
Tissue Profiling [Service]
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Activation of myeloid and endothelial cells by CD40L gene therapy supports T-cell expansion and migration into the tumor microenvironment
Eriksson E, Moreno R, Milenova I, ..., Alemany R, Loskog A
Gene Ther 24 (2) 92-103 [2017-02-00; online 2016-12-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A meta-analysis of reflux genome-wide association studies in 6750 Northern Europeans from the general population.
Bonfiglio F, Hysi PG, Ek W, ..., Schmidt PT, D'Amato M
Neurogastroenterol. Motil. 29 (2) - [2017-02-00; online 2016-08-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Towards encoded particles for highly multiplexed colorimetric point of care autoantibody detection.
Svedberg G, Jeong Y, Na H, ..., Gantelius J, Svahn HA
Lab Chip 17 (3) 549-556 [2017-01-31; online 2017-01-20]
Autoimmunity and Serology Profiling [Service]
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Genomic analysis reveals major determinants of cis-regulatory variation in Capsella grandiflora.
Steige KA, Laenen B, Reimegård J, Scofield DG, Slotte T
Proc. Natl. Acad. Sci. U.S.A. 114 (5) 1087-1092 [2017-01-31; online 2017-01-17]
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Copper chaperone Atox1 plays role in breast cancer cell migration.
Blockhuys S, Wittung-Stafshede P
Biochem. Biophys. Res. Commun. 483 (1) 301-304 [2017-01-29; online 2016-12-24]
Integrated Microscopy Technologies Gothenburg [Service]
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Polyoxygenated Cyclohexenes and Other Constituents of Cleistochlamys kirkii Leaves
Nyandoro SS, Munissi JJE, Gruhonjic A, ..., Rissanen K, Erdélyi M
J. Nat. Prod. 80 (1) 114-125 [2017-01-27; online 2016-12-21]
Swedish NMR Centre (SNC) [Service]
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Draft Genome Sequences of Semiconstitutive Red, Dry, and Rough Biofilm-Forming Commensal and Uropathogenic Escherichia coli Isolates.
Cimdins A, Lüthje P, Li F, ..., Brauner A, Römling U
Genome Announc 5 (4) - [2017-01-26; online 2017-01-26]
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Cell Cycle and Cell Size Dependent Gene Expression Reveals Distinct Subpopulations at Single-Cell Level.
Dolatabadi S, Candia J, Akrap N, ..., Åman P, Ståhlberg A
Front Genet 8 (-) 1 [2017-01-25; online 2017-01-25]
Integrated Microscopy Technologies Gothenburg [Service]
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In vitro and in vivo anti-leukemic activity of the peptidase-potentiated alkylator melflufen in acute myeloid leukemia.
Strese S, Hassan SB, Velander E, ..., Larsson R, Gullbo J
Oncotarget 8 (4) 6341-6352 [2017-01-24; online 2016-12-16]
Drug Discovery and Development (DDD) [Service]
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Early onset of inflammation during ontogeny of bipolar disorder: the NLRP2 inflammasome gene distinctly differentiates between patients and healthy controls in the transition between iPS cell and neural stem cell stages
Vizlin-Hodzic D, Zhai Q, Illes S, ..., Ågren H, Funa K
Transl Psychiatry 7 (1) e1010 [2017-01-24; online 2017-01-24]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Vimentin Levels and Serine 71 Phosphorylation in the Control of Cell-Matrix Adhesions, Migration Speed, and Shape of Transformed Human Fibroblasts
Terriac E, Coceano G, Mavajian Z, ..., Lautenschläger F, Gad A
Cells 6 (1) 2 [2017-01-22; online 2017-01-22]
Integrated Microscopy Technologies Stockholm [Service]
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Meta-Analysis of Genome-Wide Association Studies for Abdominal Aortic Aneurysm Identifies Four New Disease-Specific Risk Loci.
Jones GT, Tromp G, Kuivaniemi H, ..., Samani NJ, Bown MJ
Circ. Res. 120 (2) 341-353 [2017-01-20; online 2016-12-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Novel genetic loci associated with hippocampal volume.
Hibar DP, Adams HH, Jahanshad N, ..., Thompson PM, Ikram MA
Nat Commun 8 (-) 13624 [2017-01-18; online 2017-01-18]
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Perivascular PDGFR-β is an independent marker for prognosis in renal cell carcinoma.
Frödin M, Mezheyeuski A, Corvigno S, ..., Johansson M, Östman A
Br. J. Cancer 116 (2) 195-201 [2017-01-17; online 2016-12-09]
Tissue Profiling [Service]
PubMed DOI Crossref
A methylome-wide mQTL analysis reveals associations of methylation sites with GAD1 and HDAC3 SNPs and a general psychiatric risk score.
Ciuculete DM, Boström AE, Voisin S, ..., Mwinyi J, Schiöth HB
Transl Psychiatry 7 (1) e1002 [2017-01-17; online 2017-01-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
NLK-mediated phosphorylation of HDAC1 negatively regulates Wnt signaling.
Masoumi KC, Daams R, Sime W, ..., Levander F, Massoumi R
Mol. Biol. Cell 28 (2) 346-355 [2017-01-15; online 2016-11-30]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Identification of endoribonuclease specific cleavage positions reveals novel targets of RNase III inStreptococcus pyogenes
Le Rhun A, Lécrivain AL, Reimegård J, ..., Della Beffa C, Charpentier E
Nucleic Acids Res - (-) gkw1316 [2017-01-12; online 2017-01-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Asgard archaea illuminate the origin of eukaryotic cellular complexity
Zaremba-Niedzwiedzka K, Caceres EF, Saw JH, ..., Spang A, Ettema TJG
Nature 541 (7637) 353-358 [2017-01-11; online 2017-01-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Proteomic analysis of enterotoxigenic Escherichia coli (ETEC) in neutral and alkaline conditions.
Gonzales-Siles L, Karlsson R, Kenny D, Karlsson A, Sjöling Å
BMC Microbiol. 17 (1) 11 [2017-01-07; online 2017-01-07]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Identification of a Novel Autoimmune Peptide Epitope of Prostein in Prostate Cancer.
Pin E, Henjes F, Hong MG, ..., Nilsson P, Schwenk JM
J. Proteome Res. 16 (1) 204-216 [2017-01-06; online 2016-10-05]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Antibody Validation in Bioimaging Applications Based on Endogenous Expression of Tagged Proteins.
Skogs M, Stadler C, Schutten R, ..., Uhlén M, Lundberg E
J. Proteome Res. 16 (1) 147-155 [2017-01-06; online 2016-10-12]
Spatial Proteomics [Technology development]
PubMed DOI Crossref
Single-Cell Analysis Reveals a Close Relationship between Differentiating Dopamine and Subthalamic Nucleus Neuronal Lineages.
Kee N, Volakakis N, Kirkeby A, ..., Parmar M, Perlmann T
Cell Stem Cell 20 (1) 29-40 [2017-01-05; online 2016-10-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Proteomic analyses of limbic regions in neonatal male, female and androgen receptor knockout mice.
Zettergren A, Karlsson S, Studer E, ..., Sihlbom C, Westberg L
BMC Neurosci 18 (1) 9 [2017-01-05; online 2017-01-05]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Mapping eQTLs with RNA-seq reveals novel susceptibility genes, non-coding RNAs and alternative-splicing events in systemic lupus erythematosus
Odhams CA, Cortini A, Chen L, ..., Vyse TJ, Cunninghame Graham DS
Hum. Mol. Genet. - (-) ddw417 [2017-01-05; online 2017-01-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Imputation-Based Fine-Mapping Suggests That Most QTL in an Outbred Chicken Advanced Intercross Body Weight Line Are Due to Multiple, Linked Loci.
Brandt M, Ahsan M, Honaker CF, Siegel PB, Carlborg Ö
G3 (Bethesda) 7 (1) 119-128 [2017-01-05; online 2017-01-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A systematic search strategy identifies cubilin as independent prognostic marker for renal cell carcinoma.
Gremel G, Djureinovic D, Niinivirta M, ..., Stewart GD, Pontén F
BMC Cancer 17 (1) 9 [2017-01-04; online 2017-01-04]
Tissue Profiling [Technology development]
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Profile of upregulated inflammatory proteins in sera of Myasthenia Gravis patients.
Molin CJ, Westerberg E, Punga AR
Sci Rep 7 (1) 39716 [2017-01-03; online 2017-01-03]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Small Molecule Microarray Based Discovery of PARP14 Inhibitors
Peng B, Thorsell AG, Karlberg T, Schüler H, Yao SQ
Angew. Chem. Int. Ed. 56 (1) 248-253 [2017-01-02; online 2016-12-05]
Protein Science Facility (PSF) [Service]
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Epigenetic changes as prognostic predictors in endometrial carcinomas.
Farkas SA, Sorbe BG, Nilsson TK
Epigenetics 12 (1) 19-26 [2017-01-02; online 2016-11-23]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Comprehensive RNA sequencing of healthy human endometrium at two time points of the menstrual cycle.
Sigurgeirsson B, Åmark H, Jemt A, ..., Lundeberg J, Gidlöf S
Biol. Reprod. 96 (1) 24-33 [2017-01-01; online 2017-04-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
cis-Cinnamic Acid Is a Novel, Natural Auxin Efflux Inhibitor That Promotes Lateral Root Formation
Steenackers W, Klíma P, Quareshy M, ..., Boerjan W, Vanholme B
Plant Physiol. 173 (1) 552-565 [2017-01-00; online 2016-11-11]
Swedish Metabolomics Centre (SMC) [Service]
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VAV1 regulates experimental autoimmune arthritis and is associated with anti-CCP negative rheumatoid arthritis.
Guerreiro-Cacais AO, Norin U, Gyllenberg A, ..., Kockum I, Padyukov L
Genes Immun. 18 (1) 48-56 [2017-01-00; online 2017-01-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SHADE AVOIDANCE 4 Is Required for Proper Auxin Distribution in the Hypocotyl
Ge Y, Yan F, Zourelidou M, ..., Schwechheimer C, Tao Y
Plant Physiol. 173 (1) 788-800 [2017-01-00; online 2016-11-21]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Rye B chromosomes encode a functional Argonaute-like protein with in vitro slicer activities similar to its A chromosome paralog.
Ma W, Gabriel TS, Martis MM, ..., Banaei-Moghaddam AM, Houben A
New Phytol. 213 (2) 916-928 [2017-01-00; online 2016-07-29]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
DOI Crossref
P1.02-063 Mutation Profiling by Targeted Next-Generation Sequencing of an Unselected NSCLC Cohort
La Fleur L, Falk-Sorqvist E, Smeds P, ..., Moens L, Botling J
Journal of Thoracic Oncology 12 (1) S526-S527 [2017-01-00; online 2017-01-00]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Multiethnic genome-wide meta-analysis of ectopic fat depots identifies loci associated with adipocyte development and differentiation.
Chu AY, Deng X, Fisher VA, ..., Steinhauser ML, Fox CS
Nat. Genet. 49 (1) 125-130 [2017-01-00; online 2016-12-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Meta-GWAS Accuracy and Power (MetaGAP) Calculator Shows that Hiding Heritability Is Partially Due to Imperfect Genetic Correlations across Studies.
de Vlaming R, Okbay A, Rietveld CA, ..., Thurik AR, Koellinger PD
PLoS Genet. 13 (1) e1006495 [2017-01-00; online 2017-01-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Investigating kinship of Neolithic post-LBK human remains from Krusza Zamkowa, Poland using ancient DNA.
Juras A, Chyleński M, Krenz-Niedbała M, ..., Jakobsson M, Dabert M
Forensic Sci Int Genet 26 (-) 30-39 [2017-01-00; online 2016-10-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of two distinct mesenchymal stromal cell populations in human malignant glioma.
Svensson A, Ramos-Moreno T, Eberstål S, Scheding S, Bengzon J
J. Neurooncol. 131 (2) 245-254 [2017-01-00; online 2016-10-18]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Human immune system variation.
Brodin P, Davis MM
Nat. Rev. Immunol. 17 (1) 21-29 [2017-01-00; online 2016-12-05]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Genetic and methylation variation in the CYP2B6 gene is related to circulating p,p'-dde levels in a population-based sample.
Lind L, Ng E, Ingelsson E, ..., Morris AP, Lind PM
Environ Int 98 (-) 212-218 [2017-01-00; online 2016-11-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Expression of possible targets for new proteasome inhibitors in diffuse large B-cell lymphoma.
Delforoush M, Berglund M, Edqvist PH, ..., Gullbo J, Enblad G
Eur. J. Haematol. 98 (1) 52-56 [2017-01-00; online 2016-07-12]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Expression of Transient Receptor Potential Channels in the Purified Human Pancreatic β-Cells.
Marabita F, Islam MS
Pancreas 46 (1) 97-101 [2017-01-00; online 2016-07-29]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Evolutionary engineering reveals divergent paths when yeast is adapted to different acidic environments.
Fletcher E, Feizi A, Bisschops MMM, ..., Siewers V, Nielsen J
Metab. Eng. 39 (-) 19-28 [2017-01-00; online 2016-11-02]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Epigenetic Patterns in Blood Associated With Lipid Traits Predict Incident Coronary Heart Disease Events and Are Enriched for Results From Genome-Wide Association Studies.
Hedman ÅK, Mendelson MM, Marioni RE, ..., Levy D, Ingelsson E
Circ Cardiovasc Genet 10 (1) - [2017-01-00; online 2017-02-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Emerging microbiota during cold storage and temperature abuse of ready-to-eat salad​
Söderqvist K, Ahmed Osman O, Wolff C, ..., Vågsholm I, Boqvist S
Infect Ecol Epidemiol 7 (1) 1328963 [2017-01-00; online 2017-06-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Elevated levels of circulating CDH5 and FABP1 in association with human drug-induced liver injury.
Mikus M, Drobin K, Gry M, ..., Nilsson P, Schuppe-Koistinen I
Liver Int. 37 (1) 132-140 [2017-01-00; online 2016-05-26]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Deep Fish: Deep Learning–Based Classification of Zebrafish Deformation for High-Throughput Screening
Ishaq O, Sadanandan SK, Wählby C
SLAS DISCOVERY: Advancing Life Sciences R&D 22 (1) 102-107 [2017-01-00; online 2016-09-26]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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Contribution of different dispersal sources to the metabolic response of lake bacterioplankton following a salinity change.
Comte J, Langenheder S, Berga M, Lindström ES
Environ. Microbiol. 19 (1) 251-260 [2017-01-00; online 2016-11-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Contribution of copy number variants to schizophrenia from a genome-wide study of 41,321 subjects.
Marshall CR, Howrigan DP, Merico D, ..., Sebat J, CNV and Schizophrenia Working Groups of the Psychiatric Genomics Consortium
Nat. Genet. 49 (1) 27-35 [2017-01-00; online 2016-11-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Both maternal and offspring Elovl2 genotypes determine systemic DHA levels in perinatal mice.
Pauter AM, Trattner S, Gonzalez-Bengtsson A, ..., Dethlefsen O, Jacobsson A
J. Lipid Res. 58 (1) 111-123 [2017-01-00; online 2016-11-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Association of Body Mass Index with DNA Methylation and Gene Expression in Blood Cells and Relations to Cardiometabolic Disease: A Mendelian Randomization Approach.
Mendelson MM, Marioni RE, Joehanes R, ..., Levy D, Deary IJ
PLoS Med. 14 (1) e1002215 [2017-01-00; online 2017-01-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A multi-step peptidolytic cascade for amino acid recovery in chloroplasts.
Teixeira PF, Kmiec B, Branca RM, ..., Lehtiö J, Glaser E
Nat. Chem. Biol. 13 (1) 15-17 [2017-01-00; online 2016-10-31]
Clinical Proteomics Mass spectrometry [Collaborative] Global Proteomics and Proteogenomics [Collaborative] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
A combined large-scale meta-analysis identifies COG6 as a novel shared risk locus for rheumatoid arthritis and systemic lupus erythematosus.
Márquez A, Vidal-Bralo L, Rodríguez-Rodríguez L, ..., Alarcón-Riquelme ME, Martín J
Ann. Rheum. Dis. 76 (1) 286-294 [2017-01-00; online 2016-05-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The 15N NMR chemical shift in the characterization of weak halogen bonding in solution
Hakkert SB, Gräfenstein J, Erdelyi M
Faraday Discuss. 203 (-) 333-346 [2017-00-00; online 2017-00-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Synthesis of phenanthridine spiropyrans and studies of their effects on G-quadruplex DNA
Livendahl M, Jamroskovic J, Hedenström M, ..., Sabouri N, Chorell E
Org. Biomol. Chem. 15 (15) 3265-3275 [2017-00-00; online 2017-00-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Lysozyme's lectin-like characteristics facilitates its immune defense function
Zhang R, Wu L, Eckert T, ..., Nifantiev NE, Siebert HC
Quart. Rev. Biophys. 50 (-) - [2017-00-00; online 2017-05-30]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Low Rank Enhanced Matrix Recovery of Hybrid Time and Frequency Data in Fast Magnetic Resonance Spectroscopy
Lu H, Zhang X, Qiu T, ..., Chen Z, Qu X
IEEE Trans. Biomed. Eng. - (-) 1-1 [2017-00-00; online 2017-00-00]
Swedish NMR Centre (SNC) [Service]
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Favored surface-limited oxidation of cellulose with Oxone® in water
Ruan CQ, Strømme M, Mihranyan A, Lindh J
RSC Adv. 7 (64) 40600-40607 [2017-00-00; online 2017-00-00]
Swedish NMR Centre (SNC) [Service]
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Differential Neuroprotective Effects of Interleukin-1 Receptor Antagonist on Spinal Cord Neurons after Excitotoxic Injury
Schizas N, Perry S, Andersson B, ..., Kullander K, Hailer NP
Neuroimmunomodulation 24 (4-5) 220-230 [2017-00-00; online 2018-01-26]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service]
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Decoding Gene Expression in 2D and 3D
Bombrun M, Ranefall P, Lindblad J, ..., Nilsson M, Wählby C
Scandinavian Conference on Image Analysis 2017 - (-) 257-268 [2017-00-00; online 2017-05-19]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Achieving enhanced ionic mobility in nanoporous silica by controlled surface interactions
Garaga MN, Aguilera L, Yaghini N, ..., Persson M, Martinelli A
Phys. Chem. Chem. Phys. 19 (8) 5727-5736 [2017-00-00; online 2017-00-00]
Swedish NMR Centre (SNC) [Service]
DOI Crossref
A Fast Low Rank Hankel Matrix Factorization Reconstruction Method for Non-Uniformly Sampled Magnetic Resonance Spectroscopy
Guo D, Lu H, Qu X
IEEE Access 5 (-) 16033-16039 [2017-00-00; online 2017-00-00]
Swedish NMR Centre (SNC) [Service]
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124 CHANGES IN GENE EXPRESSION FOLLOWING EXPOSURE OF BOVINE ENDOMETRIAL EPITHELIAL CELLS (bEEC) TO ESCHERICHIA COLI LPS; THEIR POSSIBLE EFFECT ON IMPLANTATION
Guo Y, Jahmat N, Van Shaik T, ..., Andersson G, Humblot P
Reprod. Fertil. Dev. 29 (1) 170 [2017-00-00; online 2017-00-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Zebrafish (Danio rerio) behaviour is largely unaffected by elevated pCO2.
Vossen LE, Jutfelt F, Cocco A, Thörnqvist P, Winberg S
Conserv Physiol 4 (1) cow065 [2016-12-29; online 2016-12-29]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Identification of Compounds that Selectively Stabilize Specific G-Quadruplex Structures by Using a Thioflavin T-Displacement Assay as a Tool.
Jamroskovic J, Livendahl M, Eriksson J, Chorell E, Sabouri N
Chemistry 22 (52) 18932-18943 [2016-12-23; online 2016-11-20]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Single-Nucleotide Polymorphisms and Cancer Risk, Tumor Recurrence, or Survival of Head and Neck Cancer Patients.
Laytragoon-Lewin N, Cederblad L, Andersson BÅ, ..., Löfgren S, Lewin F
Oncology 92 (3) 161-169 [2016-12-21; online 2016-12-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Identification of a Differentially Expressed TIR-NBS-LRR Gene in a Major QTL Associated to Leaf Rust Resistance in Salix.
Martin T, Rönnberg-Wästljung AC, Stenlid J, Samils B
PLoS ONE 11 (12) e0168776 [2016-12-21; online 2016-12-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A Combinatory Antibody-Antigen Microarray Assay for High-Content Screening of Single-Chain Fragment Variable Clones from Recombinant Libraries.
Persson N, Jansson B, Stuhr-Hansen N, ..., Danielsson L, Blixt O
PLoS ONE 11 (12) e0168761 [2016-12-21; online 2016-12-21]
Structural Proteomics [Service]
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Spontaneous Vesiculation and pH-Induced Disassembly of a Lysosomotropic Detergent: Impacts on Lysosomotropism and Lysosomal Delivery.
Villamil Giraldo AM, Fyrner T, Wennmalm S, ..., Öllinger K, Ederth T
Langmuir 32 (50) 13566-13575 [2016-12-20; online 2016-12-13]
Fluorescence Correlation Spectroscopy [Collaborative] Integrated Microscopy Technologies Stockholm
PubMed DOI Crossref
Production of individualized V gene databases reveals high levels of immunoglobulin genetic diversity.
Corcoran MM, Phad GE, Néstor VB, ..., Martin M, Karlsson Hedestam GB
Nat Commun 7 (-) 13642 [2016-12-20; online 2016-12-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Human IgM Antibodies to Malondialdehyde Conjugated With Albumin Are Negatively Associated With Cardiovascular Disease Among 60-Year-Olds.
Thiagarajan D, Frostegård AG, Singh S, ..., Lundström SL, Frostegård J
J Am Heart Assoc 5 (12) - [2016-12-20; online 2016-12-20]
Chemical Proteomics [Collaborative]
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Regio- and Stereoselective Alkylation of Pyridine-N-oxides: Synthesis of Substituted Piperidines and Pyridines
Barange DK, Johnson MT, Cairns AG, Olsson R, Almqvist F
Org. Lett. 18 (24) 6228-6231 [2016-12-16; online 2016-11-28]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Transposon Mutagenesis Reveals Fludarabine Resistance Mechanisms in Chronic Lymphocytic Leukemia.
Pandzic T, Larsson J, He L, ..., Sjöblom T, Hellström M
Clin. Cancer Res. 22 (24) 6217-6227 [2016-12-15; online 2016-03-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Novel SACS mutations associated with intellectual disability, epilepsy and widespread supratentorial abnormalities.
Ali Z, Klar J, Jameel M, ..., Baig S, Dahl N
J. Neurol. Sci. 371 (-) 105-111 [2016-12-15; online 2016-11-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Ionization of Cellobiose in Aqueous Alkali and the Mechanism of Cellulose Dissolution.
Bialik E, Stenqvist B, Fang Y, ..., Lund M, Bernin D
J Phys Chem Lett 7 (24) 5044-5048 [2016-12-15; online 2016-11-29]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Genome-wide association study of caffeine metabolites provides new insights to caffeine metabolism and dietary caffeine-consumption behavior.
Cornelis MC, Kacprowski T, Menni C, ..., Grabe HJ, Ingelsson E
Hum. Mol. Genet. 25 (24) 5472-5482 [2016-12-15; online 2016-10-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic Variants in CHIA and CHI3L1 Are Associated with the IgE Response to the Ascaris Resistance Marker ABA-1 and the Birch Pollen Allergen Bet v 1.
Acevedo N, Bornacelly A, Mercado D, ..., Scheynius A, Caraballo L
PLoS ONE 11 (12) e0167453 [2016-12-15; online 2016-12-15]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Disentangling genetic and epigenetic determinants of ultrafast adaptation.
Gjuvsland AB, Zörgö E, Samy JK, ..., Omholt SW, Warringer J
Mol. Syst. Biol. 12 (12) 892 [2016-12-15; online 2016-12-15]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Aspen phenylpropanoid genes’ expression levels correlate with genets’ tannin richness and vary both in responses to soil nitrogen and associations with phenolic profiles
Decker VHG, Bandau F, Gundale MJ, Cole CT, Albrectsen BR
Tree Physiol - (-) - [2016-12-15; online 2016-12-15]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
The protein phosphatase 2A regulatory subunit PR70 is a gonosomal melanoma tumor suppressor gene.
van Kempen LC, Redpath M, Elchebly M, ..., Feunteun J, Spatz A
Sci Transl Med 8 (369) 369ra177 [2016-12-14; online 2016-12-16]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
TRPM8 polymorphisms associated with increased risk of IBS-C and IBS-M.
Henström M, Hadizadeh F, Beyder A, ..., Farrugia G, D'Amato M
Gut - (-) - [2016-12-14; online 2016-12-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The In Vitro Stability of Circulating Tumour DNA.
Henao Diaz E, Yachnin J, Grönberg H, Lindberg J
PLoS ONE 11 (12) e0168153 [2016-12-13; online 2016-12-13]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Clonal Variation in Drug and Radiation Response among Glioma-Initiating Cells Is Linked to Proneural-Mesenchymal Transition.
Segerman A, Niklasson M, Haglund C, ..., Segerman B, Westermark B
Cell Rep 17 (11) 2994-3009 [2016-12-13; online 2016-12-16]
Drug Discovery and Development (DDD) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Serum Autoantibody Profiling of Patients with Paraneoplastic and Non-Paraneoplastic Autoimmune Retinopathy.
Ten Berge JC, van Rosmalen J, Vermeer J, ..., Rothova A, Schreurs MW
PLoS ONE 11 (12) e0167909 [2016-12-08; online 2016-12-08]
Autoimmunity and Serology Profiling [Collaborative] Tissue Profiling [Collaborative]
PubMed DOI Crossref
PDGFB, a new candidate plasma biomarker for venous thromboembolism: results from the VEREMA affinity proteomics study.
Bruzelius M, Iglesias MJ, Hong MG, ..., Trégouët DA, Odeberg J
Blood 128 (23) e59-e66 [2016-12-08; online 2016-10-14]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Frequent NFKBIE deletions are associated with poor outcome in primary mediastinal B-cell lymphoma.
Mansouri L, Noerenberg D, Young E, ..., Rosenquist R, Damm F
Blood 128 (23) 2666-2670 [2016-12-08; online 2016-09-26]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
An oxygen-sensitive toxin-antitoxin system.
Marimon O, Teixeira JM, Cordeiro TN, ..., Wood TK, Pons M
Nat Commun 7 (-) 13634 [2016-12-08; online 2016-12-08]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Iron chelators target both proliferating and quiescent cancer cells.
Fryknäs M, Zhang X, Bremberg U, ..., Linder S, Larsson R
Sci Rep 6 (-) 38343 [2016-12-07; online 2016-12-07]
Drug Discovery and Development (DDD) [Service]
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Cluster Flow: A user-friendly bioinformatics workflow tool.
Ewels P, Krueger F, Käller M, Andrews S
F1000Res 5 (-) 2824 [2016-12-06; online 2016-12-06]
NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
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A genetic risk score composed of rheumatoid arthritis risk alleles, HLA-DRB1 haplotypes, and response to TNFi therapy - results from a Swedish cohort study.
Jiang X, Askling J, Saevarsdottir S, ..., Viatte S, Frisell T
Arthritis Res. Ther. 18 (1) 288 [2016-12-03; online 2016-12-03]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Viral Metagenomic Analysis Displays the Co-Infection Situation in Healthy and PMWS Affected Pigs.
Blomström AL, Fossum C, Wallgren P, Berg M
PLoS ONE 11 (12) e0166863 [2016-12-01; online 2016-12-01]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Quantitative and Selective Analysis of Feline Growth Related Proteins Using Parallel Reaction Monitoring High Resolution Mass Spectrometry.
Sundberg M, Strage EM, Bergquist J, Holst BS, Ramström M
PLoS ONE 11 (12) e0167138 [2016-12-01; online 2016-12-01]
Mass Spectrometry-based Proteomics, Uppsala [Technology development]
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Elucidating selection processes for antibiotic resistance in sewage treatment plants using metagenomics.
Bengtsson-Palme J, Hammarén R, Pal C, ..., Tysklind M, Larsson DG
Sci. Total Environ. 572 (-) 697-712 [2016-12-01; online 2016-08-21]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Validation and development of MTH1 inhibitors for treatment of cancer.
Warpman Berglund U, Sanjiv K, Gad H, ..., Scobie M, Helleday T
Ann. Oncol. 27 (12) 2275-2283 [2016-12-00; online 2016-11-08]
Advanced Mass Spectrometry Proteomics [Collaborative] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Chemical Biology Consortium Sweden (CBCS) [Collaborative] Chemical Proteomics [Service] Clinical Proteomics Mass spectrometry [Collaborative] Drug Discovery and Development (DDD) [Collaborative]
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Using 2D NMR to characterize the structure of the low and high molecular weight fractions of bio-oil obtained from LignoBoost™ kraft lignin depolymerized in subcritical water
Mattsson C, Andersson SI, Belkheiri T, ..., Vamling L, Theliander H
Biomass and Bioenergy 95 (-) 364-377 [2016-12-00; online 2016-12-00]
Swedish NMR Centre (SNC) [Service]
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The disappearing San of southeastern Africa and their genetic affinities.
Schlebusch CM, Prins F, Lombard M, Jakobsson M, Soodyall H
Hum. Genet. 135 (12) 1365-1373 [2016-12-00; online 2016-09-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The PLETHORA Gene Regulatory Network Guides Growth and Cell Differentiation in Arabidopsis Roots.
Santuari L, Sanchez-Perez GF, Luijten M, ..., Scheres B, Heidstra R
Plant Cell 28 (12) 2937-2951 [2016-12-00; online 2016-12-05]
Swedish Metabolomics Centre (SMC) [Service]
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Structural and conformational determinants of macrocycle cell permeability
Over B, Matsson P, Tyrchan C, ..., Duvall JR, Kihlberg J
Nat Chem Biol 12 (12) 1065-1074 [2016-12-00; online 2016-10-17]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
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Spatial subsidies in spider diets vary with shoreline structure: Complementary evidence from molecular diet analysis and stable isotopes.
Hambäck PA, Weingartner E, Dalén L, Wirta H, Roslin T
Ecol Evol 6 (23) 8431-8439 [2016-12-00; online 2016-10-26]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Regulation of amino-acid metabolism controls flux to lipid accumulation in Yarrowia lipolytica
Kerkhoven EJ, Pomraning KR, Baker SE, Nielsen J
npj Syst Biol Appl 2 (1) - [2016-12-00; online 2016-03-03]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Preclinical PET imaging of EGFR levels: pairing a targeting with a non-targeting Sel-tagged Affibody-based tracer to estimate the specific uptake.
Cheng Q, Wållberg H, Grafström J, ..., Ståhl S, Sel-tag imaging project
EJNMMI Res 6 (1) 58 [2016-12-00; online 2016-07-07]
Affinity Proteomics Uppsala [Service] PLA and Single Cell Proteomics [Service]
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Novel genetic loci underlying human intracranial volume identified through genome-wide association.
Adams HH, Hibar DP, Chouraki V, ..., Ikram MA, Thompson PM
Nat. Neurosci. 19 (12) 1569-1582 [2016-12-00; online 2016-11-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Genome-wide analysis identifies 12 loci influencing human reproductive behavior.
Barban N, Jansen R, de Vlaming R, ..., Snieder H, Mills MC
Nat. Genet. 48 (12) 1462-1472 [2016-12-00; online 2016-11-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Extended exome sequencing identifies BACH2 as a novel major risk locus for Addison's disease.
Eriksson D, Bianchi M, Landegren N, ..., Kämpe O, Pielberg GR
J. Intern. Med. 280 (6) 595-608 [2016-12-00; online 2016-11-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Evolutionary History of the Nesophontidae, the Last Unplaced Recent Mammal Family.
Brace S, Thomas JA, Dalén L, ..., Barnes I, Turvey ST
Mol. Biol. Evol. 33 (12) 3095-3103 [2016-12-00; online 2016-09-15]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Early Perspective: Microplate Applications of the Cellular Thermal Shift Assay (CETSA)
Seashore-Ludlow B, Lundbäck T
J Biomol Screen 21 (10) 1019-1033 [2016-12-00; online 2016-07-20]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
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Distribution and expression of microbial rhodopsins in the Baltic Sea and adjacent waters.
Brindefalk B, Ekman M, Ininbergs K, ..., Pinhassi J, Bergman B
Environ. Microbiol. 18 (12) 4442-4455 [2016-12-00; online 2016-06-17]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Dissecting the Metabolic Role of Mitochondria during Developmental Leaf Senescence.
Chrobok D, Law SR, Brouwer B, ..., Gardeström P, Keech O
Plant Physiol. 172 (4) 2132-2153 [2016-12-00; online 2016-10-21]
Swedish Metabolomics Centre (SMC) [Service]
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Coetzeea brasiliensis gen. nov., sp. nov. isolated from larvae of Anopheles darlingi.
Kämpfer P, Glaeser SP, Marinotti O, ..., Busse HJ, Terenius O
Int. J. Syst. Evol. Microbiol. 66 (12) 5211-5217 [2016-12-00; online 2016-09-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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CSF profiling of the human brain enriched proteome reveals associations of neuromodulin and neurogranin to Alzheimer's disease.
Remnestål J, Just D, Mitsios N, ..., Nilsson P, Häggmark-Månberg A
Proteomics Clin Appl 10 (12) 1242-1253 [2016-12-00; online 2016-10-10]
Affinity Proteomics Stockholm [Collaborative] Fluorescence Tissue Profiling [Collaborative]
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Application of amide hydrogen/deuterium exchange mass spectrometry for epitope mapping in human cystatin C.
Prądzińska M, Behrendt I, Astorga-Wells J, ..., Rodziewicz-Motowidło S, Czaplewska P
Amino Acids 48 (12) 2809-2820 [2016-12-00; online 2016-08-29]
Advanced Mass Spectrometry Proteomics [Collaborative] Chemical Proteomics [Collaborative]
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A high-throughput functional genomics workflow based on CRISPR/Cas9-mediated targeted mutagenesis in zebrafish.
Varshney GK, Carrington B, Pei W, ..., Sood R, Burgess SM
Nat Protoc 11 (12) 2357-2375 [2016-12-00; online 2016-10-27]
Genome Engineering Zebrafish [Technology development]
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Identification and Characterization of Novel Compounds Blocking Shiga Toxin Expression in Escherichia coli O157:H7.
Huerta-Uribe A, Marjenberg ZR, Yamaguchi N, ..., Gally DL, Roe AJ
Front Microbiol 7 (-) 1930 [2016-11-30; online 2016-11-30]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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A stromal cell population in the large intestine identified by tissue factor expression that is lost during colorectal cancer progression.
Eriksson O, Asplund A, Hegde G, ..., Pontén F, Siegbahn A
Thromb. Haemost. 116 (6) 1050-1059 [2016-11-30; online 2016-09-22]
Tissue Profiling [Collaborative]
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Identification of Shared and Unique Serum Lipid Profiles in Diabetes Mellitus and Myocardial Infarction.
Kjellqvist S, Klose C, Surma MA, ..., Melander O, Fernandez C
J Am Heart Assoc 5 (12) e004503 [2016-11-29; online 2016-11-29]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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DNA methylation patterns associated with oxidative stress in an ageing population.
Hedman ÅK, Zilmer M, Sundström J, Lind L, Ingelsson E
BMC Med Genomics 9 (1) 72 [2016-11-25; online 2016-11-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Towards agile large-scale predictive modelling in drug discovery with flow-based programming design principles.
Lampa S, Alvarsson J, Spjuth O
J Cheminform 8 (-) 67 [2016-11-24; online 2016-11-24]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Phylogenetic Signals of Salinity and Season in Bacterial Community Composition Across the Salinity Gradient of the Baltic Sea.
Herlemann DP, Lundin D, Andersson AF, Labrenz M, Jürgens K
Front Microbiol 7 (-) 1883 [2016-11-24; online 2016-11-24]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Abnormal primary and permanent dentitions with ectodermal symptoms predict WNT10A deficiency.
Bergendal B, Norderyd J, Zhou X, Klar J, Dahl N
BMC Med. Genet. 17 (1) 88 [2016-11-24; online 2016-11-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A Consensus Genome-scale Reconstruction of Chinese Hamster Ovary Cell Metabolism.
Hefzi H, Ang KS, Hanscho M, ..., Lee DY, Lewis NE
Cell Syst 3 (5) 434-443.e8 [2016-11-23; online 2016-11-25]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The great spruce bark beetle (Dendroctonus micans Kug.) (Coleoptera: Scolytidae) in Lithuania: occurrence, phenology, morphology and communities of associated fungi.
Menkis A, Lynikienė J, Marčiulynas A, Gedminas A, Povilaitienė A
Bull. Entomol. Res. - (-) 1-8 [2016-11-22; online 2016-11-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A novel process of viral vector barcoding and library preparation enables high-diversity library generation and recombination-free paired-end sequencing.
Davidsson M, Diaz-Fernandez P, Schwich OD, ..., Wang G, Björklund T
Sci Rep 6 (-) 37563 [2016-11-22; online 2016-11-22]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A microarray whole-genome gene expression dataset in a rat model of inflammatory corneal angiogenesis.
Mukwaya A, Lindvall JM, Xeroudaki M, ..., Jensen LD, Lagali N
Sci Data 3 (-) 160103 [2016-11-22; online 2016-11-22]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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The endosomal transcriptional regulator RNF11 integrates degradation and transport of EGFR.
Scharaw S, Iskar M, Ori A, ..., Bork P, Pepperkok R
J. Cell Biol. 215 (4) 543-558 [2016-11-21; online 2016-11-08]
Spatial Proteomics [Collaborative]
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Functional variants in the sucrase-isomaltase gene associate with increased risk of irritable bowel syndrome.
Henström M, Diekmann L, Bonfiglio F, ..., Naim HY, D'Amato M
Gut - (-) - [2016-11-21; online 2016-11-21]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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ANLN is a prognostic biomarker independent of Ki-67 and essential for cell cycle progression in primary breast cancer.
Magnusson K, Gremel G, Rydén L, ..., Jirström K, Pontén F
BMC Cancer 16 (1) 904 [2016-11-18; online 2016-11-18]
Tissue Profiling [Technology development]
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Novel genetic loci associated with long-term deterioration in blood lipid concentrations and coronary artery disease in European adults.
Varga TV, Kurbasic A, Aine M, ..., Renström F, Franks PW
Int J Epidemiol - (-) - [2016-11-17; online 2016-11-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Large-Scale Gene Expression Profiling Platform for Identification of Context-Dependent Drug Responses in Multicellular Tumor Spheroids.
Senkowski W, Jarvius M, Rubin J, ..., Larsson R, Fryknäs M
Cell Chem Biol 23 (11) 1428-1438 [2016-11-17; online 2016-10-27]
Drug Discovery and Development (DDD) [Service] Tissue Profiling [Service]
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Complete Genome Sequence of an African Swine Fever Virus Isolate from Sardinia, Italy.
Granberg F, Torresi C, Oggiano A, ..., De Mia GM, Belák S
Genome Announc 4 (6) - [2016-11-17; online 2016-11-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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An automated approach to prepare tissue-derived spatially barcoded RNA-sequencing libraries.
Jemt A, Salmén F, Lundmark A, ..., Yucel-Lindberg T, Lundeberg J
Sci Rep 6 (-) 37137 [2016-11-16; online 2016-11-16]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Periostin is identified as a putative metastatic marker in breast cancer-derived exosomes.
Vardaki I, Ceder S, Rutishauser D, ..., Foukakis T, Panaretakis T
Oncotarget 7 (46) 74966-74978 [2016-11-15; online 2016-09-03]
Advanced Mass Spectrometry Proteomics [Collaborative]
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Nuclear Magnetic Resonance Structure and Mutational Analysis of the Lactococcin A Immunity Protein.
Kristiansen PE, Persson C, Fuochi V, ..., Nissen-Meyer J, Oppegård C
Biochemistry 55 (45) 6250-6257 [2016-11-15; online 2016-11-03]
Swedish NMR Centre (SNC) [Collaborative]
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Hyperelastic Nanocellulose-Reinforced Hydrogel of High Water Content for Ophthalmic Applications.
Tummala GK, Joffre T, Lopes VR, ..., Griffith M, Mihranyan A
ACS Biomater. Sci. Eng. 2 (11) 2072-2079 [2016-11-14; online 2016-10-18]
BioMaterial Interactions (BioMat) [Collaborative]
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Functional and Structural Characterization of a Novel HLA-DRB1*04:01-Restricted α-Enolase T Cell Epitope in Rheumatoid Arthritis.
Gerstner C, Dubnovitsky A, Sandin C, ..., Achour A, Malmström V
Front Immunol 7 (-) 494 [2016-11-14; online 2016-11-14]
Chemical Proteomics [Service]
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Study on genetic stability in human urothelial cells in vitro.
Chamorro CI, Zeiai S, Reinfeldt Engberg G, ..., Nordenskjöld A, Fossum M
J Tissue Eng Regen Med - (-) - [2016-11-12; online 2016-11-12]
Bioinformatics and Expression Analysis (BEA) [Service]
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Targeted high-throughput sequencing of candidate genes for chronic obstructive pulmonary disease.
Matsson H, Söderhäll C, Einarsdottir E, ..., Lundbäck B, Klar J
BMC Pulm Med 16 (1) 146 [2016-11-11; online 2016-11-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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DcR3, TFF3, and Midkine Are Novel Serum Biomarkers in Small Intestinal Neuroendocrine Tumors.
Edfeldt K, Daskalakis K, Bäcklin C, ..., Hellman P, Stålberg P
Neuroendocrinology 105 (2) 170-181 [2016-11-09; online 2016-11-09]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Catalytic Formation of Disulfide Bonds in Peptides by Molecularly Imprinted Microgels at Oil/Water Interfaces.
Shen X, Huang C, Shinde S, ..., Fritz E, Sellergren B
ACS Appl Mater Interfaces 8 (44) 30484-30491 [2016-11-09; online 2016-10-26]
Structural Proteomics [Service]
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Targeting SOX9 for degradation to inhibit chemoresistance, metastatic spread, and recurrence.
Suryo Rahmanto A, Swartling FJ, Sangfelt O
Mol Cell Oncol 4 (1) e1252871 [2016-11-08; online 2016-11-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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PROX1 is a novel pathway-specific prognostic biomarker for high-grade astrocytomas; results from independent glioblastoma cohorts stratified by age and IDH mutation status.
Roodakker KR, Elsir T, Edqvist PD, ..., Malmström A, Smits A
Oncotarget 7 (45) 72431-72442 [2016-11-08; online 2016-09-15]
Tissue Profiling [Collaborative]
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Flexibility is important for inhibition of the MDM2/p53 protein-protein interaction by cyclic β-hairpins.
Danelius E, Pettersson M, Bred M, ..., Grøtli M, Erdelyi M
Org. Biomol. Chem. 14 (44) 10386-10393 [2016-11-08; online 2016-10-13]
Swedish NMR Centre (SNC) [Service]
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Case-specific potentiation of glioblastoma drugs by pterostilbene.
Schmidt L, Baskaran S, Johansson P, ..., Krona C, Nelander S
Oncotarget 7 (45) 73200-73215 [2016-11-08; online 2016-10-01]
Drug Discovery and Development (DDD) [Collaborative]
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A metagenomic analysis displays the diverse microbial community of a vermicomposting system in Uganda.
Blomström AL, Lalander C, Komakech AJ, Vinnerås B, Boqvist S
Infect Ecol Epidemiol 6 (-) 32453 [2016-11-08; online 2016-11-08]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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The Arabidopsis TOR Kinase Specifically Regulates the Expression of Nuclear Genes Coding for Plastidic Ribosomal Proteins and the Phosphorylation of the Cytosolic Ribosomal Protein S6.
Dobrenel T, Mancera-Martínez E, Forzani C, ..., Hanson J, Meyer C
Front Plant Sci 7 (-) 1611 [2016-11-07; online 2016-11-07]
Swedish Metabolomics Centre (SMC) [Service]
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Looking for Missing Proteins in the Proteome of Human Spermatozoa: An Update.
Vandenbrouck Y, Lane L, Carapito C, ..., Garin J, Pineau C
J. Proteome Res. 15 (11) 3998-4019 [2016-11-04; online 2016-08-23]
Tissue Profiling [Collaborative]
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Periodontal Ehlers-Danlos Syndrome Is Caused by Mutations in C1R and C1S, which Encode Subcomponents C1r and C1s of Complement.
Kapferer-Seebacher I, Pepin M, Werner R, ..., Byers PH, Zschocke J
Am. J. Hum. Genet. 99 (5) 1005-1014 [2016-11-03; online 2016-10-18]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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WhatsHap: fast and accurate read-based phasing
Martin M, Patterson M, Garg S, ..., Schöenhuth A, Marschall T
bioRxiv - (-) - [2016-11-02; online 2016-11-02]
Bioinformatics (NBIS) [Technology development] Bioinformatics Long-term Support WABI [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
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Image analysis-derived metrics of histomorphological complexity predicts prognosis and treatment response in stage II-III colon cancer.
Mezheyeuski A, Hrynchyk I, Karlberg M, ..., Glimelius B, Östman A
Sci Rep 6 (-) 36149 [2016-11-02; online 2016-11-02]
Tissue Profiling [Service]
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Combined Solution- and Magic Angle Spinning NMR Reveals Regions of Distinct Dynamics in Amyloid β Protofibrils
Lendel C, Sparrman T, Mayzel M, ..., Karlsson G, Härd T
ChemistrySelect 1 (18) 5850-5853 [2016-11-01; online 2016-11-11]
Swedish NMR Centre (SNC) [Collaborative]
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Tryptophan Metabolism Along the Kynurenine Pathway Downstream of Toll-like Receptor Stimulation in Peripheral Monocytes.
Orhan F, Bhat M, Sandberg K, ..., Erhardt S, Schwieler L
Scand. J. Immunol. 84 (5) 262-271 [2016-11-00; online 2016-10-27]
Drug Discovery and Development (DDD) [Collaborative]
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The tight junction gene Claudin-1 is associated with atopic dermatitis among Ethiopians.
Asad S, Winge MC, Wahlgren CF, ..., Taylan F, Bradley M
J Eur Acad Dermatol Venereol 30 (11) 1939-1941 [2016-11-00; online 2016-10-25]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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The H3 chaperone function of NASP is conserved in Arabidopsis.
Maksimov V, Nakamura M, Wildhaber T, ..., Bergquist J, Hennig L
Plant J. 88 (3) 425-436 [2016-11-00; online 2016-09-15]
Mass Spectrometry-based Proteomics, Uppsala [Collaborative]
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Mass spectrometric analysis of synaptosomal membrane preparations for the determination of brain receptors, transporters and channels.
Sialana FJ, Gulyassy P, Májek P, ..., Bennett KL, Lubec G
Proteomics 16 (22) 2911-2920 [2016-11-00; online 2016-10-21]
Tissue Profiling [Collaborative]
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Long-term outcome in young women with breast cancer: a population-based study.
Fredholm H, Magnusson K, Lindström LS, ..., Frisell J, Fredriksson I
Breast Cancer Res. Treat. 160 (1) 131-143 [2016-11-00; online 2016-09-13]
Tissue Profiling [Collaborative]
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Long-term effects of tree harvesting on ectomycorrhizal fungal communities in boreal Scots pine forests
Varenius K, Kårén O, Lindahl B, Dahlberg A
Forest Ecology and Management 380 (-) 41-49 [2016-11-00; online 2016-11-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Isolation and characterization of autoantibodies against human cystatin C.
Prądzińska M, Behrendt I, Spodzieja M, ..., Macur K, Czaplewska P
Amino Acids 48 (11) 2501-2518 [2016-11-00; online 2016-06-08]
Advanced Mass Spectrometry Proteomics [Collaborative] Chemical Proteomics [Collaborative]
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Genome-wide repression of eRNA and target gene loci by the ETV6-RUNX1 fusion in acute leukemia.
Teppo S, Laukkanen S, Liuksiala T, ..., Heinäniemi M, Lohi O
Genome Res. 26 (11) 1468-1477 [2016-11-00; online 2016-09-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Genome-wide DNA methylation analysis in multiple tissues in primary Sjögren's syndrome reveals regulatory effects at interferon-induced genes.
Imgenberg-Kreuz J, Sandling JK, Almlöf JC, ..., Syvänen AC, Nordmark G
Ann. Rheum. Dis. 75 (11) 2029-2036 [2016-11-00; online 2016-02-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Extension of diffuse low-grade gliomas beyond radiological borders as shown by the coregistration of histopathological and magnetic resonance imaging data.
Zetterling M, Roodakker KR, Berntsson SG, ..., Larsson EM, Smits A
J. Neurosurg. 125 (5) 1155-1166 [2016-11-00; online 2016-02-26]
Tissue Profiling [Collaborative]
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Effects of cigarette smoking on cardiovascular-related protein profiles in two community-based cohort studies.
Huang B, Svensson P, Ärnlöv J, ..., Lind L, Ingelsson E
Atherosclerosis 254 (-) 52-58 [2016-11-00; online 2016-09-15]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Discovery and refinement of genetic loci associated with cardiometabolic risk using dense imputation maps.
Iotchkova V, Huang J, Morris JA, ..., Auer PL, Soranzo N
Nat. Genet. 48 (11) 1303-1312 [2016-11-00; online 2016-10-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Deletion of FtsH11 protease has impact on chloroplast structure and function in Arabidopsis thaliana when grown under continuous light.
Wagner R, von Sydow L, Aigner H, ..., Clarke A, Funk C
Plant Cell Environ. 39 (11) 2530-2544 [2016-11-00; online 2016-08-02]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Common variants at PVT1, ATG13-AMBRA1, AHI1 and CLEC16A are associated with selective IgA deficiency.
Bronson PG, Chang D, Bhangale T, ..., Graham RR, Behrens TW
Nat. Genet. 48 (11) 1425-1429 [2016-11-00; online 2016-10-28]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Papazian S, Khaling E, Bonnet C, ..., Blande JD, Albrectsen BR
Plant Physiol. 172 (3) 2057-2078 [2016-11-00; online 2016-10-21]
Swedish Metabolomics Centre (SMC) [Service]
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Acidithiobacillus ferrivorans SS3 presents little RNA transcript response related to cold stress during growth at 8 °C suggesting it is a eurypsychrophile.
Christel S, Fridlund J, Watkin EL, Dopson M
Extremophiles 20 (6) 903-913 [2016-11-00; online 2016-10-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A ribonucleotide reductase inhibitor with deoxyribonucleoside-reversible cytotoxicity.
Crona M, Codó P, Jonna VR, ..., Fernandes AP, Tholander F
Mol Oncol 10 (9) 1375-1386 [2016-11-00; online 2016-07-26]
Protein Science Facility (PSF) [Service]
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A novel high mobility group box 1 neutralizing chimeric antibody attenuates drug-induced liver injury and postinjury inflammation in mice.
Lundbäck P, Lea JD, Sowinska A, ..., Antoine DJ, Erlandsson Harris H
Hepatology 64 (5) 1699-1710 [2016-11-00; online 2016-09-01]
Protein Science Facility (PSF) [Service]
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Rawcopy: Improved copy number analysis with Affymetrix arrays.
Mayrhofer M, Viklund B, Isaksson A
Sci Rep 6 (-) 36158 [2016-10-31; online 2016-10-31]
Array and Analysis Facility [Technology development]
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Evolution of heterogeneous genome differentiation across multiple contact zones in a crow species complex.
Vijay N, Bossu CM, Poelstra JW, ..., Kryukov AP, Wolf JB
Nat Commun 7 (1) 13195 [2016-10-31; online 2016-10-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Rapid Newcastle Disease Virus Detection Based on Loop-Mediated Isothermal Amplification and Optomagnetic Readout
Tian B, Ma J, Zardán Gómez de la Torre T, ..., Svedlindh P, Strömberg M
ACS Sens. 1 (10) 1228-1234 [2016-10-28; online 2016-09-26]
BioMaterial Interactions (BioMat) [Collaborative]
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Discovery of Selective Inhibitors Targeting Acetylcholinesterase 1 from Disease-Transmitting Mosquitoes.
Engdahl C, Knutsson S, Ekström F, Linusson A
J. Med. Chem. 59 (20) 9409-9421 [2016-10-27; online 2016-09-07]
Chemical Biology Consortium Sweden (CBCS) [Service]
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Introduction and persistence of tularemia in Bulgaria.
Myrtennäs K, Marinov K, Johansson A, ..., Byström M, Forsman M
Infect Ecol Epidemiol 6 (-) 32838 [2016-10-26; online 2016-10-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Relation between Established Glioma Risk Variants and DNA Methylation in the Tumor.
Dahlin AM, Wibom C, Ghasimi S, ..., Andersson U, Melin B
PLoS ONE 11 (10) e0163067 [2016-10-25; online 2016-10-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Mesenchymal state of intimal cells may explain higher propensity to ascending aortic aneurysm in bicuspid aortic valves.
Maleki S, Kjellqvist S, Paloschi V, ..., Eriksson P, Björck HM
Sci Rep 6 (-) 35712 [2016-10-25; online 2016-10-25]
Clinical Proteomics Mass spectrometry [Collaborative] Global Proteomics and Proteogenomics [Collaborative]
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Identification of mutations, gene expression changes and fusion transcripts by whole transcriptome RNAseq in docetaxel resistant prostate cancer cells.
Ma Y, Miao Y, Peng Z, ..., Nilsson S, Li C
Springerplus 5 (1) 1861 [2016-10-24; online 2016-10-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Auxotrophy-based High Throughput Screening assay for the identification of Bacillus subtilis stringent response inhibitors.
Andresen L, Varik V, Tozawa Y, ..., Tenson T, Hauryliuk V
Sci Rep 6 (-) 35824 [2016-10-24; online 2016-10-24]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Prokaryotic Responses to Ammonium and Organic Carbon Reveal Alternative CO2 Fixation Pathways and Importance of Alkaline Phosphatase in the Mesopelagic North Atlantic.
Baltar F, Lundin D, Palovaara J, ..., Herndl GJ, Pinhassi J
Front Microbiol 7 (-) 1670 [2016-10-21; online 2016-10-21]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Over Expression of NANOS3 and DAZL in Human Embryonic Stem Cells.
Panula S, Reda A, Stukenborg JB, ..., Reijo Pera RA, Hovatta O
PLoS ONE 11 (10) e0165268 [2016-10-21; online 2016-10-21]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Failure to Genotype: A Cautionary Note on an Elusive loxP Sequence.
Kreuger J, O'Callaghan P
PLoS ONE 11 (10) e0165012 [2016-10-21; online 2016-10-21]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Computational pan-genomics: status, promises and challenges.
Computational Pan-Genomics Consortium
Brief. Bioinformatics - (-) - [2016-10-21; online 2016-10-21]
Bioinformatics (NBIS) [Technology development] Bioinformatics Long-term Support WABI [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
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Integrative analysis of human omics data using biomolecular networks.
Robinson JL, Nielsen J
Mol Biosyst 12 (10) 2953-2964 [2016-10-20; online 2016-08-12]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Systems Biology [Technology development]
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Gene-specific correlation of RNA and protein levels in human cells and tissues.
Edfors F, Danielsson F, Hallström BM, ..., Forsström B, Uhlén M
Mol. Syst. Biol. 12 (10) 883 [2016-10-20; online 2016-10-20]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Tissue Profiling [Collaborative]
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(13)C NMR assignments of regenerated cellulose from solid-state 2D NMR spectroscopy.
Idström A, Schantz S, Sundberg J, ..., Gatenholm P, Nordstierna L
Carbohydr Polym 151 (-) 480-487 [2016-10-20; online 2016-05-31]
Swedish NMR Centre (SNC) [Service]
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The Transcriptome of Rhabdomyosarcoma Cells Infected with Cytolytic and Non-Cytolytic Variants of Coxsackievirus B2 Ohio-1.
Sävneby A, Luthman J, Nordenskjöld F, Andersson B, Lindberg AM
PLoS ONE 11 (10) e0164548 [2016-10-19; online 2016-10-19]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Aryl Sulfonamide Inhibitors of Insulin-Regulated Aminopeptidase Enhance Spine Density in Primary Hippocampal Neuron Cultures.
Diwakarla S, Nylander E, Grönbladh A, ..., Chai SY, Hallberg M
ACS Chem Neurosci 7 (10) 1383-1392 [2016-10-19; online 2016-08-08]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Collaborative]
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Metabolite and Lipid Profiling of Biobank Plasma Samples Collected Prior to Onset of Rheumatoid Arthritis.
Surowiec I, Ärlestig L, Rantapää-Dahlqvist S, Trygg J
PLoS ONE 11 (10) e0164196 [2016-10-18; online 2016-10-18]
Swedish Metabolomics Centre (SMC) [Service]
Analysis of the Distribution of CD103 on CD8 T Cells in Blood and Genital Mucosa of HIVinfected Female Sex Workers
Gibbs A, Buggert M, Ranefall P, ..., Broliden K, Tjernlund A
Conference on HIV Research for Prevention (HIV R4P), 2016, October 17–20, Chicago - (-) - [2016-10-17]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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High-Throughput Analysis of the Plasma N-Glycome by UHPLC.
Adamczyk B, Stöckmann H, O'Flaherty R, Karlsson NG, Rudd PM
Methods Mol. Biol. 1503 (-) 97-108 [2016-10-16; online 2016-10-16]
Glycoproteomics and MS Proteomics [Technology development]
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Databases and Associated Tools for Glycomics and Glycoproteomics.
Lisacek F, Mariethoz J, Alocci D, ..., Jin C, Karlsson NG
Methods Mol. Biol. 1503 (-) 235-264 [2016-10-16; online 2016-10-16]
Glycoproteomics and MS Proteomics [Collaborative]
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Reconstructing a hydrogen-driven microbial metabolic network in Opalinus Clay rock.
Bagnoud A, Chourey K, Hettich RL, ..., Schwyn B, Bernier-Latmani R
Nat Commun 7 (-) 12770 [2016-10-14; online 2016-10-14]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Penicillium arizonense, a new, genome sequenced fungal species, reveals a high chemical diversity in secreted metabolites.
Grijseels S, Nielsen JC, Randelovic M, ..., Workman M, Frisvad JC
Sci Rep 6 (-) 35112 [2016-10-14; online 2016-10-14]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Massive and parallel expression profiling using microarrayed single-cell sequencing.
Vickovic S, Ståhl PL, Salmén F, ..., Frisén J, Lundeberg J
Nat Commun 7 (-) 13182 [2016-10-14; online 2016-10-14]
Advanced FISH Technologies Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Differential selection on pollen and pistil traits in relation to pollen competition in the context of a sexual conflict over timing of stigma receptivity.
Lankinen Å, Strandh M
AoB Plants 8 (-) - [2016-10-13; online 2016-08-27]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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No Association of Coronary Artery Disease with X-Chromosomal Variants in Comprehensive International Meta-Analysis.
Loley C, Alver M, Assimes TL, ..., Erdmann J, König IR
Sci Rep 6 (-) 35278 [2016-10-12; online 2016-10-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Complete genome sequence of Methanoculleus bourgensis strain MAB1, the syntrophic partner of mesophilic acetate-oxidising bacteria (SAOB).
Manzoor S, Schnürer A, Bongcam-Rudloff E, Müller B
Stand Genomic Sci 11 (-) 80 [2016-10-12; online 2016-10-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Virome characterisation from Guthrie cards in children who later developed acute lymphoblastic leukaemia.
Bogdanovic G, Pou C, Barrientos-Somarribas M, ..., Andersson B, Gustafsson B
Br. J. Cancer 115 (8) 1008-1014 [2016-10-11; online 2016-08-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Single-Cell Transcriptome Profiling of Human Pancreatic Islets in Health and Type 2 Diabetes.
Segerstolpe Å, Palasantza A, Eliasson P, ..., Ämmälä C, Sandberg R
Cell Metab. 24 (4) 593-607 [2016-10-11; online 2016-09-22]
Eukaryotic Single Cell Genomics (ESCG) [Service]
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Analysis of the brain mural cell transcriptome.
He L, Vanlandewijck M, Raschperger E, ..., Keller A, Betsholtz C
Sci Rep 6 (-) 35108 [2016-10-11; online 2016-10-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The Demographic Development of the First Farmers in Anatolia.
Kılınç GM, Omrak A, Özer F, ..., Jakobsson M, Götherström A
Curr. Biol. 26 (19) 2659-2666 [2016-10-10; online 2016-08-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Supersaturation of poorly soluble drugs induced by mesoporous magnesium carbonate.
Zhang P, Zardán Gómez de la Torre T, Welch K, Bergström C, Strømme M
Eur J Pharm Sci 93 (-) 468-474 [2016-10-10; online 2016-08-31]
BioMaterial Interactions (BioMat) [Service]
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The structure and diversity of human, animal and environmental resistomes.
Pal C, Bengtsson-Palme J, Kristiansson E, Larsson DG
Microbiome 4 (1) 54 [2016-10-07; online 2016-10-07]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Multidimensional Normalization to Minimize Plate Effects of Suspension Bead Array Data.
Hong MG, Lee W, Nilsson P, Pawitan Y, Schwenk JM
J. Proteome Res. 15 (10) 3473-3480 [2016-10-07; online 2016-08-30]
Affinity Proteomics Stockholm [Technology development]
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Picodroplet partitioned whole genome amplification of low biomass samples preserves genomic diversity for metagenomic analysis.
Hammond M, Homa F, Andersson-Svahn H, Ettema TJ, Joensson HN
Microbiome 4 (1) 52 [2016-10-06; online 2016-10-06]
Bioinformatics Support for Computational Resources [Service] Microbial Single Cell Genomics [Technology development] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Molecular Diversity of Midbrain Development in Mouse, Human, and Stem Cells.
La Manno G, Gyllborg D, Codeluppi S, ..., Arenas E, Linnarsson S
Cell 167 (2) 566-580.e19 [2016-10-06; online 2016-10-08]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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ProQ3: Improved model quality assessments using Rosetta energy terms.
Uziela K, Shu N, Wallner B, Elofsson A
Sci Rep 6 (-) 33509 [2016-10-04; online 2016-10-04]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Scaffolding protein IQGAP1: an insulin-dependent link between caveolae and the cytoskeleton in primary human adipocytes?
Jufvas A, Rajan MR, Jo nsson C, Stralfors P, Turkina MV
Biochemical Journal 473 (19) 3177-3188 [2016-10-01; online 2016-07-25]
Affinity Proteomics Uppsala [Service] PLA and Single Cell Proteomics [Service]
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MultiQC: summarize analysis results for multiple tools and samples in a single report.
Ewels P, Magnusson M, Lundin S, Käller M
Bioinformatics 32 (19) 3047-3048 [2016-10-01; online 2016-06-16]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Technology development] NGI Stockholm (Genomics Production) [Technology development] National Genomics Infrastructure [Technology development]
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Estrogen Receptor α Promotes Breast Cancer by Reprogramming Choline Metabolism.
Jia M, Andreassen T, Jensen L, ..., Moestue SA, Dahlman-Wright K
Cancer Res. 76 (19) 5634-5646 [2016-10-01; online 2016-07-28]
Swedish Metabolomics Centre (SMC) [Service]
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Whole-Exome Sequencing Suggests LAMB3 as a Susceptibility Gene for Morbid Obesity.
Jiao H, Kulyté A, Näslund E, ..., Arner P, Dahlman I
Diabetes 65 (10) 2980-2989 [2016-10-00; online 2016-07-20]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Various Antibody Clones of Napsin A, Thyroid Transcription Factor 1, and p40 and Comparisons With Cytokeratin 5 and p63 in Histopathologic Diagnostics of Non-Small Cell Lung Carcinoma.
Tran L, Mattsson JS, Nodin B, ..., Micke P, Brunnström H
Appl. Immunohistochem. Mol. Morphol. 24 (9) 648-659 [2016-10-00; online 2016-10-18]
Tissue Profiling
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Urea-Dependent Adenylate Kinase Activation following Redistribution of Structural States
Rogne P, Wolf-Watz M
Biophysical Journal 111 (7) 1385-1395 [2016-10-00; online 2016-10-00]
Swedish NMR Centre (SNC) [Service]
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Trans-ancestry meta-analyses identify rare and common variants associated with blood pressure and hypertension.
Surendran P, Drenos F, Young R, ..., Howson JM, Munroe PB
Nat. Genet. 48 (10) 1151-1161 [2016-10-00; online 2016-09-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Towards integration of population and comparative genomics in forest trees.
Ingvarsson PK, Hvidsten TR, Street NR
New Phytol. 212 (2) 338-344 [2016-10-00; online 2016-08-31]
NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The genetics of blood pressure regulation and its target organs from association studies in 342,415 individuals.
Ehret GB, Ferreira T, Chasman DI, ..., Newton-Cheh C, Munroe PB
Nat. Genet. 48 (10) 1171-1184 [2016-10-00; online 2016-09-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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The Allelochemical MDCA Inhibits Lignification and Affects Auxin Homeostasis.
Steenackers W, Cesarino I, Klíma P, ..., Boerjan W, Vanholme B
Plant Physiol. 172 (2) 874-888 [2016-10-00; online 2016-08-09]
Swedish Metabolomics Centre (SMC) [Service]
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Soluble CD93 Is Involved in Metabolic Dysregulation but Does Not Influence Carotid Intima-Media Thickness.
Strawbridge RJ, Hilding A, Silveira A, ..., Bäcklund A, IMPROVE Study Group
Diabetes 65 (10) 2888-2899 [2016-10-00; online 2016-09-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Sodium pump organization in dendritic spines.
Blom H, Bernhem K, Brismar H
Neurophotonics 3 (4) 041803 [2016-10-00; online 2016-05-14]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
Serum thioredoxin reductase is highly increased in mice with hepatocellular carcinoma and its activity is restrained by several mechanisms.
Zhang L, Cheng Q, Zhang L, ..., Arnér ES, Zhang J
Free Radic. Biol. Med. 99 (-) 426-435 [2016-10-00; online 2016-08-28]
Mass Spectrometry-based Proteomics, Uppsala [Service]
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Polygenic associations of neurodevelopmental genes in suicide attempt.
Sokolowski M, Wasserman J, Wasserman D
Mol. Psychiatry 21 (10) 1381-1390 [2016-10-00; online 2015-12-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Personality Polygenes, Positive Affect, and Life Satisfaction.
Weiss A, Baselmans BM, Hofer E, ..., Bartels M, Luciano M
Twin Res Hum Genet 19 (5) 407-417 [2016-10-00; online 2016-08-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Open for collaboration: an academic platform for drug discovery and development at SciLifeLab.
Arvidsson PI, Sandberg K, Forsberg-Nilsson K
Drug Discov. Today 21 (10) 1690-1698 [2016-10-00; online 2016-07-05]
Drug Discovery and Development (DDD) [Technology development]
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Non-targeted metabolomics combined with genetic analyses identifies bile acid synthesis and phospholipid metabolism as being associated with incident type 2 diabetes.
Fall T, Salihovic S, Brandmaier S, ..., Ingelsson E, Lind L
Diabetologia 59 (10) 2114-2124 [2016-10-00; online 2016-07-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Mutations in HECW2 are associated with intellectual disability and epilepsy.
Halvardson J, Zhao JJ, Zaghlool A, ..., Thuresson AC, Feuk L
J. Med. Genet. 53 (10) 697-704 [2016-10-00; online 2016-06-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Metabolomic Quality Assessment of EDTA Plasma and Serum Samples.
Malm L, Tybring G, Moritz T, Landin B, Galli J
Biopreserv Biobank 14 (5) 416-423 [2016-10-00; online 2016-06-27]
Swedish Metabolomics Centre (SMC) [Service]
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Genome-Wide Association Study of the Modified Stumvoll Insulin Sensitivity Index Identifies BCL2 and FAM19A2 as Novel Insulin Sensitivity Loci.
Walford GA, Gustafsson S, Rybin D, ..., Ingelsson E, Florez JC
Diabetes 65 (10) 3200-3211 [2016-10-00; online 2016-07-16]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic rescue in a severely inbred wolf population.
Åkesson M, Liberg O, Sand H, ..., Bensch S, Flagstad Ø
Mol. Ecol. 25 (19) 4745-4756 [2016-10-00; online 2016-08-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Generation and analyses of human synthetic antibody libraries and their application for protein microarrays.
Säll A, Walle M, Wingren C, ..., Borrebaeck CAK, Persson H
Protein Eng. Des. Sel. 29 (10) 427-437 [2016-10-00; online 2016-09-01]
Drug Discovery and Development (DDD) [Technology development] Protein Science Facility (PSF) [Collaborative]
PubMed DOI Crossref
Expression of Interferon-Stimulated Genes in Insulitic Pancreatic Islets of Patients Recently Diagnosed With Type 1 Diabetes.
Lundberg M, Krogvold L, Kuric E, Dahl-Jørgensen K, Skog O
Diabetes 65 (10) 3104-3110 [2016-10-00; online 2016-07-17]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Elevated Basal Insulin Secretion in Type 2 Diabetes Caused by Reduced Plasma Membrane Cholesterol.
Nagaraj V, Kazim AS, Helgeson J, ..., Zhang E, Renström E
Mol. Endocrinol. 30 (10) 1059-1069 [2016-10-00; online 2016-08-18]
Fluorescence Correlation Spectroscopy [Collaborative] Integrated Microscopy Technologies Stockholm
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Effects of multiple dimensions of bacterial diversity on functioning, stability and multifunctionality.
Roger F, Bertilsson S, Langenheder S, Osman OA, Gamfeldt L
Ecology 97 (10) 2716-2728 [2016-10-00; online 2016-09-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Effect of Insulin Resistance on Monounsaturated Fatty Acid Levels: A Multi-cohort Non-targeted Metabolomics and Mendelian Randomization Study.
Nowak C, Salihovic S, Ganna A, ..., Ingelsson E, Fall T
PLoS Genet. 12 (10) e1006379 [2016-10-00; online 2016-10-21]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] Clinical Biomarkers [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] PLA and Single Cell Proteomics [Service]
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Direct acquisition of organic N by white clover even in the presence of inorganic N
Czaban W, Jämtgård S, Näsholm T, ..., Nicolaisen M, Fomsgaard IS
Plant Soil 407 (1-2) 91-107 [2016-10-00; online 2016-04-15]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
DNA methylome analysis of acute lymphoblastic leukemia cells reveals stochastic de novo DNA methylation in CpG islands.
Wahlberg P, Lundmark A, Nordlund J, ..., Lönnerholm G, Syvänen AC
Epigenomics 8 (10) 1367-1387 [2016-10-00; online 2016-08-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Connectivity to the surface determines diversity patterns in subsurface aquifers of the Fennoscandian shield.
Hubalek V, Wu X, Eiler A, ..., Bertilsson S, Ionescu D
ISME J 10 (10) 2447-2458 [2016-10-00; online 2016-03-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Clonality of erythromycin resistance in Francisella tularensis.
Karlsson E, Golovliov I, Lärkeryd A, ..., Forsman M, Johansson A
J. Antimicrob. Chemother. 71 (10) 2815-2823 [2016-10-00; online 2016-06-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Biophysics in drug discovery: impact, challenges and opportunities.
Renaud JP, Chung CW, Danielson UH, ..., Hubbard RE, Nar H
Nat Rev Drug Discov 15 (10) 679-698 [2016-10-00; online 2016-08-16]
Drug Discovery and Development (DDD) [Technology development]
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Autoantibodies Targeting a Collecting Duct–Specific Water Channel in Tubulointerstitial Nephritis
Landegren N, Pourmousa Lindberg M, Skov J, ..., Fenton RA, Kämpe O
J. Am. Soc. Nephrol. 27 (10) 3220-3228 [2016-10-00; online 2016-03-16]
Affinity Proteomics Uppsala [Service] PLA and Single Cell Proteomics [Service]
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Abstracts of the HIV Research for Prevention Meeting, HIVR4P, 17-20 October, 2016, Chicago, USA
AIDS Research and Human Retroviruses 32 (S1) 1-409 [2016-10-00; online 2016-10-00]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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A proposal for validation of antibodies.
Uhlen M, Bandrowski A, Carr S, ..., Snyder M, Yamamoto T
Nat. Methods 13 (10) 823-827 [2016-10-00; online 2016-09-05]
Spatial Proteomics [Collaborative]
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The domesticated brain: genetics of brain mass and brain structure in an avian species.
Henriksen R, Johnsson M, Andersson L, Jensen P, Wright D
Sci Rep 6 (1) 34031 [2016-09-30; online 2016-09-30]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Feralisation targets different genomic loci to domestication in the chicken.
Johnsson M, Gering E, Willis P, ..., Friberg U, Wright D
Nat Commun 7 (-) 12950 [2016-09-30; online 2016-09-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Genomic Regions Associated With Interspecies Communication in Dogs Contain Genes Related to Human Social Disorders.
Persson ME, Wright D, Roth LS, Batakis P, Jensen P
Sci Rep 6 (-) 33439 [2016-09-29; online 2016-09-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Detecting individual extracellular vesicles using a multicolor in situ proximity ligation assay with flow cytometric readout.
Löf L, Ebai T, Dubois L, ..., Landegren U, Kamali-Moghaddam M
Sci Rep 6 (1) 34358 [2016-09-29; online 2016-09-29]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
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Aberrant activation of the PI3K/mTOR pathway promotes resistance to sorafenib in AML.
Lindblad O, Cordero E, Puissant A, ..., Rönnstrand L, Kazi JU
Oncogene 35 (39) 5119-5131 [2016-09-29; online 2016-03-22]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Discovery of Novel Viruses in Mosquitoes from the Zambezi Valley of Mozambique.
Cholleti H, Hayer J, Abilio AP, ..., Berg M, Blomström AL
PLoS ONE 11 (9) e0162751 [2016-09-28; online 2016-09-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Analysis of Body-wide Unfractionated Tissue Data to Identify a Core Human Endothelial Transcriptome.
Butler LM, Hallström BM, Fagerberg L, ..., Renné T, Odeberg J
Cell Syst 3 (3) 287-301.e3 [2016-09-28; online 2016-09-15]
Tissue Profiling [Collaborative]
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Loss of ncm(5) and mcm(5) wobble uridine side chains results in an altered metabolic profile.
Karlsborn T, Mahmud AK, Tükenmez H, Byström AS
Metabolomics 12 (12) 177 [2016-09-27; online 2016-09-27]
Swedish Metabolomics Centre (SMC) [Service]
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Dynamic regulation of auxin oxidase and conjugating enzymes AtDAO1 and GH3 modulates auxin homeostasis.
Mellor N, Band LR, Pěnčík A, ..., Bennett MJ, Owen MR
Proc. Natl. Acad. Sci. U.S.A. 113 (39) 11022-11027 [2016-09-27; online 2016-09-20]
Swedish Metabolomics Centre (SMC) [Service]
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Dioxygenase-encoding AtDAO1 gene controls IAA oxidation and homeostasis in Arabidopsis.
Porco S, Pěnčík A, Rashed A, ..., Bennett MJ, Ljung K
Proc. Natl. Acad. Sci. U.S.A. 113 (39) 11016-11021 [2016-09-27; online 2016-09-22]
Swedish Metabolomics Centre (SMC) [Service]
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Deep targeted sequencing in pediatric acute lymphoblastic leukemia unveils distinct mutational patterns between genetic subtypes and novel relapse-associated genes.
Lindqvist CM, Lundmark A, Nordlund J, ..., Berglund EC, Syvänen AC
Oncotarget 7 (39) 64071-64088 [2016-09-27; online 2016-09-04]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Genomic distribution and estimation of nucleotide diversity in natural populations: perspectives from the collared flycatcher (Ficedula albicollis) genome.
Dutoit L, Burri R, Nater A, Mugal CF, Ellegren H
Mol Ecol Resour 17 (4) 586-597 [2016-09-26; online 2016-09-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Exploration of high-density protein microarrays for antibody validation and autoimmunity profiling.
Sjöberg R, Mattsson C, Andersson E, ..., Ayoglu B, Nilsson P
N Biotechnol 33 (5 Pt A) 582-592 [2016-09-25; online 2015-09-30]
Autoimmunity and Serology Profiling [Technology development]
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Overlap in serum metabolic profiles between non-related diseases: Implications for LC-MS metabolomics biomarker discovery.
Lindahl A, Forshed J, Nordström A
Biochem. Biophys. Res. Commun. 478 (3) 1472-1477 [2016-09-23; online 2016-08-28]
Swedish Metabolomics Centre (SMC) [Service]
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Naphthalene Derivatives from the Roots of Pentas parvifolia and Pentas bussei.
Abdissa N, Pan F, Gruhonjic A, ..., Yenesew A, Erdélyi M
J. Nat. Prod. 79 (9) 2181-2187 [2016-09-23; online 2016-08-12]
Swedish NMR Centre (SNC) [Service]
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Molecular insights into substrate recognition and catalytic mechanism of the chaperone and FKBP peptidyl-prolyl isomerase SlyD.
Quistgaard EM, Weininger U, Ural-Blimke Y, ..., Akke M, Löw C
BMC Biol. 14 (1) 82 [2016-09-23; online 2016-09-23]
Protein Science Facility (PSF) [Service]
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Genetic Spectrum of Idiopathic Restrictive Cardiomyopathy Uncovered by Next-Generation Sequencing.
Kostareva A, Kiselev A, Gudkova A, ..., Sejersen T, Shlyakhto E
PLoS ONE 11 (9) e0163362 [2016-09-23; online 2016-09-23]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Combinatorial identification of DNA methylation patterns over age in the human brain.
Torabi Moghadam B, Dabrowski M, Kaminska B, Grabherr MG, Komorowski J
BMC Bioinformatics 17 (1) 393 [2016-09-23; online 2016-09-23]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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The Oncolytic Efficacy and in Vivo Pharmacokinetics of [2-(4-Chlorophenyl)quinolin-4-yl](piperidine-2-yl)methanol (Vacquinol-1) Are Governed by Distinct Stereochemical Features.
Hammarström LG, Harmel RK, Granath M, ..., Lehmann F, Ernfors P
J. Med. Chem. 59 (18) 8577-8592 [2016-09-22; online 2016-09-09]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Collaborative]
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Multiplexed, targeted profiling of single-cell proteomes and transcriptomes in a single reaction.
Genshaft AS, Li S, Gallant CJ, ..., Landegren U, Shalek AK
Genome Biol. 17 (1) 188 [2016-09-19; online 2016-09-19]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
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Linkage between Fitness of Yeast Cells and Adenylate Kinase Catalysis
Tükenmez H, Magnussen HM, Kovermann M, Byström A, Wolf-Watz M
PLoS ONE 11 (9) e0163115 [2016-09-19; online 2016-09-19]
Swedish NMR Centre (SNC) [Service]
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Investigation of rare and low-frequency variants using high-throughput sequencing with pooled DNA samples.
Wang J, Skoog T, Einarsdottir E, ..., Kere J, Jiao H
Sci Rep 6 (-) 33256 [2016-09-16; online 2016-09-16]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genome-wide association analysis reveals variants on chromosome 19 that contribute to childhood risk of chronic otitis media with effusion.
Einarsdottir E, Hafrén L, Leinonen E, ..., Kere J, Mattila PS
Sci Rep 6 (-) 33240 [2016-09-16; online 2016-09-16]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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NUDT15 Hydrolyzes 6-Thio-DeoxyGTP to Mediate the Anticancer Efficacy of 6-Thioguanine.
Valerie NC, Hagenkort A, Page BD, ..., Jemth AS, Helleday T
Cancer Res. 76 (18) 5501-5511 [2016-09-15; online 2016-08-16]
Protein Science Facility (PSF) [Service]
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Epigenome-wide association study reveals differential DNA methylation in individuals with a history of myocardial infarction
Rask-Andersen M, Martinsson D, Ahsan M, ..., Gyllensten U, Johansson Å
Hum. Mol. Genet. - (-) ddw302 [2016-09-15; online 2016-09-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Immunoseq: the identification of functionally relevant variants through targeted capture and sequencing of active regulatory regions in human immune cells.
Morin A, Kwan T, Ge B, ..., Lathrop MG, Pastinen T
BMC Med Genomics 9 (1) 59 [2016-09-13; online 2016-09-13]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Associations Between Macrophage Colony-Stimulating Factor and Monocyte Chemotactic Protein 1 in Plasma and First-Time Coronary Events: A Nested Case-Control Study.
Schiopu A, Bengtsson E, Gonçalves I, ..., Fredrikson GN, Björkbacka H
J Am Heart Assoc 5 (9) e002851 [2016-09-13; online 2016-09-13]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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The infectious particle of insect-borne totivirus-like Omono River virus has raised ridges and lacks fibre complexes.
Okamoto K, Miyazaki N, Larsson DS, ..., Murata K, Hajdu J
Sci Rep 6 (-) 33170 [2016-09-12; online 2016-09-12]
Mass Spectrometry-based Proteomics, Uppsala [Service]
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Sequence variation between 462 human individuals fine-tunes functional sites of RNA processing.
Ferreira PG, Oti M, Barann M, ..., Guigó R, Sammeth M
Sci Rep 6 (-) 32406 [2016-09-12; online 2016-09-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Limited clonal relatedness between gut IgA plasma cells and memory B cells after oral immunization.
Bemark M, Hazanov H, Strömberg A, ..., Mehr R, Lycke NY
Nat Commun 7 (-) 12698 [2016-09-06; online 2016-09-06]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Design and Synthesis of 2,2'-Diindolylmethanes to Selectively Target Certain G-Quadruplex DNA Structures.
Livendahl M, Jamroskovic J, Ivanova S, ..., Sabouri N, Chorell E
Chemistry 22 (37) 13004-13009 [2016-09-05; online 2016-07-20]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Association between renin and atherosclerotic burden in subjects with and without type 2 diabetes.
Gonçalves I, Edsfeldt A, Colhoun HM, ..., Nilsson J, SUMMIT consortium
BMC Cardiovasc Disord 16 (1) 171 [2016-09-05; online 2016-09-05]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Trans-ethnic Fine Mapping Highlights Kidney-Function Genes Linked to Salt Sensitivity.
Mahajan A, Rodan AR, Le TH, ..., Morris AP, Franceschini N
Am. J. Hum. Genet. 99 (3) 636-646 [2016-09-01; online 2016-09-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The BR domain of PsrP interacts with extracellular DNA to promote bacterial aggregation; structural insights into pneumococcal biofilm formation.
Schulte T, Mikaelsson C, Beaussart A, ..., Nygren PÅ, Achour A
Sci Rep 6 (-) 32371 [2016-09-01; online 2016-09-01]
Protein Science Facility (PSF) [Service]
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Absence of the Autophagy Adaptor SQSTM1/p62 Causes Childhood-Onset Neurodegeneration with Ataxia, Dystonia, and Gaze Palsy.
Haack TB, Ignatius E, Calvo-Garrido J, ..., Carroll CJ, Klopstock T
Am. J. Hum. Genet. 99 (3) 735-743 [2016-09-01; online 2016-08-23]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A novel variant in MYLK causes thoracic aortic dissections: genotypic and phenotypic description.
Hannuksela M, Stattin EL, Klar J, ..., Sörensen K, Carlberg B
BMC Med. Genet. 17 (1) 61 [2016-09-01; online 2016-09-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Tissue microarray profiling in human heart failure.
Lal S, Nguyen L, Tezone R, ..., Li A, Dos Remedios C
Proteomics 16 (17) 2319-2326 [2016-09-00; online 2016-08-11]
Tissue Profiling [Collaborative]
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The peroxisome proliferator-activated receptor α agonist, AZD4619, induces alanine aminotransferase-1 gene and protein expression in human, but not in rat hepatocytes: Correlation with serum ALT levels.
Thulin P, Bamberg K, Buler M, Dahl B, Glinghammar B
Int. J. Mol. Med. 38 (3) 961-968 [2016-09-00; online 2016-07-20]
Drug Discovery and Development (DDD) [Collaborative]
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The distribution of α-kleisin during meiosis in the holocentromeric plant Luzula elegans.
Ma W, Schubert V, Martis MM, ..., Cheng Z, Houben A
Chromosome Res. 24 (3) 393-405 [2016-09-00; online 2016-06-14]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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The crystal structure of the major pneumococcal autolysin LytA in complex with a large peptidoglycan fragment reveals the pivotal role of glycans for lytic activity.
Sandalova T, Lee M, Henriques-Normark B, ..., Mellroth P, Achour A
Mol. Microbiol. 101 (6) 954-967 [2016-09-00; online 2016-07-05]
Protein Science Facility (PSF) [Service]
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The Impact of Endurance Training on Human Skeletal Muscle Memory, Global Isoform Expression and Novel Transcripts.
Lindholm ME, Giacomello S, Werne Solnestam B, ..., Kjellqvist S, Sundberg CJ
PLoS Genet. 12 (9) e1006294 [2016-09-00; online 2016-09-22]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Repeated LPS Injection Induces Distinct Changes in the Kynurenine Pathway in Mice.
Larsson MK, Faka A, Bhat M, ..., Schwieler L, Erhardt S
Neurochem. Res. 41 (9) 2243-2255 [2016-09-00; online 2016-05-10]
Drug Discovery and Development (DDD) [Collaborative]
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Protein profiles of CCL5, HPGDS, and NPSR1 in plasma reveal association with childhood asthma.
Hamsten C, Häggmark A, Grundström J, ..., Nilsson P, van Hage M
Allergy 71 (9) 1357-1361 [2016-09-00; online 2016-05-25]
Affinity Proteomics Stockholm [Collaborative] Tissue Profiling [Collaborative]
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Phenotypic Modulation of Smooth Muscle Cells in Atherosclerosis Is Associated With Downregulation of LMOD1, SYNPO2, PDLIM7, PLN, and SYNM.
Perisic Matic L, Rykaczewska U, Razuvaev A, ..., Hamsten A, Hedin U
Arterioscler. Thromb. Vasc. Biol. 36 (9) 1947-1961 [2016-09-00; online 2016-07-28]
Clinical Proteomics Mass spectrometry [Collaborative] Global Proteomics and Proteogenomics [Collaborative]
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Mass spectrometry data from a quantitative analysis of protein expression in gills of immuno-challenged blue mussels (Mytilus edulis).
Hörnaeus K, Guillemant J, Mi J, ..., Bergquist J, Lind SB
Data Brief 8 (-) 470-473 [2016-09-00; online 2016-06-03]
Mass Spectrometry-based Proteomics, Uppsala [Collaborative]
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Exploring structure and interactions of the bacterial adaptor protein YjbH by crosslinking mass spectrometry.
Al-Eryani Y, Ib Rasmussen M, Kjellström S, ..., Emanuelsson C, von Wachenfeldt C
Proteins 84 (9) 1234-1245 [2016-09-00; online 2016-06-15]
Structural Proteomics [Service]
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Epigenome-wide analysis of DNA methylation reveals a rectal cancer-specific epigenomic signature.
Vymetalkova V, Vodicka P, Pardini B, ..., Nilsson TK, Farkas SA
Epigenomics 8 (9) 1193-1207 [2016-09-00; online 2016-08-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Endarterectomy patients with elevated levels of circulating IL-16 have fewer cardiovascular events during follow-up.
Grönberg C, Asciutto G, Persson A, ..., Gonçalves I, Björkbacka H
Cytokine 85 (-) 137-139 [2016-09-00; online 2016-06-22]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Electricity generation from an inorganic sulfur compound containing mining wastewater by acidophilic microorganisms.
Ni G, Christel S, Roman P, ..., Bijmans MF, Dopson M
Res. Microbiol. 167 (7) 568-575 [2016-09-00; online 2016-05-08]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Direct estimate of the rate of germline mutation in a bird.
Smeds L, Qvarnström A, Ellegren H
Genome Res. 26 (9) 1211-1218 [2016-09-00; online 2016-07-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Detailed gene dose analysis reveals recurrent focal gene deletions in pediatric B-cell precursor acute lymphoblastic leukemia.
Ivanov Öfverholm I, Tran AN, Olsson L, ..., Nordgren A, Barbany G
Leuk. Lymphoma 57 (9) 2161-2170 [2016-09-00; online 2016-04-20]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Data on the expression of cellular lncRNAs in human adenovirus infected cells.
Chen M, Zhao H, Lind SB, Pettersson U
Data Brief 8 (-) 1263-1279 [2016-09-00; online 2016-08-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Clinical impact of recurrently mutated genes on lymphoma diagnostics: state-of-the-art and beyond.
Rosenquist R, Rosenwald A, Du MQ, ..., Stamatopoulos K, European Research Initiative on CLL (ERIC) and the European Association for Haematopathology (EAHP)
Haematologica 101 (9) 1002-1009 [2016-09-00; online 2016-09-02]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Bacterial associations reveal spatial population dynamics in Anopheles gambiae mosquitoes
Buck M, Nilsson LKJ, Brunius C, ..., Hopkins R, Terenius O
Sci Rep 6 (1) - [2016-09-00; online 2016-03-10]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Autoantibody targets in vaccine-associated narcolepsy.
Häggmark-Månberg A, Zandian A, Forsström B, ..., Olsson T, Nilsson P
Autoimmunity 49 (6) 421-433 [2016-09-00; online 2016-05-20]
Autoimmunity and Serology Profiling [Collaborative]
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Approach for Identifying Human Leukocyte Antigen (HLA)-DR Bound Peptides from Scarce Clinical Samples.
Heyder T, Kohler M, Tarasova NK, ..., Grunewald J, Ytterberg AJ
Mol. Cell Proteomics 15 (9) 3017-3029 [2016-09-00; online 2016-07-24]
Advanced Mass Spectrometry Proteomics [Collaborative]
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Advancing the global proteome survey platform by using an oriented single chain antibody fragment immobilization approach
Säll A, Persson H, Ohlin M, Borrebaeck CAK, Wingren C
New Biotechnology 33 (5) 503-513 [2016-09-00; online 2016-09-00]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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ATM mutations in major stereotyped subsets of chronic lymphocytic leukemia: enrichment in subset #2 is associated with markedly short telomeres.
Navrkalova V, Young E, Baliakas P, ..., Rosenquist R, Trbusek M
Haematologica 101 (9) e369-e373 [2016-09-00; online 2016-08-02]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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A genetic variant in proximity to the gene LYPLAL1 is associated with lower hunger feelings and increased weight loss following Roux-en-Y gastric bypass surgery.
Bandstein M, Mwinyi J, Ernst B, ..., Schultes B, Schiöth HB
Scand. J. Gastroenterol. 51 (9) 1050-1055 [2016-09-00; online 2016-05-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A Role for the Chromatin-Remodeling Factor BAZ1A in Neurodevelopment.
Zaghlool A, Halvardson J, Zhao JJ, ..., Thuresson AC, Feuk L
Hum. Mutat. 37 (9) 964-975 [2016-09-00; online 2016-07-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A Rickettsiales symbiont of amoebae with ancient features.
Schulz F, Martijn J, Wascher F, ..., Ettema TJ, Horn M
Environ. Microbiol. 18 (8) 2326-2342 [2016-09-00; online 2015-04-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Genetic Risk Score Is Associated with Weight Loss Following Roux-en Y Gastric Bypass Surgery.
Bandstein M, Voisin S, Nilsson EK, ..., Mwinyi J, Schiöth HB
Obes Surg 26 (9) 2183-2189 [2016-09-00; online 2016-02-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Adipose Transcriptional Response to Insulin Is Determined by Obesity, Not Insulin Sensitivity.
Rydén M, Hrydziuszko O, Mileti E, ..., Daub CO, Arner P
Cell Rep 16 (9) 2317-2326 [2016-08-30; online 2016-08-23]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Cystatin C and Cardiovascular Disease: A Mendelian Randomization Study.
van der Laan SW, Fall T, Soumaré A, ..., Holmes MV, Asselbergs FW
J. Am. Coll. Cardiol. 68 (9) 934-945 [2016-08-30; online 2016-08-27]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Phosphorylation of Leukotriene C4 Synthase at Serine 36 Impairs Catalytic Activity.
Ahmad S, Ytterberg AJ, Thulasingam M, ..., Rinaldo-Matthis A, Haeggström JZ
J. Biol. Chem. 291 (35) 18410-18418 [2016-08-26; online 2016-06-30]
Advanced Mass Spectrometry Proteomics [Collaborative]
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One-night sleep deprivation induces changes in the DNA methylation and serum activity indices of stearoyl-CoA desaturase in young healthy men.
Skuladottir GV, Nilsson EK, Mwinyi J, Schiöth HB
Lipids Health Dis 15 (1) 137 [2016-08-26; online 2016-08-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Factors regulating capillary remodeling in a reversible model of inflammatory corneal angiogenesis.
Mukwaya A, Peebo B, Xeroudaki M, ..., Jensen L, Lagali N
Sci Rep 6 (1) 32137 [2016-08-26; online 2016-08-26]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Enantioselective Organocatalyzed Transformations of β-Ketoesters.
Govender T, Arvidsson PI, Maguire GE, Kruger HG, Naicker T
Chem. Rev. 116 (16) 9375-9437 [2016-08-24; online 2016-07-28]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Oxidation and cyclization of casbene in the biosynthesis of Euphorbia factors from mature seeds of Euphorbia lathyris L.
Luo D, Callari R, Hamberger B, ..., Staerk D, Hamberger B
Proc. Natl. Acad. Sci. U.S.A. 113 (34) E5082-E5089 [2016-08-23; online 2016-08-11]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of Multiple QTLs Linked to Neuropathology in the Engrailed-1 Heterozygous Mouse Model of Parkinson's Disease.
Kurowska Z, Jewett M, Brattås PL, ..., Brundin P, Swanberg M
Sci Rep 6 (-) 31701 [2016-08-23; online 2016-08-23]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Effects of wastewater treatment plant effluent inputs on planktonic metabolic rates and microbial community composition in the Baltic Sea
Vaquer-Sunyer R, Reader HE, Muthusamy S, ..., Conley DJ, Kritzberg ES
Biogeosciences 13 (16) 4751-4765 [2016-08-23; online 2016-08-23]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Single base resolution analysis of 5-hydroxymethylcytosine in 188 human genes: implications for hepatic gene expression.
Ivanov M, Kals M, Lauschke V, ..., Milani L, Ingelman-Sundberg M
Nucleic Acids Res. 44 (14) 6756-6769 [2016-08-19; online 2016-04-29]
Bioinformatics Support for Computational Resources [Service] Clinical Proteomics Mass spectrometry [Collaborative] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Cardiometabolic risk loci share downstream cis- and trans-gene regulation across tissues and diseases.
Franzén O, Ermel R, Cohain A, ..., Schadt EE, Björkegren JL
Science 353 (6301) 827-830 [2016-08-19; online 2016-08-20]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Structural origin of proton mobility in a protic ionic liquid/imidazole mixture: insights from computational and experimental results.
Yaghini N, Gómez-González V, Varela LM, Martinelli A
Phys Chem Chem Phys 18 (33) 23195-23206 [2016-08-17; online 2016-08-09]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Multifunctional Hyaluronic Acid and Chondroitin Sulfate Nanoparticles: Impact of Glycosaminoglycan Presentation on Receptor Mediated Cellular Uptake and Immune Activation.
Oommen OP, Duehrkop C, Nilsson B, Hilborn J, Varghese OP
ACS Appl Mater Interfaces 8 (32) 20614-20624 [2016-08-17; online 2016-07-29]
Karolinska High Throughput Center (KHTC) [Service]
PubMed DOI Crossref
Cinobufagin Modulates Human Innate Immune Responses and Triggers Antibacterial Activity.
Xie S, Spelmink L, Codemo M, ..., Henriques-Normark B, Olliver M
PLoS ONE 11 (8) e0160734 [2016-08-16; online 2016-08-16]
Mass Spectrometry-based Proteomics, Uppsala [Service]
PubMed DOI Crossref
Chondroitin sulfate derived theranostic nanoparticles for targeted drug delivery.
Varghese OP, Liu J, Sundaram K, Hilborn J, Oommen OP
Biomater Sci 4 (9) 1310-1313 [2016-08-16; online 2016-07-20]
Karolinska High Throughput Center (KHTC) [Service]
PubMed DOI Crossref
Cellular Barcoding Links B-1a B Cell Potential to a Fetal Hematopoietic Stem Cell State at the Single-Cell Level.
Kristiansen TA, Jaensson Gyllenbäck E, Zriwil A, ..., Bryder D, Yuan J
Immunity 45 (2) 346-357 [2016-08-16; online 2016-08-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Metastasis Stimulation by Hypoxia and Acidosis-Induced Extracellular Lipid Uptake Is Mediated by Proteoglycan-Dependent Endocytosis.
Menard JA, Christianson HC, Kucharzewska P, ..., Johansson MC, Belting M
Cancer Res. 76 (16) 4828-4840 [2016-08-15; online 2016-05-19]
Structural Proteomics [Service]
PubMed DOI Crossref
Substituent Effects on the [N-I-N](+) Halogen Bond.
Carlsson AC, Mehmeti K, Uhrbom M, ..., Rissanen K, Erdélyi M
J. Am. Chem. Soc. 138 (31) 9853-9863 [2016-08-10; online 2016-06-17]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Large-scale ligand-based predictive modelling using support vector machines.
Alvarsson J, Lampa S, Schaal W, ..., Wikberg JE, Spjuth O
J Cheminform 8 (-) 39 [2016-08-10; online 2016-08-10]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
The genome-scale DNA-binding profile of BarR, a β-alanine responsive transcription factor in the archaeon Sulfolobus acidocaldarius.
Liu H, Wang K, Lindås AC, Peeters E
BMC Genomics 17 (-) 569 [2016-08-08; online 2016-08-08]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Stromal Hedgehog signalling is downregulated in colon cancer and its restoration restrains tumour growth.
Gerling M, Büller NV, Kirn LM, ..., van den Brink GR, Toftgård R
Nat Commun 7 (-) 12321 [2016-08-05; online 2016-08-05]
Bioinformatics and Expression Analysis (BEA) [Service]
PubMed DOI Crossref
Inconsistent results in the analysis of ALK rearrangements in non-small cell lung cancer.
Mattsson JS, Brunnström H, Jabs V, ..., Micke P, Svensson MA
BMC Cancer 16 (-) 603 [2016-08-05; online 2016-08-05]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service] Tissue Profiling [Collaborative]
PubMed DOI Crossref
The genetic architecture of type 2 diabetes.
Fuchsberger C, Flannick J, Teslovich TM, ..., Altshuler D, McCarthy MI
Nature 536 (7614) 41-47 [2016-08-04; online 2016-07-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Rapid and specific hypomethylation of enhancers in endothelial cells during adaptation to cell culturing.
Magnusson M, Larsson P, Lu EX, ..., Carén H, Jern S
Epigenetics 11 (8) 614-624 [2016-08-02; online 2016-06-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Mutation-Induced Population Shift in the MexR Conformational Ensemble Disengages DNA Binding: A Novel Mechanism for MarR Family Derepression.
Anandapadamanaban M, Pilstål R, Andresen C, ..., Wallner B, Sunnerhagen M
Structure 24 (8) 1311-1321 [2016-08-02; online 2016-07-14]
Protein Science Facility (PSF) [Collaborative]
PubMed DOI Crossref
Compounds from the marine sponge Cribrochalina vasculum offer a way to target IGF-1R mediated signaling in tumor cells
Zovko A, Novak M, Hååg P, ..., Lewensohn R, Viktorsson K
Oncotarget 7 (31) 50258-50276 [2016-08-02; online 2016-07-01]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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ω-3 Polyunsaturated Fatty Acid Biomarkers and Coronary Heart Disease: Pooling Project of 19 Cohort Studies.
Del Gobbo LC, Imamura F, Aslibekyan S, ..., Mozaffarian D, Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) Fatty Acids and Outcomes Research Consortium (FORCe)
JAMA Intern Med 176 (8) 1155-1166 [2016-08-01; online 2016-07-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Simultaneous imaging of multiple neurotransmitters and neuroactive substances in the brain by desorption electrospray ionization mass spectrometry.
Shariatgorji M, Strittmatter N, Nilsson A, ..., Goodwin RJ, Andren PE
Neuroimage 136 (-) 129-138 [2016-08-01; online 2016-05-04]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Profilin connects actin assembly with microtubule dynamics.
Nejedla M, Sadi S, Sulimenko V, ..., Aspenström P, Karlsson R
Mol. Biol. Cell 27 (15) 2381-2393 [2016-08-01; online 2016-06-17]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
On the reversibility of parasitism: adaptation to a free-living lifestyle via gene acquisitions in the diplomonad Trepomonas sp. PC1.
Xu F, Jerlström-Hultqvist J, Kolisko M, ..., Svärd SG, Andersson JO
BMC Biol. 14 (-) 62 [2016-08-01; online 2016-08-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
MetLab: An In Silico Experimental Design, Simulation and Analysis Tool for Viral Metagenomics Studies.
Norling M, Karlsson-Lindsjö OE, Gourlé H, Bongcam-Rudloff E, Hayer J
PLoS ONE 11 (8) e0160334 [2016-08-01; online 2016-08-01]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Kinetic investigation of human 5-lipoxygenase with arachidonic acid.
Mittal M, Kumar RB, Balagunaseelan N, ..., Haeggström JZ, Rinaldo-Matthis A
Bioorg. Med. Chem. Lett. 26 (15) 3547-3551 [2016-08-01; online 2016-06-11]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Tuning fresh: radiation through rewiring of central metabolism in streamlined bacteria.
Eiler A, Mondav R, Sinclair L, ..., Woyke T, Bertilsson S
ISME J 10 (8) 1902-1914 [2016-08-00; online 2016-01-19]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training Microbial Single Cell Genomics [Collaborative]
PubMed DOI Crossref
Transcriptomic analysis reveals how a lack of potassium ions increases Sulfolobus acidocaldarius sensitivity to pH changes.
Buetti-Dinh A, Dethlefsen O, Friedman R, Dopson M
Microbiology (Reading, Engl.) 162 (8) 1422-1434 [2016-08-00; online 2016-05-28]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Spondyloocular Syndrome: Novel Mutations in XYLT2 Gene and Expansion of the Phenotypic Spectrum.
Taylan F, Costantini A, Coles N, ..., Tüysüz B, Mäkitie O
J. Bone Miner. Res. 31 (8) 1577-1585 [2016-08-00; online 2016-03-19]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Serum nuclear magnetic resonance-based metabolomics and outcome in diffuse large B-cell lymphoma patients - a pilot study.
Stenson M, Pedersen A, Hasselblom S, ..., Pinto R, Andersson PO
Leuk. Lymphoma 57 (8) 1814-1822 [2016-08-00; online 2016-02-17]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
SATB2 is expressed in Merkel cell carcinoma.
Fukuhara M, Agnarsdóttir M, Edqvist PH, Coter A, Ponten F
Arch. Dermatol. Res. 308 (6) 449-454 [2016-08-00; online 2016-06-04]
Tissue Profiling [Technology development]
PubMed DOI Crossref
Remnants of marine bacterial communities can be retrieved from deep sediments in lakes of marine origin.
Langenheder S, Comte J, Zha Y, ..., Eiler A, Lindström ES
Environ Microbiol Rep 8 (4) 479-485 [2016-08-00; online 2016-03-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Rapid Evolution of Genomic Imprinting in Two Species of the Brassicaceae.
Hatorangan MR, Laenen B, Steige KA, Slotte T, Köhler C
Plant Cell 28 (8) 1815-1827 [2016-08-00; online 2016-07-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Postprandial alterations in whole-blood DNA methylation are mediated by changes in white blood cell composition.
Rask-Andersen M, Bringeland N, Nilsson EK, ..., Benedict C, Schiöth HB
Am. J. Clin. Nutr. 104 (2) 518-525 [2016-08-00; online 2016-07-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Phytophthora infestans Argonaute 1 binds microRNA and small RNAs from effector genes and transposable elements.
Åsman AK, Fogelqvist J, Vetukuri RR, Dixelius C
New Phytol. 211 (3) 993-1007 [2016-08-00; online 2016-03-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Novel regulatory variant detected on the VKORC1 haplotype that is associated with warfarin dose.
Cavalli M, Pan G, Nord H, ..., Wadelius C, Wadelius M
Pharmacogenomics 17 (12) 1305-1314 [2016-08-00; online 2016-02-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Neuroprotective potential of Linezolid: a quantitative and distribution study via mass spectrometry.
Baijnath S, Shobo A, Bester LA, ..., Naicker T, Govender T
J. Mol. Histol. 47 (4) 429-435 [2016-08-00; online 2016-06-22]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Meta-analysis of 375,000 individuals identifies 38 susceptibility loci for migraine.
Gormley P, Anttila V, Winsvold BS, ..., Nyholt DR, Palotie A
Nat. Genet. 48 (8) 856-866 [2016-08-00; online 2016-06-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Intra-tumour IgA1 is common in cancer and is correlated with poor prognosis in bladder cancer.
Welinder C, Jirström K, Lehn S, ..., Danielsson L, Jansson B
Heliyon 2 (8) e00143 [2016-08-00; online 2016-08-16]
Structural Proteomics [Service]
DOI Crossref
In quest for the optimal delignification of lignocellulosic biomass using hydrated, SO2 switched DBU MEASIL switchable ionic liquid
Anugwom I, Rujana L, Wärnå J, Hedenström M, Mikkola JP
Chemical Engineering Journal 297 (-) 256-264 [2016-08-00; online 2016-08-00]
Swedish NMR Centre (SNC) [Collaborative]
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Impact of ocean acidification on antimicrobial activity in gills of the blue mussel (Mytilus edulis).
Hernroth B, Baden S, Tassidis H, ..., Bergström Lind S, Bergquist J
Fish Shellfish Immunol. 55 (-) 452-459 [2016-08-00; online 2016-06-08]
Mass Spectrometry-based Proteomics, Uppsala [Collaborative]
PubMed DOI Crossref
Genome-wide association meta-analysis in Chinese and European individuals identifies ten new loci associated with systemic lupus erythematosus.
Morris DL, Sheng Y, Zhang Y, ..., Cui Y, Vyse TJ
Nat. Genet. 48 (8) 940-946 [2016-08-00; online 2016-07-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic determinants of warfarin maintenance dose and time in therapeutic treatment range: a RE-LY genomics substudy.
Eriksson N, Wallentin L, Berglund L, ..., Yusuf S, Wadelius M
Pharmacogenomics 17 (13) 1425-1439 [2016-08-00; online 2016-08-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Genetic and environmental effects on body mass index from infancy to the onset of adulthood: an individual-based pooled analysis of 45 twin cohorts participating in the COllaborative project of Development of Anthropometrical measures in Twins (CODATwins) study.
Silventoinen K, Jelenkovic A, Sund R, ..., Boomsma DI, Kaprio J
Am. J. Clin. Nutr. 104 (2) 371-379 [2016-08-00; online 2016-07-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Developmental exposure to progestins causes male bias and precocious puberty in zebrafish (Danio rerio).
Svensson J, Mustafa A, Fick J, Schmitz M, Brunström B
Aquat. Toxicol. 177 (-) 316-323 [2016-08-00; online 2016-06-14]
Genome Engineering Zebrafish [Service]
DOI Crossref
Assessing the taxonomic status of Osmoderma cristinae (Coleoptera: Scarabaeidae), endemic to Sicily, by genetic, morphological and pheromonal analyses
Zauli A, Carpaneto GM, Chiari S, ..., Bologna MA, Svensson GP
J Zool Syst Evol Res 54 (3) 206-214 [2016-08-00; online 2016-02-12]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Analysis of neural crest-derived clones reveals novel aspects of facial development.
Kaucka M, Ivashkin E, Gyllborg D, ..., Hellander A, Adameyko I
Sci Adv 2 (8) e1600060 [2016-08-00; online 2016-08-03]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Adaptation to different types of stress converge on mitochondrial metabolism
Lahtvee PJ, Kumar R, Hallström BM, Nielsen J
Mol. Biol. Cell 27 (15) 2505-2514 [2016-08-00; online 2016-08-00]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A novel splicing mutation in the IQSEC2 gene that modulates the phenotype severity in a family with intellectual disability.
Madrigal I, Alvarez-Mora MI, Rosell J, ..., Syvänen AC, Mila M
Eur. J. Hum. Genet. 24 (8) 1117-1123 [2016-08-00; online 2016-01-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
A new class of fatty acid allene oxide formed by the DOX-P450 fusion proteins of human and plant pathogenic fungi, C. immitis and Z. tritici.
Oliw EH, Aragó M, Chen Y, Jernerén F
J. Lipid Res. 57 (8) 1518-1528 [2016-08-00; online 2016-06-11]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Inhibitors of the Cysteine Synthase CysM with Antibacterial Potency against Dormant Mycobacterium tuberculosis.
Brunner K, Maric S, Reshma RS, ..., Schnell R, Schneider G
J. Med. Chem. 59 (14) 6848-6859 [2016-07-28; online 2016-07-13]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Delineating the conformational flexibility of trisaccharides from NMR spectroscopy experiments and computer simulations.
Yang M, Angles d'Ortoli T, Säwén E, ..., Widmalm G, MacKerell AD
Phys Chem Chem Phys 18 (28) 18776-18794 [2016-07-28; online 2016-06-27]
Swedish NMR Centre (SNC) [Service]
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The De Novo Transcriptome and Its Functional Annotation in the Seed Beetle Callosobruchus maculatus.
Sayadi A, Immonen E, Bayram H, Arnqvist G
PLoS ONE 11 (7) e0158565 [2016-07-21; online 2016-07-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Short Chain Fatty Acids (SCFA) Reprogram Gene Expression in Human Malignant Epithelial and Lymphoid Cells.
Astakhova L, Ngara M, Babich O, ..., Ernberg I, Matskova L
PLoS ONE 11 (7) e0154102 [2016-07-21; online 2016-07-21]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Metabolic Profiling of Systemic Lupus Erythematosus and Comparison with Primary Sjögren's Syndrome and Systemic Sclerosis.
Bengtsson AA, Trygg J, Wuttge DM, ..., Rännar S, Lundstedt T
PLoS ONE 11 (7) e0159384 [2016-07-21; online 2016-07-21]
Swedish Metabolomics Centre (SMC) [Service]
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Systematic Analysis Reveals that Cancer Mutations Converge on Deregulated Metabolism of Arachidonate and Xenobiotics.
Gatto F, Schulze A, Nielsen J
Cell Rep 16 (3) 878-895 [2016-07-19; online 2016-07-12]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Systems Biology [Technology development]
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Horizontal Cells, the Odd Ones Out in the Retina, Give Insights into Development and Disease.
Boije H, Shirazi Fard S, Edqvist PH, Hallböök F
Front Neuroanat 10 (-) 77 [2016-07-19; online 2016-07-19]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
DNA Content in Extracellular Vesicles Isolated from Porcine Coronary Venous Blood Directly after Myocardial Ischemic Preconditioning.
Svennerholm K, Rodsand P, Hellman U, ..., Ronquist G, Haney M
PLoS ONE 11 (7) e0159105 [2016-07-19; online 2016-07-19]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Peroxisome Proliferator-activated Receptor γ Coactivator-1 α Isoforms Selectively Regulate Multiple Splicing Events on Target Genes.
Martínez-Redondo V, Jannig PR, Correia JC, ..., Dahlman-Wright K, Ruas JL
J. Biol. Chem. 291 (29) 15169-15184 [2016-07-15; online 2016-05-28]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Direct imaging of elemental distributions in tissue sections by laser ablation mass spectrometry.
Shariatgorji M, Nilsson A, Bonta M, ..., Limbeck A, Andrén PE
Methods 104 (-) 86-92 [2016-07-15; online 2016-06-02]
Spatial Mass Spectrometry [Technology development]
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Abstract 2688: A forward genetics screen of murine brain tumors identifies novel candidate genes involved in gliomagenesis
Cancer M, Weishaupt H, Rosen G, ..., Ameur A, Swartling FJ
Cancer Res 76 (14 Supplement) 2688-2688 [2016-07-15; online 2016-07-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
DOI Crossref
Abstract 2473: Combined BET-bromodomain and CDK2 inhibition in MYC-driven medulloblastoma
Bolin S, Borgenvik A, Persson C, ..., Weishaupt H, Swartling FJ
Cancer Res 76 (14 Supplement) 2473-2473 [2016-07-15; online 2016-07-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cloche is a bHLH-PAS transcription factor that drives haemato-vascular specification.
Reischauer S, Stone OA, Villasenor A, ..., Andersson O, Stainier DY
Nature 535 (7611) 294-298 [2016-07-14; online 2016-07-15]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A C2HC zinc finger is essential for the RING-E2 interaction of the ubiquitin ligase RNF125.
Bijlmakers MJ, Teixeira JM, Boer R, ..., Pons M, Crosas B
Sci Rep 6 (-) 29232 [2016-07-14; online 2016-07-14]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Rosette-Disrupting Effect of an Anti-Plasmodial Compound for the Potential Treatment of Plasmodium falciparum Malaria Complications.
Ch'ng JH, Moll K, Quintana Mdel P, ..., Eriksson AB, Wahlgren M
Sci Rep 6 (-) 29317 [2016-07-11; online 2016-07-11]
Karolinska High Throughput Center (KHTC) [Service]
PubMed DOI Crossref
Integrative functional genomics identifies regulatory mechanisms at coronary artery disease loci.
Miller CL, Pjanic M, Wang T, ..., Björkegren JL, Quertermous T
Nat Commun 7 (-) 12092 [2016-07-08; online 2016-07-08]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dysregulated signaling hubs of liver lipid metabolism reveal hepatocellular carcinoma pathogenesis.
Lee S, Mardinoglu A, Zhang C, Lee D, Nielsen J
Nucleic Acids Res. 44 (12) 5529-5539 [2016-07-08; online 2016-05-25]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Systems Biology [Technology development]
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Profiling cancer testis antigens in non-small-cell lung cancer.
Djureinovic D, Hallström BM, Horie M, ..., Uhlén M, Micke P
JCI Insight 1 (10) e86837 [2016-07-07; online 2016-07-07]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Tissue Profiling [Collaborative]
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Large Deletions at the SHOX Locus in the Pseudoautosomal Region Are Associated with Skeletal Atavism in Shetland Ponies.
Rafati N, Andersson LS, Mikko S, ..., Lindgren G, Rubin CJ
G3 (Bethesda) 6 (7) 2213-2223 [2016-07-07; online 2016-07-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Exome sequencing in pooled DNA samples to identify maternal pre-eclampsia risk variants.
Kaartokallio T, Wang J, Heinonen S, ..., Kere J, Laivuori H
Sci Rep 6 (-) 29085 [2016-07-07; online 2016-07-07]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Diversity and Expression of Bacterial Metacaspases in an Aquatic Ecosystem.
Asplund-Samuelsson J, Sundh J, Dupont CL, ..., Ininbergs K, Ekman M
Front Microbiol 7 (-) 1043 [2016-07-06; online 2016-07-06]
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Survival-associated heterogeneity of marker-defined perivascular cells in colorectal cancer.
Mezheyeuski A, Bradic Lindh M, Guren TK, ..., Sorbye H, Östman A
Oncotarget 7 (27) 41948-41958 [2016-07-05; online 2016-06-02]
Fluorescence Tissue Profiling [Collaborative] Tissue Profiling [Collaborative]
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Pooled analysis of genome-wide association studies of cervical intraepithelial neoplasia 3 (CIN3) identifies a new susceptibility locus.
Chen D, Enroth S, Liu H, ..., Xu S, Gyllensten U
Oncotarget 7 (27) 42216-42224 [2016-07-05; online 2016-06-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Long-term genetic stability and a high-altitude East Asian origin for the peoples of the high valleys of the Himalayan arc.
Jeong C, Ozga AT, Witonsky DB, ..., Di Rienzo A, Warinner C
Proc. Natl. Acad. Sci. U.S.A. 113 (27) 7485-7490 [2016-07-05; online 2016-06-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Visualization and analysis of gene expression in tissue sections by spatial transcriptomics.
Ståhl PL, Salmén F, Vickovic S, ..., Lundeberg J, Frisén J
Science 353 (6294) 78-82 [2016-07-01; online 2016-07-02]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Fluorescence Tissue Profiling [Collaborative] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Tissue Profiling [Collaborative]
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The epidermis coordinates auxin-induced stem growth in response to shade.
Procko C, Burko Y, Jaillais Y, ..., Long JA, Chory J
Genes Dev. 30 (13) 1529-1541 [2016-07-01; online 2016-07-13]
Swedish Metabolomics Centre (SMC) [Service]
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Genome-wide association study identifies multiple susceptibility loci for multiple myeloma.
Mitchell JS, Li N, Weinhold N, ..., Nilsson B, Houlston RS
Nat Commun 7 (-) 12050 [2016-07-01; online 2016-07-01]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Establishing a Proteomics-Based Monocyte Assay To Assess Differential Innate Immune Activation Responses.
Tarasova NK, Ytterberg AJ, Lundberg K, ..., Harris RA, Zubarev RA
J. Proteome Res. 15 (7) 2337-2345 [2016-07-01; online 2016-06-03]
Advanced Mass Spectrometry Proteomics [Collaborative] Chemical Proteomics [Technology development]
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Dinosaur: A Refined Open-Source Peptide MS Feature Detector.
Teleman J, Chawade A, Sandin M, Levander F, Malmström J
J. Proteome Res. 15 (7) 2143-2151 [2016-07-01; online 2016-05-26]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Whole genome duplication in coast redwood (Sequoia sempervirens) and its implications for explaining the rarity of polyploidy in conifers.
Scott AD, Stenz NW, Ingvarsson PK, Baum DA
New Phytol. 211 (1) 186-193 [2016-07-00; online 2016-03-22]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Variation in Linked Selection and Recombination Drive Genomic Divergence during Allopatric Speciation of European and American Aspens.
Wang J, Street NR, Scofield DG, Ingvarsson PK
Mol. Biol. Evol. 33 (7) 1754-1767 [2016-07-00; online 2016-03-18]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The role of germline alterations in the DNA damage response genes BRIP1 and BRCA2 in melanoma susceptibility.
Tuominen R, Engström PG, Helgadottir H, ..., Hansson J, Höiom V
Genes Chromosomes Cancer 55 (7) 601-611 [2016-07-00; online 2016-04-14]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The genetic landscape of paediatric de novo acute myeloid leukaemia as defined by single nucleotide polymorphism array and exon sequencing of 100 candidate genes.
Olsson L, Zettermark S, Biloglav A, ..., Paulsson K, Johansson B
Br. J. Haematol. 174 (2) 292-301 [2016-07-00; online 2016-03-31]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Human Protein Atlas - an important resource for basic and clinical research.
Lindskog C
Expert Rev Proteomics 13 (7) 627-629 [2016-07-00; online 2016-06-22]
Tissue Profiling [Technology development]
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Super-resolution structured illumination fluorescence microscopy of the lateral wall of the cochlea: the Connexin26/30 proteins are separately expressed in man.
Liu W, Edin F, Blom H, ..., Laurell G, Rask-Andersen H
Cell Tissue Res. 365 (1) 13-27 [2016-07-00; online 2016-03-05]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Prevention of apoptosis averts glomerular tubular disconnection and podocyte loss in proteinuric kidney disease.
Burlaka I, Nilsson LM, Scott L, ..., Brismar H, Aperia A
Kidney Int. 90 (1) 135-148 [2016-07-00; online 2016-05-25]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Multi-platform metabolomics assays for human lung lavage fluids in an air pollution exposure study.
Surowiec I, Karimpour M, Gouveia-Figueira S, ..., Trygg J, Nording ML
Anal Bioanal Chem 408 (17) 4751-4764 [2016-07-00; online 2016-04-25]
Swedish Metabolomics Centre (SMC) [Service]
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Increasing the power of genome wide association studies in natural populations using repeated measures - evaluation and implementation.
Rönnegård L, McFarlane SE, Husby A, ..., Ellegren H, Qvarnström A
Methods Ecol Evol 7 (7) 792-799 [2016-07-00; online 2016-02-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of Inhibitors of Pseudomonas aeruginosa Exotoxin-S ADP-Ribosyltransferase Activity.
Pinto AF, Ebrahimi M, Saleeb M, ..., Elofsson M, Schüler H
J Biomol Screen 21 (6) 590-595 [2016-07-00; online 2016-02-05]
Protein Science Facility (PSF) [Service]
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Distinct transcription factor complexes act on a permissive chromatin landscape to establish regionalized gene expression in CNS stem cells.
Hagey DW, Zaouter C, Combeau G, ..., Huss M, Muhr J
Genome Res. 26 (7) 908-917 [2016-07-00; online 2016-05-02]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Combined structural, biochemical and cellular evidence demonstrates that both FGDF motifs in alphavirus nsP3 are required for efficient replication.
Schulte T, Liu L, Panas MD, ..., Achour A, McInerney GM
Open Biol 6 (7) - [2016-07-00; online 2016-07-08]
Protein Science Facility (PSF) [Service]
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An Integrative Genomic Analysis of Formalin Fixed Paraffin-Embedded Archived Serous Ovarian Carcinoma Comparing Long-term and Short-term Survivors.
Stålberg K, Crona J, Razmara M, ..., Skogseid B, Stålberg P
Int. J. Gynecol. Cancer 26 (6) 1027-1032 [2016-07-00; online 2016-05-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A draft fur seal genome provides insights into factors affecting SNP validation and how to mitigate them.
Humble E, Martinez-Barrio A, Forcada J, ..., Wolf JB, Hoffman JI
Mol Ecol Resour 16 (4) 909-921 [2016-07-00; online 2015-12-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Gene-Expression Profiling Suggests Impaired Signaling via the Interferon Pathway in Cstb-/- Microglia.
Körber I, Katayama S, Einarsdottir E, ..., Lehesjoki AE, Joensuu T
PLoS ONE 11 (6) e0158195 [2016-06-29; online 2016-06-29]
Bioinformatics and Expression Analysis (BEA) [Service]
PubMed DOI Crossref
Conserved 33-kb haplotype in the MHC class III region regulates chronic arthritis.
Yau AC, Tuncel J, Haag S, ..., Padyukov L, Holmdahl R
Proc. Natl. Acad. Sci. U.S.A. 113 (26) E3716-E3724 [2016-06-28; online 2016-06-16]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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PRECOG: a tool for automated extraction and visualization of fitness components in microbial growth phenomics.
Fernandez-Ricaud L, Kourtchenko O, Zackrisson M, Warringer J, Blomberg A
BMC Bioinformatics 17 (-) 249 [2016-06-23; online 2016-06-23]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support and Infrastructure [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
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Genetic and environmental influences on height from infancy to early adulthood: An individual-based pooled analysis of 45 twin cohorts.
Jelenkovic A, Sund R, Hur YM, ..., Kaprio J, Silventoinen K
Sci Rep 6 (-) 28496 [2016-06-23; online 2016-06-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cryptosporidium as a testbed for single cell genome characterization of unicellular eukaryotes.
Troell K, Hallström B, Divne AM, ..., Beser J, Bertilsson S
BMC Genomics 17 (-) 471 [2016-06-23; online 2016-06-23]
Bioinformatics Support for Computational Resources [Service] Microbial Single Cell Genomics [Technology development] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The Aquaporin Splice Variant NbXIP1;1α Is Permeable to Boric Acid and Is Phosphorylated in the N-terminal Domain.
Ampah-Korsah H, Anderberg HI, Engfors A, ..., Kjellbom P, Johanson U
Front Plant Sci 7 (-) 862 [2016-06-16; online 2016-06-16]
Structural Proteomics [Service]
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Effects of Fluoxetine on Human Embryo Development.
Kaihola H, Yaldir FG, Hreinsson J, ..., Åkerud H, Sundström-Poromaa I
Front Cell Neurosci 10 (-) 160 [2016-06-16; online 2016-06-16]
Mass Spectrometry-based Proteomics, Uppsala [Collaborative]
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Draft Genome Sequence of Moraxella catarrhalis Type Strain CCUG 353T.
Jakobsson HE, Salvà-Serra F, Thorell K, ..., Kristiansson E, Moore ERB
Genome Announc 4 (3) e00552-16 [2016-06-16; online 2016-06-16]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] Clinical Genomics Stockholm [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Read-based phasing of related individuals.
Garg S, Martin M, Marschall T
Bioinformatics 32 (12) i234-i242 [2016-06-15; online 2016-06-17]
Bioinformatics (NBIS) [Technology development] Bioinformatics Long-term Support WABI [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
PubMed DOI Crossref
Parental epigenetic asymmetry of PRC2-mediated histone modifications in the Arabidopsis endosperm.
Moreno-Romero J, Jiang H, Santos-González J, Köhler C
EMBO J. 35 (12) 1298-1311 [2016-06-15; online 2016-04-27]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Tumor acidosis enhances cytotoxic effects and autophagy inhibition by salinomycin on cancer cell lines and cancer stem cells.
Pellegrini P, Dyczynski M, Sbrana FV, ..., Kharaziha P, De Milito A
Oncotarget 7 (24) 35703-35723 [2016-06-14; online 2016-06-02]
Chemical Biology Consortium Sweden (CBCS) [Service]
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Evolution and expression of the phosphodiesterase 6 genes unveils vertebrate novelty to control photosensitivity.
Lagman D, Franzén IE, Eggert J, Larhammar D, Abalo XM
BMC Evol. Biol. 16 (1) 124 [2016-06-13; online 2016-06-13]
Genome Engineering Zebrafish [Technology development]
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Structural Analysis of a Complex between Small Ubiquitin-like Modifier 1 (SUMO1) and the ZZ Domain of CREB-binding Protein (CBP/p300) Reveals a New Interaction Surface on SUMO.
Diehl C, Akke M, Bekker-Jensen S, ..., Streicher W, Wikström M
J. Biol. Chem. 291 (24) 12658-12672 [2016-06-10; online 2016-04-25]
Swedish NMR Centre (SNC) [Service]
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Regulation of Bone Morphogenetic Protein Signaling by ADP-ribosylation
Watanabe Y, Papoutsoglou P, Maturi V, ..., Heldin CH, Moustakas A
J. Biol. Chem. 291 (24) 12706-12723 [2016-06-10; online 2016-04-21]
Affinity Proteomics Uppsala [Service] PLA and Single Cell Proteomics [Service]
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Oligodendrocyte heterogeneity in the mouse juvenile and adult central nervous system.
Marques S, Zeisel A, Codeluppi S, ..., Linnarsson S, Castelo-Branco G
Science 352 (6291) 1326-1329 [2016-06-10; online 2016-06-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Recommendations on e-infrastructures for next-generation sequencing.
Spjuth O, Bongcam-Rudloff E, Dahlberg J, ..., Vezzi F, Korpelainen E
Gigascience 5 (-) 26 [2016-06-07; online 2016-06-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Identification of ETV6-RUNX1-like and DUX4-rearranged subtypes in paediatric B-cell precursor acute lymphoblastic leukaemia.
Lilljebjörn H, Henningsson R, Hyrenius-Wittsten A, ..., Fontes M, Fioretos T
Nat Commun 7 (-) 11790 [2016-06-06; online 2016-06-06]
Clinical Genomics [Collaborative] Clinical Genomics Lund [Collaborative]
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Elevated levels of FN1 and CCL2 in bronchoalveolar lavage fluid from sarcoidosis patients.
Hamsten C, Wiklundh E, Grönlund H, ..., Grunewald J, Häggmark-Månberg A
Respir. Res. 17 (1) 69 [2016-06-04; online 2016-06-04]
Affinity Proteomics Stockholm [Collaborative]
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Guidance Molecule SEMA3A Restricts Tumor Growth by Differentially Regulating the Proliferation of Tumor-Associated Macrophages.
Wallerius M, Wallmann T, Bartish M, ..., Andersson J, Rolny C
Cancer Res. 76 (11) 3166-3178 [2016-06-01; online 2016-04-06]
Tissue Profiling [Collaborative]
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Aerobic exercise augments muscle transcriptome profile of resistance exercise.
Lundberg TR, Fernandez-Gonzalo R, Tesch PA, Rullman E, Gustafsson T
Am. J. Physiol. Regul. Integr. Comp. Physiol. 310 (11) R1279-R1287 [2016-06-01; online 2016-04-13]
Bioinformatics and Expression Analysis (BEA) [Service]
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The oxidized phospholipid PazePC promotes permeabilization of mitochondrial membranes by Bax.
Lidman M, Pokorná Š, Dingeldein AP, ..., Hof M, Gröbner G
Biochim. Biophys. Acta 1858 (6) 1288-1297 [2016-06-00; online 2016-03-04]
Swedish NMR Centre (SNC) [Collaborative]
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Somatic, positive and negative domains of the Center for Epidemiological Studies Depression (CES-D) scale: a meta-analysis of genome-wide association studies.
Demirkan A, Lahti J, Direk N, ..., van Duijn CM, Räikkönen K
Psychol Med 46 (8) 1613-1623 [2016-06-00; online 2016-03-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Single Chain Antibodies as Tools to Study transforming growth factor-β-Regulated SMAD Proteins in Proximity Ligation-Based Pharmacological Screens.
Blokzijl A, Zieba A, Hust M, ..., Dübel S, Landegren U
Mol. Cell Proteomics 15 (6) 1848-1856 [2016-06-00; online 2016-03-02]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
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Scolytus multistriatus associated with Dutch elm disease on the island of Gotland: phenology and communities of vectored fungi
Menkis A, Östbrant IL, Davydenko K, ..., Balalaikins M, Vasaitis R
Mycol Progress 15 (6) - [2016-06-00; online 2016-05-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Mosaic Loss of Chromosome Y in Blood Is Associated with Alzheimer Disease
Dumanski JP, Lambert JC, Rasi C, ..., Lind L, Forsberg LA
The American Journal of Human Genetics 98 (6) 1208-1219 [2016-06-00; online 2016-06-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
High density of REC8 constrains sister chromatid axes and prevents illegitimate synaptonemal complex formation.
Agostinho A, Manneberg O, van Schendel R, ..., Brismar H, Höög C
EMBO Rep. 17 (6) 901-913 [2016-06-00; online 2016-05-14]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Genetic variants associated with subjective well-being, depressive symptoms, and neuroticism identified through genome-wide analyses.
Okbay A, Baselmans BM, De Neve JE, ..., Bartels M, Cesarini D
Nat. Genet. 48 (6) 624-633 [2016-06-00; online 2016-04-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic variants associated with antithyroid drug-induced agranulocytosis: a genome-wide association study in a European population.
Hallberg P, Eriksson N, Ibañez L, ..., Wadelius M, EuDAC collaborators
Lancet Diabetes Endocrinol 4 (6) 507-516 [2016-06-00; online 2016-05-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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GPR44 is a pancreatic protein restricted to the human beta cell.
Hellström-Lindahl E, Danielsson A, Ponten F, ..., Johansson L, Eriksson O
Acta Diabetol 53 (3) 413-421 [2016-06-00; online 2015-10-14]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Tissue Profiling [Collaborative]
PubMed DOI Crossref
Epigenomics of Total Acute Sleep Deprivation in Relation to Genome-Wide DNA Methylation Profiles and RNA Expression.
Nilsson EK, Boström AE, Mwinyi J, Schiöth HB
OMICS 20 (6) 334-342 [2016-06-00; online 2016-06-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Epigenome-wide DNA methylation patterns associated with fatigue in primary Sjögren's syndrome.
Brække Norheim K, Imgenberg-Kreuz J, Jonsdottir K, ..., Nordmark G, Omdal R
Rheumatology (Oxford) 55 (6) 1074-1082 [2016-06-00; online 2016-03-12]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Disruptive selection without genome-wide evolution across a migratory divide.
von Rönn JA, Shafer AB, Wolf JB
Mol. Ecol. 25 (11) 2529-2541 [2016-06-00; online 2016-01-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Detection of Biomarkers with Solid-Phase Proximity Ligation Assay in Patients with Colorectal Cancer
Ghanipour L, Darmanis S, Landegren U, ..., Påhlman L, Birgisson H
Transl Oncol 9 (3) 251-255 [2016-06-00; online 2016-06-00]
Affinity Proteomics Uppsala [Collaborative] PLA and Single Cell Proteomics [Collaborative] Tissue Profiling [Service]
PubMed DOI Crossref
Coxsackievirus counters the host innate immune response by blocking type III interferon expression.
Lind K, Svedin E, Domsgen E, ..., Moll M, Flodström-Tullberg M
J. Gen. Virol. 97 (6) 1-12 [2016-06-00; online 2016-03-02]
Protein Science Facility (PSF) [Service]
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Common and Rare Genetic Variation in CCR2, CCR5, or CX3CR1 and Risk of Atherosclerotic Coronary Heart Disease and Glucometabolic Traits.
Golbus JR, Stitziel NO, Zhao W, ..., Reilly MP, CARDIoGRAMplusC4D, Myocardial Infarction Genetics (MIGen), Exome Sequencing Project and Early-Onset Myocardial Infarction (ESP EOMI), and the Pakistan Risk of Myocardial Infarction Study (PROMIS) Consortia*
Circ Cardiovasc Genet 9 (3) 250-258 [2016-06-00; online 2016-03-26]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Allele-specific transcription factor binding in liver and cervix cells unveils many likely drivers of GWAS signals.
Cavalli M, Pan G, Nord H, ..., Wallerman O, Wadelius C
Genomics 107 (6) 248-254 [2016-06-00; online 2016-04-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Variants within the SP110 nuclear body protein modify risk of canine degenerative myelopathy.
Ivansson EL, Megquier K, Kozyrev SV, ..., Coates JR, Lindblad-Toh K
Proc. Natl. Acad. Sci. U.S.A. 113 (22) E3091-E3100 [2016-05-31; online 2016-05-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The POU/Oct Transcription Factor Pdm1/nub Is Necessary for a Beneficial Gut Microbiota and Normal Lifespan of Drosophila.
Dantoft W, Lundin D, Esfahani SS, Engström Y
J Innate Immun 8 (4) 412-426 [2016-05-28; online 2016-05-28]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Thermotolerant yeasts selected by adaptive evolution express heat stress response at 30 °C.
Caspeta L, Chen Y, Nielsen J
Sci Rep 6 (-) 27003 [2016-05-27; online 2016-05-27]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide association study identifies 74 loci associated with educational attainment.
Okbay A, Beauchamp JP, Fontana MA, ..., Cesarini D, Benjamin DJ
Nature 533 (7604) 539-542 [2016-05-26; online 2016-05-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Targeting Serglycin Prevents Metastasis in Murine Mammary Carcinoma.
Roy A, Femel J, Huijbers EJ, ..., Olsson AK, Åbrink M
PLoS ONE 11 (5) e0156151 [2016-05-25; online 2016-05-25]
Array and Analysis Facility [Service]
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New technologies for DNA analysis--a review of the READNA Project.
McGinn S, Bauer D, Brefort T, ..., Willcocks JP, Gut IG
N Biotechnol 33 (3) 311-330 [2016-05-25; online 2015-10-26]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Glycosaminoglycan Profiling in Patients' Plasma and Urine Predicts the Occurrence of Metastatic Clear Cell Renal Cell Carcinoma.
Gatto F, Volpi N, Nilsson H, ..., Basso U, Nielsen J
Cell Rep 15 (8) 1822-1836 [2016-05-24; online 2016-05-18]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Systems Biology [Technology development]
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Chroman-4-one and chromone based somatostatin β-turn mimetics.
Fridén-Saxin M, Seifert T, Malo M, ..., Grøtli M, Luthman K
Eur J Med Chem 114 (-) 59-64 [2016-05-23; online 2016-02-21]
Swedish NMR Centre (SNC) [Service]
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Metagenomic Analysis of the Indian Ocean Picocyanobacterial Community: Structure, Potential Function and Evolution.
Díez B, Nylander JA, Ininbergs K, ..., Rusch DB, Bergman B
PLoS ONE 11 (5) e0155757 [2016-05-19; online 2016-05-19]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A Population Shift between Sparsely Populated Folding Intermediates Determines Amyloidogenicity.
Karamanos TK, Pashley CL, Kalverda AP, ..., Orekhov VY, Radford SE
J. Am. Chem. Soc. 138 (19) 6271-6280 [2016-05-18; online 2016-05-06]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Pseudomonas aeruginosa elastase cleaves a C-terminal peptide from human thrombin that inhibits host inflammatory responses.
van der Plas MJ, Bhongir RK, Kjellström S, ..., Mörgelin M, Schmidtchen A
Nat Commun 7 (-) 11567 [2016-05-16; online 2016-05-16]
Structural Proteomics [Service]
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Effects of Dispersal and Initial Diversity on the Composition and Functional Performance of Bacterial Communities.
Zha Y, Berga M, Comte J, Langenheder S
PLoS ONE 11 (5) e0155239 [2016-05-16; online 2016-05-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Multiplexed MALDI-MS arrays for screening of MIP solid phase extraction materials.
Jagadeesan KK, Wierzbicka C, Laurell T, ..., Shinde S, Ekström S
Journal of Chromatography B 1021 (-) 213-220 [2016-05-15; online 2015-10-30]
Structural Proteomics [Service]
PubMed DOI Crossref
Minimal selective concentrations of tetracycline in complex aquatic bacterial biofilms.
Lundström SV, Östman M, Bengtsson-Palme J, ..., Flach CF, Larsson DG
Sci. Total Environ. 553 (-) 587-595 [2016-05-15; online 2016-03-05]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Microwell-Based Live Cell Imaging of NK Cell Dynamics to Assess Heterogeneity in Motility and Cytotoxic Response.
Vanherberghen B, Frisk T, Forslund E, ..., Guldevall K, Önfelt B
Methods Mol. Biol. 1441 (-) 87-106 [2016-05-15; online 2016-05-15]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
Inclusion of dyad-repeat pattern improves topology prediction of transmembrane β-barrel proteins.
Hayat S, Peters C, Shu N, Tsirigos KD, Elofsson A
Bioinformatics 32 (10) 1571-1573 [2016-05-15; online 2016-01-23]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
DOI Crossref
Detection of signal recognition particle (SRP) RNAs in the nuclear ribosomal internal transcribed spacer 1 (ITS1) of three lineages of ectomycorrhizal fungi (Agaricomycetes, Basidiomycota)
Nilsson RH, Alm Rosenblad M, Martín MP, ..., Wurzbacher C, Abarenkov K
MycoKeys 13 (-) 21-33 [2016-05-13; online 2016-05-13]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
A combined computational and structural model of the full-length human prolactin receptor.
Bugge K, Papaleo E, Haxholm GW, ..., Lindorff-Larsen K, Kragelund BB
Nat Commun 7 (-) 11578 [2016-05-13; online 2016-05-13]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Diversity of Pico- to Mesoplankton along the 2000 km Salinity Gradient of the Baltic Sea.
Hu YO, Karlson B, Charvet S, Andersson AF
Front Microbiol 7 (-) 679 [2016-05-12; online 2016-05-12]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Inflammatory Serum Protein Profiling of Patients with Lumbar Radicular Pain One Year after Disc Herniation.
Moen A, Lind AL, Thulin M, ..., Gjerstad J, Gordh T
Int J Inflam 2016 (-) 3874964 [2016-05-11; online 2016-05-11]
Affinity Proteomics Uppsala [Collaborative] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
Divergent non-heme iron enzymes in the nogalamycin biosynthetic pathway.
Siitonen V, Selvaraj B, Niiranen L, ..., Schneider G, Metsä-Ketelä M
Proc. Natl. Acad. Sci. U.S.A. 113 (19) 5251-5256 [2016-05-10; online 2016-04-25]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Determining breast cancer histological grade from RNA-sequencing data.
Wang M, Klevebring D, Lindberg J, ..., Grönberg H, Rantalainen M
Breast Cancer Res. 18 (1) 48 [2016-05-10; online 2016-05-10]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Unscrambling Cyanobacteria Community Dynamics Related to Environmental Factors.
Bertos-Fortis M, Farnelid HM, Lindh MV, ..., Pinhassi J, Legrand C
Front Microbiol 7 (-) 625 [2016-05-09; online 2016-05-09]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Asp-ase Activity of the Opossum Granzyme B Supports the Role of Granzyme B as Part of Anti-Viral Immunity Already during Early Mammalian Evolution.
Fu Z, Thorpe M, Akula S, Hellman L
PLoS ONE 11 (5) e0154886 [2016-05-06; online 2016-05-06]
Mass Spectrometry-based Proteomics, Uppsala [Service]
PubMed DOI Crossref
The Effects of High Steady State Auxin Levels on Root Cell Elongation in Brachypodium.
Pacheco-Villalobos D, Díaz-Moreno SM, van der Schuren A, ..., Bulone V, Hardtke CS
Plant Cell - (-) - [2016-05-05; online 2016-05-05]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Changes in variation at the MHC class II DQA locus during the final demise of the woolly mammoth.
Pečnerová P, Díez-Del-Molino D, Vartanyan S, Dalén L
Sci Rep 6 (-) 25274 [2016-05-04; online 2016-05-04]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
The genetic basis for ecological adaptation of the Atlantic herring revealed by genome sequencing.
Martinez Barrio A, Lamichhaney S, Fan G, ..., Xu X, Andersson L
Elife 5 (-) - [2016-05-03; online 2016-05-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Sister Chromatid Cohesion Establishment Factor ESCO1 Operates by Substrate-Assisted Catalysis.
Kouznetsova E, Kanno T, Karlberg T, ..., Sjögren C, Schüler H
Structure 24 (5) 789-796 [2016-05-03; online 2016-04-21]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Schizophrenia and subsequent neighborhood deprivation: revisiting the social drift hypothesis using population, twin and molecular genetic data.
Sariaslan A, Fazel S, D'Onofrio BM, ..., Kuja-Halkola R, Lichtenstein P
Transl Psychiatry 6 (-) e796 [2016-05-03; online 2016-05-03]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Epigenetic silencing of miR-26A1 in chronic lymphocytic leukemia and mantle cell lymphoma: Impact on EZH2 expression.
Kopparapu PK, Bhoi S, Mansouri L, ..., Rosenquist R, Kanduri M
Epigenetics 11 (5) 335-343 [2016-05-03; online 2016-04-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
mRNA GPR162 changes are associated with decreased food intake in rat, and its human genetic variants with impairments in glucose homeostasis in two Swedish cohorts.
Caruso V, Sreedharan S, Carlini VP, ..., Fredriksson R, Schiöth HB
Gene 581 (2) 139-145 [2016-05-01; online 2016-02-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
High-Density Genetic Mapping Identifies New Susceptibility Variants in Sarcoidosis Phenotypes and Shows Genomic-driven Phenotypic Differences.
Rivera NV, Ronninger M, Shchetynsky K, ..., Padyukov L, Grunewald J
Am. J. Respir. Crit. Care Med. 193 (9) 1008-1022 [2016-05-01; online 2015-12-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Evidence for Genetic Overlap Between Schizophrenia and Age at First Birth in Women.
Mehta D, Tropf FC, Gratten J, ..., Weiser M, Wu JQ
JAMA Psychiatry 73 (5) 497-505 [2016-05-01; online 2016-03-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
nanoCAGE reveals 5' UTR features that define specific modes of translation of functionally related MTOR-sensitive mRNAs.
Gandin V, Masvidal L, Hulea L, ..., Larsson O, Topisirovic I
Genome Res. 26 (5) 636-648 [2016-05-00; online 2016-03-18]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Whole-genome resequencing of extreme phenotypes in collared flycatchers highlights the difficulty of detecting quantitative trait loci in natural populations.
Kardos M, Husby A, McFarlane SE, Qvarnström A, Ellegren H
Mol Ecol Resour 16 (3) 727-741 [2016-05-00; online 2015-12-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Utilizing the Dog Genome in the Search for Novel Candidate Genes Involved in Glioma Development-Genome Wide Association Mapping followed by Targeted Massive Parallel Sequencing Identifies a Strongly Associated Locus.
Truvé K, Dickinson P, Xiong A, ..., Bannasch D, Lindblad-Toh K
PLoS Genet. 12 (5) e1006000 [2016-05-00; online 2016-05-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Synchronous genetic turnovers across Western Eurasia in Late Pleistocene collared lemmings.
Palkopoulou E, Baca M, Abramson NI, ..., Stankovic A, Dalén L
Glob Chang Biol 22 (5) 1710-1721 [2016-05-00; online 2016-02-27]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Regulating retrotransposon activity through the use of alternative transcription start sites.
Persson J, Steglich B, Smialowska A, ..., Nielsen O, Ekwall K
EMBO Rep. 17 (5) 753-768 [2016-05-00; online 2016-02-22]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Bioinformatics and Expression Analysis (BEA) [Service]
PubMed DOI Crossref
Reduced mitochondrial malate dehydrogenase activity has a strong effect on photorespiratory metabolism as revealed by 13C labelling.
Lindén P, Keech O, Stenlund H, Gardeström P, Moritz T
J. Exp. Bot. 67 (10) 3123-3135 [2016-05-00; online 2016-02-19]
Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
Molecular Characterization of Three Canine Models of Human Rare Bone Diseases: Caffey, van den Ende-Gupta, and Raine Syndromes.
Hytönen MK, Arumilli M, Lappalainen AK, ..., Drögemüller C, Lohi H
PLoS Genet. 12 (5) e1006037 [2016-05-00; online 2016-05-17]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Microbial metagenomes from three aquifers in the Fennoscandian shield terrestrial deep biosphere reveal metabolic partitioning among populations.
Wu X, Holmfeldt K, Hubalek V, ..., Bertilsson S, Dopson M
ISME J 10 (5) 1192-1203 [2016-05-00; online 2015-10-21]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Metabolomics study of fatigue in patients with rheumatoid arthritis naïve to biological treatment.
Surowiec I, Gjesdal CG, Jonsson G, ..., Trygg J, Omdal R
Rheumatol. Int. 36 (5) 703-711 [2016-05-00; online 2016-01-25]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
High-Resolution Mapping of Crossover and Non-crossover Recombination Events by Whole-Genome Re-sequencing of an Avian Pedigree.
Smeds L, Mugal CF, Qvarnström A, Ellegren H
PLoS Genet. 12 (5) e1006044 [2016-05-00; online 2016-05-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic risk variants in the CDKN2A/B, RTEL1 and EGFR genes are associated with somatic biomarkers in glioma.
Ghasimi S, Wibom C, Dahlin AM, ..., Andersson U, Melin B
J. Neurooncol. 127 (3) 483-492 [2016-05-00; online 2016-02-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic loci on chromosome 5 are associated with circulating levels of interleukin-5 and eosinophil count in a European population with high risk for cardiovascular disease.
McLeod O, Silveira A, Valdes-Marquez E, ..., Strawbridge RJ, IMPROVE Study Group
Cytokine 81 (-) 1-9 [2016-05-00; online 2016-01-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Functionalized silk assembled from a recombinant spider silk fusion protein (Z-4RepCT) produced in the methylotrophic yeast Pichia pastoris.
Jansson R, Lau CH, Ishida T, ..., Sandgren M, Hedhammar M
Biotechnol J 11 (5) 687-699 [2016-05-00; online 2016-03-04]
Mass Spectrometry-based Proteomics, Uppsala [Collaborative]
PubMed DOI Crossref
Divergence in gene expression within and between two closely related flycatcher species.
Uebbing S, Künstner A, Mäkinen H, ..., Searle SM, Ellegren H
Mol. Ecol. 25 (9) 2015-2028 [2016-05-00; online 2016-03-02]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Distinct temporal changes in host cell lncRNA expression during the course of an adenovirus infection.
Zhao H, Chen M, Lind SB, Pettersson U
Virology 492 (-) 242-250 [2016-05-00; online 2016-03-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Displacement of US-1 clonal lineage by a new lineage ofPhytophthora infestanson potato in Kenya and Uganda
Njoroge AW, Tusiime G, Forbes GA, Yuen JE
Plant Pathol 65 (4) 587-592 [2016-05-00; online 2015-09-16]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Details in the catalytic mechanism of mammalian thioredoxin reductase 1 revealed using point mutations and juglone-coupled enzyme activities.
Xu J, Cheng Q, Arnér ES
Free Radic. Biol. Med. 94 (-) 110-120 [2016-05-00; online 2016-02-17]
Mass Spectrometry-based Proteomics, Uppsala [Service]
DOI Crossref
DNA-metabarcoding uncovers the diversity of soil-inhabiting fungi in the tropical island of Puerto Rico
Urbina H, Scofield DG, Cafaro M, Rosling A
Mycoscience 57 (3) 217-227 [2016-05-00; online 2016-05-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Biotin and Thiamine Responsive Basal Ganglia Disease--A vital differential diagnosis in infants with severe encephalopathy.
Ygberg S, Naess K, Eriksson M, ..., Wedell A, Wickström R
Eur. J. Paediatr. Neurol. 20 (3) 457-461 [2016-05-00; online 2016-03-16]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Association mapping in Salix viminalis L. (Salicaceae) - identification of candidate genes associated with growth and phenology.
Hallingbäck HR, Fogelqvist J, Powers SJ, ..., Berlin S, Rönnberg-Wästljung AC
Glob Change Biol Bioenergy 8 (3) 670-685 [2016-05-00; online 2015-07-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Antigen arrays for profiling autoantibody repertoires.
Ayoglu B, Schwenk JM, Nilsson P
Bioanalysis 8 (10) 1105-1126 [2016-05-00; online 2016-04-22]
Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
An obesity-associated risk allele within the FTO gene affects human brain activity for areas important for emotion, impulse control and reward in response to food images.
Wiemerslage L, Nilsson EK, Solstrand Dahlberg L, ..., Brooks SJ, Schiöth HB
Eur. J. Neurosci. 43 (9) 1173-1180 [2016-05-00; online 2016-01-23]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Allele-specific transcription factor binding to common and rare variants associated with disease and gene expression.
Cavalli M, Pan G, Nord H, ..., Lindblad Toh K, Wadelius C
Hum. Genet. 135 (5) 485-497 [2016-05-00; online 2016-03-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Systematic Characterization of Aquaporin-9 Expression in Human Normal and Pathological Tissues.
Lindskog C, Asplund A, Catrina A, Nielsen S, Rützler M
J. Histochem. Cytochem. 64 (5) 287-300 [2016-05-00; online 2016-03-29]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
TOR Signaling and Nutrient Sensing.
Dobrenel T, Caldana C, Hanson J, ..., Veit B, Meyer C
Annu Rev Plant Biol 67 (-) 261-285 [2016-04-29; online 2016-02-26]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
The Bee Microbiome: Impact on Bee Health and Model for Evolution and Ecology of Host-Microbe Interactions.
Engel P, Kwong WK, McFrederick Q, ..., vanEngelsdorp D, Dainat B
MBio 7 (2) e02164-e02115 [2016-04-26; online 2016-04-26]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Elevated Levels of SOX10 in Serum from Vitiligo and Melanoma Patients, Analyzed by Proximity Ligation Assay
Blokzijl A, Chen LE, Gustafsdottir SM, ..., Kamali-Moghaddam M, Hedstrand H
PLoS ONE 11 (4) e0154214 [2016-04-25; online 2016-04-25]
Affinity Proteomics Uppsala [Collaborative] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
Longitudinal genome-wide methylation study of Roux-en-Y gastric bypass patients reveals novel CpG sites associated with essential hypertension.
Boström AE, Mwinyi J, Voisin S, ..., Zhang K, Schiöth HB
BMC Med Genomics 9 (-) 20 [2016-04-22; online 2016-04-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A beak size locus in Darwin's finches facilitated character displacement during a drought.
Lamichhaney S, Han F, Berglund J, ..., Grant PR, Andersson L
Science 352 (6284) 470-474 [2016-04-22; online 2016-04-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatio-Temporal Interdependence of Bacteria and Phytoplankton during a Baltic Sea Spring Bloom.
Bunse C, Bertos-Fortis M, Sassenhagen I, ..., Pinhassi J, Legrand C
Front Microbiol 7 (-) 517 [2016-04-21; online 2016-04-21]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Associations between a locus downstream DRD1 gene and cerebrospinal fluid dopamine metabolite concentrations in psychosis.
Andreou D, Söderman E, Axelsson T, ..., Agartz I, Jönsson EG
Neurosci. Lett. 619 (-) 126-130 [2016-04-21; online 2016-03-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Hypoxia regulates global membrane protein endocytosis through caveolin-1 in cancer cells.
Bourseau-Guilmain E, Menard JA, Lindqvist E, ..., Welinder C, Belting M
Nat Commun 7 (-) 11371 [2016-04-20; online 2016-04-20]
Structural Proteomics [Service]
PubMed DOI Crossref
msIQuant--Quantitation Software for Mass Spectrometry Imaging Enabling Fast Access, Visualization, and Analysis of Large Data Sets.
Källback P, Nilsson A, Shariatgorji M, Andrén PE
Anal. Chem. 88 (8) 4346-4353 [2016-04-19; online 2016-04-05]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Mutations in histone modulators are associated with prolonged survival during azacitidine therapy.
Tobiasson M, McLornan DP, Karimi M, ..., Mufti GJ, Hellström-Lindberg E
Oncotarget 7 (16) 22103-22115 [2016-04-19; online 2016-03-10]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
EPH/ephrin profile and EPHB2 expression predicts patient survival in breast cancer.
Husa AM, Magić Ž, Larsson M, Fornander T, Pérez-Tenorio G
Oncotarget 7 (16) 21362-21380 [2016-04-19; online 2016-02-13]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Improved topology prediction using the terminal hydrophobic helices rule.
Peters C, Tsirigos KD, Shu N, Elofsson A
Bioinformatics 32 (8) 1158-1162 [2016-04-15; online 2015-12-09]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Cytosolic splice isoform of Hsp70 nucleotide exchange factor Fes1 is required for the degradation of misfolded proteins in yeast.
Gowda NK, Kaimal JM, Masser AE, ..., Friedländer MR, Andréasson C
Mol. Biol. Cell 27 (8) 1210-1219 [2016-04-15; online 2016-02-26]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A role for PDGF-C/PDGFRα signaling in the formation of the meningeal basement membranes surrounding the cerebral cortex.
Andrae J, Gouveia L, Gallini R, ..., Eriksson U, Betsholtz C
Biol Open 5 (4) 461-474 [2016-04-15; online 2016-04-15]
Bioinformatics and Expression Analysis (BEA) [Service]
PubMed DOI Crossref
Using an Inbred Horse Breed in a High Density Genome-Wide Scan for Genetic Risk Factors of Insect Bite Hypersensitivity (IBH).
Velie BD, Shrestha M, Franҫois L, ..., Buys N, Lindgren G
PLoS ONE 11 (4) e0152966 [2016-04-12; online 2016-04-12]
Array and Analysis Facility [Service]
PubMed DOI Crossref
Immunostimulatory AdCD40L gene therapy combined with low-dose cyclophosphamide in metastatic melanoma patients.
Loskog A, Maleka A, Mangsbo S, ..., Tötterman TH, Ullenhag G
Br. J. Cancer 114 (8) 872-880 [2016-04-12; online 2016-03-31]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Tissue and Serum miRNA Profile in Locally Advanced Breast Cancer (LABC) in Response to Neo-Adjuvant Chemotherapy (NAC) Treatment.
Al-Khanbashi M, Caramuta S, Alajmi AM, ..., Lui WO, Al-Moundhri MS
PLoS ONE 11 (4) e0152032 [2016-04-11; online 2016-04-11]
Bioinformatics and Expression Analysis (BEA) [Service]
PubMed DOI Crossref
The Mycobacterium phlei Genome: Expectations and Surprises.
Das S, Pettersson BM, Behra PR, ..., Bhattacharya A, Kirsebom LA
Genome Biol Evol 8 (4) 975-985 [2016-04-08; online 2016-03-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification and Characterization of IgdE, a Novel IgG-degrading Protease of Streptococcus suis with Unique Specificity for Porcine IgG.
Spoerry C, Seele J, Valentin-Weigand P, Baums CG, von Pawel-Rammingen U
J. Biol. Chem. 291 (15) 7915-7925 [2016-04-08; online 2016-02-11]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Modifications of the 7-Hydroxyl Group of the Transthyretin Ligand Luteolin Provide Mechanistic Insights into Its Binding Properties and High Plasma Specificity.
Nilsson L, Larsson A, Begum A, ..., Sauer-Eriksson AE, Olofsson A
PLoS ONE 11 (4) e0153112 [2016-04-06; online 2016-04-06]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Microchip Screening Platform for Single Cell Assessment of NK Cell Cytotoxicity.
Guldevall K, Brandt L, Forslund E, ..., Uhlin M, Önfelt B
Front Immunol 7 (-) 119 [2016-04-05; online 2016-04-05]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
Markers of fibroblast-rich tumor stroma and perivascular cells in serous ovarian cancer: Inter- and intra-patient heterogeneity and impact on survival.
Corvigno S, Wisman GB, Mezheyeuski A, ..., Östman A, Dahlstrand H
Oncotarget 7 (14) 18573-18584 [2016-04-05; online 2016-02-27]
Tissue Profiling [Service]
PubMed DOI Crossref
Transcriptomics resources of human tissues and organs.
Uhlén M, Hallström BM, Lindskog C, ..., Pontén F, Nielsen J
Mol. Syst. Biol. 12 (4) 862 [2016-04-04; online 2016-04-04]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Systems Biology [Technology development] Tissue Profiling [Collaborative]
PubMed DOI Crossref
Label-Free Fluctuation Spectroscopy Based on Coherent Anti-Stokes Raman Scattering from Bulk Water Molecules.
Rabasovic MD, Sisamakis E, Wennmalm S, Widengren J
Chemphyschem 17 (7) 1025-1033 [2016-04-04; online 2016-01-29]
Fluorescence Correlation Spectroscopy [Technology development] Integrated Microscopy Technologies Stockholm
PubMed DOI Crossref
Structural Studies of Lipopolysaccharide-defective Mutants from Brucella melitensis Identify a Core Oligosaccharide Critical in Virulence.
Fontana C, Conde-Álvarez R, Ståhle J, ..., Moriyón I, Widmalm G
J. Biol. Chem. 291 (14) 7727-7741 [2016-04-01; online 2016-02-11]
Swedish NMR Centre (SNC) [Service]
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Sex-dependent expression of anti-Müllerian hormone (amh) and amh receptor 2 during sex organ differentiation and characterization of the Müllerian duct development in Xenopus tropicalis.
Jansson E, Mattsson A, Goldstone J, Berg C
Gen. Comp. Endocrinol. 229 (-) 132-144 [2016-04-01; online 2016-03-19]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Na+-K+-ATPase, a new class of plasma membrane receptors.
Aperia A, Akkuratov EE, Fontana JM, Brismar H
Am. J. Physiol., Cell Physiol. 310 (7) C491-C495 [2016-04-01; online 2016-01-23]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Genome-wide association and Mendelian randomization study of NT-proBNP in patients with acute coronary syndrome.
Johansson Å, Eriksson N, Lindholm D, ..., Wallentin L, PLATO Investigators
Hum. Mol. Genet. 25 (7) 1447-1456 [2016-04-01; online 2016-02-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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CopyNumber450kCancer: baseline correction for accurate copy number calling from the 450k methylation array.
Marzouka NA, Nordlund J, Bäcklin CL, ..., Syvänen AC, Carlsson Almlöf J
Bioinformatics 32 (7) 1080-1082 [2016-04-01; online 2015-11-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]
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Whole-body fat oxidation increases more by prior exercise than overnight fasting in elite endurance athletes.
Andersson Hall U, Edin F, Pedersen A, Madsen K
Appl Physiol Nutr Metab 41 (4) 430-437 [2016-04-00; online 2015-12-17]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] Swedish NMR Centre (SNC) [Collaborative]
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Solution structure of the calmodulin-like C-terminal domain of Entamoeba α-actinin2.
Karlsson G, Persson C, Mayzel M, Hedenström M, Backman L
Proteins 84 (4) 461-466 [2016-04-00; online 2016-02-05]
Swedish NMR Centre (SNC) [Collaborative]
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Single-cell transcriptome analysis of endometrial tissue.
Krjutškov K, Katayama S, Saare M, ..., Salumets A, Kere J
Hum. Reprod. 31 (4) 844-853 [2016-04-00; online 2016-02-13]
Bioinformatics and Expression Analysis (BEA) [Service]
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Replacement of the European wheat yellow rust population by new races from the centre of diversity in the near-Himalayan region
Hovmøller MS, Walter S, Bayles RA, ..., Ali S, de Vallavieille-Pope C
Plant Pathol 65 (3) 402-411 [2016-04-00; online 2015-07-20]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Reduced oxidative stress in primary human cells by antioxidant released from nanoporous alumina.
Pujari-Palmer S, Pujari-Palmer M, Karlsson Ott M
J. Biomed. Mater. Res. Part B Appl. Biomater. 104 (3) 568-575 [2016-04-00; online 2015-05-09]
BioMaterial Interactions (BioMat)
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RNA transcript sequencing reveals inorganic sulfur compound oxidation pathways in the acidophile Acidithiobacillus ferrivorans.
Christel S, Fridlund J, Buetti-Dinh A, ..., Watkin EL, Dopson M
FEMS Microbiol. Lett. 363 (7) - [2016-04-00; online 2016-03-10]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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PGC-1α Coordinates Mitochondrial Respiratory Capacity and Muscular Fatty Acid Uptake via Regulation of VEGF-B.
Mehlem A, Palombo I, Wang X, ..., Eriksson U, Falkevall A
Diabetes 65 (4) 861-873 [2016-04-00; online 2016-01-30]
Swedish Metabolomics Centre (SMC) [Service]
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One CNV Discordance in NRXN1 Observed Upon Genome-wide Screening in 38 Pairs of Adult Healthy Monozygotic Twins.
Magnusson PK, Lee D, Chen X, ..., Feuk L, Pawitan Y
Twin Res Hum Genet 19 (2) 97-103 [2016-04-00; online 2016-02-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Novel technologies applied to the nucleotide sequencing and comparative sequence analysis of the genomes of infectious agents in veterinary medicine.
Granberg F, Bálint Á, Belák S
Rev. - Off. Int. Epizoot. 35 (1) 25-42 [2016-04-00; online 2016-05-25]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Novel mode of inhibition by D-tagatose 6-phosphate through a Heyns rearrangement in the active site of transaldolase B variants.
Stellmacher L, Sandalova T, Schneider S, ..., Sprenger GA, Samland AK
Acta Crystallogr D Struct Biol 72 (Pt 4) 467-476 [2016-04-00; online 2016-03-24]
Protein Science Facility (PSF) [Service]
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Neuroproteomic profiling of human body fluids.
Häggmark A, Schwenk JM, Nilsson P
Proteomics Clin Appl 10 (4) 485-502 [2016-04-00; online 2015-10-12]
Autoimmunity and Serology Profiling [Technology development]
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Multiplexed protein profiling by sequential affinity capture.
Ayoglu B, Birgersson E, Mezger A, ..., Nilsson P, Schwenk JM
Proteomics 16 (8) 1251-1256 [2016-04-00; online 2016-03-31]
Affinity Proteomics Stockholm [Technology development]
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Multi-platform mass spectrometry analysis of the CSF and plasma metabolomes of rigorously matched amyotrophic lateral sclerosis, Parkinson's disease and control subjects.
Wuolikainen A, Jonsson P, Ahnlund M, ..., Andersen PM, Trupp M
Mol Biosyst 12 (4) 1287-1298 [2016-04-00; online 2016-02-18]
Swedish Metabolomics Centre (SMC) [Service]
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Identification of Drug-Like Inhibitors of Insulin-Regulated Aminopeptidase Through Small-Molecule Screening.
Engen K, Rosenström U, Axelsson H, ..., Lundbäck T, Larhed M
Assay Drug Dev Technol 14 (3) 180-193 [2016-04-00; online 2016-04-15]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Service]
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High-Throughput Screening Using a Whole-Cell Virus Replication Reporter Gene Assay to Identify Inhibitory Compounds against Rift Valley Fever Virus Infection.
Islam MK, Baudin M, Eriksson J, ..., Ahlm C, Evander M
J Biomol Screen 21 (4) 354-362 [2016-04-00; online 2016-01-15]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Global gray-level thresholding based on object size.
Ranefall P, Wählby C
Cytometry A 89 (4) 385-390 [2016-04-00; online 2016-01-23]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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Global genome splicing analysis reveals an increased number of alternatively spliced genes with aging.
Rodríguez SA, Grochová D, McKenna T, ..., Erdos MR, Eriksson M
Aging Cell 15 (2) 267-278 [2016-04-00; online 2015-12-22]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Gene regulatory mechanisms underpinning prostate cancer susceptibility.
Whitington T, Gao P, Song W, ..., Wei GH, Wiklund F
Nat. Genet. 48 (4) 387-397 [2016-04-00; online 2016-03-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Fish from Head to Tail: The 9th European Zebrafish Meeting in Oslo.
Griffiths G, Müller F, Ledin J, ..., Press CM, Aleström P
Zebrafish 13 (2) 132-137 [2016-04-00; online 2016-02-09]
Genome Engineering Zebrafish [Collaborative]
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Fatal acquisition of vanD gene during vancomycin treatment of septicaemia caused by Enterococcus faecium.
Starlander G, Tellgren-Roth C, Melhus Å
J. Hosp. Infect. 92 (4) 409-410 [2016-04-00; online 2016-02-16]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Engineering a thermostable Halothermothrix orenii β-glucosidase for improved galacto-oligosaccharide synthesis.
Hassan N, Geiger B, Gandini R, ..., Divne C, Tan TC
Appl. Microbiol. Biotechnol. 100 (8) 3533-3543 [2016-04-00; online 2015-12-02]
Protein Science Facility (PSF)
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Effect of PTPN22 Gene Variant R620W on Type I Interferon Production Stimulated by Different Toll-like Receptor 7 Agonists: Comment on the Article by Wang et al.
Berggren O, Rönnblom L, Eloranta ML
Arthritis & rheumatology (Hoboken, N.J.) 68 (4) 1045 [2016-04-00; online 2016-01-11]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Digital image analysis outperforms manual biomarker assessment in breast cancer.
Stålhammar G, Fuentes Martinez N, Lippert M, ..., Grunkin M, Hartman J
Mod. Pathol. 29 (4) 318-329 [2016-04-00; online 2016-02-27]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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DeMix-Q: Quantification-Centered Data Processing Workflow.
Zhang B, Käll L, Zubarev RA
Mol. Cell Proteomics 15 (4) 1467-1478 [2016-04-00; online 2016-01-04]
Chemical Proteomics [Technology development]
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Connective Auxin Transport in the Shoot Facilitates Communication between Shoot Apices.
Bennett T, Hines G, van Rongen M, ..., Ljung K, Leyser O
PLoS Biol. 14 (4) e1002446 [2016-04-00; online 2016-04-27]
Swedish Metabolomics Centre (SMC) [Service]
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Binding to and Inhibition of Insulin-Regulated Aminopeptidase by Macrocyclic Disulfides Enhances Spine Density.
Diwakarla S, Nylander E, Grönbladh A, ..., Chai SY, Hallberg M
Mol. Pharmacol. 89 (4) 413-424 [2016-04-00; online 2016-01-16]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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An Ouzo emulsion of toluene in water characterized by NMR diffusometry and static multiple light scattering
Tehrani-Bagha AR, Viladot A, Holmberg K, Nordstierna L
Colloids and Surfaces A: Physicochemical and Engineering Aspects 494 (-) 81-86 [2016-04-00; online 2016-04-00]
Swedish NMR Centre (SNC) [Service]
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Adaptive major histocompatibility complex (MHC) and neutral genetic variation in two native Baltic Sea fishes (perch Perca fluviatilis and zander Sander lucioperca) with comparisons to an introduced and disease susceptible population in Australia (P. fluviatilis): assessing the risk of disease epidemics.
Faulks LK, Östman Ö
J. Fish Biol. 88 (4) 1564-1583 [2016-04-00; online 2016-03-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A saposin-lipoprotein nanoparticle system for membrane proteins.
Frauenfeld J, Löving R, Armache JP, ..., Cheng Y, Nordlund P
Nat. Methods 13 (4) 345-351 [2016-04-00; online 2016-03-07]
Protein Science Facility (PSF) [Service]
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Super-resolution microscopy reveals γ-secretase at both sides of the neuronal synapse.
Schedin-Weiss S, Caesar I, Winblad B, Blom H, Tjernberg LO
Acta Neuropathol Commun 4 (-) 29 [2016-03-31; online 2016-03-31]
Integrated Microscopy Technologies Stockholm [Collaborative]
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A Facile Synthesis of NODASA-Functionalized Peptide
Naicker T, Albericio F, Dutta J, ..., Kruger H, Govender T
Synlett 27 (11) 1685-1688 [2016-03-30; online 2016-03-30]
Drug Discovery and Development (DDD) [Collaborative]
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Pseudomonas aeruginosa N-3-oxo-dodecanoyl-homoserine Lactone Elicits Changes in Cell Volume, Morphology, and AQP9 Characteristics in Macrophages
Holm A, Magnusson KE, Vikström E
Front. Cell. Infect. Microbiol. 6 (-) - [2016-03-24; online 2016-03-24]
Integrated Microscopy Technologies Stockholm [Service]
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Draft Genome Sequence of Streptococcus gordonii Type Strain CCUG 33482T.
Salvà-Serra F, Jakobsson HE, Thorell K, ..., Kristiansson E, Moore ER
Genome Announc 4 (2) e00175-16 [2016-03-24; online 2016-03-24]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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CETSA screening identifies known and novel thymidylate synthase inhibitors and slow intracellular activation of 5-fluorouracil.
Almqvist H, Axelsson H, Jafari R, ..., Lundbäck T, Nordlund P
Nat Commun 7 (-) 11040 [2016-03-24; online 2016-03-24]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Protein Science Facility (PSF) [Service]
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VEGFR2 pY949 signalling regulates adherens junction integrity and metastatic spread.
Li X, Padhan N, Sjöström EO, ..., Jansson L, Claesson-Welsh L
Nat Commun 7 (-) 11017 [2016-03-23; online 2016-03-23]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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The chemosensory receptors of codling moth Cydia pomonella-expression in larvae and adults.
Walker WB, Gonzalez F, Garczynski SF, Witzgall P
Sci Rep 6 (-) 23518 [2016-03-23; online 2016-03-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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System-wide Clinical Proteomics of Breast Cancer Reveals Global Remodeling of Tissue Homeostasis.
Pozniak Y, Balint-Lahat N, Rudolph JD, ..., Barshack I, Geiger T
Cell Syst 2 (3) 172-184 [2016-03-23; online 2016-03-03]
Tissue Profiling [Collaborative]
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Metagenomic analysis of bloodstream infections in patients with acute leukemia and therapy-induced neutropenia.
Gyarmati P, Kjellander C, Aust C, ..., Öhrmalm L, Giske CG
Sci Rep 6 (-) 23532 [2016-03-21; online 2016-03-21]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Local auxin metabolism regulates environment-induced hypocotyl elongation
Zheng Z, Guo Y, Novák O, ..., Noel JP, Chory J
NPLANTS 2 (4) 16025 [2016-03-21; online 2016-03-21]
Swedish Metabolomics Centre (SMC) [Service]
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On-Water Synthesis of Biaryl Sulfonyl Fluorides.
Chinthakindi PK, Kruger HG, Govender T, Naicker T, Arvidsson PI
J. Org. Chem. 81 (6) 2618-2623 [2016-03-18; online 2016-02-24]
Drug Discovery and Development (DDD) [Collaborative]
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PopulationProfiler: A Tool for Population Analysis and Visualization of Image-Based Cell Screening Data.
Matuszewski DJ, Wählby C, Puigvert JC, Sintorn IM
PLoS ONE 11 (3) e0151554 [2016-03-17; online 2016-03-17]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service]
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Metagenomic Analysis from the Interior of a Speleothem in Tjuv-Ante's Cave, Northern Sweden.
Zepeda Mendoza ML, Lundberg J, Ivarsson M, ..., Sallstedt T, Dalen L
PLoS ONE 11 (3) e0151577 [2016-03-17; online 2016-03-17]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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In Situ Staining and Laser Capture Microdissection of Lymph Node Residing SIV Gag-Specific CD8+ T cells--A Tool to Interrogate a Functional Immune Response Ex Vivo.
Tjernlund A, Burgener A, Lindvall JM, ..., McElrath MJ, Corey L
PLoS ONE 11 (3) e0149907 [2016-03-17; online 2016-03-17]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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The role of transposable elements for gene expression in Capsella hybrids and allopolyploids
Steige K, Reimegård J, Rebernig CA, ..., Scofield DG, Slotte T
bioRxiv - (-) - [2016-03-16; online 2016-03-16]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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The Intestinal Eukaryotic Virome in Healthy and Diarrhoeic Neonatal Piglets.
Karlsson OE, Larsson J, Hayer J, Berg M, Jacobson M
PLoS ONE 11 (3) e0151481 [2016-03-16; online 2016-03-16]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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The FAIR Guiding Principles for scientific data management and stewardship.
Wilkinson MD, Dumontier M, Aalbersberg IJ, ..., Zhao J, Mons B
Sci Data 3 (-) 160018 [2016-03-15; online 2016-03-15]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Transition from Bioinert to Bioactive Material by Tailoring the Biological Cell Response to Carboxylated Nanocellulose.
Hua K, Rocha I, Zhang P, ..., Mihranyan A, Ferraz N
Biomacromolecules 17 (3) 1224-1233 [2016-03-14; online 2016-03-01]
BioMaterial Interactions (BioMat) [Collaborative]
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Luminescent Nanocellulose Platform: From Controlled Graft Block Copolymerization to Biomarker Sensing.
Navarro JR, Wennmalm S, Godfrey J, Breitholtz M, Edlund U
Biomacromolecules 17 (3) 1101-1109 [2016-03-14; online 2016-01-21]
Fluorescence Correlation Spectroscopy [Collaborative] Integrated Microscopy Technologies Stockholm
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Thiazolino 2-Pyridone Amide Inhibitors of Chlamydia trachomatis Infectivity.
Good JA, Silver J, Núñez-Otero C, ..., Bergström S, Almqvist F
J. Med. Chem. 59 (5) 2094-2108 [2016-03-10; online 2016-02-22]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Kinetically Selective Inhibitors of Human Carbonic Anhydrase Isozymes I, II, VII, IX, XII, and XIII.
Talibov VO, Linkuvienė V, Matulis D, Danielson UH
J. Med. Chem. 59 (5) 2083-2093 [2016-03-10; online 2016-01-26]
Drug Discovery and Development (DDD) [Collaborative]
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Evolutionary history of host use, rather than plant phylogeny, determines gene expression in a generalist butterfly.
Celorio-Mancera Mde L, Wheat CW, Huss M, ..., Nylin S, Janz N
BMC Evol. Biol. 16 (-) 59 [2016-03-08; online 2016-03-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Service]
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Crystal Structures of Type-II Inositol Polyphosphate 5-Phosphatase INPP5B with Synthetic Inositol Polyphosphate Surrogates Reveal New Mechanistic Insights for the Inositol 5-Phosphatase Family.
Mills SJ, Silvander C, Cozier G, ..., Nordlund P, Potter BV
Biochemistry 55 (9) 1384-1397 [2016-03-08; online 2016-02-29]
Protein Science Facility (PSF) [Service]
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Whole genome sequencing identifies a novel species of the genus Capnocytophaga isolated from dog and cat bite wounds in humans.
Zangenah S, Abbasi N, Andersson AF, Bergman P
Sci Rep 6 (-) 22919 [2016-03-07; online 2016-03-07]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Multifunctional Antioxidants: Regenerable Radical-Trapping and Hydroperoxide-Decomposing Ebselenols.
Kumar S, Yan J, Poon JF, ..., Engman L, Kumar S
Angew. Chem. Int. Ed. Engl. 55 (11) 3729-3733 [2016-03-07; online 2016-02-16]
BioMaterial Interactions (BioMat) [Collaborative]
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Monitoring polydispersity by NMR diffusometry with tailored norm regularisation and moving-frame processing.
Urbańczyk M, Bernin D, Czuroń A, Kazimierczuk K
Analyst 141 (5) 1745-1752 [2016-03-07; online 2016-01-30]
Swedish NMR Centre (SNC) [Technology development]
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Mechanistic investigation of the on-surface enzymatic digestion (oSED) protein adsorption detection method using targeted mass spectrometry.
Undin T, Dahlin A, Hörnaeus K, Bergquist J, Lind SB
Analyst 141 (5) 1714-1720 [2016-03-07; online 2016-02-13]
Mass Spectrometry-based Proteomics, Uppsala [Collaborative]
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Local coordination and dynamics of a protic ammonium based ionic liquid immobilized in nano-porous silica micro-particles probed by Raman and NMR spectroscopy.
Garaga MN, Persson M, Yaghini N, Martinelli A
Soft Matter 12 (9) 2583-2592 [2016-03-07; online 2016-02-03]
Swedish NMR Centre (SNC) [Service]
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Lesion Size Is Exacerbated in Hypoxic Rats Whereas Hypoxia-Inducible Factor-1 Alpha and Vascular Endothelial Growth Factor Increase in Injured Normoxic Rats: A Prospective Cohort Study of Secondary Hypoxia in Focal Traumatic Brain Injury.
Thelin EP, Frostell A, Mulder J, ..., Morganti-Kossmann MC, Bellander BM
Front Neurol 7 (-) 23 [2016-03-07; online 2016-03-07]
Fluorescence Tissue Profiling [Collaborative]
PubMed DOI Crossref
Analysis of the Cerebrospinal Fluid Proteome in Alzheimer's Disease.
Khoonsari PE, Häggmark A, Lönnberg M, ..., Kultima K, Shevchenko G
PLoS ONE 11 (3) e0150672 [2016-03-07; online 2016-03-07]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Disruption of POGZ Is Associated with Intellectual Disability and Autism Spectrum Disorders.
Stessman HA, Willemsen MH, Fenckova M, ..., Eichler EE, Kleefstra T
Am. J. Hum. Genet. 98 (3) 541-552 [2016-03-03; online 2016-03-05]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Systematic analysis of overall survival and interactions between tumor mutations and drug treatment.
Gatto F, Nielsen J
J Hematol Oncol 9 (-) 15 [2016-03-02; online 2016-03-02]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Systems Biology [Technology development]
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Fast, accurate, and lightweight analysis of BS-treated reads with ERNE 2.
Prezza N, Vezzi F, Käller M, Policriti A
BMC Bioinformatics 17 Suppl 4 (-) 69 [2016-03-02; online 2016-03-02]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cells release subpopulations of exosomes with distinct molecular and biological properties.
Willms E, Johansson HJ, Mäger I, ..., Wood MJ, Vader P
Sci Rep 6 (-) 22519 [2016-03-02; online 2016-03-02]
Clinical Proteomics Mass spectrometry [Technology development]
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Visible-Light-Mediated Photocatalytic Difunctionalization of Olefins by Radical Acylarylation and Tandem Acylation/Semipinacol Rearrangement.
Bergonzini G, Cassani C, Lorimer-Olsson H, Hörberg J, Wallentin CJ
Chemistry 22 (10) 3292-3295 [2016-03-01; online 2016-02-02]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
The MHC Class I Cancer-Associated Neoepitope Trh4 Linked with Impaired Peptide Processing Induces a Unique Noncanonical TCR Conformer.
Hafstrand I, Doorduijn EM, Duru AD, ..., van Hall T, Achour A
J. Immunol. 196 (5) 2327-2334 [2016-03-01; online 2016-01-22]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
mRNA and microRNA transcriptomics analyses in a murine model of dystrophin loss and therapeutic restoration.
Roberts TC, Blomberg KE, Smith CI, El Andaloussi S, Wood MJ
Genom Data 7 (-) 88-89 [2016-03-00; online 2015-12-02]
Bioinformatics and Expression Analysis (BEA) [Service]
PubMed DOI Crossref
The transcriptional coregulator MAML1 affects DNA methylation and gene expression patterns in human embryonic kidney cells.
Putnik M, Brodin D, Wojdacz TK, ..., Dahlman-Wright K, Wallberg AE
Mol. Biol. Rep. 43 (3) 141-150 [2016-03-00; online 2016-02-08]
Bioinformatics and Expression Analysis (BEA) [Service]
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The structure and catalytic mechanism of human sphingomyelin phosphodiesterase like 3a--an acid sphingomyelinase homologue with a novel nucleotide hydrolase activity.
Lim SM, Yeung K, Trésaugues L, Ling TH, Nordlund P
FEBS J. 283 (6) 1107-1123 [2016-03-00; online 2016-02-05]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
The influence of population structure on gene expression and flowering time variation in the ubiquitous weed Capsella bursa-pastoris (Brassicaceae).
Kryvokhyzha D, Holm K, Chen J, ..., Lagercrantz U, Lascoux M
Mol. Ecol. 25 (5) 1106-1121 [2016-03-00; online 2016-01-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
T-cell receptor-HLA-DRB1 associations suggest specific antigens in pulmonary sarcoidosis.
Grunewald J, Kaiser Y, Ostadkarampour M, ..., Ronninger M, Eklund A
Eur. Respir. J. 47 (3) 898-909 [2016-03-00; online 2015-11-19]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
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Reclassification of Wolbachia persica as Francisella persica comb. nov. and emended description of the family Francisellaceae.
Larson MA, Nalbantoglu U, Sayood K, ..., Sjöstedt A, Hinrichs SH
Int. J. Syst. Evol. Microbiol. 66 (3) 1200-1205 [2016-03-00; online 2016-01-10]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Rat Prostate Tumor Cells Progress in the Bone Microenvironment to a Highly Aggressive Phenotype.
Bergström SH, Rudolfsson SH, Bergh A
Neoplasia 18 (3) 152-161 [2016-03-00; online 2016-03-20]
Swedish Metabolomics Centre (SMC) [Service]
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Rapid and straightforward transesterification of sulfonyl carbamates
Isaksson R, Kumpiņa I, Larhed M, Wannberg J
Tetrahedron Letters 57 (13) 1476-1478 [2016-03-00; online 2016-03-00]
Drug Discovery and Development (DDD) [Collaborative]
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Quantitative Auxin Metabolite Profiling Using Stable Isotope Dilution UHPLC-MS/MS.
Novák O, Pěnčík A, Blahoušek O, Ljung K
Curr Protoc Plant Biol 1 (2) 419-430 [2016-03-00; online 2016-03-01]
Swedish Metabolomics Centre (SMC) [Service]
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PSMC analysis of effective population sizes in molecular ecology and its application to black-and-white Ficedula flycatchers.
Nadachowska-Brzyska K, Burri R, Smeds L, Ellegren H
Mol. Ecol. 25 (5) 1058-1072 [2016-03-00; online 2016-01-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Oncogene-Induced Senescence in Pituitary Adenomas--an Immunohistochemical Study.
Manojlovic-Gacic E, Skender-Gazibara M, Popovic V, ..., Pontén F, Casar-Borota O
Endocr. Pathol. 27 (1) 1-11 [2016-03-00; online 2015-11-18]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Natural Selection and Recombination Rate Variation Shape Nucleotide Polymorphism Across the Genomes of Three Related Populus Species.
Wang J, Street NR, Scofield DG, Ingvarsson PK
Genetics 202 (3) 1185-1200 [2016-03-00; online 2016-01-02]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Meta-analysis of Genome-Wide Association Studies for Extraversion: Findings from the Genetics of Personality Consortium.
van den Berg SM, de Moor MH, Verweij KJ, ..., Martin NG, Boomsma DI
Behav. Genet. 46 (2) 170-182 [2016-03-00; online 2015-09-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Innovation in the prognostication of chronic lymphocytic leukemia: how far beyond TP53 gene analysis can we go?
Pospisilova S, Sutton LA, Malcikova J, ..., Ghia P, European Research Initiative on CLL (ERIC)
Haematologica 101 (3) 263-265 [2016-03-00; online 2016-03-02]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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Immune Adaptation to Environmental Influence: The Case of NK Cells and HCMV.
Rölle A, Brodin P
Trends Immunol. 37 (3) 233-243 [2016-03-00; online 2016-02-09]
Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Genetic influences on schizophrenia and subcortical brain volumes: large-scale proof of concept.
Franke B, Stein JL, Ripke S, ..., Medland SE, Sullivan PF
Nat. Neurosci. 19 (3) 420-431 [2016-03-00; online 2016-02-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Estimation of copy number aberrations: Comparison of exome sequencing data with SNP microarrays identifies homozygous deletions of 19q13.2 and CIC in neuroblastoma.
Fransson S, Östensson M, Djos A, ..., Kogner P, Martinsson T
Int. J. Oncol. 48 (3) 1103-1116 [2016-03-00; online 2016-01-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Ectomycorrhizal fungi decompose soil organic matter using oxidative mechanisms adapted from saprotrophic ancestors.
Shah F, Nicolás C, Bentzer J, ..., Persson P, Tunlid A
New Phytol. 209 (4) 1705-1719 [2016-03-00; online 2015-11-04]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Coordinated Changes in Gene Expression Throughout Encystation of Giardia intestinalis.
Einarsson E, Troell K, Hoeppner MP, ..., Ribacke U, Svärd SG
PLoS Negl Trop Dis 10 (3) e0004571 [2016-03-00; online 2016-03-25]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Comprehensive Proteomic Analysis of Mesenchymal Stem Cell Exosomes Reveals Modulation of Angiogenesis via Nuclear Factor-KappaB Signaling.
Anderson JD, Johansson HJ, Graham CS, ..., Lehtiö J, Nolta JA
Stem Cells 34 (3) 601-613 [2016-03-00; online 2016-02-19]
Clinical Proteomics Mass spectrometry [Collaborative] Global Proteomics and Proteogenomics [Collaborative]
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Characterization of genetic variation in TLR8 in relation to allergic rhinitis.
Henmyr V, Lind-Halldén C, Carlberg D, ..., Säll T, Cardell LO
Allergy 71 (3) 333-341 [2016-03-00; online 2015-11-12]
Mutation Analysis Facility (MAF)
DOI Crossref
Biochemical Conversion of Torrefied Norway Spruce After Pretreatment with Acid or Ionic Liquid
Normark M, Pommer L, Gräsvik J, ..., Winestrand S, Jönsson LJ
Bioenerg. Res. 9 (1) 355-368 [2016-03-00; online 2015-11-26]
Swedish NMR Centre (SNC) [Collaborative]
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Altered DNA methylation of glycolytic and lipogenic genes in liver from obese and type 2 diabetic patients.
Kirchner H, Sinha I, Gao H, ..., Dahlman-Wright K, Zierath JR
Mol Metab 5 (3) 171-183 [2016-03-00; online 2016-01-02]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Bacterial community composition and fhs profiles of low- and high-ammonia biogas digesters reveal novel syntrophic acetate-oxidising bacteria.
Müller B, Sun L, Westerholm M, Schnürer A
Biotechnol Biofuels 9 (-) 48 [2016-02-27; online 2016-02-27]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Mechanistic Modeling of Pitavastatin Disposition in Sandwich-Cultured Human Hepatocytes: A Proteomics-Informed Bottom-Up Approach
Vildhede A, Mateus A, Khan EK, ..., Artursson P, Kjellsson MC
Drug Metab. Dispos. 44 (4) 505-516 [2016-02-26; online 2016-02-03]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
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Whole-exome sequencing in relapsing chronic lymphocytic leukemia: clinical impact of recurrent RPS15 mutations.
Ljungström V, Cortese D, Young E, ..., Sjöblom T, Rosenquist R
Blood 127 (8) 1007-1016 [2016-02-25; online 2015-12-18]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Bioelectric and Morphological Response of Liquid-Covered Human Airway Epithelial Calu-3 Cell Monolayer to Periodic Deposition of Colloidal 3-Mercaptopropionic-Acid Coated CdSe-CdS/ZnS Core-Multishell Quantum Dots.
Turdalieva A, Solandt J, Shambetova N, ..., Zelenina M, Fu Y
PLoS ONE 11 (2) e0149915 [2016-02-25; online 2016-02-25]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Association between plasma concentrations of linoleic acid-derived oxylipins and the perceived pain scores in an exploratory study in women with chronic neck pain.
Hellström F, Gouveia-Figueira S, Nording ML, Björklund M, Fowler CJ
BMC Musculoskelet Disord 17 (-) 103 [2016-02-25; online 2016-02-25]
Swedish Metabolomics Centre (SMC) [Service]
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A Multiplex Protein Panel Applied to Cerebrospinal Fluid Reveals Three New Biomarker Candidates in ALS but None in Neuropathic Pain Patients
Lind AL, Wu D, Freyhult E, ..., Landegren U, Kamali-Moghaddam M
PLoS ONE 11 (2) e0149821 [2016-02-25; online 2016-02-25]
Affinity Proteomics Uppsala [Technology development] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] PLA and Single Cell Proteomics [Technology development]
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Efficient Isotope Editing of Proteins for Site-Directed Vibrational Spectroscopy.
Peuker S, Andersson H, Gustavsson E, ..., Erdelyi M, Westenhoff S
J. Am. Chem. Soc. 138 (7) 2312-2318 [2016-02-24; online 2016-02-10]
Swedish NMR Centre (SNC) [Collaborative]
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An Efficient Protecting-Group-Free Synthesis of Vinylic Sulfoximines via Horner–Wadsworth–Emmons Reaction
Naicker T, Arvidsson P, Chinthakindi P, ..., Govender T, Kruger H
Synlett 27 (09) 1423-1427 [2016-02-24; online 2016-02-24]
Drug Discovery and Development (DDD) [Collaborative]
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Anoctamin 2 identified as an autoimmune target in multiple sclerosis.
Ayoglu B, Mitsios N, Kockum I, ..., Olsson T, Nilsson P
Proc. Natl. Acad. Sci. U.S.A. 113 (8) 2188-2193 [2016-02-23; online 2016-02-09]
Autoimmunity and Serology Profiling [Collaborative] Fluorescence Tissue Profiling [Collaborative]
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Microwave Promoted Transcarbamylation Reaction of Sulfonylcarbamates under Continuous-Flow Conditions
Kumpiņa I, Isaksson R, Sävmarker J, Wannberg J, Larhed M
Org. Process Res. Dev. 20 (2) 440-445 [2016-02-19; online 2016-01-05]
Drug Discovery and Development (DDD) [Collaborative]
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The genome of the seagrass Zostera marina reveals angiosperm adaptation to the sea.
Olsen JL, Rouzé P, Verhelst B, ..., Reusch TB, Van de Peer Y
Nature 530 (7590) 331-335 [2016-02-18; online 2016-01-28]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Quantitative proteomics reveals protein profiles underlying major transitions in aspen wood development.
Obudulu O, Bygdell J, Sundberg B, ..., Trygg J, Wingsle G
BMC Genomics 17 (-) 119 [2016-02-18; online 2016-02-18]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Swedish Metabolomics Centre (SMC) [Service]
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Postprandial metabolomics: A pilot mass spectrometry and NMR study of the human plasma metabolome in response to a challenge meal.
Karimpour M, Surowiec I, Wu J, ..., Zivkovic AM, Nording ML
Anal. Chim. Acta 908 (-) 121-131 [2016-02-18; online 2016-01-31]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Swedish Metabolomics Centre (SMC) [Service]
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GeneiASE: Detection of condition-dependent and static allele-specific expression from RNA-seq data without haplotype information.
Edsgärd D, Iglesias MJ, Reilly SJ, ..., Odeberg J, Emanuelsson O
Sci Rep 6 (-) 21134 [2016-02-18; online 2016-02-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Resting-State Brain and the FTO Obesity Risk Allele: Default Mode, Sensorimotor, and Salience Network Connectivity Underlying Different Somatosensory Integration and Reward Processing between Genotypes.
Olivo G, Wiemerslage L, Nilsson EK, ..., Brooks SJ, Schiöth HB
Front Hum Neurosci 10 (-) 52 [2016-02-17; online 2016-02-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
Species identification of Swedish mosquitoes through DNA metabarcoding
Lilja T, Nylander JAA, Troell K, Lindström A
JOURNAL OF THE EUROPEAN MOSQUITO CONTROL ASSOCIATION 35 (-) 1-9 [2016-02-16; online 2016-02-16]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Genomic comparison of Escherichia coli serotype O103:H2 isolates with and without verotoxin genes: implications for risk assessment of strains commonly found in ruminant reservoirs.
Söderlund R, Hurel J, Jinnerot T, ..., Eriksson E, Bongcam-Rudloff E
Infect Ecol Epidemiol 6 (-) 30246 [2016-02-16; online 2016-02-16]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genomic inference of the metabolism of cosmopolitan subsurface Archaea, Hadesarchaea.
Baker BJ, Saw JH, Lind AE, ..., Teske AP, Ettema TJG
Nat Microbiol 1 (-) 16002 [2016-02-15; online 2016-02-15]
Microbial Single Cell Genomics [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genome-wide DNA methylation study identifies genes associated with the cardiovascular biomarker GDF-15.
Ek WE, Hedman ÅK, Enroth S, ..., Lind L, Johansson Å
Hum. Mol. Genet. 25 (4) 817-827 [2016-02-15; online 2015-12-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Exome sequencing in one family with gastric- and rectal cancer.
Thutkawkorapin J, Picelli S, Kontham V, ..., Nilsson D, Lindblom A
BMC Genet. 17 (-) 41 [2016-02-13; online 2016-02-13]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Discovery of the First Potent and Selective Inhibitors of Human dCTP Pyrophosphatase 1.
Llona-Minguez S, Höglund A, Jacques SA, ..., Scobie M, Helleday T
J. Med. Chem. 59 (3) 1140-1148 [2016-02-11; online 2016-01-27]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Collaborative] Protein Science Facility (PSF) [Service]
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Aurora kinase inhibitor nanoparticles target tumors with favorable therapeutic index in vivo.
Ashton S, Song YH, Nolan J, ..., Jewsbury PJ, Barry ST
Sci Transl Med 8 (325) 325ra17 [2016-02-10; online 2016-02-13]
Spatial Mass Spectrometry [Service]
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Genome-wide profiling of histone H3 lysine 27 and lysine 4 trimethylation in multiple myeloma reveals the importance of Polycomb gene targeting and highlights EZH2 as a potential therapeutic target.
Agarwal P, Alzrigat M, Párraga AA, ..., Kalushkova A, Jernberg-Wiklund H
Oncotarget 7 (6) 6809-6823 [2016-02-09; online 2016-01-13]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Stereoselective synthesis towards unnatural proline based amino acids
S.Makhathini S, Das SK, Singh T, ..., Govender T, Naicker T
ARKIVOC 2016 (3) 134-144 [2016-02-07; online 2016-02-07]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Targeted Proteomics Approach for Precision Plant Breeding.
Chawade A, Alexandersson E, Bengtsson T, Andreasson E, Levander F
J. Proteome Res. 15 (2) 638-646 [2016-02-05; online 2015-12-26]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Systems Proteomics View of the Endogenous Human Claudin Protein Family.
Liu F, Koval M, Ranganathan S, ..., Kelleher NL, Baker MS
J. Proteome Res. 15 (2) 339-359 [2016-02-05; online 2016-01-12]
Spatial Proteomics [Service]
PubMed DOI Crossref
Structure and Interactions of a Dimeric Variant of sHIP, a Novel Virulence Determinant of Streptococcus pyogenes.
Diehl C, Wisniewska M, Frick IM, ..., Malmström J, Wikström M
Front Microbiol 7 (-) 95 [2016-02-05; online 2016-02-05]
Swedish NMR Centre (SNC) [Service]
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Elucidating the Molecular Composition of Cartilage by Proteomics.
Hsueh MF, Khabut A, Kjellström S, Önnerfjord P, Kraus VB
J. Proteome Res. 15 (2) 374-388 [2016-02-05; online 2016-01-15]
Structural Proteomics [Service]
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Xenacoelomorpha is the sister group to Nephrozoa.
Cannon JT, Vellutini BC, Smith J, ..., Jondelius U, Hejnol A
Nature 530 (7588) 89-93 [2016-02-04; online 2016-02-06]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Proteome-wide survey of the autoimmune target repertoire in autoimmune polyendocrine syndrome type 1
Landegren N, Sharon D, Freyhult E, ..., Snyder M, Kämpe O
Sci Rep 6 (1) 20104 [2016-02-01; online 2016-02-01]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Tissue Profiling [Collaborative]
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New loci for body fat percentage reveal link between adiposity and cardiometabolic disease risk
Lu Y, Day FR, Gustafsson S, ..., Kilpeläinen TO, Loos RJF
Nat Commun 7 (1) 10495 [2016-02-01; online 2016-02-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide meta-analysis uncovers novel loci influencing circulating leptin levels.
Kilpeläinen TO, Carli JF, Skowronski AA, ..., Leibel RL, Loos RJ
Nat Commun 7 (-) 10494 [2016-02-01; online 2016-02-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cellular High-Energy Cavitation Trauma - Description of a Novel In Vitro Trauma Model in Three Different Cell Types.
Cao Y, Risling M, Malm E, ..., Bolling MF, Sköld MK
Front Neurol 7 (-) 10 [2016-02-01; online 2016-02-01]
Bioinformatics and Expression Analysis (BEA) [Service]
PubMed DOI Crossref
Worldwide population structure of the wheat rust fungus Puccinia striiformis in the past.
Thach T, Ali S, de Vallavieille-Pope C, Justesen AF, Hovmøller MS
Fungal Genet. Biol. 87 (-) 1-8 [2016-02-00; online 2016-01-03]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Transcriptome profiling of immune tissues reveals habitat-specific gene expression between lake and river sticklebacks.
Huang Y, Chain FJ, Panchal M, ..., Milinski M, Feulner PG
Mol. Ecol. 25 (4) 943-958 [2016-02-00; online 2016-01-11]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Tissue sample stability: thawing effect on multi-organ samples
Torell F, Bennett K, Cereghini S, ..., Trygg J, Lundstedt T
Metabolomics 12 (2) - [2016-02-00; online 2015-12-31]
Swedish Metabolomics Centre (SMC) [Service]
DOI Crossref
The Role of Lipids in Regulation of Programmed Cell Death
Lidman M, Dingeldein A, Pokorná Š, ..., Hof M, Gröbner G
Biophysical Journal 110 (3) 473a [2016-02-00; online 2016-02-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
The C repressor of the P2 bacteriophage.
Massad T, Papadopolos E, Stenmark P, Damberg P
J. Biomol. NMR 64 (2) 175-180 [2016-02-00; online 2015-12-22]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Six Novel Loci Associated with Circulating VEGF Levels Identified by a Meta-analysis of Genome-Wide Association Studies.
Choi SH, Ruggiero D, Sorice R, ..., Seshadri S, Ciullo M
PLoS Genet. 12 (2) e1005874 [2016-02-00; online 2016-02-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Segmentation and Track-Analysis in Time-Lapse Imaging of Bacteria
Sadanandan SK, Baltekin O, Magnusson KEG, ..., Elf J, Wahlby C
IEEE J. Sel. Top. Signal Process. 10 (1) 174-184 [2016-02-00; online 2016-02-00]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
PubMed DOI Crossref
Replacement of two amino acids of 9R-dioxygenase-allene oxide synthase of Aspergillus niger inverts the chirality of the hydroperoxide and the allene oxide.
Sooman L, Wennman A, Hamberg M, Hoffmann I, Oliw EH
Biochim. Biophys. Acta 1861 (2) 108-118 [2016-02-00; online 2015-11-26]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Regulatory mutations in TBX3 disrupt asymmetric hair pigmentation that underlies Dun camouflage color in horses.
Imsland F, McGowan K, Rubin CJ, ..., Barsh GS, Andersson L
Nat. Genet. 48 (2) 152-158 [2016-02-00; online 2015-12-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Numerous Genes in Loci Associated With Body Fat Distribution Are Linked to Adipose Function.
Dahlman I, Rydén M, Brodin D, ..., Strawbridge RJ, Arner P
Diabetes 65 (2) 433-437 [2016-02-00; online 2016-01-23]
Bioinformatics and Expression Analysis (BEA) [Service]
PubMed DOI Crossref
Genome-Wide Association Analysis of Young-Onset Stroke Identifies a Locus on Chromosome 10q25 Near HABP2.
Cheng YC, Stanne TM, Giese AK, ..., Saleheen D, Mitchell BD
Stroke 47 (2) 307-316 [2016-02-00; online 2016-01-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Fuzzy regions in an intrinsically disordered protein impair protein-protein interactions.
Gruet A, Dosnon M, Blocquel D, ..., Longhi S, Bignon C
FEBS J. 283 (4) 576-594 [2016-02-00; online 2016-01-12]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Exemplifying the Screening Power of Mass Spectrometry Imaging over Label-Based Technologies for Simultaneous Monitoring of Drug and Metabolite Distributions in Tissue Sections.
Goodwin RJA, Nilsson A, Mackay CL, ..., Andrén PE, Iverson SL
J Biomol Screen 21 (2) 187-193 [2016-02-00; online 2015-12-23]
Spatial Mass Spectrometry
PubMed DOI Crossref
Ex Vivo Assessment of Drug Activity in Patient Tumor Cells as a Basis for Tailored Cancer Therapy.
Blom K, Nygren P, Alvarsson J, Larsson R, Andersson CR
J Lab Autom 21 (1) 178-187 [2016-02-00; online 2015-08-05]
Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Epigenetic profiling in CD4+ and CD8+ T cells from Graves' disease patients reveals changes in genes associated with T cell receptor signaling.
Limbach M, Saare M, Tserel L, ..., Milani L, Peterson P
J. Autoimmun. 67 (-) 46-56 [2016-02-00; online 2015-10-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
DOI Crossref
Dynamical and Structural Alterations withing Lipid-Protein Assemblies Control Apoptotic Pore Formation - A Solid State NMR Study
Dingeldein APG, Lidman M, Sparrman T, Gröbner G
Biophysical Journal 110 (3) 59a-60a [2016-02-00; online 2016-02-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Direct Measurement of Intracellular Compound Concentration by RapidFire Mass Spectrometry Offers Insights into Cell Permeability
Gordon LJ, Allen M, Artursson P, ..., Wayne GJ, West A
J Biomol Screen 21 (2) 156-164 [2016-02-00; online 2015-09-03]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
PubMed DOI Crossref
Diffusion-Controlled Drug Release From the Mesoporous Magnesium Carbonate Upsalite(®).
Zhang P, Zardán Gómez de la Torre T, Forsgren J, Bergström CA, Strømme M
J Pharm Sci 105 (2) 657-663 [2016-02-00; online 2015-06-20]
BioMaterial Interactions (BioMat)
PubMed DOI Crossref
Decreased levels of stem cell factor in subjects with incident coronary events.
Wigren M, Rattik S, Hultman K, ..., Gonçalves I, Nilsson J
J. Intern. Med. 279 (2) 180-191 [2016-02-00; online 2015-10-14]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Crystal structure of the flavoenzyme PA4991 from Pseudomonas aeruginosa.
Jacewicz A, Schnell R, Lindqvist Y, Schneider G
Acta Crystallogr F Struct Biol Commun 72 (Pt 2) 105-111 [2016-02-00; online 2016-01-22]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Complete Knockout of Endogenous Mdr1 ( Abcb1 ) in MDCK Cells by CRISPR-Cas9
Simoff I, Karlgren M, Backlund M, ..., Matsson P, Artursson P
Journal of Pharmaceutical Sciences 105 (2) 1017-1021 [2016-02-00; online 2016-02-00]
Chemical Biology Consortium Sweden (CBCS) [Technology development] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Biobanking multifocal breast carcinomas: sample adequacy with regard to histology and DNA content.
Pekar G, Davies H, Lukacs AP, ..., Dumanski J, Tot T
Histopathology 68 (3) 411-421 [2016-02-00; online 2015-06-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Association analysis of copy numbers of FC-gamma receptor genes for rheumatoid arthritis and other immune-mediated phenotypes.
Franke L, el Bannoudi H, Jansen DT, ..., Toes RE, Zhernakova A
Eur. J. Hum. Genet. 24 (2) 263-270 [2016-02-00; online 2015-05-15]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Are freshwater bacterioplankton indifferent to variable types of amino acid substrates?
Ricão Canelhas M, Eiler A, Bertilsson S
FEMS Microbiol. Ecol. 92 (2) - [2016-02-00; online 2016-01-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Analysis of hepatitis C NS5A resistance associated polymorphisms using ultra deep single molecule real time (SMRT) sequencing.
Bergfors A, Leenheer D, Bergqvist A, Ameur A, Lennerstrand J
Antiviral Res. 126 (-) 81-89 [2016-02-00; online 2015-12-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Analyses of the ash dieback pathogen,Hymenoscyphus fraxineus, suggest role of tree species diversity on colonization and population structure differentiation
Nguyen DT, Cleary MR, Enderle R, Berlin A, Stenlid J
For. Path. 46 (1) 82-84 [2016-02-00; online 2015-10-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A novel phenotype in N-glycosylation disorders: Gillessen-Kaesbach–Nishimura skeletal dysplasia due to pathogenic variants in ALG9
Tham E, Eklund EA, Hammarsjö A, ..., Nishimura G, Grigelioniene G
Eur J Hum Genet 24 (2) 198-207 [2016-02-00; online 2015-05-13]
Clinical Genomics Clinical Genomics Stockholm
PubMed DOI Crossref
The Story of a Hitchhiker: Population Genetic Patterns in the Invasive Barnacle Balanus(Amphibalanus) improvisus Darwin 1854.
Wrange AL, Charrier G, Thonig A, ..., Jonsson PR, André C
PLoS ONE 11 (1) e0147082 [2016-01-28; online 2016-01-28]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
High levels of cathepsin D and cystatin B are associated with increased risk of coronary events.
Gonçalves I, Hultman K, Dunér P, ..., Nilsson J, Bengtsson E
Open Heart 3 (1) e000353 [2016-01-27; online 2016-01-27]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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High Plasma Levels of Galectin-3 Are Associated with Increased Risk for Stroke after Carotid Endarterectomy.
Edsfeldt A, Bengtsson E, Asciutto G, ..., Nilsson J, Goncalves I
Cerebrovasc Dis 41 (3-4) 199-203 [2016-01-27; online 2016-01-27]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Genomic sequencing of a dyslexia susceptibility haplotype encompassing ROBO1.
Massinen S, Wang J, Laivuori K, ..., Jiao H, Kere J
J Neurodev Disord 8 (-) 4 [2016-01-27; online 2016-01-27]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A dynamic Asp-Arg interaction is essential for catalysis in microsomal prostaglandin E2 synthase.
Brock JS, Hamberg M, Balagunaseelan N, ..., Rinaldo-Matthis A, Haeggström JZ
Proc. Natl. Acad. Sci. U.S.A. 113 (4) 972-977 [2016-01-26; online 2016-01-11]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Genomic Evidence Establishes Anatolia as the Source of the European Neolithic Gene Pool.
Omrak A, Günther T, Valdiosera C, ..., Jakobsson M, Götherström A
Curr. Biol. 26 (2) 270-275 [2016-01-25; online 2015-12-31]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Metabolites in Blood for Prediction of Bacteremic Sepsis in the Emergency Room.
Kauppi AM, Edin A, Ziegler I, ..., Strålin K, Johansson A
PLoS ONE 11 (1) e0147670 [2016-01-22; online 2016-01-22]
Swedish Metabolomics Centre (SMC) [Service]
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Genetic associations at 53 loci highlight cell types and biological pathways relevant for kidney function.
Pattaro C, Teumer A, Gorski M, ..., Kao WH, Fox CS
Nat Commun 7 (1) 10023 [2016-01-21; online 2016-01-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Backbone Assignment of the MALT1 Paracaspase by Solution NMR.
Unnerståle S, Nowakowski M, Baraznenok V, ..., Orekhov V, Agback T
PLoS ONE 11 (1) e0146496 [2016-01-20; online 2016-01-20]
Swedish NMR Centre (SNC) [Collaborative]
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Reconstructing ecosystem functions of the active microbial community of the Baltic Sea oxygen depleted sediments.
Thureborn P, Franzetti A, Lundin D, Sjöling S
PeerJ 4 (-) e1593 [2016-01-19; online 2016-01-19]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Geographical distribution of genetic diversity in Secale landrace and wild accessions.
Hagenblad J, Oliveira HR, Forsberg NE, Leino MW
BMC Plant Biol. 16 (-) 23 [2016-01-19; online 2016-01-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic Determinants of Thrombin Generation and Their Relation to Venous Thrombosis: Results from the GAIT-2 Project.
Martin-Fernandez L, Ziyatdinov A, Carrasco M, ..., Souto JC, Soria JM
PLoS ONE 11 (1) e0146922 [2016-01-19; online 2016-01-19]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Chondroitin sulfate coated gold nanoparticles: a new strategy to resolve multidrug resistance and thromboinflammation.
Gurav D, Varghese OP, Hamad OA, ..., Hilborn J, Oommen OP
Chem. Commun. (Camb.) 52 (5) 966-969 [2016-01-18; online 2015-11-21]
Karolinska High Throughput Center (KHTC) [Service]
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Using Whole-Exome Sequencing to Identify Genetic Markers for Carboplatin and Gemcitabine-Induced Toxicities.
Gréen H, Hasmats J, Kupershmidt I, ..., Peterson C, Lundeberg J
Clin. Cancer Res. 22 (2) 366-373 [2016-01-15; online 2015-09-16]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Phytoconstituents with Radical Scavenging and Cytotoxic Activities from Diospyros shimbaensis
Aronsson P, Munissi J, Gruhonjic A, ..., Nyandoro S, Erdelyi M
Diseases 4 (1) 3 [2016-01-15; online 2016-01-15]
Swedish NMR Centre (SNC) [Service]
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A meta-analysis of 120 246 individuals identifies 18 new loci for fibrinogen concentration.
de Vries PS, Chasman DI, Sabater-Lleal M, ..., Strachan DP, Dehghan A
Hum. Mol. Genet. 25 (2) 358-370 [2016-01-15; online 2015-11-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Cryptochromes Interact Directly with PIFs to Control Plant Growth in Limiting Blue Light.
Pedmale UV, Huang SS, Zander M, ..., Ecker JR, Chory J
Cell 164 (1-2) 233-245 [2016-01-14; online 2016-01-05]
Swedish Metabolomics Centre (SMC) [Service]
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The protein kinase LKB1 negatively regulates bone morphogenetic protein receptor signaling.
Raja E, Tzavlaki K, Vuilleumier R, ..., Heldin CH, Moustakas A
Oncotarget 7 (2) 1120-1143 [2016-01-12; online 2015-12-25]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Spatial sexual dimorphism of X and Y homolog gene expression in the human central nervous system during early male development.
Johansson MM, Lundin E, Qian X, ..., Nilsson M, Jazin E
Biol Sex Differ 7 (-) 5 [2016-01-12; online 2016-01-12]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Simultaneous Multiplexed Measurement of RNA and Proteins in Single Cells.
Darmanis S, Gallant CJ, Marinescu VD, ..., Westermark B, Landegren U
Cell Rep 14 (2) 380-389 [2016-01-12; online 2016-01-11]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
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Genome-wide identification of Wig-1 mRNA targets by RIP-Seq analysis.
Bersani C, Huss M, Giacomello S, ..., Lui WO, Wiman KG
Oncotarget 7 (2) 1895-1911 [2016-01-12; online 2015-12-18]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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BMP Sustains Embryonic Stem Cell Self-Renewal through Distinct Functions of Different Krüppel-like Factors.
Morikawa M, Koinuma D, Mizutani A, ..., Heldin CH, Miyazono K
Stem Cell Reports 6 (1) 64-73 [2016-01-12; online 2016-01-16]
Genome Engineering Zebrafish [Collaborative]
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Serum Trimethylamine-N-Oxide Is Strongly Related to Renal Function and Predicts Outcome in Chronic Kidney Disease.
Missailidis C, Hällqvist J, Qureshi AR, ..., Stenvinkel P, Bergman P
PLoS ONE 11 (1) e0141738 [2016-01-11; online 2016-01-11]
Swedish Metabolomics Centre (SMC) [Collaborative]
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Whole-Genome Sequencing of a Canine Family Trio Reveals a FAM83G Variant Associated with Hereditary Footpad Hyperkeratosis.
Sayyab S, Viluma A, Bergvall K, ..., Andersson G, Bergström TF
G3 (Bethesda) 6 (3) 521-527 [2016-01-08; online 2016-01-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The 5300-year-old Helicobacter pylori genome of the Iceman.
Maixner F, Krause-Kyora B, Turaev D, ..., Rattei T, Zink A
Science 351 (6269) 162-165 [2016-01-08; online 2016-01-09]
Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative]
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Identifying Novel Gene Variants in Coronary Artery Disease and Shared Genes With Several Cardiovascular Risk Factors.
LeBlanc M, Zuber V, Andreassen BK, ..., Dale AM, Andreassen OA
Circ. Res. 118 (1) 83-94 [2016-01-08; online 2015-10-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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PGSB PlantsDB: updates to the database framework for comparative plant genome research.
Spannagl M, Nussbaumer T, Bader KC, ..., Gundlach H, Mayer KF
Nucleic Acids Res. 44 (D1) D1141-D1147 [2016-01-04; online 2015-11-04]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Characterization and Expression of the Zebrafish qki Paralogs.
Radomska KJ, Sager J, Farnsworth B, ..., Jazin E, Emilsson LS
PLoS ONE 11 (1) e0146155 [2016-01-04; online 2016-01-04]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
CRISPRz: a database of zebrafish validated sgRNAs.
Varshney GK, Zhang S, Pei W, ..., Sood R, Burgess SM
Nucleic Acids Res. 44 (D1) D822-D826 [2016-01-04; online 2015-10-04]
Genome Engineering Zebrafish [Technology development]
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Protein Detection Using the Multiplexed Proximity Extension Assay (PEA) from Plasma and Vaginal Fluid Applied to the Indicating FTA Elute Micro Card™.
Berggrund M, Ekman D, Gustavsson I, ..., Enroth S, Gyllensten U
Journal of Circulating Biomarkers 5 (-) 9 [2016-01-01; online 2016-01-01]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Ionic liquid mediated technology for synthesis of cellulose acetates using different co-solvents.
Jogunola O, Eta V, Hedenström M, ..., Salmi T, Mikkola JP
Carbohydr Polym 135 (-) 341-348 [2016-01-01; online 2015-09-02]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Changes in the drug release pattern of fresh and set simvastatin-loaded brushite cement.
Mestres G, Kugiejko K, Pastorino D, ..., Ginebra MP, Persson C
Mater Sci Eng C Mater Biol Appl 58 (-) 88-96 [2016-01-01; online 2015-08-14]
BioMaterial Interactions (BioMat)
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The WD40 Domain Protein MSI1 Functions in a Histone Deacetylase Complex to Fine-Tune Abscisic Acid Signaling.
Mehdi S, Derkacheva M, Ramström M, ..., Bergquist J, Hennig L
Plant Cell 28 (1) 42-54 [2016-01-00; online 2015-12-24]
Mass Spectrometry-based Proteomics, Uppsala [Collaborative]
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Super-resolution stimulated emission depletion imaging of slit diaphragm proteins in optically cleared kidney tissue.
Unnersjö-Jess D, Scott L, Blom H, Brismar H
Kidney Int. 89 (1) 243-247 [2016-01-00; online 2015-10-08]
Integrated Microscopy Technologies Stockholm [Technology development]
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Structural genomic changes underlie alternative reproductive strategies in the ruff (Philomachus pugnax).
Lamichhaney S, Fan G, Widemo F, ..., Liu X, Andersson L
Nat. Genet. 48 (1) 84-88 [2016-01-00; online 2015-11-17]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Protein Biomarkers for Insulin Resistance and Type 2 Diabetes Risk in Two Large Community Cohorts.
Nowak C, Sundström J, Gustafsson S, ..., Ingelsson E, Fall T
Diabetes 65 (1) 276-284 [2016-01-00; online 2015-09-29]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] Clinical Biomarkers NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] PLA and Single Cell Proteomics [Service]
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Pathogenenic variant in the COL2A1 gene is associated with Spondyloepiphyseal dysplasia type Stanescu.
Hammarsjö A, Nordgren A, Lagerstedt-Robinson K, ..., Nishimura G, Grigelioniene G
Am. J. Med. Genet. A 170A (1) 266-269 [2016-01-00; online 2015-10-01]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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PAX5-ESRRB is a recurrent fusion gene in B-cell precursor pediatric acute lymphoblastic leukemia.
Marincevic-Zuniga Y, Zachariadis V, Cavelier L, ..., Syvänen AC, Nordlund J
Haematologica 101 (1) e20-e23 [2016-01-00; online 2015-10-22]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Oxylipins, endocannabinoids, and related compounds in human milk: Levels and effects of storage conditions.
Wu J, Gouveia-Figueira S, Domellöf M, Zivkovic AM, Nording ML
Prostaglandins Other Lipid Mediat. 122 (-) 28-36 [2016-01-00; online 2015-12-15]
Swedish Metabolomics Centre (SMC) [Service]
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Mutations in FLVCR2 associated with Fowler syndrome and survival beyond infancy.
Kvarnung M, Taylan F, Nilsson D, ..., Nordgren A, Syk Lundberg E
Clin. Genet. 89 (1) 99-103 [2016-01-00; online 2015-02-14]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Increased lanosterol turnover: a metabolic burden for daunorubicin-resistant leukemia cells.
Stäubert C, Krakowsky R, Bhuiyan H, ..., Broom O, Nordström A
Med. Oncol. 33 (1) 6 [2016-01-00; online 2015-12-23]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
G×E Interaction Influences Trajectories of Hand Grip Strength.
Petersen I, Pedersen NL, Rantanen T, ..., Krueger RF, Reynolds C
Behav. Genet. 46 (1) 20-30 [2016-01-00; online 2015-09-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic heterogeneity in rhabdomyosarcoma revealed by SNP array analysis.
Walther C, Mayrhofer M, Nilsson J, ..., Gisselsson D, Mertens F
Genes Chromosomes Cancer 55 (1) 3-15 [2016-01-00; online 2015-10-20]
Array and Analysis Facility [Collaborative]
PubMed DOI Crossref
Gene-Environment Interplay in Physical, Psychological, and Cognitive Domains in Mid to Late Adulthood: Is APOE a Variability Gene?
Reynolds CA, Gatz M, Christensen K, ..., Pedersen NL, Interplay of Genes and Environment across Multiple Studies (IGEMS) consortium
Behav. Genet. 46 (1) 4-19 [2016-01-00; online 2015-11-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
GREM1 and POLE variants in hereditary colorectal cancer syndromes.
Rohlin A, Eiengård F, Lundstam U, ..., Björk J, Nordling M
Genes Chromosomes Cancer 55 (1) 95-106 [2016-01-00; online 2015-10-23]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Fat intake and breast milk fatty acid composition in farming and nonfarming women and allergy development in the offspring.
Jonsson K, Barman M, Moberg S, ..., Wold AE, Sandberg AS
Pediatr. Res. 79 (1-1) 114-123 [2016-01-00; online 2015-09-21]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
F11 is associated with recurrent VTE in women. A prospective cohort study.
Bruzelius M, Ljungqvist M, Bottai M, ..., Lärfars G, Odeberg J
Thromb. Haemost. 115 (2) 406-414 [2016-01-00; online 2015-10-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exome and genome sequencing: a revolution for the discovery and diagnosis of monogenic disorders.
Stranneheim H, Wedell A
J. Intern. Med. 279 (1) 3-15 [2016-01-00; online 2015-08-08]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Development of single-tube nested real-time PCR assays with long internally quenched probes for detection of norovirus genogroup II.
Xia H, Gravelsina S, Öhrmalm C, Ottoson J, Blomberg J
BioTechniques 60 (1) 28-34 [2016-01-00; online 2016-01-01]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Composition of human faecal microbiota in resistance to Campylobacter infection.
Kampmann C, Dicksved J, Engstrand L, Rautelin H
Clin. Microbiol. Infect. 22 (1) 61.e1-61.e8 [2016-01-00; online 2015-09-16]
Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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An Immunochip-based interaction study of contrasting interaction effects with smoking in ACPA-positive versus ACPA-negative rheumatoid arthritis.
Jiang X, Källberg H, Chen Z, ..., Padyukov L, Alfredsson L
Rheumatology (Oxford) 55 (1) 149-155 [2016-01-00; online 2015-08-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Adaptive radiation of Darwin's finches revisited using whole genome sequencing.
Almén MS, Lamichhaney S, Berglund J, ..., Webster MT, Andersson L
Bioessays 38 (1) 14-20 [2016-01-00; online 2015-11-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Overexpression of Trypanosoma rangeli trypanothione reductase increases parasite survival under oxidative stress
BELTRAME-BOTELHO IT, STOCO PH, STEINDEL M, ..., GADELHA FR, GRISARD EC
Parasitology Open 2 (-) - [2016-00-00; online 2016-11-14]
NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Organocatalyzed Mannich reactions on minocycline: Towards novel tetracycline antibiotics
CHIWUNZE TE, Azumah R, Ramtahal M, ..., Govender T, Naicker T
S.Afr.j.chem. 69 (-) - [2016-00-00; online 2016-00-00]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
NMR analysis of the human saliva metabolome distinguishes dementia patients from matched controls
Figueira J, Jonsson P, Nordin Adolfsson A, ..., Nyberg L, Öhman A
Mol. BioSyst. 12 (8) 2562-2571 [2016-00-00; online 2016-00-00]
Swedish NMR Centre (SNC) [Collaborative]
DOI Crossref
Feature Augmented Deep Neural Networks for Segmentation of Cells
Sadanandan SK, Ranefall P, Wählby C
- - (-) 231-243 [2016-00-00; online 2016-09-18]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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Bridging Histology and Bioinformatics—Computational Analysis of Spatially Resolved Transcriptomics
Mignardi M, Ishaq O, Qian X, Wahlby C
Proc. IEEE - (-) 1-12 [2016-00-00; online 2016-00-00]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
The Urinary Bladder Transcriptome and Proteome Defined by Transcriptomics and Antibody-Based Profiling.
Habuka M, Fagerberg L, Hallström BM, ..., Yamamoto T, Uhlen M
PLoS ONE 10 (12) e0145301 [2015-12-22; online 2015-12-22]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Tissue Profiling [Collaborative]
PubMed DOI Crossref
Sequence and gene expression evolution of paralogous genes in willows.
Harikrishnan SL, Pucholt P, Berlin S
Sci Rep 5 (-) 18662 [2015-12-22; online 2015-12-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transcriptome analysis reveals mucin 4 to be highly associated with periodontitis and identifies pleckstrin as a link to systemic diseases.
Lundmark A, Davanian H, Båge T, ..., Lundeberg J, Yucel-Lindberg T
Sci Rep 5 (-) 18475 [2015-12-21; online 2015-12-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Genome-wide genetic homogeneity between sexes and populations for human height and body mass index.
Yang J, Bakshi A, Zhu Z, ..., Ingelsson E, Visscher PM
Hum. Mol. Genet. 24 (25) 7445-7449 [2015-12-20; online 2015-10-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exploring water as building bricks in enzyme engineering.
Hendil-Forssell P, Martinelle M, Syrén PO
Chem. Commun. (Camb.) 51 (97) 17221-17224 [2015-12-18; online 2015-10-02]
Protein Science Facility (PSF)
PubMed DOI Crossref
A significant risk locus on 19q13 for bipolar disorder identified using a combined genome-wide linkage and copy number variation analysis.
Lekman M, Karlsson R, Graae L, Hössjer O, Kockum I
BioData Mining 8 (-) 42 [2015-12-18; online 2015-12-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Powerful Populations Respond to Viruses and Vaccines.
Brodin P
Immunity 43 (6) 1035-1037 [2015-12-15; online 2015-12-20]
Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Metagenome-assembled genomes uncover a global brackish microbiome.
Hugerth LW, Larsson J, Alneberg J, ..., Pinhassi J, Andersson AF
Genome Biol. 16 (-) 279 [2015-12-14; online 2015-12-14]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Metagenome-Based Metabolic Reconstruction Reveals the Ecophysiological Function of Epsilonproteobacteria in a Hydrocarbon-Contaminated Sulfidic Aquifer.
Keller AH, Schleinitz KM, Starke R, ..., Vogt C, Kleinsteuber S
Front Microbiol 6 (-) 1396 [2015-12-10; online 2015-12-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
High levels of WNT-5A in human glioma correlate with increased presence of tumor-associated microglia/monocytes.
Dijksterhuis JP, Arthofer E, Marinescu VD, ..., Mulder J, Schulte G
Exp. Cell Res. 339 (2) 280-288 [2015-12-10; online 2015-10-25]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Pleiotrophin promotes vascular abnormalization in gliomas and correlates with poor survival in patients with astrocytomas.
Zhang L, Kundu S, Feenstra T, ..., Dieterich LC, Dimberg A
Sci Signal 8 (406) ra125 [2015-12-08; online 2015-12-08]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Sixteen new lung function signals identified through 1000 Genomes Project reference panel imputation.
Soler Artigas M, Wain LV, Miller S, ..., Hall IP, Tobin MD
Nat Commun 6 (-) 8658 [2015-12-04; online 2015-12-04]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Quantitative Trait Locus and Genetical Genomics Analysis Identifies Putatively Causal Genes for Fecundity and Brooding in the Chicken.
Johnsson M, Jonsson KB, Andersson L, Jensen P, Wright D
G3 (Bethesda) 6 (2) 311-319 [2015-12-04; online 2015-12-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structural insights into the DNA-binding specificity of E2F family transcription factors.
Morgunova E, Yin Y, Jolma A, ..., Nilsson L, Taipale J
Nat Commun 6 (1) 10050 [2015-12-03; online 2015-12-03]
Karolinska High Throughput Center (KHTC) Protein Science Facility (PSF)
PubMed DOI Crossref
Population structure and genetic diversity in the nannandrous moss Homalothecium lutescens: does the dwarf male system facilitate gene flow?
Rosengren F, Hansson B, Cronberg N
BMC Evol. Biol. 15 (-) 270 [2015-12-03; online 2015-12-03]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Within-species divergence in the seminal fluid proteome and its effect on male and female reproduction in a beetle.
Goenaga J, Yamane T, Rönn J, Arnqvist G
BMC Evol. Biol. 15 (-) 266 [2015-12-02; online 2015-12-02]
Mass Spectrometry-based Proteomics, Uppsala
PubMed DOI Crossref
A Combination of Culture Conditions and Gene Expression Analysis Can Be Used to Investigate and Predict hES Cell Differentiation Potential towards Male Gonadal Cells.
Kjartansdóttir KR, Reda A, Panula S, ..., Hovatta O, Stukenborg JB
PLoS ONE 10 (12) e0144029 [2015-12-02; online 2015-12-02]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Protein profiling reveals consequences of lifestyle choices on predicted biological aging.
Enroth S, Enroth SB, Johansson Å, Gyllensten U
Sci Rep 5 (1) 17282 [2015-12-01; online 2015-12-01]
Affinity Proteomics Uppsala [Technology development] Clinical Biomarkers PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Multi-level omics analysis in a murine model of dystrophin loss and therapeutic restoration.
Roberts TC, Johansson HJ, McClorey G, ..., El Andaloussi S, Wood MJ
Hum. Mol. Genet. 24 (23) 6756-6768 [2015-12-01; online 2015-09-20]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Metabolic Profiling of Chicken Embryos Exposed to Perfluorooctanoic Acid (PFOA) and Agonists to Peroxisome Proliferator-Activated Receptors.
Mattsson A, Kärrman A, Pinto R, Brunström B
PLoS ONE 10 (12) e0143780 [2015-12-01; online 2015-12-01]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Highly Sensitive FRET-FCS Detects Amyloid β-Peptide Oligomers in Solution at Physiological Concentrations.
Wennmalm S, Chmyrov V, Widengren J, Tjernberg L
Anal. Chem. 87 (23) 11700-11705 [2015-12-01; online 2015-10-23]
Fluorescence Correlation Spectroscopy [Collaborative] Integrated Microscopy Technologies Stockholm
PubMed DOI Crossref
Gene-based meta-analysis of genome-wide association studies implicates new loci involved in obesity.
Hägg S, Ganna A, Van Der Laan SW, ..., Pawitan Y, Ingelsson E
Hum. Mol. Genet. 24 (23) 6849-6860 [2015-12-01; online 2015-09-18]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Dietary Fiber-Induced Improvement in Glucose Metabolism Is Associated with Increased Abundance of Prevotella.
Kovatcheva-Datchary P, Nilsson A, Akrami R, ..., Björck I, Bäckhed F
Cell Metab. 22 (6) 971-982 [2015-12-01; online 2015-11-11]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The body mass index (BMI) is significantly correlated with levels of cytokines and chemokines in cerebrospinal fluid.
Larsson A, Carlsson L, Lind AL, ..., Kamali-Moghaddam M, Thulin M
Cytokine 76 (2) 514-518 [2015-12-00; online 2015-07-15]
Affinity Proteomics Uppsala [Collaborative] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
The Plant Genome Integrative Explorer Resource: PlantGenIE.org.
Sundell D, Mannapperuma C, Netotea S, ..., Hvidsten TR, Street NR
New Phytol. 208 (4) 1149-1156 [2015-12-00; online 2015-07-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The Constrained Maximal Expression Level Owing to Haploidy Shapes Gene Content on the Mammalian X Chromosome.
Hurst LD, Ghanbarian AT, Forrest AR, FANTOM consortium , Huminiecki L
PLoS Biol. 13 (12) e1002315 [2015-12-00; online 2015-12-18]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Susceptibility to infections, without concomitant hyper-IgE, reported in 1976, is caused by hypomorphic mutation in the phosphoglucomutase 3 (PGM3) gene.
Lundin KE, Hamasy A, Backe PH, ..., Stenmark S, Smith CI
Clin. Immunol. 161 (2) 366-372 [2015-12-00; online 2015-10-19]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Selenium metabolism to the trimethylselenonium ion (TMSe) varies markedly because of polymorphisms in the indolethylamine N-methyltransferase gene.
Kuehnelt D, Engström K, Skröder H, ..., Broberg K, Vahter M
Am. J. Clin. Nutr. 102 (6) 1406-1415 [2015-12-00; online 2015-11-06]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Phenotypic expansion of visceral myopathy associated with ACTG2 tandem base substitution.
Klar J, Raykova D, Gustafson E, ..., Wanders A, Dahl N
Eur. J. Hum. Genet. 23 (12) 1679-1683 [2015-12-00; online 2015-03-18]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Oral microbiota in patients with atherosclerosis.
Fåk F, Tremaroli V, Bergström G, Bäckhed F
Atherosclerosis 243 (2) 573-578 [2015-12-00; online 2015-11-05]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
DOI Crossref
Nanocellulose from green algae modulates the in vitro inflammatory response of monocytes/macrophages
Hua K, Strømme M, Mihranyan A, Ferraz N
Cellulose 22 (6) 3673-3688 [2015-12-00; online 2015-10-03]
BioMaterial Interactions (BioMat)
PubMed DOI Crossref
Multi-ancestry genome-wide association study of 21,000 cases and 95,000 controls identifies new risk loci for atopic dermatitis.
Paternoster L, Standl M, Waage J, ..., Weidinger S, EArly Genetics and Lifecourse Epidemiology (EAGLE) Eczema Consortium
Nat. Genet. 47 (12) 1449-1456 [2015-12-00; online 2015-10-21]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Identification of proteins from human permanent erupted enamel.
Castiblanco GA, Rutishauser D, Ilag LL, ..., Castellanos JE, Mejía W
Eur. J. Oral Sci. 123 (6) 390-395 [2015-12-00; online 2015-10-04]
Advanced Mass Spectrometry Proteomics
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Hormone Replacement Therapy Associated White Blood Cell DNA Methylation and Gene Expression are Associated With Within-Pair Differences of Body Adiposity and Bone Mass.
Bahl A, Pöllänen E, Ismail K, ..., Kovanen V, Ollikainen M
Twin Res Hum Genet 18 (6) 647-661 [2015-12-00; online 2015-12-19]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Genetic fine mapping and genomic annotation defines causal mechanisms at type 2 diabetes susceptibility loci.
Gaulton KJ, Ferreira T, Lee Y, ..., Morris AP, DIAbetes Genetics Replication And Meta-analysis (DIAGRAM) Consortium
Nat. Genet. 47 (12) 1415-1425 [2015-12-00; online 2015-11-09]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Genetic association analyses implicate aberrant regulation of innate and adaptive immunity genes in the pathogenesis of systemic lupus erythematosus.
Bentham J, Morris DL, Cunninghame Graham DS, ..., Alarcón-Riquelme ME, Vyse TJ
Nat. Genet. 47 (12) 1457-1464 [2015-12-00; online 2015-10-27]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Freshwater protists do not go with the flow: population structure in Gonyostomum semen independent of connectivity among lakes.
Sassenhagen I, Sefbom J, Säll T, Godhe A, Rengefors K
Environ. Microbiol. 17 (12) 5063-5072 [2015-12-00; online 2015-07-18]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Experiences with workflows for automating data-intensive bioinformatics
Spjuth O, Bongcam-Rudloff E, Hernández GC, ..., Siretskiy A, Vassilev D
Biol. Direct 10 (1) - [2015-12-00; online 2015-08-19]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Emmprin Expression Predicts Response and Survival following Cisplatin Containing Chemotherapy for Bladder Cancer: A Validation Study.
Hemdan T, Malmström PU, Jahnson S, Segersten U
J. Urol. 194 (6) 1575-1581 [2015-12-00; online 2015-06-30]
Tissue Profiling
PubMed DOI Crossref
Discovery of New Risk Markers for Ischemic Stroke Using a Novel Targeted Proteomics Chip.
Lind L, Siegbahn A, Lindahl B, ..., Sundström J, Ärnlöv J
Stroke 46 (12) 3340-3347 [2015-12-00; online 2015-11-05]
Affinity Proteomics Uppsala [Technology development] Clinical Biomarkers PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Characterization of human organ donors testing positive for type 1 diabetes-associated autoantibodies.
Wiberg A, Granstam A, Ingvast S, ..., Korsgren O, Skog O
Clin. Exp. Immunol. 182 (3) 278-288 [2015-12-00; online 2015-08-28]
Tissue Profiling
PubMed DOI Crossref
Captured metagenomics: large-scale targeting of genes based on 'sequence capture' reveals functional diversity in soils.
Manoharan L, Kushwaha SK, Hedlund K, Ahrén D
DNA Res. 22 (6) 451-460 [2015-12-00; online 2015-10-23]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Bioenergetic cues shift FXR splicing towards FXRα2 to modulate hepatic lipolysis and fatty acid metabolism.
Correia JC, Massart J, de Boer JF, ..., Groen AK, Ruas JL
Mol Metab 4 (12) 891-902 [2015-12-00; online 2015-09-26]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Bacterial diversity along a 2600 km river continuum.
Savio D, Sinclair L, Ijaz UZ, ..., Farnleitner AH, Eiler A
Environ. Microbiol. 17 (12) 4994-5007 [2015-12-00; online 2015-04-30]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Associations between circulating proteins and corresponding genes expressed in coronary thrombi in patients with acute myocardial infarction.
Helseth R, Weiss TW, Opstad TB, ..., Arnesen H, Seljeflot S
Thromb. Res. 136 (6) 1240-1244 [2015-12-00; online 2015-10-08]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Amelioration of the Fitness Costs of Antibiotic Resistance Due To Reduced Outer Membrane Permeability by Upregulation of Alternative Porins.
Knopp M, Andersson DI
Mol. Biol. Evol. 32 (12) 3252-3263 [2015-12-00; online 2015-09-12]
Mass Spectrometry-based Proteomics, Uppsala
PubMed DOI Crossref
De novo assembly of Dekkera bruxellensis: a multi technology approach using short and long-read sequencing and optical mapping.
Olsen RA, Bunikis I, Tiukova I, ..., Käller M, Vezzi F
Gigascience 4 (-) 56 [2015-11-26; online 2015-11-26]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Genome-Wide Association Study Identifies That the ABO Blood Group System Influences Interleukin-10 Levels and the Risk of Clinical Events in Patients with Acute Coronary Syndrome.
Johansson Å, Alfredsson J, Eriksson N, Wallentin L, Siegbahn A
PLoS ONE 10 (11) e0142518 [2015-11-24; online 2015-11-24]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Complete genome sequence of Staphylococcus aureus, strain ILRI_Eymole1/1, isolated from a Kenyan dromedary camel.
Zubair S, Fischer A, Liljander A, ..., Bongcam-Rudloff E, Jores J
Stand Genomic Sci 10 (-) 109 [2015-11-20; online 2015-11-20]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Combinations of Genetic Data Present in Bipolar Patients, but Absent in Control Persons.
Mellerup E, Andreassen OA, Bennike B, ..., Werge T, Moeller GL
PLoS ONE 10 (11) e0143432 [2015-11-20; online 2015-11-20]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
RNA sequencing uncovers antisense RNAs and novel small RNAs in Streptococcus pyogenes.
Le Rhun A, Beer YY, Reimegård J, Chylinski K, Charpentier E
RNA Biol 13 (2) 177-195 [2015-11-19; online 2015-11-19]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
DNA-dependent formation of transcription factor pairs alters their binding specificity.
Jolma A, Yin Y, Nitta KR, ..., Morgunova E, Taipale J
Nature 527 (7578) 384-388 [2015-11-19; online 2015-11-10]
Karolinska High Throughput Center (KHTC) Protein Science Facility (PSF)
DOI Crossref
A Conserved Odorant Receptor Detects the Same 1-Indanone Analogs in a Tortricid and a Noctuid Moth
Gonzalez F, Bengtsson JM, Walker WB, ..., Ignell R, Bengtsson M
Front. Ecol. Evol. 3 (-) - [2015-11-19; online 2015-11-19]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Single cell analysis of cancer cells using an improved RT-MLPA method has potential for cancer diagnosis and monitoring.
Kvastad L, Werne Solnestam B, Johansson E, ..., Latta D, Lundeberg J
Sci Rep 5 (-) 16519 [2015-11-12; online 2015-11-12]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Working draft genome sequence of the mesophilic acetate oxidizing bacterium Syntrophaceticus schinkii strain Sp3.
Manzoor S, Müller B, Niazi A, Schnürer A, Bongcam-Rudloff E
Stand Genomic Sci 10 (-) 99 [2015-11-11; online 2015-11-11]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Normalization of Host Intestinal Mucus Layers Requires Long-Term Microbial Colonization.
Johansson ME, Jakobsson HE, Holmén-Larsson J, ..., Bäckhed F, Hansson GC
Cell Host Microbe 18 (5) 582-592 [2015-11-11; online 2015-11-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Immunocapture strategies in translational proteomics.
Fredolini C, Byström S, Pin E, ..., Nilsson P, Schwenk JM
Expert Rev Proteomics 13 (1) 83-98 [2015-11-11; online 2015-11-11]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Effect of genetic and environmental factors on protein biomarkers for common non-communicable disease and use of personally normalized plasma protein profiles (PNPPP).
Enroth S, Bosdotter Enroth S, Johansson Å, Gyllensten U
Biomarkers 20 (6-7) 355-364 [2015-11-09; online 2015-11-09]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Meta-analysis identifies seven susceptibility loci involved in the atopic march.
Marenholz I, Esparza-Gordillo J, Rüschendorf F, ..., Henderson AJ, Lee YA
Nat Commun 6 (-) 8804 [2015-11-06; online 2015-11-06]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Intra-mitochondrial Methylation Deficiency Due to Mutations in SLC25A26.
Kishita Y, Pajak A, Bolar NA, ..., Okazaki Y, Wedell A
Am. J. Hum. Genet. 97 (5) 761-768 [2015-11-05; online 2015-11-03]
Clinical Genomics Clinical Genomics Stockholm NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
In search for symmetries in the metabolism of cancer.
Gatto F, Nielsen J
Wiley Interdiscip Rev Syst Biol Med 8 (1) 23-35 [2015-11-05; online 2015-11-05]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Systems Biology [Technology development]
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Dominant Genetic Variation and Missing Heritability for Human Complex Traits: Insights from Twin versus Genome-wide Common SNP Models.
Chen X, Kuja-Halkola R, Rahman I, ..., Pedersen NL, Magnusson PK
Am. J. Hum. Genet. 97 (5) 708-714 [2015-11-05; online 2015-11-07]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Quantitative proteogenomics of human pathogens using DIA-MS.
Malmström L, Bakochi A, Svensson G, ..., Karlsson C, Malmström J
J Proteomics 129 (-) 98-107 [2015-11-03; online 2015-09-19]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Elevated expression of the C-type lectin CD93 in the glioblastoma vasculature regulates cytoskeletal rearrangements that enhance vessel function and reduce host survival.
Langenkamp E, Zhang L, Lugano R, ..., Smits A, Dimberg A
Cancer Res. 75 (21) 4504-4516 [2015-11-01; online 2015-09-11]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Variant Profiling of Candidate Genes in Pancreatic Ductal Adenocarcinoma.
Huang J, Löhr JM, Nilsson M, ..., Zheng Z, Ye W
Clin. Chem. 61 (11) 1408-1416 [2015-11-00; online 2015-09-16]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The Role of FTO and Vitamin D for the Weight Loss Effect of Roux-en-Y Gastric Bypass Surgery in Obese Patients.
Bandstein M, Schultes B, Ernst B, ..., Schiöth HB, Benedict C
Obes Surg 25 (11) 2071-2077 [2015-11-00; online 2015-03-01]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
The Human Endometrium-Specific Proteome Defined by Transcriptomics and Antibody-Based Profiling.
Zieba A, Sjöstedt E, Olovsson M, ..., Uhlen M, Ponten F
OMICS 19 (11) 659-668 [2015-11-00; online 2015-10-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Tissue Profiling [Technology development]
PubMed DOI Crossref
Single-cell genomics of a rare environmental alphaproteobacterium provides unique insights into Rickettsiaceae evolution.
Martijn J, Schulz F, Zaremba-Niedzwiedzka K, ..., Guy L, Ettema TJ
ISME J 9 (11) 2373-2385 [2015-11-00; online 2015-04-07]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Resolving Evolutionary Relationships in Closely Related Species with Whole-Genome Sequencing Data.
Nater A, Burri R, Kawakami T, Smeds L, Ellegren H
Syst. Biol. 64 (6) 1000-1017 [2015-11-00; online 2015-07-19]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Rescue of primary ubiquinone deficiency due to a novel COQ7 defect using 2,4-dihydroxybensoic acid.
Freyer C, Stranneheim H, Naess K, ..., Wredenberg A, Wedell A
J. Med. Genet. 52 (11) 779-783 [2015-11-00; online 2015-06-19]
Clinical Genomics Clinical Genomics Stockholm NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Population genetic differentiation of height and body mass index across Europe.
Robinson MR, Hemani G, Medina-Gomez C, ..., Yang J, Visscher PM
Nat. Genet. 47 (11) 1357-1362 [2015-11-00; online 2015-09-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mutation in CEP63 co-segregating with developmental dyslexia in a Swedish family.
Einarsdottir E, Svensson I, Darki F, ..., Kere J, Matsson H
Hum. Genet. 134 (11-12) 1239-1248 [2015-11-00; online 2015-09-25]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers.
Burri R, Nater A, Kawakami T, ..., Török J, Ellegren H
Genome Res. 25 (11) 1656-1665 [2015-11-00; online 2015-09-09]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Inactivation of the Deg protease family in the cyanobacterium Synechocystis sp. PCC 6803 has impact on the outer cell layers.
Cheregi O, Miranda H, Gröbner G, Funk C
Journal of Photochemistry and Photobiology B: Biology 152 (Pt B) 383-394 [2015-11-00; online 2015-05-22]
Swedish NMR Centre (SNC) [Service]
DOI Crossref
Impact of asymmetric male and female gamete dispersal on allelic diversity and spatial genetic structure in valley oak (Quercus lobata Née)
Sork VL, Smouse PE, Grivet D, Scofield DG
Evol Ecol 29 (6) 927-945 [2015-11-00; online 2015-11-12]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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High-Throughput Sequencing Reveals Drastic Changes in Fungal Communities in the Phyllosphere of Norway Spruce (Picea abies) Following Invasion of the Spruce Bud Scale (Physokermes piceae).
Menkis A, Marčiulynas A, Gedminas A, Lynikienė J, Povilaitienė A
Microb. Ecol. 70 (4) 904-911 [2015-11-00; online 2015-06-10]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Herring and Beef Meals Lead to Differences in Plasma 2-Aminoadipic Acid, β-Alanine, 4-Hydroxyproline, Cetoleic Acid, and Docosahexaenoic Acid Concentrations in Overweight Men.
Ross AB, Svelander C, Undeland I, Pinto R, Sandberg AS
J. Nutr. 145 (11) 2456-2463 [2015-11-00; online 2015-09-25]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
HaloPlex Targeted Resequencing for Mutation Detection in Clinical Formalin-Fixed, Paraffin-Embedded Tumor Samples.
Moens LN, Falk-Sörqvist E, Ljungström V, ..., Nilsson M, Botling J
J Mol Diagn 17 (6) 729-739 [2015-11-00; online 2015-09-03]
Clinical Genomics Clinical Genomics Uppsala NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genus-Wide Comparative Genomics of Malassezia Delineates Its Phylogeny, Physiology, and Niche Adaptation on Human Skin.
Wu G, Zhao H, Li C, ..., Nagarajan N, Dawson TL
PLoS Genet. 11 (11) e1005614 [2015-11-00; online 2015-11-05]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Fibroblast Growth Factor 23 and Incidence of Subarachnoid Hemorrhage: Nested Case-Control Study.
Söderholm M, Engström G
Stroke 46 (11) 3260-3262 [2015-11-00; online 2015-09-22]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Exploring the genetics of irritable bowel syndrome: a GWA study in the general population and replication in multinational case-control cohorts.
Ek WE, Reznichenko A, Ripke S, ..., Wouters MM, D'Amato M
Gut 64 (11) 1774-1782 [2015-11-00; online 2014-09-23]
Mutation Analysis Facility (MAF) NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Early Exposure to Dogs and Farm Animals and the Risk of Childhood Asthma.
Fall T, Lundholm C, Örtqvist AK, ..., Ingelsson E, Almqvist C
JAMA Pediatr 169 (11) e153219 [2015-11-00; online 2015-11-02]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Assessing the consistency of public human tissue RNA-seq data sets.
Danielsson F, James T, Gomez-Cabrero D, Huss M
Brief. Bioinformatics 16 (6) 941-949 [2015-11-00; online 2015-04-02]
Bioinformatics (NBIS) [Technology development] Bioinformatics Long-term Support WABI [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
PubMed DOI Crossref
Assessing the Barley Genome Zipper and Genomic Resources for Breeding Purposes.
Silvar C, Martis MM, Nussbaumer T, ..., Ordon F, Perovic D
Plant Genome 8 (3) eplantgenome2015.06.0045 [2015-11-00; online 2015-11-01]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Metagenomic sequencing of marine periphyton: taxonomic and functional insights into biofilm communities.
Sanli K, Bengtsson-Palme J, Nilsson RH, ..., Blanck H, Eriksson KM
Front Microbiol 6 (-) 1192 [2015-10-30; online 2015-10-30]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Quinolone resistance mutations in the faecal microbiota of Swedish travellers to India.
Johnning A, Kristiansson E, Angelin M, ..., Johansson A, Larsson DG
BMC Microbiol. 15 (-) 235 [2015-10-24; online 2015-10-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Nurr1 and Retinoid X Receptor Ligands Stimulate Ret Signaling in Dopamine Neurons and Can Alleviate α-Synuclein Disrupted Gene Expression.
Volakakis N, Tiklova K, Decressac M, ..., Björklund A, Perlmann T
J. Neurosci. 35 (42) 14370-14385 [2015-10-21; online 2015-10-23]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Genetic Polymorphisms in Vitamin D Metabolism and Signaling Genes and Risk of Breast Cancer: A Nested Case-Control Study.
Clendenen TV, Ge W, Koenig KL, ..., Sund M, Zeleniuch-Jacquotte A
PLoS ONE 10 (10) e0140478 [2015-10-21; online 2015-10-21]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Structure-activity relationships for lipoprotein lipase agonists that lower plasma triglycerides in vivo.
Caraballo R, Larsson M, Nilsson SK, ..., Enquist P, Elofsson M
Eur J Med Chem 103 (-) 191-209 [2015-10-20; online 2015-09-12]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Membrane vesicle-mediated release of bacterial RNA.
Sjöström AE, Sandblad L, Uhlin BE, Wai SN
Sci Rep 5 (-) 15329 [2015-10-20; online 2015-10-20]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Noncanoncial signal recognition particle RNAs in a major eukaryotic phylum revealed by purification of SRP from the human pathogen Cryptococcus neoformans.
Dumesic PA, Rosenblad MA, Samuelsson T, ..., Yates JR, Madhani HD
Nucleic Acids Res. 43 (18) 9017-9027 [2015-10-15; online 2015-08-16]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Mutation in NRAS in familial Noonan syndrome--case report and review of the literature.
Ekvall S, Wilbe M, Dahlgren J, ..., Annerén G, Bondeson ML
BMC Med. Genet. 16 (-) 95 [2015-10-14; online 2015-10-14]
Clinical Genomics Clinical Genomics Uppsala
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The folate-coupled enzyme MTHFD2 is a nuclear protein and promotes cell proliferation.
Gustafsson Sheppard N, Jarl L, Mahadessian D, ..., Jain M, Nilsson R
Sci Rep 5 (-) 15029 [2015-10-13; online 2015-10-13]
Spatial Proteomics
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Genome-wide transcriptional and physiological responses to drought stress in leaves and roots of two willow genotypes.
Pucholt P, Sjödin P, Weih M, Rönnberg-Wästljung AC, Berlin S
BMC Plant Biol. 15 (-) 244 [2015-10-12; online 2015-10-12]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Brachyspira suanatina sp. nov., an enteropathogenic intestinal spirochaete isolated from pigs and mallards: genomic and phenotypic characteristics.
Mushtaq M, Zubair S, Råsbäck T, Bongcam-Rudloff E, Jansson DS
BMC Microbiol. 15 (-) 208 [2015-10-12; online 2015-10-12]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Many obesity-associated SNPs strongly associate with DNA methylation changes at proximal promoters and enhancers.
Voisin S, Almén MS, Zheleznyakova GY, ..., Rask-Andersen M, Schiöth HB
Genome Med 7 (-) 103 [2015-10-08; online 2015-10-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Growth of Chitinophaga pinensis on Plant Cell Wall Glycans and Characterisation of a Glycoside Hydrolase Family 27 β-l-Arabinopyranosidase Implicated in Arabinogalactan Utilisation.
McKee LS, Brumer H
PLoS ONE 10 (10) e0139932 [2015-10-08; online 2015-10-08]
Protein Science Facility (PSF) [Service]
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Evaluation of whole-genome sequencing of four Chinese crested dogs for variant detection using the ion proton system.
Viluma A, Sayyab S, Mikko S, Andersson G, Bergström TF
Canine Genet Epidemiol 2 (-) 16 [2015-10-08; online 2015-10-08]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Comparative Sigma Factor-mRNA Levels in Mycobacterium marinum under Stress Conditions and during Host Infection.
Pettersson BM, Das S, Behra PR, ..., Ennis DG, Kirsebom LA
PLoS ONE 10 (10) e0139823 [2015-10-07; online 2015-10-07]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Crosstalk between Gut Microbiota and Dietary Lipids Aggravates WAT Inflammation through TLR Signaling.
Caesar R, Tremaroli V, Kovatcheva-Datchary P, Cani PD, Bäckhed F
Cell Metab. 22 (4) 658-668 [2015-10-06; online 2015-09-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Standing genetic variation as a major contributor to adaptation in the Virginia chicken lines selection experiment.
Sheng Z, Pettersson ME, Honaker CF, Siegel PB, Carlborg Ö
Genome Biol. 16 (-) 219 [2015-10-01; online 2015-10-01]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Spatiotemporal Heterogeneity Characterizes the Genetic Landscape of Pheochromocytoma and Defines Early Events in Tumorigenesis.
Crona J, Backman S, Maharjan R, ..., Hellman P, Björklund P
Clin. Cancer Res. 21 (19) 4451-4460 [2015-10-01; online 2015-05-21]
Array and Analysis Facility NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Homozygous loss-of-function variants in European cosmopolitan and isolate populations.
Kaiser VB, Svinti V, Prendergast JG, ..., Semple CA, Wilson JF
Hum. Mol. Genet. 24 (19) 5464-5474 [2015-10-01; online 2015-07-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Candidate gene analysis and exome sequencing confirm LBX1 as a susceptibility gene for idiopathic scoliosis.
Grauers A, Wang J, Einarsdottir E, ..., Kere J, Gerdhem P
Spine J 15 (10) 2239-2246 [2015-10-01; online 2015-05-20]
Mutation Analysis Facility (MAF) NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Trimeric microsomal glutathione transferase 2 displays one third of the sites reactivity.
Ahmad S, Thulasingam M, Palombo I, ..., Haeggström JZ, Rinaldo-Matthis A
Biochim. Biophys. Acta 1854 (10 Pt A) 1365-1371 [2015-10-00; online 2015-06-13]
Protein Science Facility (PSF)
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Transcriptome Profiling Reveals Degree of Variability in Induced Pluripotent Stem Cell Lines: Impact for Human Disease Modeling.
Schuster J, Halvardson J, Pilar Lorenzo L, ..., Feuk L, Dahl N
Cell Reprogram 17 (5) 327-337 [2015-10-00; online 2015-09-08]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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The use of gene arrays and corresponding connectivity mapping (Cmap) to identify novel anti-ageing ingredients.
Gillbro JM, Merinville E, Olsson M, ..., Visdal-Johnsen L, Mavon A
Int J Cosmet Sci 37 Suppl 1 (-) 9-14 [2015-10-00; online 2015-06-27]
Array and Analysis Facility
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The effects of age and gender on plasma levels of 63 cytokines.
Larsson A, Carlsson L, Gordh T, ..., Thulin M, Kamali-Moghaddam M
J. Immunol. Methods 425 (-) 58-61 [2015-10-00; online 2015-06-14]
Affinity Proteomics Uppsala [Collaborative] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Collaborative]
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The Influence of Age and Sex on Genetic Associations with Adult Body Size and Shape: A Large-Scale Genome-Wide Interaction Study.
Winkler TW, Justice AE, Graff M, ..., Kutalik Z, Loos RJ
PLoS Genet. 11 (10) e1005378 [2015-10-00; online 2015-10-01]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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The Human Gut Microbiome as a Transporter of Antibiotic Resistance Genes between Continents.
Bengtsson-Palme J, Angelin M, Huss M, ..., Larsson DGJ, Johansson A
Antimicrob. Agents Chemother. 59 (10) 6551-6560 [2015-10-00; online 2015-08-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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The Human Glioblastoma Cell Culture Resource: Validated Cell Models Representing All Molecular Subtypes.
Xie Y, Bergström T, Jiang Y, ..., Forsberg-Nilsson K, Uhrbom L
EBioMedicine 2 (10) 1351-1363 [2015-10-00; online 2015-08-15]
Array and Analysis Facility
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Signatures of post-zygotic structural genetic aberrations in the cells of histologically normal breast tissue that can predispose to sporadic breast cancer.
Forsberg LA, Rasi C, Pekar G, ..., Tot T, Dumanski JP
Genome Res. 25 (10) 1521-1535 [2015-10-00; online 2015-10-03]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Quantitative Mass Spectrometry Reveals Partial Translational Regulation for Dosage Compensation in Chicken.
Uebbing S, Konzer A, Xu L, ..., Bergquist J, Ellegren H
Mol. Biol. Evol. 32 (10) 2716-2725 [2015-10-00; online 2015-06-26]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Profound parental bias associated with chromosome 14 acquired uniparental disomy indicates targeting of an imprinted locus.
Chase A, Leung W, Tapper W, ..., Dumanski JP, Cross NC
Leukemia 29 (10) 2069-2074 [2015-10-00; online 2015-06-27]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Positive Modulation of the Glycine Receptor by Means of Glycine Receptor-Binding Aptamers.
Shalaly ND, Aneiros E, Blank M, ..., Andersson CV, Sandberg K
J Biomol Screen 20 (9) 1112-1123 [2015-10-00; online 2015-06-12]
Drug Discovery and Development (DDD) [Collaborative]
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Isolation of novel IncA/C and IncN fluoroquinolone resistance plasmids from an antibiotic-polluted lake.
Flach CF, Johnning A, Nilsson I, ..., Kristiansson E, Larsson DG
J. Antimicrob. Chemother. 70 (10) 2709-2717 [2015-10-00; online 2015-07-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Genetic variance estimation with imputed variants finds negligible missing heritability for human height and body mass index.
Yang J, Bakshi A, Zhu Z, ..., Goddard ME, Visscher PM
Nat. Genet. 47 (10) 1114-1120 [2015-10-00; online 2015-09-01]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Dibenzocyclooctadiene lignans from Schisandra spp. selectively inhibit the growth of the intracellular bacteria Chlamydia pneumoniae and Chlamydia trachomatis.
Hakala E, Hanski L, Uvell H, ..., Elofsson M, Vuorela PM
J. Antibiot. 68 (10) 609-614 [2015-10-00; online 2015-05-07]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Cytostatic Effect of Repeated Exposure to Simvastatin: A Mechanism for Chronic Myotoxicity Revealed by the Use of Mesodermal Progenitors Derived from Human Pluripotent Stem Cells.
Peric D, Barragan I, Giraud-Triboult K, ..., Laustriat D, Peschanski M
Stem Cells 33 (10) 2936-2948 [2015-10-00; online 2015-07-18]
Bioinformatics and Expression Analysis (BEA)
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Cis-Regulatory Changes Associated with a Recent Mating System Shift and Floral Adaptation in Capsella.
Steige KA, Reimegård J, Koenig D, Scofield DG, Slotte T
Mol. Biol. Evol. 32 (10) 2501-2514 [2015-10-00; online 2015-08-28]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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BCG Skin Infection Triggers IL-1R-MyD88-Dependent Migration of EpCAMlow CD11bhigh Skin Dendritic cells to Draining Lymph Node During CD4+ T-Cell Priming.
Bollampalli VP, Harumi Yamashiro L, Feng X, ..., Nylén S, Rothfuchs AG
PLoS Pathog. 11 (10) e1005206 [2015-10-00; online 2015-10-06]
Integrated Microscopy Technologies Stockholm [Service]
DOI Crossref
Acid-Base Catalyst Discriminates between a Fructose 6-Phosphate Aldolase and a Transaldolase
Stellmacher L, Sandalova T, Leptihn S, ..., Sprenger GA, Samland AK
ChemCatChem 7 (19) 3140-3151 [2015-10-00; online 2015-08-06]
Protein Science Facility (PSF)
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A comprehensive 1,000 Genomes-based genome-wide association meta-analysis of coronary artery disease.
Nikpay M, Goel A, Won HH, ..., Farrall M, CARDIoGRAMplusC4D Consortium
Nat. Genet. 47 (10) 1121-1130 [2015-10-00; online 2015-09-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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A New Method for Detecting Associations with Rare Copy-Number Variants.
Tzeng JY, Magnusson PK, Sullivan PF, Swedish Schizophrenia Consortium , Szatkiewicz JP
PLoS Genet. 11 (10) e1005403 [2015-10-00; online 2015-10-02]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Cerebrospinal fluid monoamine metabolite concentrations as intermediate phenotypes between glutamate-related genes and psychosis.
Andreou D, Söderman E, Axelsson T, ..., Agartz I, Jönsson EG
Psychiatry Res 229 (1-2) 497-504 [2015-09-30; online 2015-07-06]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Virtual Screening for Transition State Analogue Inhibitors of IRAP Based on Quantum Mechanically Derived Reaction Coordinates
Svensson F, Engen K, Lundbäck T, Larhed M, Sköld C
J. Chem. Inf. Model. 55 (9) 1984-1993 [2015-09-28; online 2015-09-28]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Serendipitous Meta-Transcriptomics: The Fungal Community of Norway Spruce (Picea abies).
Delhomme N, Sundström G, Zamani N, ..., Grabherr MG, Street NR
PLoS ONE 10 (9) e0139080 [2015-09-28; online 2015-09-28]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Identification of Novel Epigenetic Markers of Prostate Cancer by NotI-Microarray Analysis.
Dmitriev AA, Rosenberg EE, Krasnov GS, ..., Senchenko VN, Kashuba VI
Dis. Markers 2015 (-) 241301 [2015-09-28; online 2015-09-28]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Exploring microbial dark matter to resolve the deep archaeal ancestry of eukaryotes.
Saw JH, Spang A, Zaremba-Niedzwiedzka K, ..., Guy L, Ettema TJG
Philos. Trans. R. Soc. Lond., B, Biol. Sci. 370 (1678) 20140328 [2015-09-26; online 2015-09-02]
Microbial Single Cell Genomics [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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The genomes of three stocks comprising the most widely utilized live sporozoite Theileria parva vaccine exhibit very different degrees and patterns of sequence divergence.
Norling M, Bishop RP, Pelle R, ..., Daubenberger CA, Silva JC
BMC Genomics 16 (-) 729 [2015-09-24; online 2015-09-24]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Ancient genomes link early farmers from Atapuerca in Spain to modern-day Basques.
Günther T, Valdiosera C, Malmström H, ..., Götherström A, Jakobsson M
Proc. Natl. Acad. Sci. U.S.A. 112 (38) 11917-11922 [2015-09-22; online 2015-09-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Gene expression profiling of pre-eclamptic placentae by RNA sequencing.
Kaartokallio T, Cervera A, Kyllönen A, ..., Laivuori H, FINNPEC Core Investigator Group
Sci Rep 5 (-) 14107 [2015-09-21; online 2015-09-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Draft genome sequence of 'Treponema phagedenis' strain V1, isolated from bovine digital dermatitis.
Mushtaq M, Manzoor S, Pringle M, Rosander A, Bongcam-Rudloff E
Stand Genomic Sci 10 (-) 67 [2015-09-21; online 2015-09-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Dormant phages of Helicobacter pylori reveal distinct populations in Europe.
Vale FF, Vadivelu J, Oleastro M, ..., Mégraud F, Lehours P
Sci Rep 5 (-) 14333 [2015-09-21; online 2015-09-21]
Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative]
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PARP1- and CTCF-Mediated Interactions between Active and Repressed Chromatin at the Lamina Promote Oscillating Transcription.
Zhao H, Sifakis EG, Sumida N, ..., Imreh MP, Göndör A
Mol. Cell 59 (6) 984-997 [2015-09-17; online 2015-08-27]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Genetic and morphological evidence for introgression between three species of willows.
Fogelqvist J, Verkhozina AV, Katyshev AI, ..., Lascoux M, Berlin S
BMC Evol. Biol. 15 (-) 193 [2015-09-16; online 2015-09-16]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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WNT3 involvement in human bladder exstrophy and cloaca development in zebrafish.
Baranowska Körberg I, Hofmeister W, Markljung E, ..., Lindstrand A, Nordenskjöld A
Hum. Mol. Genet. 24 (18) 5069-5078 [2015-09-15; online 2015-06-25]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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HLA class I is most tightly linked to levels of tapasin compared with other antigen-processing proteins in glioblastoma.
Thuring C, Follin E, Geironson L, ..., Buus S, Paulsson KM
Br. J. Cancer 113 (6) 952-962 [2015-09-15; online 2015-08-28]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Glioma-derived plasminogen activator inhibitor-1 (PAI-1) regulates the recruitment of LRP1 positive mast cells.
Roy A, Coum A, Marinescu VD, ..., Pontén F, Tchougounova E
Oncotarget 6 (27) 23647-23661 [2015-09-15; online 2015-07-15]
Tissue Profiling [Collaborative]
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Genetics and Prognostication in Splenic Marginal Zone Lymphoma: Revelations from Deep Sequencing.
Parry M, Rose-Zerilli MJ, Ljungström V, ..., Oscier D, Strefford JC
Clin. Cancer Res. 21 (18) 4174-4183 [2015-09-15; online 2015-03-18]
Clinical Genomics Clinical Genomics Uppsala
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Comprehensive analysis of microRNA expression in regionalized human neural progenitor cells reveals microRNA-10 as a caudalizing factor.
Jönsson ME, Nelander Wahlestedt J, Åkerblom M, ..., Jakobsson J, Parmar M
Development 142 (18) 3166-3177 [2015-09-15; online 2015-09-24]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Surface Chemistry of Nanocellulose Fibers Directs Monocyte/Macrophage Response.
Hua K, Ålander E, Lindström T, ..., Strømme M, Ferraz N
Biomacromolecules 16 (9) 2787-2795 [2015-09-14; online 2015-08-08]
BioMaterial Interactions (BioMat)
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Determination of obesity associated gene variants related to TMEM18 through ultra-deep targeted re-sequencing in a case-control cohort for pediatric obesity.
Rask-Andersen M, Sällman Almén M, Jacobsson JA, ..., Fredriksson R, Schiöth HB
Genet Res (Camb) 97 (-) e16 [2015-09-14; online 2015-09-14]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Rare and low-frequency variants and their association with plasma levels of fibrinogen, FVII, FVIII, and vWF.
Huffman JE, de Vries PS, Morrison AC, ..., O'Donnell CJ, Smith NL
Blood 126 (11) e19-e29 [2015-09-10; online 2015-06-25]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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The epigenetic signature of subcutaneous fat cells is linked to altered expression of genes implicated in lipid metabolism in obese women.
Arner P, Sinha I, Thorell A, ..., Dahlman-Wright K, Dahlman I
Clin Epigenetics 7 (-) 93 [2015-09-08; online 2015-09-08]
Bioinformatics and Expression Analysis (BEA)
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Tandem Benzophenone Amino Pyridines, Potent and Selective Inhibitors of Human Leukotriene C4 Synthase
Kleinschmidt TK, Haraldsson M, Basavarajappa D, ..., Lindbom L, Haeggstrom JZ
Journal of Pharmacology and Experimental Therapeutics 355 (1) 108-116 [2015-09-08; online 2015-08-17]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Paternally expressed imprinted genes establish postzygotic hybridization barriers in Arabidopsis thaliana.
Wolff P, Jiang H, Wang G, Santos-González J, Köhler C
Elife 4 (-) - [2015-09-07; online 2015-09-07]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Quest for Missing Proteins: Update 2015 on Chromosome-Centric Human Proteome Project.
Horvatovich P, Lundberg EK, Chen YJ, ..., Paik YK, Hancock WS
J. Proteome Res. 14 (9) 3415-3431 [2015-09-04; online 2015-07-23]
Spatial Proteomics
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Metrics for the Human Proteome Project 2015: Progress on the Human Proteome and Guidelines for High-Confidence Protein Identification.
Omenn GS, Lane L, Lundberg EK, ..., Nesvizhskii AI, Deutsch EW
J. Proteome Res. 14 (9) 3452-3460 [2015-09-04; online 2015-07-15]
Spatial Proteomics
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High cortisol in 5-year-old children causes loss of DNA methylation in SINE retrotransposons: a possible role for ZNF263 in stress-related diseases.
Nätt D, Johansson I, Faresjö T, Ludvigsson J, Thorsell A
Clin Epigenetics 7 (-) 91 [2015-09-04; online 2015-09-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Pseudomonas aeruginosa lasI/rhlI quorum sensing genes promote phagocytosis and aquaporin 9 redistribution to the leading and trailing regions in macrophages.
Holm A, Karlsson T, Vikström E
Front Microbiol 6 (-) 915 [2015-09-03; online 2015-09-03]
Integrated Microscopy Technologies Stockholm [Service]
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Mutations in SLC12A5 in epilepsy of infancy with migrating focal seizures.
Stödberg T, McTague A, Ruiz AJ, ..., Wedell A, Kurian MA
Nat Commun 6 (-) 8038 [2015-09-03; online 2015-09-03]
Clinical Genomics Clinical Genomics Stockholm NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Transplanted Bone Marrow-Derived Cells Contribute to Human Adipogenesis.
Rydén M, Uzunel M, Hård JL, ..., Mattsson J, Arner P
Cell Metab. 22 (3) 408-417 [2015-09-01; online 2015-07-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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An Exopolysaccharide-Deficient Mutant of Lactobacillus rhamnosus GG Efficiently Displays a Protective Llama Antibody Fragment against Rotavirus on Its Surface.
Álvarez B, Krogh-Andersen K, Tellgren-Roth C, ..., Hammarström L, Marcotte H
Appl. Environ. Microbiol. 81 (17) 5784-5793 [2015-09-01; online 2015-06-21]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Widespread non-additive and interaction effects within HLA loci modulate the risk of autoimmune diseases.
Lenz TL, Deutsch AJ, Han B, ..., de Bakker PI, Raychaudhuri S
Nat. Genet. 47 (9) 1085-1090 [2015-09-00; online 2015-08-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Whole exome sequencing identifies LRP1 as a pathogenic gene in autosomal recessive keratosis pilaris atrophicans.
Klar J, Schuster J, Khan TN, ..., Baig SM, Dahl N
J. Med. Genet. 52 (9) 599-606 [2015-09-00; online 2015-07-05]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Use of a proximity extension assay proteomics chip to discover new biomarkers for human atherosclerosis.
Lind L, Ärnlöv J, Lindahl B, ..., Sundström J, Ingelsson E
Atherosclerosis 242 (1) 205-210 [2015-09-00; online 2015-07-14]
Affinity Proteomics Uppsala [Technology development] Clinical Biomarkers PLA and Single Cell Proteomics [Service]
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Transcriptomics of colour patterning and coloration shifts in crows.
Poelstra JW, Vijay N, Hoeppner MP, Wolf JB
Mol. Ecol. 24 (18) 4617-4628 [2015-09-00; online 2015-08-25]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Towards a stereoselective synthesis of α,α-disubstituted proline analogues
Das SK, Bhatt N, Mujahid M, ..., Naicker T, Govender T
Tetrahedron Letters 56 (37) 5172-5174 [2015-09-00; online 2015-09-00]
Drug Discovery and Development (DDD) [Collaborative]
DOI Crossref
Synthesis of enantiopure angiotensin II type 2 receptor [AT2R] antagonist EMA401
Wakchaure PB, Bremberg U, Wannberg J, Larhed M
Tetrahedron 71 (38) 6881-6887 [2015-09-00; online 2015-09-00]
Drug Discovery and Development (DDD)
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Shared immunological targets in the lungs and joints of patients with rheumatoid arthritis: identification and validation.
Ytterberg AJ, Joshua V, Reynisdottir G, ..., Klareskog L, Catrina AI
Ann. Rheum. Dis. 74 (9) 1772-1777 [2015-09-00; online 2014-05-13]
Advanced Mass Spectrometry Proteomics
PubMed DOI Crossref
Polymorphisms in the FK506 binding protein 5 gene are associated with attention deficit hyperactivity disorder and diurnal cortisol levels.
Isaksson J, Allen M, Nilsson KW, Lindblad F
Acta Paediatr. 104 (9) 910-915 [2015-09-00; online 2015-06-03]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Half-of-the-Sites Reactivity of the Castor Δ9-18:0-Acyl Carrier Protein Desaturase.
Liu Q, Chai J, Moche M, ..., Lindqvist Y, Shanklin J
Plant Physiol. 169 (1) 432-441 [2015-09-00; online 2015-08-01]
Protein Science Facility (PSF)
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Exome sequencing followed by genotyping suggests SYPL2 as a susceptibility gene for morbid obesity.
Jiao H, Arner P, Gerdhem P, ..., Kere J, Dahlman I
Eur. J. Hum. Genet. 23 (9) 1216-1222 [2015-09-00; online 2014-11-20]
Mutation Analysis Facility (MAF) NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Design, Synthesis and Inhibitory Activity of Photoswitchable RET Kinase Inhibitors
Ferreira R, Nilsson JR, Solano C, Andréasson J, Grøtli M
Sci Rep 5 (1) - [2015-09-00; online 2015-05-06]
Chemical Biology Consortium Sweden (CBCS) [Service]
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Auxotrophy and intrapopulation complementary in the 'interactome' of a cultivated freshwater model community.
Garcia SL, Buck M, McMahon KD, ..., Eiler A, Warnecke F
Mol. Ecol. 24 (17) 4449-4459 [2015-09-00; online 2015-07-17]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Analysis of the genetic architecture of susceptibility to cervical cancer indicates that common SNPs explain a large proportion of the heritability.
Chen D, Cui T, Ek WE, ..., Wang H, Gyllensten U
Carcinogenesis 36 (9) 992-998 [2015-09-00; online 2015-06-06]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Altered serotonin (5-HT) 1D and 2A receptor expression may contribute to defective insulin and glucagon secretion in human type 2 diabetes.
Bennet H, Balhuizen A, Medina A, ..., Wierup N, Fex M
Peptides 71 (-) 113-120 [2015-09-00; online 2015-07-25]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Acute Sleep Loss Induces Tissue-Specific Epigenetic and Transcriptional Alterations to Circadian Clock Genes in Men.
Cedernaes J, Osler ME, Voisin S, ..., Schiöth HB, Benedict C
J. Clin. Endocrinol. Metab. 100 (9) E1255-E1261 [2015-09-00; online 2015-07-15]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Molecular profiling of prostate cancer derived exosomes may reveal a predictive signature for response to docetaxel.
Kharaziha P, Chioureas D, Rutishauser D, ..., Nilsson S, Panaretakis T
Oncotarget 6 (25) 21740-21754 [2015-08-28; online 2015-04-07]
Advanced Mass Spectrometry Proteomics
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BEX1 acts as a tumor suppressor in acute myeloid leukemia.
Lindblad O, Li T, Su X, ..., Rönnstrand L, Kazi JU
Oncotarget 6 (25) 21395-21405 [2015-08-28; online 2015-06-06]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Microfluidic screening and whole-genome sequencing identifies mutations associated with improved protein secretion by yeast.
Huang M, Bai Y, Sjostrom SL, ..., Andersson-Svahn H, Nielsen J
Proc. Natl. Acad. Sci. U.S.A. 112 (34) E4689-E4696 [2015-08-25; online 2015-08-12]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Transcriptomic changes in the plant pathogenic fungus Rhizoctonia solani AG-3 in response to the antagonistic bacteria Serratia proteamaculans and Serratia plymuthica.
Gkarmiri K, Finlay RD, Alström S, ..., Cubeta MA, Högberg N
BMC Genomics 16 (-) 630 [2015-08-22; online 2015-08-22]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Structure of the Glycosyltransferase Ktr4p from Saccharomyces cerevisiae.
Possner DD, Claesson M, Guy JE
PLoS ONE 10 (8) e0136239 [2015-08-21; online 2015-08-21]
Protein Science Facility (PSF)
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Personality and intelligence: persistence, not self-directedness, cooperativeness or self-transcendence, is related to twins' cognitive abilities.
Mousavi F, Rozsa S, Nilsson T, ..., Anckarsäter H, Garcia D
PeerJ 3 (-) e1195 [2015-08-20; online 2015-08-20]
Mutation Analysis Facility (MAF)
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In Vitro and In Vivo Response to Low-Modulus PMMA-Based Bone Cement.
Carlsson E, Mestres G, Treerattrakoon K, ..., Larsson S, Persson C
Biomed Res Int 2015 (-) 594284 [2015-08-20; online 2015-08-20]
BioMaterial Interactions (BioMat)
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Complementing tissue characterization by integrating transcriptome profiling from the Human Protein Atlas and from the FANTOM5 consortium.
Yu NY, Hallström BM, Fagerberg L, ..., Uhlén M, Daub CO
Nucleic Acids Res. 43 (14) 6787-6798 [2015-08-18; online 2015-06-27]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Tissue Profiling [Collaborative]
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The Ty1-copia LTR retroelement family PARTC is highly conserved in conifers over 200 MY of evolution.
Zuccolo A, Scofield DG, De Paoli E, Morgante M
Gene 568 (1) 89-99 [2015-08-15; online 2015-05-20]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Genome-wide association study of toxic metals and trace elements reveals novel associations.
Ng E, Lind PM, Lindgren C, ..., Morris A, Lind L
Hum. Mol. Genet. 24 (16) 4739-4745 [2015-08-15; online 2015-05-31]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Gene × dietary pattern interactions in obesity: analysis of up to 68 317 adults of European ancestry.
Nettleton JA, Follis JL, Ngwa JS, ..., Loos RJ, Franks PW
Hum. Mol. Genet. 24 (16) 4728-4738 [2015-08-15; online 2015-05-23]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Sex-Specific Effects of Adiponectin on Carotid Intima-Media Thickness and Incident Cardiovascular Disease.
Persson J, Strawbridge RJ, McLeod O, ..., Hamsten A, IMPROVE Study Group
J Am Heart Assoc 4 (8) e001853 [2015-08-14; online 2015-08-14]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Whole Exome- and mRNA-Sequencing of an AT/RT Case Reveals Few Somatic Mutations and Several Deregulated Signalling Pathways in the Context of SMARCB1 Deficiency.
Sandgren J, Holm S, Marino AM, ..., Nistér M, Díaz de Ståhl T
Biomed Res Int 2015 (-) 862039 [2015-08-12; online 2015-08-12]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Adaptive mutations in sugar metabolism restore growth on glucose in a pyruvate decarboxylase negative yeast strain.
Zhang Y, Liu G, Engqvist MK, ..., Siewers V, Nielsen J
Microb. Cell Fact. 14 (-) 116 [2015-08-08; online 2015-08-08]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Microstructural White Matter Properties Mediate the Association between APOE and Perceptual Speed in Very Old Persons without Dementia.
Laukka EJ, Lövdén M, Kalpouzos G, ..., Fratiglioni L, Bäckman L
PLoS ONE 10 (8) e0134766 [2015-08-07; online 2015-08-07]
Mutation Analysis Facility (MAF)
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Effect of a Bromo Substituent on the Glutathione Peroxidase Activity of a Pyridoxine-like Diselenide.
Singh VP, Poon JF, Butcher RJ, ..., Ott MK, Engman L
J. Org. Chem. 80 (15) 7385-7395 [2015-08-07; online 2015-07-03]
BioMaterial Interactions (BioMat)
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Comprehensive genomic profiles of small cell lung cancer
George J, Lim JS, Jang SJ, ..., Sage J, Thomas RK
Nature 524 (7563) 47-53 [2015-08-06; online 2015-07-13]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Roux-en-Y Gastric Bypass and Vertical Banded Gastroplasty Induce Long-Term Changes on the Human Gut Microbiome Contributing to Fat Mass Regulation.
Tremaroli V, Karlsson F, Werling M, ..., Nielsen J, Bäckhed F
Cell Metab. 22 (2) 228-238 [2015-08-04; online 2015-08-06]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Crystal structure, biochemical and cellular activities demonstrate separate functions of MTH1 and MTH2.
Carter M, Jemth AS, Hagenkort A, ..., Helleday T, Stenmark P
Nat Commun 6 (-) 7871 [2015-08-04; online 2015-08-04]
Protein Science Facility (PSF)
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MicroRNA-132 enhances transition from inflammation to proliferation during wound healing.
Li D, Wang A, Liu X, ..., Ståhle M, Landén NX
J. Clin. Invest. 125 (8) 3008-3026 [2015-08-03; online 2015-06-30]
Bioinformatics and Expression Analysis (BEA)
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Identifying and Assessing Interesting Subgroups in a Heterogeneous Population.
Lee W, Alexeyenko A, Pernemalm M, ..., Lehtiö J, Pawitan Y
Biomed Res Int 2015 (-) 462549 [2015-08-03; online 2015-08-03]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Heat differentiated complement factor profiling.
Hamsten C, Skattum L, Truedsson L, ..., Nilsson P, Neiman M
J Proteomics 126 (-) 155-162 [2015-08-03; online 2015-06-07]
Affinity Proteomics Stockholm [Technology development]
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Genome-wide mapping of promoter-anchored interactions with close to single-enhancer resolution.
Sahlén P, Abdullayev I, Ramsköld D, ..., Lundeberg J, Sandberg R
Genome Biol. 16 (-) 156 [2015-08-03; online 2015-08-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Analysis of the Human Prostate-Specific Proteome Defined by Transcriptomics and Antibody-Based Profiling Identifies TMEM79 and ACOXL as Two Putative, Diagnostic Markers in Prostate Cancer.
O'Hurley G, Busch C, Fagerberg L, ..., Uhlén M, Pontén F
PLoS ONE 10 (8) e0133449 [2015-08-03; online 2015-08-03]
Affinity Proteomics Stockholm NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Spatial Proteomics Tissue Profiling [Technology development]
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Effect of genetic variations on ticagrelor plasma levels and clinical outcomes.
Varenhorst C, Eriksson N, Johansson Å, ..., Wallentin L, PLATO Investigators
Eur. Heart J. 36 (29) 1901-1912 [2015-08-01; online 2015-05-04]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Whole-exome sequencing of Ethiopian patients with ichthyosis vulgaris and atopic dermatitis.
Taylan F, Nilsson D, Asad S, ..., Nordenskjöld M, Bradley M
J. Allergy Clin. Immunol. 136 (2) 507-9.e19 [2015-08-00; online 2015-03-31]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Representation of selected-reaction monitoring data in the mzQuantML data standard.
Qi D, Lawless C, Teleman J, ..., Hubbard S, Jones AR
Proteomics 15 (15) 2592-2596 [2015-08-00; online 2015-04-18]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Prevalence of polymorphisms with significant resistance to NS5A inhibitors in treatment-naive patients with hepatitis C virus genotypes 1a and 3a in Sweden.
Lindström I, Kjellin M, Palanisamy N, ..., Lannergard A, Lennerstrand J
Infect Dis (Lond) 47 (8) 555-562 [2015-08-00; online 2015-04-09]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Manganese lipoxygenase of F. oxysporum and the structural basis for biosynthesis of distinct 11-hydroperoxy stereoisomers.
Wennman A, Magnuson A, Hamberg M, Oliw EH
J. Lipid Res. 56 (8) 1606-1615 [2015-08-00; online 2015-06-27]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Inbreeding Affects Gene Expression Differently in Two Self-Incompatible Arabidopsis lyrata Populations with Similar Levels of Inbreeding Depression.
Menzel M, Sletvold N, Ågren J, Hansson B
Mol. Biol. Evol. 32 (8) 2036-2047 [2015-08-00; online 2015-04-10]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Association of the LINGO2-related SNP rs10968576 with body mass in a cohort of elderly Swedes.
Rask-Andersen M, Almén MS, Lind L, Schiöth HB
Mol. Genet. Genomics 290 (4) 1485-1491 [2015-08-00; online 2015-02-26]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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A prezygotic transmission distorter acting equally in female and male zebra finches Taeniopygia guttata.
Knief U, Schielzeth H, Ellegren H, Kempenaers B, Forstmeier W
Mol. Ecol. 24 (15) 3846-3859 [2015-08-00; online 2015-06-20]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Bioinformatic Challenges in Clinical Diagnostic Application of Targeted Next Generation Sequencing: Experience from Pheochromocytoma.
Crona J, Ljungström V, Welin S, ..., Hellman P, Björklund P
PLoS ONE 10 (7) e0133210 [2015-07-31; online 2015-07-31]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Identification of New Potential Interaction Partners for Human Cytoplasmic Copper Chaperone Atox1: Roles in Gene Regulation?
Öhrvik H, Wittung-Stafshede P
Int J Mol Sci 16 (8) 16728-16739 [2015-07-23; online 2015-07-23]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Directional dominance on stature and cognition in diverse human populations.
Joshi PK, Esko T, Mattsson H, ..., Polašek O, Wilson JF
Nature 523 (7561) 459-462 [2015-07-23; online 2015-07-02]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Compaction of rolling circle amplification products increases signal integrity and signal-to-noise ratio.
Clausson C, Arngården L, Ishaq O, ..., Wählby C, Söderberg O
Sci Rep 5 (-) 12317 [2015-07-23; online 2015-07-23]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development] Integrated Microscopy Technologies Stockholm [Collaborative]
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lobChIP: from cells to sequencing ready ChIP libraries in a single day.
Wallerman O, Nord H, Bysani M, Borghini L, Wadelius C
Epigenetics Chromatin 8 (-) 25 [2015-07-21; online 2015-07-21]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Two new loci and gene sets related to sex determination and cancer progression are associated with susceptibility to testicular germ cell tumor.
Kristiansen W, Karlsson R, Rounge TB, ..., Grotmol T, Wiklund F
Hum. Mol. Genet. 24 (14) 4138-4146 [2015-07-15; online 2015-04-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Predisposition to Childhood Otitis Media and Genetic Polymorphisms within the Toll-Like Receptor 4 (TLR4) Locus.
Hafrén L, Einarsdottir E, Kentala E, ..., Kere J, Mattila PS
PLoS ONE 10 (7) e0132551 [2015-07-15; online 2015-07-15]
Mutation Analysis Facility (MAF)
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Evaluation of the protein biomarkers and the analgesic response to systemic methylene blue in patients with refractory neuropathic pain: a double-blind, controlled study.
Miclescu AA, Svahn M, Gordh TE
J Pain Res 8 (-) 387-397 [2015-07-15; online 2015-07-15]
Affinity Proteomics Uppsala [Technology development] Clinical Biomarkers PLA and Single Cell Proteomics [Service]
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Distinguishing Mast Cell Progenitors from Mature Mast Cells in Mice.
Dahlin JS, Ding Z, Hallgren J
Stem Cells Dev. 24 (14) 1703-1711 [2015-07-15; online 2015-03-10]
Array and Analysis Facility
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Differential Expression Analysis by RNA-Seq Reveals Perturbations in the Platelet mRNA Transcriptome Triggered by Pathogen Reduction Systems.
Osman A, Hitzler WE, Ameur A, Provost P
PLoS ONE 10 (7) e0133070 [2015-07-14; online 2015-07-14]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Metagenomic insights into strategies of aerobic and anaerobic carbon and nitrogen transformation in boreal lakes.
Peura S, Sinclair L, Bertilsson S, Eiler A
Sci Rep 5 (-) 12102 [2015-07-10; online 2015-07-10]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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SF3B1 mutation identifies a distinct subset of myelodysplastic syndrome with ring sideroblasts.
Malcovati L, Karimi M, Papaemmanuil E, ..., Cazzola M, Hellström Lindberg E
Blood 126 (2) 233-241 [2015-07-09; online 2015-05-10]
Clinical Genomics Clinical Genomics Uppsala NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Cell periphery-related proteins as major genomic targets behind the adaptive evolution of an industrial Saccharomyces cerevisiae strain to combined heat and hydrolysate stress.
Wallace-Salinas V, Brink DP, Ahrén D, Gorwa-Grauslund MF
BMC Genomics 16 (-) 514 [2015-07-09; online 2015-07-09]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Identification of large variation in pfcrt, pfmdr-1 and pfubp-1 markers in Plasmodium falciparum isolates from Ethiopia and Tanzania.
Golassa L, Kamugisha E, Ishengoma DS, ..., Choy A, Swedberg G
Malar. J. 14 (-) 264 [2015-07-08; online 2015-07-08]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Structural basis for cellobiose dehydrogenase action during oxidative cellulose degradation.
Tan TC, Kracher D, Gandini R, ..., Ludwig R, Divne C
Nat Commun 6 (-) 7542 [2015-07-07; online 2015-07-07]
Protein Science Facility (PSF)
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Scaffolding of a bacterial genome using MinION nanopore sequencing.
Karlsson E, Lärkeryd A, Sjödin A, Forsman M, Stenberg P
Sci Rep 5 (-) 11996 [2015-07-07; online 2015-07-07]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Genome Characterization, Prevalence and Distribution of a Macula-Like Virus from Apis mellifera and Varroa destructor.
de Miranda JR, Cornman RS, Evans JD, ..., Neumann P, Gauthier L
Viruses 7 (7) 3586-3602 [2015-07-06; online 2015-07-06]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Foxf2 Is Required for Brain Pericyte Differentiation and Development and Maintenance of the Blood-Brain Barrier.
Reyahi A, Nik AM, Ghiami M, ..., Johansson BR, Carlsson P
Dev. Cell 34 (1) 19-32 [2015-07-06; online 2015-06-25]
Tissue Profiling [Collaborative]
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The TOPCONS web server for consensus prediction of membrane protein topology and signal peptides.
Tsirigos KD, Peters C, Shu N, Käll L, Elofsson A
Nucleic Acids Res. 43 (W1) W401-W407 [2015-07-01; online 2015-05-15]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Using Genetic Variants to Assess the Relationship Between Circulating Lipids and Type 2 Diabetes.
Fall T, Xie W, Poon W, ..., Frayling TM, Ingelsson E
Diabetes 64 (7) 2676-2684 [2015-07-00; online 2015-05-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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UV irradiation responses in Giardia intestinalis.
Einarsson E, Svärd SG, Troell K
Exp. Parasitol. 154 (-) 25-32 [2015-07-00; online 2015-04-01]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Toward Rare Blood Cell Preservation for RNA Sequencing.
Vickovic S, Ahmadian A, Lewensohn R, Lundeberg J
J Mol Diagn 17 (4) 352-359 [2015-07-00; online 2015-05-16]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Proteomics for the detection of indirect markers of steroids treatment in bovine muscle.
Stella R, Biancotto G, Arrigoni G, ..., Angeletti R, James P
Proteomics 15 (13) 2332-2341 [2015-07-00; online 2015-03-12]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Potential role of milk fat globule membrane in modulating plasma lipoproteins, gene expression, and cholesterol metabolism in humans: a randomized study.
Rosqvist F, Smedman A, Lindmark-Månsson H, ..., Dahlman I, Risérus U
Am. J. Clin. Nutr. 102 (1) 20-30 [2015-07-00; online 2015-05-29]
Bioinformatics and Expression Analysis (BEA)
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Polymorphisms in DCDC2 and S100B associate with developmental dyslexia.
Matsson H, Huss M, Persson H, ..., Peyrard-Janvid M, Kere J
J. Hum. Genet. 60 (7) 399-401 [2015-07-00; online 2015-04-17]
Mutation Analysis Facility (MAF) NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Meta-analysis of Genome-wide Association Studies for Neuroticism, and the Polygenic Association With Major Depressive Disorder.
Genetics of Personality Consortium , de Moor MH, van den Berg SM, ..., Martin NG, Boomsma DI
JAMA Psychiatry 72 (7) 642-650 [2015-07-00; online 2015-05-21]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Identifying glycoside hydrolase family 18 genes in the mycoparasitic fungal species Clonostachys rosea.
Tzelepis G, Dubey M, Jensen DF, Karlsson M
Microbiology (Reading, Engl.) 161 (7) 1407-1419 [2015-07-00; online 2015-04-18]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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HHEX_23 AA Genotype Exacerbates Effect of Diabetes on Dementia and Alzheimer Disease: A Population-Based Longitudinal Study.
Xu WL, Pedersen NL, Keller L, ..., Bäckman L, Fratiglioni L
PLoS Med. 12 (7) e1001853 [2015-07-00; online 2015-07-14]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Global Multilocus Sequence Type Analysis of Chlamydia trachomatis Strains from 16 Countries.
Herrmann B, Isaksson J, Ryberg M, ..., Gravningen K, Bruisten S
J. Clin. Microbiol. 53 (7) 2172-2179 [2015-07-00; online 2015-05-01]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Genome-wide association study of plasma levels of polychlorinated biphenyls disclose an association with the CYP2B6 gene in a population-based sample.
Ng E, Salihovic S, Lind PM, ..., Morris AP, Lind L
Environ. Res. 140 (-) 95-101 [2015-07-00; online 2015-04-04]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genome-wide association study identifies new susceptibility loci for cutaneous lupus erythematosus.
Kunz M, König IR, Schillert A, ..., Kuhn A, Ibrahim SM
Exp. Dermatol. 24 (7) 510-515 [2015-07-00; online 2015-04-02]
Mutation Analysis Facility (MAF)
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Function of Isolated Pancreatic Islets From Patients at Onset of Type 1 Diabetes: Insulin Secretion Can Be Restored After Some Days in a Nondiabetogenic Environment In Vitro: Results From the DiViD Study.
Krogvold L, Skog O, Sundström G, ..., Korsgren O, Dahl-Jørgensen K
Diabetes 64 (7) 2506-2512 [2015-07-00; online 2015-02-14]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Epigenetic activation of a cryptic TBC1D16 transcript enhances melanoma progression by targeting EGFR.
Vizoso M, Ferreira HJ, Lopez-Serra P, ..., Marais R, Esteller M
Nat. Med. 21 (7) 741-750 [2015-07-00; online 2015-06-01]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Elevated Plasma Levels of MMP-12 Are Associated With Atherosclerotic Burden and Symptomatic Cardiovascular Disease in Subjects With Type 2 Diabetes.
Goncalves I, Bengtsson E, Colhoun HM, ..., Nilsson J, SUMMIT Consortium
Arterioscler. Thromb. Vasc. Biol. 35 (7) 1723-1731 [2015-07-00; online 2015-05-07]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Discovery and Fine-Mapping of Glycaemic and Obesity-Related Trait Loci Using High-Density Imputation.
Horikoshi M, Mӓgi R, van de Bunt M, ..., Morris AP, ENGAGE Consortium
PLoS Genet. 11 (7) e1005230 [2015-07-00; online 2015-07-01]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Detection of leukemia-associated mutations in peripheral blood DNA of hematologically normal elderly individuals.
Score J, Chase A, Forsberg LA, ..., Gale RE, Cross NC
Leukemia 29 (7) 1600-1602 [2015-07-00; online 2015-01-30]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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CTCF/cohesin-binding sites are frequently mutated in cancer.
Katainen R, Dave K, Pitkänen E, ..., Taipale J, Aaltonen LA
Nat. Genet. 47 (7) 818-821 [2015-07-00; online 2015-06-09]
Karolinska High Throughput Center (KHTC)
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Structural Basis for the Specificity of Human NUDT16 and Its Regulation by Inosine Monophosphate
Trésaugues L, Lundbäck T, Welin M, ..., Gräslund S, Nordlund P
PLoS ONE 10 (6) e0131507 [2015-06-29; online 2015-06-29]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Protein Science Facility (PSF)
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High BRAF Mutation Frequency and Marked Survival Differences in Subgroups According to KRAS/BRAF Mutation Status and Tumor Tissue Availability in a Prospective Population-Based Metastatic Colorectal Cancer Cohort.
Sorbye H, Dragomir A, Sundström M, ..., Qvortrup C, Glimelius B
PLoS ONE 10 (6) e0131046 [2015-06-29; online 2015-06-29]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
The human cardiac and skeletal muscle proteomes defined by transcriptomics and antibody-based profiling.
Lindskog C, Linné J, Fagerberg L, ..., Pontén F, Uhlén M
BMC Genomics 16 (-) 475 [2015-06-25; online 2015-06-25]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Tissue Profiling [Collaborative]
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Ebf1 heterozygosity results in increased DNA damage in pro-B cells and their synergistic transformation by Pax5 haploinsufficiency.
Prasad MA, Ungerbäck J, Åhsberg J, ..., Hagman J, Sigvardsson M
Blood 125 (26) 4052-4059 [2015-06-25; online 2015-04-02]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Structure of the nuclease subunit of human mitochondrial RNase P.
Reinhard L, Sridhara S, Hällberg BM
Nucleic Acids Res. 43 (11) 5664-5672 [2015-06-23; online 2015-05-09]
Protein Science Facility (PSF)
PubMed DOI Crossref
The Plasmodiophora brassicae genome reveals insights in its life cycle and ancestry of chitin synthases.
Schwelm A, Fogelqvist J, Knaust A, ..., Ludwig-Müller J, Dixelius C
Sci Rep 5 (-) 11153 [2015-06-18; online 2015-06-18]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Dynamics of Cell Generation and Turnover in the Human Heart.
Bergmann O, Zdunek S, Felker A, ..., Druid H, Frisén J
Cell 161 (7) 1566-1575 [2015-06-18; online 2015-06-16]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Confrontation of fibroblasts with cancer cells in vitro: gene network analysis of transcriptome changes and differential capacity to inhibit tumor growth.
Alexeyenko A, Alkasalias T, Pavlova T, ..., Guven H, Klein G
J. Exp. Clin. Cancer Res. 34 (-) 62 [2015-06-18; online 2015-06-18]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Transglutaminase 4 as a prostate autoantigen in male subfertility
Landegren N, Sharon D, Shum AK, ..., Snyder M, Kämpe O
Sci. Transl. Med. 7 (292) 292ra101 [2015-06-17; online 2015-06-17]
Affinity Proteomics Uppsala [Service] Autoimmunity and Serology Profiling [Service] Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training PLA and Single Cell Proteomics
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Elevated Serum GAD65 and GAD65-GADA Immune Complexes in Stiff Person Syndrome.
Gu Urban GJ, Friedman M, Ren P, ..., Landegren U, Kamali-Moghaddam M
Sci Rep 5 (1) 11196 [2015-06-16; online 2015-06-16]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
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Characterization of Three Mycobacterium spp. with Potential Use in Bioremediation by Genome Sequencing and Comparative Genomics.
Das S, Pettersson BM, Behra PR, ..., Bhattacharya A, Kirsebom LA
Genome Biol Evol 7 (7) 1871-1886 [2015-06-16; online 2015-06-16]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Whiteboard: a framework for the programmatic visualization of complex biological analyses.
Sundström G, Zamani N, Grabherr MG, Mauceli E
Bioinformatics 31 (12) 2054-2055 [2015-06-15; online 2015-02-11]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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IFN-α production by plasmacytoid dendritic cell associations with polymorphisms in gene loci related to autoimmune and inflammatory diseases.
Berggren O, Alexsson A, Morris DL, ..., Rönnblom L, Eloranta ML
Hum. Mol. Genet. 24 (12) 3571-3581 [2015-06-15; online 2015-03-18]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Defining the Human Brain Proteome Using Transcriptomics and Antibody-Based Profiling with a Focus on the Cerebral Cortex.
Sjöstedt E, Fagerberg L, Hallström BM, ..., Uhlén M, Mulder J
PLoS ONE 10 (6) e0130028 [2015-06-15; online 2015-06-15]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Tissue Profiling [Collaborative]
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Contribution of common non-synonymous variants in PCSK1 to body mass index variation and risk of obesity: a systematic review and meta-analysis with evidence from up to 331 175 individuals.
Nead KT, Li A, Wehner MR, ..., Anand SS, Meyre D
Hum. Mol. Genet. 24 (12) 3582-3594 [2015-06-15; online 2015-03-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Proximity-dependent initiation of hybridization chain reaction.
Koos B, Cane G, Grannas K, ..., Kamali-Moghaddam M, Söderberg O
Nat Commun 6 (-) 7294 [2015-06-12; online 2015-06-12]
Affinity Proteomics Uppsala [Service] PLA and Single Cell Proteomics [Service]
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Phasing of single DNA molecules by massively parallel barcoding.
Borgström E, Redin D, Lundin S, ..., Andersson AF, Ahmadian A
Nat Commun 6 (-) 7173 [2015-06-09; online 2015-06-09]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Functional Identification of Target by Expression Proteomics (FITExP) reveals protein targets and highlights mechanisms of action of small molecule drugs.
Chernobrovkin A, Marin-Vicente C, Visa N, Zubarev RA
Sci Rep 5 (-) 11176 [2015-06-08; online 2015-06-08]
Advanced Mass Spectrometry Proteomics Chemical Proteomics [Technology development]
PubMed DOI Crossref
Evolutionary analysis of the female-specific avian W chromosome.
Smeds L, Warmuth V, Bolivar P, ..., Török J, Ellegren H
Nat Commun 6 (-) 7330 [2015-06-04; online 2015-06-04]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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A quantitative assessment of the Hadoop framework for analyzing massively parallel DNA sequencing data.
Siretskiy A, Sundqvist T, Voznesenskiy M, Spjuth O
Gigascience 4 (-) 26 [2015-06-04; online 2015-06-04]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Processing of protein ADP-ribosylation by Nudix hydrolases.
Palazzo L, Thomas B, Jemth AS, ..., Helleday T, Ahel I
Biochem. J. 468 (2) 293-301 [2015-06-01; online 2015-03-20]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Functional loss of IκBε leads to NF-κB deregulation in aggressive chronic lymphocytic leukemia.
Mansouri L, Sutton LA, Ljungström V, ..., Nilsson M, Rosenquist R
J. Exp. Med. 212 (6) 833-843 [2015-06-01; online 2015-05-18]
Array and Analysis Facility NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Ancient wolf genome reveals an early divergence of domestic dog ancestors and admixture into high-latitude breeds.
Skoglund P, Ersmark E, Palkopoulou E, Dalén L
Curr. Biol. 25 (11) 1515-1519 [2015-06-01; online 2015-05-26]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Zebrafish: A possible tool to evaluate bioactive ions.
Montazerolghaem M, Nyström L, Engqvist H, Karlsson Ott M
Acta Biomater 19 (-) 10-14 [2015-06-00; online 2015-03-17]
Genome Engineering Zebrafish
PubMed
Whole-genome Linkage Analysis and Sequence Analysis of Candidate Loci in Familial Breast Cancer.
Marikkannu R, Aravidis C, Rantala J, ..., Nilsson D, Lindblom A
Anticancer Res. 35 (6) 3155-3165 [2015-06-00; online 2015-05-31]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Tumor vessel up-regulation of INSR revealed by single-cell expression analysis of the tyrosine kinome and phosphatome in human cancers.
Kiflemariam S, Ljungström V, Pontén F, Sjöblom T
Am. J. Pathol. 185 (6) 1600-1609 [2015-06-00; online 2015-04-10]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Three-Dimensional Cell Culture-Based Screening Identifies the Anthelmintic Drug Nitazoxanide as a Candidate for Treatment of Colorectal Cancer.
Senkowski W, Zhang X, Olofsson MH, ..., Larsson R, Fryknäs M
Mol Cancer Ther 14 (6) 1504-1516 [2015-06-00; online 2015-04-24]
Drug Discovery and Development (DDD) [Service]
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The potential clinical impact of the tissue-based map of the human proteome.
Lindskog C
Expert Rev Proteomics 12 (3) 213-215 [2015-06-00; online 2015-04-30]
Tissue Profiling [Technology development]
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The impact of low-frequency and rare variants on lipid levels.
Surakka I, Horikoshi M, Mägi R, ..., Ripatti S, ENGAGE Consortium
Nat. Genet. 47 (6) 589-597 [2015-06-00; online 2015-05-12]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Single locus sex determination and female heterogamety in the basket willow (Salix viminalis L.).
Pucholt P, Rönnberg-Wästljung AC, Berlin S
Heredity (Edinb) 114 (6) 575-583 [2015-06-00; online 2015-02-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Non-reciprocal Interspecies Hybridization Barriers in the Capsella Genus Are Established in the Endosperm.
Rebernig CA, Lafon-Placette C, Hatorangan MR, Slotte T, Köhler C
PLoS Genet. 11 (6) e1005295 [2015-06-00; online 2015-06-18]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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NLRC4 Inflammasome Is an Important Regulator of Interleukin-18 Levels in Patients With Acute Coronary Syndromes: Genome-Wide Association Study in the PLATelet inhibition and patient Outcomes Trial (PLATO).
Johansson Å, Eriksson N, Becker RC, ..., Siegbahn A, PLATO Investigators
Circ Cardiovasc Genet 8 (3) 498-506 [2015-06-00; online 2015-03-10]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Multiple Changes of Gene Expression and Function Reveal Genomic and Phenotypic Complexity in SLE-like Disease.
Wilbe M, Kozyrev SV, Farias FH, ..., Hansson-Hamlin H, Lindblad-Toh K
PLoS Genet. 11 (6) e1005248 [2015-06-00; online 2015-06-09]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Microbial metagenomics in the Baltic Sea: Recent advancements and prospects for environmental monitoring.
Ininbergs K, Bergman B, Larsson J, Ekman M
Ambio 44 Suppl 3 (-) 439-450 [2015-06-00; online 2015-05-30]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Loss of ASRGL1 expression is an independent biomarker for disease-specific survival in endometrioid endometrial carcinoma.
Edqvist PH, Huvila J, Forsström B, ..., Pontén F, Auranen A
Gynecol. Oncol. 137 (3) 529-537 [2015-06-00; online 2015-04-07]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Human adaptation to arsenic-rich environments.
Schlebusch CM, Gattepaille LM, Engström K, ..., Jakobsson M, Broberg K
Mol. Biol. Evol. 32 (6) 1544-1555 [2015-06-00; online 2015-03-03]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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High-throughput mutational screening adds clinically important information in myelodysplastic syndromes and secondary or therapy-related acute myeloid leukemia.
Karimi M, Nilsson C, Dimitriou M, ..., Kere J, Hellström-Lindberg E
Haematologica 100 (6) e223-e225 [2015-06-00; online 2015-03-15]
Mutation Analysis Facility (MAF) NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Hemophagocytic lymphohistiocytosis in 2 patients with underlying IFN-γ receptor deficiency
Tesi B, Sieni E, Neves C, ..., Azzari C, Bryceson YT
Journal of Allergy and Clinical Immunology 135 (6) 1638-1641.e5 [2015-06-00; online 2015-06-00]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Exome sequencing of contralateral breast cancer identifies metastatic disease.
Klevebring D, Lindberg J, Rockberg J, ..., Sandberg M, Czene K
Breast Cancer Res. Treat. 151 (2) 319-324 [2015-06-00; online 2015-04-30]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Exome Sequencing and CNV Analysis on Chromosome 18 in Small Intestinal Neuroendocrine Tumors: Ruling Out a Suspect?
Delgado Verdugo A, Crona J, Maharjan R, ..., Westin G, Björklund P
Horm. Metab. Res. 47 (6) 452-455 [2015-06-00; online 2014-10-30]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Effect of host plant and immune challenge on the levels of chemosensory and odorant-binding proteins in caterpillar salivary glands.
Celorio-Mancera Mde L, Ytterberg AJ, Rutishauser D, Janz N, Zubarev RA
Insect Biochem. Mol. Biol. 61 (-) 34-45 [2015-06-00; online 2015-04-29]
Advanced Mass Spectrometry Proteomics
PubMed
Differential Gene Regulation in Fibroblasts in Co-culture with Keratinocytes and Head and Neck SCC Cells.
Hakelius M, Saiepour D, Göransson H, ..., Gerdin B, Nowinski D
Anticancer Res. 35 (6) 3253-3265 [2015-06-00; online 2015-05-31]
Array and Analysis Facility
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Consequences of increased terrestrial dissolved organic matter and temperature on bacterioplankton community composition during a Baltic Sea mesocosm experiment.
Lindh MV, Lefébure R, Degerman R, ..., Andersson A, Pinhassi J
Ambio 44 Suppl 3 (-) 402-412 [2015-06-00; online 2015-05-30]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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CETSA: a target engagement assay with potential to transform drug discovery
Jensen AJ, Molina DM, Lundbäck T
Future Medicinal Chemistry 7 (8) 975-978 [2015-06-00; online 2015-06-00]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
A nucleosome turnover map reveals that the stability of histone H4 Lys20 methylation depends on histone recycling in transcribed chromatin.
Svensson JP, Shukla M, Menendez-Benito V, ..., Allshire RC, Ekwall K
Genome Res. 25 (6) 872-883 [2015-06-00; online 2015-03-18]
Bioinformatics and Expression Analysis (BEA)
PubMed
Circulating microRNA expression pattern separates patients with anti-neutrophil cytoplasmic antibody associated vasculitis from healthy controls.
Skoglund C, Carlsen AL, Weiner M, ..., Heegaard NH, Segelmark M
Clin. Exp. Rheumatol. 33 (2 Suppl 89) S-64-71 [2015-05-26; online 2015-05-26]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Phylogeny, evolution and classification of gall wasps: the plot thickens.
Ronquist F, Nieves-Aldrey JL, Buffington ML, ..., Liljeblad J, Nylander JA
PLoS ONE 10 (5) e0123301 [2015-05-20; online 2015-05-20]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Complete genomes reveal signatures of demographic and genetic declines in the woolly mammoth.
Palkopoulou E, Mallick S, Skoglund P, ..., Reich D, Dalén L
Curr. Biol. 25 (10) 1395-1400 [2015-05-18; online 2015-04-23]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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CGGBP1 mitigates cytosine methylation at repetitive DNA sequences.
Agarwal P, Collier P, Fritz MH, ..., Westermark B, Singh U
BMC Genomics 16 (-) 390 [2015-05-16; online 2015-05-16]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Phylogeographical pattern of Francisella tularensis in a nationwide outbreak of tularaemia in Norway, 2011.
Afset JE, Larssen KW, Bergh K, ..., Johansson A, Forsman M
Euro Surveill. 20 (19) 9-14 [2015-05-14; online 2015-05-14]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Complex archaea that bridge the gap between prokaryotes and eukaryotes.
Spang A, Saw JH, Jørgensen SL, ..., Guy L, Ettema TJ
Nature 521 (7551) 173-179 [2015-05-14; online 2015-05-07]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Human genomics. Effect of predicted protein-truncating genetic variants on the human transcriptome.
Rivas MA, Pirinen M, Conrad DF, ..., Lappalainen T, MacArthur DG
Science 348 (6235) 666-669 [2015-05-08; online 2015-05-09]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Complement inhibitor CD55 governs the integrity of membrane rafts in pancreatic beta cells, but plays no role in insulin secretion.
Nagaraj V, King B, Storm P, ..., Blom AM, Renström E
Biochem. Biophys. Res. Commun. 460 (3) 518-524 [2015-05-08; online 2015-03-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Genome-wide association mapping in a wild avian population identifies a link between genetic and phenotypic variation in a life-history trait.
Husby A, Kawakami T, Rönnegård L, ..., Ellegren H, Qvarnström A
Proc. Biol. Sci. 282 (1806) 20150156 [2015-05-07; online 2015-04-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Intestinal dysbiosis in children with short bowel syndrome is associated with impaired outcome.
Engstrand Lilja H, Wefer H, Nyström N, Finkel Y, Engstrand L
Microbiome 3 (-) 18 [2015-05-04; online 2015-05-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Tracking the origin of metastatic prostate cancer.
Lindberg J, Kristiansen A, Wiklund P, Grönberg H, Egevad L
Eur. Urol. 67 (5) 819-822 [2015-05-00; online 2014-09-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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The role of genetic factors for hearing deterioration across 20 years: a twin study.
Bogo R, Farah A, Johnson AC, ..., Svartengren M, Skjönsberg Å
J. Gerontol. A Biol. Sci. Med. Sci. 70 (5) 647-653 [2015-05-00; online 2015-02-11]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Plant-mediated gene silencing restricts growth of the potato late blight pathogen Phytophthora infestans.
Jahan SN, Åsman AK, Corcoran P, ..., Vetukuri RR, Dixelius C
J. Exp. Bot. 66 (9) 2785-2794 [2015-05-00; online 2015-03-20]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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NOTA: a potent metallo-β-lactamase inhibitor.
Somboro AM, Tiwari D, Bester LA, ..., Naicker T, Essack SY
J. Antimicrob. Chemother. 70 (5) 1594-1596 [2015-05-00; online 2015-01-06]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Mixed ancestry and admixture in Kauai's feral chickens: invasion of domestic genes into ancient Red Junglefowl reservoirs.
Gering E, Johnsson M, Willis P, Getty T, Wright D
Mol. Ecol. 24 (9) 2112-2124 [2015-05-00; online 2015-02-07]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Genome-wide meta-analysis identifies six novel loci associated with habitual coffee consumption.
Coffee and Caffeine Genetics Consortium , Cornelis MC, Byrne EM, ..., van Dam RM, Chasman DI
Mol. Psychiatry 20 (5) 647-656 [2015-05-00; online 2014-10-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genetic regulation of bone metabolism in the chicken: similarities and differences to Mammalian systems.
Johnsson M, Jonsson KB, Andersson L, Jensen P, Wright D
PLoS Genet. 11 (5) e1005250 [2015-05-00; online 2015-05-29]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Dietary fat quality impacts genome-wide DNA methylation patterns in a cross-sectional study of Greek preadolescents.
Voisin S, Almén MS, Moschonis G, ..., Manios Y, Schiöth HB
Eur. J. Hum. Genet. 23 (5) 654-662 [2015-05-00; online 2014-07-31]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed
Diagnostic urinary proteome profile for immunoglobulin a nephropathy.
Samavat S, Kalantari S, Nafar M, ..., Parvin M, Zubarev RA
Iran J Kidney Dis 9 (3) 239-248 [2015-05-00; online 2015-05-10]
Advanced Mass Spectrometry Proteomics
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Cu(OAc)2-Catalysed Oxidative Dual C-H/N-H Activation of Terminal Alkynes andN-Deprotected Sulfonimidamides: An Easy Access toN-Alkynylated Sulfonimidamides
Nandi GC, Kota SR, Naicker T, ..., Kruger HG, Arvidsson PI
Eur. J. Org. Chem. 2015 (13) 2861-2867 [2015-05-00; online 2015-03-17]
Drug Discovery and Development (DDD) [Technology development]
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Cooperative genetic changes in pediatric B-cell precursor acute lymphoblastic leukemia with deletions or mutations of IKZF1.
Olsson L, Albitar F, Castor A, ..., Paulsson K, Johansson B
Genes Chromosomes Cancer 54 (5) 315-325 [2015-05-00; online 2015-03-03]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Autosomal recessive mutations in the COL2A1 gene cause severe spondyloepiphyseal dysplasia.
Tham E, Nishimura G, Geiberger S, ..., Nordenskjöld M, Grigelioniene G
Clin. Genet. 87 (5) 496-498 [2015-05-00; online 2014-07-26]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Age- and sex-specific causal effects of adiposity on cardiovascular risk factors.
Fall T, Hägg S, Ploner A, ..., Ingelsson E, ENGAGE Consortium
Diabetes 64 (5) 1841-1852 [2015-05-00; online 2015-02-26]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Nanoparticle-stabilized microbubbles for multimodal imaging and drug delivery.
Mørch Ý, Hansen R, Berg S, ..., de Lange Davies C, Stenstad PM
Contrast Media Mol Imaging 10 (5) 356-366 [2015-04-30; online 2015-04-30]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Deep sequencing and SNP array analyses of pediatric T-cell acute lymphoblastic leukemia reveal NOTCH1 mutations in minor subclones and a high incidence of uniparental isodisomies affecting CDKN2A.
Karrman K, Castor A, Behrendtz M, ..., Paulsson K, Johansson B
J Hematol Oncol 8 (-) 42 [2015-04-24; online 2015-04-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Genetically determined height and coronary artery disease.
Nelson CP, Hamby SE, Saleheen D, ..., Samani NJ, CARDIoGRAM+C4D Consortium
N. Engl. J. Med. 372 (17) 1608-1618 [2015-04-23; online 2015-04-09]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Circulating carnosine dipeptidase 1 associates with weight loss and poor prognosis in gastrointestinal cancer.
Arner P, Henjes F, Schwenk JM, ..., Nilsson P, Rydén M
PLoS ONE 10 (4) e0123566 [2015-04-21; online 2015-04-21]
Affinity Proteomics Stockholm
PubMed DOI Crossref
Polymorphisms in chloroquine resistance-associated genes in Plasmodium vivax in Ethiopia.
Golassa L, Erko B, Baliraine FN, Aseffa A, Swedberg G
Malar. J. 14 (-) 164 [2015-04-16; online 2015-04-16]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Combination effects of AHR agonists and Wnt/β-catenin modulators in zebrafish embryos: Implications for physiological and toxicological AHR functions.
Wincent E, Stegeman JJ, Jönsson ME
Toxicol. Appl. Pharmacol. 284 (2) 163-179 [2015-04-15; online 2015-02-21]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
AP-1-mediated chromatin looping regulates ZEB2 transcription: new insights into TNFα-induced epithelial-mesenchymal transition in triple-negative breast cancer.
Qiao Y, Shiue CN, Zhu J, ..., Zhao C, Dahlman-Wright K
Oncotarget 6 (10) 7804-7814 [2015-04-10; online 2015-03-13]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Common genetic variants influence human subcortical brain structures.
Hibar DP, Stein JL, Renteria ME, ..., Thompson PM, Medland SE
Nature 520 (7546) 224-229 [2015-04-09; online 2015-01-22]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
DOI Crossref
Inter-relationships between the metrics of instrumental meat color and microbial growth during aerobic storage of beef at 4°C
Li S, Zamaratskaia G, Roos S, ..., Borch E, Johansson M
Acta Agriculturae Scandinavica, Section A - Animal Science 65 (2) 97-106 [2015-04-03; online 2015-09-00]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Transplant experiments uncover Baltic Sea basin-specific responses in bacterioplankton community composition and metabolic activities.
Lindh MV, Figueroa D, Sjöstedt J, ..., Legrand C, Pinhassi J
Front Microbiol 6 (-) 223 [2015-04-01; online 2015-04-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
A prognosis based classification of undifferentiated uterine sarcomas: identification of mitotic index, hormone receptors and YWHAE-FAM22 translocation status as predictors of survival.
Gremel G, Liew M, Hamzei F, ..., Pontén F, Carlson JW
Int. J. Cancer 136 (7) 1608-1618 [2015-04-01; online 2014-08-19]
Tissue Profiling
PubMed DOI Crossref
Using genetics to test the causal relationship of total adiposity and periodontitis: Mendelian randomization analyses in the Gene-Lifestyle Interactions and Dental Endpoints (GLIDE) Consortium.
Shungin D, Cornelis MC, Divaris K, ..., Johansson I, Franks PW
Int J Epidemiol 44 (2) 638-650 [2015-04-00; online 2015-06-06]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Oseltamivir-resistant influenza A (H1N1) virus strain with an H274Y mutation in neuraminidase persists without drug pressure in infected mallards.
Gillman A, Muradrasoli S, Söderström H, ..., Olsen B, Järhult JD
Appl. Environ. Microbiol. 81 (7) 2378-2383 [2015-04-00; online 2015-01-27]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Mixture effects of levonorgestrel and ethinylestradiol: estrogenic biomarkers and hormone receptor mRNA expression during sexual programming.
Säfholm M, Jansson E, Fick J, Berg C
Aquat. Toxicol. 161 (-) 146-153 [2015-04-00; online 2015-02-24]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Is the adiposity-associated FTO gene variant related to all-cause mortality independent of adiposity? Meta-analysis of data from 169,551 Caucasian adults.
Zimmermann E, Ängquist LH, Mirza SS, ..., Sonestedt E, Sørensen TIA
Obes Rev 16 (4) 327-340 [2015-04-00; online 2015-03-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Is label-free LC-MS/MS ready for biomarker discovery?
Sandin M, Chawade A, Levander F
Proteomics Clin Appl 9 (3-4) 289-294 [2015-04-00; online 2015-02-07]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Immunohistochemistry-based prognostic biomarkers in NSCLC: novel findings on the road to clinical use?
Lindskog C, Edlund K, Mattsson JS, Micke P
Expert Rev. Mol. Diagn. 15 (4) 471-490 [2015-04-00; online 2015-01-19]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Identification and validation of N-acetyltransferase 2 as an insulin sensitivity gene.
Knowles JW, Xie W, Zhang Z, ..., Walker M, Quertermous T
J. Clin. Invest. 125 (4) 1739-1751 [2015-04-00; online 2015-03-23]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
GWAS-identified loci for coronary heart disease are associated with intima-media thickness and plaque presence at the carotid artery bulb.
den Hoed M, Strawbridge RJ, Almgren P, ..., Melander O, Lind L
Atherosclerosis 239 (2) 304-310 [2015-04-00; online 2015-02-16]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Functional anti-CD94/NKG2A and anti-CD94/NKG2C autoantibodies in patients with systemic lupus erythematosus.
Hagberg N, Theorell J, Hjorton K, ..., Bryceson YT, Rönnblom L
Arthritis & rheumatology (Hoboken, N.J.) 67 (4) 1000-1011 [2015-04-00; online 2014-12-17]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Fluctuating expression of microRNAs in adenovirus infected cells.
Zhao H, Chen M, Tellgren-Roth C, Pettersson U
Virology 478 (-) 99-111 [2015-04-00; online 2015-03-07]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Duffy antigen receptor genetic variant and the association with Interleukin 8 levels.
Moreno Velásquez I, Kumar J, Björkbacka H, ..., de Faire U, Gigante B
Cytokine 72 (2) 178-184 [2015-04-00; online 2015-01-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Birth weight as an independent predictor of ADHD symptoms: a within-twin pair analysis.
Pettersson E, Sjölander A, Almqvist C, ..., Lichtenstein P, Larsson H
J Child Psychol Psychiatry 56 (4) 453-459 [2015-04-00; online 2014-07-22]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Adiposity as a cause of cardiovascular disease: a Mendelian randomization study.
Hägg S, Fall T, Ploner A, ..., Ingelsson E, European Network for Genetic and Genomic Epidemiology Consortium
Int J Epidemiol 44 (2) 578-586 [2015-04-00; online 2015-05-27]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Zheleznyakova GY, Nilsson EK, Kiselev AV, ..., Baranov VS, Schiöth HB
PLoS ONE 10 (3) e0121964 [2015-03-30; online 2015-03-30]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Site-specific programming of the host epithelial transcriptome by the gut microbiota.
Sommer F, Nookaew I, Sommer N, Fogelstrand P, Bäckhed F
Genome Biol. 16 (-) 62 [2015-03-28; online 2015-03-28]
Array and Analysis Facility Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Modulation of genetic associations with serum urate levels by body-mass-index in humans.
Huffman JE, Albrecht E, Teumer A, ..., Köttgen A, Vitart V
PLoS ONE 10 (3) e0119752 [2015-03-26; online 2015-03-26]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Age-associated DNA methylation changes in immune genes, histone modifiers and chromatin remodeling factors within 5 years after birth in human blood leukocytes.
Acevedo N, Reinius LE, Vitezic M, ..., Greco D, Kere J
Clin Epigenetics 7 (-) 34 [2015-03-26; online 2015-03-26]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Discovery of molecular markers to discriminate corneal endothelial cells in the human body.
Yoshihara M, Ohmiya H, Hara S, ..., Tsujikawa M, Nishida K
PLoS ONE 10 (3) e0117581 [2015-03-25; online 2015-03-25]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Crystal structures of the kinase domain of the sulfate-activating complex in Mycobacterium tuberculosis.
Poyraz Ö, Brunner K, Lohkamp B, ..., Schnell R, Schneider G
PLoS ONE 10 (3) e0121494 [2015-03-25; online 2015-03-25]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Protein Science Facility (PSF)
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Low elastin content of carotid plaques is associated with increased risk of ipsilateral stroke.
Asciutto G, Dias NV, Edsfeldt A, ..., Nilsson J, Gonçalves I
PLoS ONE 10 (3) e0121086 [2015-03-24; online 2015-03-24]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Complete genome sequence of Borrelia afzelii K78 and comparative genome analysis.
Schüler W, Bunikis I, Weber-Lehman J, ..., Bergström S, Lundberg U
PLoS ONE 10 (3) e0120548 [2015-03-23; online 2015-03-23]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Structural basis for lack of ADP-ribosyltransferase activity in poly(ADP-ribose) polymerase-13/zinc finger antiviral protein.
Karlberg T, Klepsch M, Thorsell AG, ..., Linusson A, Schüler H
J. Biol. Chem. 290 (12) 7336-7344 [2015-03-20; online 2015-01-31]
Protein Science Facility (PSF)
PubMed DOI Crossref
Complete Genome Sequence of Francisella guangzhouensis Strain 08HL01032T, Isolated from Air-Conditioning Systems in China.
Svensson D, Öhrman C, Bäckman S, ..., Forsman M, Sjödin A
Genome Announc 3 (2) - [2015-03-19; online 2015-03-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Comparative proteomic analysis of hyphae and germinating cysts of Phytophthora pisi and Phytophthora sojae.
Hosseini S, Resjö S, Liu Y, ..., Andreasson E, Karlsson M
J Proteomics 117 (-) 24-40 [2015-03-18; online 2015-01-24]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Local hopping mobile DNA implicated in pseudogene formation and reductive evolution in an obligate cyanobacteria-plant symbiosis.
Vigil-Stenman T, Larsson J, Nylander JA, Bergman B
BMC Genomics 16 (-) 193 [2015-03-17; online 2015-03-17]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Conservation of transcription factor binding specificities across 600 million years of bilateria evolution.
Nitta KR, Jolma A, Yin Y, ..., Furlong EE, Taipale J
Elife 4 (-) - [2015-03-17; online 2015-03-17]
Karolinska High Throughput Center (KHTC)
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Analysis of the role of interleukin 6 receptor haplotypes in the regulation of circulating levels of inflammatory biomarkers and risk of coronary heart disease.
Gigante B, Strawbridge RJ, Velasquez IM, ..., Humphries SE, de Faire U
PLoS ONE 10 (3) e0119980 [2015-03-17; online 2015-03-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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SLC10A4 is a vesicular amine-associated transporter modulating dopamine homeostasis.
Larhammar M, Patra K, Blunder M, ..., Wallén-Mackenzie Å, Kullander K
Biol. Psychiatry 77 (6) 526-536 [2015-03-15; online 2014-09-02]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Microsatellite instability and mutations in BRAF and KRAS are significant predictors of disseminated disease in colon cancer.
Birgisson H, Edlund K, Wallin U, ..., Glimelius B, Sundström M
BMC Cancer 15 (-) 125 [2015-03-14; online 2015-03-14]
Array and Analysis Facility
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Variations of gastric corpus microbiota are associated with early esophageal squamous cell carcinoma and squamous dysplasia.
Nasrollahzadeh D, Malekzadeh R, Ploner A, ..., Dawsey SM, Ye W
Sci Rep 5 (-) 8820 [2015-03-06; online 2015-03-06]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Hybrid origins and the earliest stages of diploidization in the highly successful recent polyploid Capsella bursa-pastoris.
Douglas GM, Gos G, Steige KA, ..., Slotte T, Wright SI
Proc. Natl. Acad. Sci. U.S.A. 112 (9) 2806-2811 [2015-03-03; online 2015-02-19]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Proteomic profiling reveals autoimmune targets in sarcoidosis.
Häggmark A, Hamsten C, Wiklundh E, ..., Grunewald J, Nilsson P
Am. J. Respir. Crit. Care Med. 191 (5) 574-583 [2015-03-01; online 2015-01-22]
Autoimmunity and Serology Profiling [Collaborative] Tissue Profiling [Collaborative]
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The H1-receptor antagonist cetirizine ameliorates high-fat diet-induced glucose intolerance in male C57BL/6 mice, but not diabetes outcome in female non-obese diabetic (NOD) mice.
Anvari E, Wang X, Sandler S, Welsh N
Ups. J. Med. Sci. 120 (1) 40-46 [2015-03-00; online 2014-10-08]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The Fun30 chromatin remodeler Fft3 controls nuclear organization and chromatin structure of insulators and subtelomeres in fission yeast.
Steglich B, Strålfors A, Khorosjutina O, ..., Javerzat JP, Ekwall K
PLoS Genet. 11 (3) e1005101 [2015-03-00; online 2015-03-23]
Bioinformatics and Expression Analysis (BEA) NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Targeted next-generation sequencing in chronic lymphocytic leukemia: a high-throughput yet tailored approach will facilitate implementation in a clinical setting.
Sutton LA, Ljungström V, Mansouri L, ..., Stamatopoulos K, Rosenquist R
Haematologica 100 (3) 370-376 [2015-03-00; online 2014-12-07]
Clinical Genomics Clinical Genomics Uppsala
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Structural characterization of substrate and inhibitor binding to farnesyl pyrophosphate synthase from Pseudomonas aeruginosa.
Schmidberger JW, Schnell R, Schneider G
Acta Crystallogr. D Biol. Crystallogr. 71 (Pt 3) 721-731 [2015-03-00; online 2015-02-26]
Protein Science Facility (PSF)
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Borhade SR, Svensson R, Brandt P, ..., Arvidsson PI, Sandström A
ChemMedChem 10 (3) 455-460 [2015-03-00; online 2015-01-30]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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MuSK: a new target for lethal fetal akinesia deformation sequence (FADS).
Wilbe M, Ekvall S, Eurenius K, ..., Annerén G, Bondeson ML
J. Med. Genet. 52 (3) 195-202 [2015-03-00; online 2015-01-22]
Clinical Genomics Clinical Genomics Uppsala NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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High-resolution crystal structure of a polyextreme GH43 glycosidase from Halothermothrix orenii with α-L-arabinofuranosidase activity.
Hassan N, Kori LD, Gandini R, ..., Divne C, Tan TC
Acta Crystallogr F Struct Biol Commun 71 (Pt 3) 338-345 [2015-03-00; online 2015-02-19]
Protein Science Facility (PSF)
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High-density genotyping of immune loci in Koreans and Europeans identifies eight new rheumatoid arthritis risk loci.
Kim K, Bang SY, Lee HS, ..., Plenge RM, Bae SC
Ann. Rheum. Dis. 74 (3) e13 [2015-03-00; online 2014-02-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genomewide association study of body weight traits in Baluchi sheep.
Gholizadeh M, Rahimi-Mianji G, Nejati-Javaremi A
J. Genet. 94 (1) 143-146 [2015-03-00; online 2015-04-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
FGF2 as a potential prognostic biomarker for proneural glioma patients.
Sooman L, Freyhult E, Jaiswal A, ..., Bergqvist M, Ekman S
Acta Oncol 54 (3) 385-394 [2015-03-00; online 2014-09-30]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training Tissue Profiling
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Evaluation of human papillomavirus DNA detection in samples obtained for routine Chlamydia trachomatis screening.
Söderlund-Strand A, Wikström A, Dillner J
J. Clin. Virol. 64 (-) 88-91 [2015-03-00; online 2015-01-13]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Effects of ecological engineered oxygenation on the bacterial community structure in an anoxic fjord in western Sweden.
Forth M, Liljebladh B, Stigebrandt A, Hall PO, Treusch AH
ISME J 9 (3) 656-669 [2015-03-00; online 2014-09-23]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Detection of cell aggregation and altered cell viability by automated label-free video microscopy: a promising alternative to endpoint viability assays in high-throughput screening.
Aftab O, Fryknäs M, Hammerling U, Larsson R, Gustafsson MG
J Biomol Screen 20 (3) 372-381 [2015-03-00; online 2014-12-17]
Drug Discovery and Development (DDD)
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Amplification-free sequencing of cell-free DNA for prenatal non-invasive diagnosis of chromosomal aberrations.
Karlsson K, Sahlin E, Iwarsson E, ..., Nordenskjöld M, Linnarsson S
Genomics 105 (3) 150-158 [2015-03-00; online 2014-12-30]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
A genomic duplication is associated with ectopic eomesodermin expression in the embryonic chicken comb and two duplex-comb phenotypes.
Dorshorst B, Harun-Or-Rashid M, Bagherpoor AJ, ..., Hallböök F, Andersson L
PLoS Genet. 11 (3) e1004947 [2015-03-00; online 2015-03-19]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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MetCap: a bioinformatics probe design pipeline for large-scale targeted metagenomics.
Kushwaha SK, Manoharan L, Meerupati T, Hedlund K, Ahrén D
BMC Bioinformatics 16 (-) 65 [2015-02-28; online 2015-02-28]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Roux-en Y gastric bypass surgery induces genome-wide promoter-specific changes in DNA methylation in whole blood of obese patients.
Nilsson EK, Ernst B, Voisin S, ..., Schultes B, Schiöth HB
PLoS ONE 10 (2) e0115186 [2015-02-24; online 2015-02-24]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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The roles of SNF2/SWI2 nucleosome remodeling enzymes in blood cell differentiation and leukemia.
Prasad P, Lennartsson A, Ekwall K
Biomed Res Int 2015 (-) 347571 [2015-02-19; online 2015-02-19]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Evolution of Darwin's finches and their beaks revealed by genome sequencing.
Lamichhaney S, Berglund J, Almén MS, ..., Webster MT, Andersson L
Nature 518 (7539) 371-375 [2015-02-19; online 2015-02-18]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
DNA methylation-based subtype prediction for pediatric acute lymphoblastic leukemia.
Nordlund J, Bäcklin CL, Zachariadis V, ..., Forestier E, Syvänen AC
Clin Epigenetics 7 (-) 11 [2015-02-17; online 2015-02-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
New genetic loci link adipose and insulin biology to body fat distribution.
Shungin D, Winkler TW, Croteau-Chonka DC, ..., Lindgren CM, Mohlke KL
Nature 518 (7538) 187-196 [2015-02-12; online 2015-02-13]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Genetic studies of body mass index yield new insights for obesity biology.
Locke AE, Kahali B, Berndt SI, ..., Loos RJF, Speliotes EK
Nature 518 (7538) 197-206 [2015-02-12; online 2015-02-13]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Clonal distribution of BCR-ABL1 mutations and splice isoforms by single-molecule long-read RNA sequencing.
Cavelier L, Ameur A, Häggqvist S, ..., Olsson-Strömberg U, Hermanson M
BMC Cancer 15 (-) 45 [2015-02-12; online 2015-02-12]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Clinical Genomics Uppsala NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Data processing has major impact on the outcome of quantitative label-free LC-MS analysis.
Chawade A, Sandin M, Teleman J, Malmström J, Levander F
J. Proteome Res. 14 (2) 676-687 [2015-02-06; online 2014-11-20]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Microbial community composition and diversity via 16S rRNA gene amplicons: evaluating the illumina platform.
Sinclair L, Osman OA, Bertilsson S, Eiler A
PLoS ONE 10 (2) e0116955 [2015-02-03; online 2015-02-03]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Risk of childhood asthma is associated with CpG-site polymorphisms, regional DNA methylation and mRNA levels at the GSDMB/ORMDL3 locus.
Acevedo N, Reinius LE, Greco D, ..., Kere J, Söderhäll C
Hum. Mol. Genet. 24 (3) 875-890 [2015-02-01; online 2014-09-27]
Bioinformatics and Expression Analysis (BEA) Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Transcriptional responses of the bacterial antagonist Serratia plymuthica to the fungal phytopathogen Rhizoctonia solani.
Neupane S, Finlay RD, Alström S, Elfstrand M, Högberg N
Environ Microbiol Rep 7 (1) 123-127 [2015-02-00; online 2014-08-21]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
The composition of the gut microbiota shapes the colon mucus barrier.
Jakobsson HE, Rodríguez-Piñeiro AM, Schütte A, ..., Hansson GC, Johansson ME
EMBO Rep. 16 (2) 164-177 [2015-02-00; online 2014-12-20]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The GH receptor exon 3 deleted/full-length polymorphism is associated with central adiposity in the general population.
Glad CA, Carlsson LM, Melander O, ..., Svensson PA, Johannsson G
Eur. J. Endocrinol. 172 (2) 123-128 [2015-02-00; online 2014-11-14]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Proposal of Thorsellia kenyensis sp. nov. and Thorsellia kandunguensis sp. nov., isolated from larvae of Anopheles arabiensis, as members of the family Thorselliaceae fam. nov.
Kämpfer P, Glaeser SP, Nilsson LKJ, ..., Busse H, Terenius O
Int. J. Syst. Evol. Microbiol. 65 (Pt 2) 444-451 [2015-02-00; online 2014-11-12]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Predicting venous thrombosis in women using a combination of genetic markers and clinical risk factors.
Bruzelius M, Bottai M, Sabater-Lleal M, ..., Hamsten A, Odeberg J
J. Thromb. Haemost. 13 (2) 219-227 [2015-02-00; online 2014-12-05]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Novel high-throughput screening method for identification of fungal dimorphism blockers.
Stylianou M, Uvell H, Lopes JP, ..., Elofsson M, Urban CF
J Biomol Screen 20 (2) 285-291 [2015-02-00; online 2014-10-05]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Multi-omic data analysis using Galaxy.
Boekel J, Chilton JM, Cooke IR, ..., Moerland PD, Griffin TJ
Nat. Biotechnol. 33 (2) 137-139 [2015-02-00; online 2015-02-07]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training Clinical Proteomics Mass spectrometry
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Genome and physiology of the ascomycete filamentous fungus Xeromyces bisporus, the most xerophilic organism isolated to date.
Leong SL, Lantz H, Pettersson OV, ..., Tellgren-Roth C, Schnürer J
Environ. Microbiol. 17 (2) 496-513 [2015-02-00; online 2014-08-22]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Expression of human skin-specific genes defined by transcriptomics and antibody-based profiling.
Edqvist PH, Fagerberg L, Hallström BM, ..., Uhlén M, Pontén F
J. Histochem. Cytochem. 63 (2) 129-141 [2015-02-00; online 2014-11-19]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Tissue Profiling [Technology development]
PubMed DOI Crossref
Environmental and genetic factors in the development of anticitrullinated protein antibodies (ACPAs) and ACPA-positive rheumatoid arthritis: an epidemiological investigation in twins.
Hensvold AH, Magnusson PK, Joshua V, ..., Klareskog L, Catrina AI
Ann. Rheum. Dis. 74 (2) 375-380 [2015-02-00; online 2013-11-28]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
CTNND2-a candidate gene for reading problems and mild intellectual disability.
Hofmeister W, Nilsson D, Topa A, ..., Syk Lundberg E, Lindstrand A
J. Med. Genet. 52 (2) 111-122 [2015-02-00; online 2014-12-05]
Clinical Genomics Clinical Genomics Stockholm NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Biochemical and structural characterization of a thermostable β-glucosidase from Halothermothrix orenii for galacto-oligosaccharide synthesis.
Hassan N, Nguyen TH, Intanon M, ..., Divne C, Tan TC
Appl. Microbiol. Biotechnol. 99 (4) 1731-1744 [2015-02-00; online 2014-09-01]
Protein Science Facility (PSF)
PubMed DOI Crossref
Associations between the 17q21 region and allergic rhinitis in 5 birth cohorts.
Fuertes E, Söderhäll C, Acevedo N, ..., Carlsten C, Melén E
J. Allergy Clin. Immunol. 135 (2) 573-576 [2015-02-00; online 2014-09-30]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Low-frequency and rare exome chip variants associate with fasting glucose and type 2 diabetes susceptibility.
Wessel J, Chu AY, Willems SM, ..., Scott RA, Goodarzi MO
Nat Commun 6 (-) 5897 [2015-01-29; online 2015-01-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Prognostic impact of COX-2 in non-small cell lung cancer: a comprehensive compartment-specific evaluation of tumor and stromal cell expression.
Mattsson JS, Bergman B, Grinberg M, ..., Micke P, Gulyas M
Cancer Lett. 356 (2 Pt B) 837-845 [2015-01-28; online 2014-10-31]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Endonuclease specificity and sequence dependence of type IIS restriction enzymes.
Lundin S, Jemt A, Terje-Hegge F, ..., Lexow P, Lundeberg J
PLoS ONE 10 (1) e0117059 [2015-01-28; online 2015-01-28]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Next-generation sequencing reveals low-dose effects of cationic dendrimers in primary human bronchial epithelial cells.
Feliu N, Kohonen P, Ji J, ..., Nyström A, Fadeel B
ACS Nano 9 (1) 146-163 [2015-01-27; online 2014-12-23]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Intratumoral genome diversity parallels progression and predicts outcome in pediatric cancer.
Mengelbier LH, Karlsson J, Lindgren D, ..., Mayrhofer M, Gisselsson D
Nat Commun 6 (-) 6125 [2015-01-27; online 2015-01-27]
Array and Analysis Facility NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
TGF-β1-Induced Epithelial-Mesenchymal Transition Promotes Monocyte/Macrophage Properties in Breast Cancer Cells.
Johansson J, Tabor V, Wikell A, Jalkanen S, Fuxe J
Front Oncol 5 (-) 3 [2015-01-26; online 2015-01-26]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Proteomics. Tissue-based map of the human proteome.
Uhlén M, Fagerberg L, Hallström BM, ..., Nielsen J, Pontén F
Science 347 (6220) 1260419 [2015-01-23; online 2015-01-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Spatial Proteomics Tissue Profiling [Technology development]
PubMed DOI Crossref
Biological interpretation of genome-wide association studies using predicted gene functions.
Pers TH, Karjalainen JM, Chan Y, ..., Hirschhorn JN, Franke L
Nat Commun 6 (-) 5890 [2015-01-19; online 2015-01-19]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Drug-induced mRNA signatures are enriched for the minority of genes that are highly heritable.
Gao T, Brodin P, Davis MM, Jojic V
Pac Symp Biocomput - (-) 395-406 [2015-01-17; online 2015-01-17]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Variation in the human immune system is largely driven by non-heritable influences.
Brodin P, Jojic V, Gao T, ..., Maecker HT, Davis MM
Cell 160 (1-2) 37-47 [2015-01-15; online 2015-01-17]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Transcription-coupled recruitment of human CHD1 and CHD2 influences chromatin accessibility and histone H3 and H3.3 occupancy at active chromatin regions.
Siggens L, Cordeddu L, Rönnerblad M, Lennartsson A, Ekwall K
Epigenetics Chromatin 8 (1) 4 [2015-01-15; online 2015-01-15]
Bioinformatics and Expression Analysis (BEA)
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The statistical geometry of transcriptome divergence in cell-type evolution and cancer.
Liang C, FANTOM Consortium , Forrest AR, Wagner GP
Nat Commun 6 (-) 6066 [2015-01-14; online 2015-01-14]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Comparison of heritability of Cystatin C- and creatinine-based estimates of kidney function and their relation to heritability of cardiovascular disease.
Arpegård J, Viktorin A, Chang Z, ..., Magnusson PK, Svensson P
J Am Heart Assoc 4 (1) e001467 [2015-01-14; online 2015-01-14]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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The higher frequency of IgA deficiency among Swedish twins is not explained by HLA haplotypes.
Frankowiack M, Kovanen RM, Repasky GA, ..., Pedersen NL, Hammarström L
Genes Immun. 16 (3) 199-205 [2015-01-08; online 2015-01-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Insights on the evolution of mycoparasitism from the genome of Clonostachys rosea.
Karlsson M, Durling MB, Choi J, ..., Lee YH, Jensen DF
Genome Biol Evol 7 (2) 465-480 [2015-01-08; online 2015-01-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Defects of CRB2 cause steroid-resistant nephrotic syndrome.
Ebarasi L, Ashraf S, Bierzynska A, ..., Hildebrandt F, Majumdar A
Am. J. Hum. Genet. 96 (1) 153-161 [2015-01-08; online 2015-01-06]
Genome Engineering Zebrafish
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A genetic study on C5-TRAF1 and progression of joint damage in rheumatoid arthritis.
van Steenbergen HW, Rodríguez-Rodríguez L, Berglin E, ..., Rantapää-Dahlqvist S, van der Helm-van Mil AH
Arthritis Res. Ther. 17 (-) 1 [2015-01-08; online 2015-01-08]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Parallel protein detection by solid-phase proximity ligation assay with real-time PCR or sequencing.
Ebai T, Kamali-Moghaddam M, Landegren U
Curr Protoc Mol Biol 109 (-) 20.10.1-20.1025 [2015-01-05; online 2015-01-05]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
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Mutagenesis. Smoking is associated with mosaic loss of chromosome Y.
Dumanski JP, Rasi C, Lönn M, ..., Ingelsson E, Forsberg LA
Science 347 (6217) 81-83 [2015-01-02; online 2014-12-06]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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A secretagogin locus of the mammalian hypothalamus controls stress hormone release.
Romanov RA, Alpár A, Zhang MD, ..., Hökfelt T, Harkany T
EMBO J. 34 (1) 36-54 [2015-01-02; online 2014-11-27]
Fluorescence Tissue Profiling
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The mutational landscape in pediatric acute lymphoblastic leukemia deciphered by whole genome sequencing.
Lindqvist CM, Nordlund J, Ekman D, ..., Syvänen AC, Berglund EC
Hum. Mutat. 36 (1) 118-128 [2015-01-00; online 2014-10-31]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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The human gastrointestinal tract-specific transcriptome and proteome as defined by RNA sequencing and antibody-based profiling.
Gremel G, Wanders A, Cedernaes J, ..., Uhlén M, Pontén F
J. Gastroenterol. 50 (1) 46-57 [2015-01-00; online 2014-05-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Tissue Profiling
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The Biobanking Analysis Resource Catalogue (BARCdb): a new research tool for the analysis of biobank samples.
Galli J, Oelrich J, Taussig MJ, ..., Ortega-Paino E, Landegren U
Nucleic Acids Res. 43 (Database issue) D1158-D1162 [2015-01-00; online 2014-10-23]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
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Synthesis of Vinyl- and Aryl-Acyl Sulfonimidamides Through Pd-Catalyzed Carbonylation Using Mo(CO)6as ex situ CO Source
Wakchaure PB, Borhade SR, Sandström A, Arvidsson PI
Eur. J. Org. Chem. 2015 (1) 213-219 [2015-01-00; online 2014-11-19]
Drug Discovery and Development (DDD) [Technology development]
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Scavenging effect of Trolox released from brushite cements.
Mestres G, Santos CF, Engman L, Persson C, Ott MK
Acta Biomater 11 (-) 459-466 [2015-01-00; online 2014-09-16]
BioMaterial Interactions (BioMat)
PubMed DOI Crossref
Reprogramming of Yersinia from virulent to persistent mode revealed by complex in vivo RNA-seq analysis.
Avican K, Fahlgren A, Huss M, ..., Dersch P, Fällman M
PLoS Pathog. 11 (1) e1004600 [2015-01-00; online 2015-01-15]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
DOI Crossref
Phenotypic plasticity and differentiation in an invasive freshwater microalga
Sassenhagen I, Wilken S, Godhe A, Rengefors K
Harmful Algae 41 (-) 38-45 [2015-01-00; online 2015-01-00]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Methylated RASSF1A in malignant peripheral nerve sheath tumors identifies neurofibromatosis type 1 patients with inferior prognosis.
Danielsen SA, Lind GE, Kolberg M, ..., Picci P, Lothe RA
Neuro-oncology 17 (1) 63-69 [2015-01-00; online 2014-07-20]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Lessons and implications from association studies and post-GWAS analyses of cervical cancer.
Chen D, Gyllensten U
Trends Genet. 31 (1) 41-54 [2015-01-00; online 2014-12-04]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Identification and functional characterization of G6PC2 coding variants influencing glycemic traits define an effector transcript at the G6PC2-ABCB11 locus.
Mahajan A, Sim X, Ng HJ, ..., Gloyn AL, T2D-GENES consortium and GoT2D consortium
PLoS Genet. 11 (1) e1004876 [2015-01-00; online 2015-01-27]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
High plasma levels of heparin-binding epidermal growth factor are associated with a more stable plaque phenotype and reduced incidence of coronary events.
Rattik S, Wigren M, Björkbacka H, ..., Gonçalves I, Nilsson J
Arterioscler. Thromb. Vasc. Biol. 35 (1) 222-228 [2015-01-00; online 2014-10-30]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Healthy Nordic diet downregulates the expression of genes involved in inflammation in subcutaneous adipose tissue in individuals with features of the metabolic syndrome.
Kolehmainen M, Ulven SM, Paananen J, ..., Arner P, Dahlman I
Am. J. Clin. Nutr. 101 (1) 228-239 [2015-01-00; online 2014-12-21]
Bioinformatics and Expression Analysis (BEA)
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Expression of human leukocyte antigen class I in endocrine and exocrine pancreatic tissue at onset of type 1 diabetes.
Skog O, Korsgren S, Wiberg A, ..., Korsgren O, Dahl-Jørgensen K
Am. J. Pathol. 185 (1) 129-138 [2015-01-00; online 2014-12-20]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Combining an amyloid-beta (Aβ) cleaving enzyme inhibitor with a γ-secretase modulator results in an additive reduction of Aβ production.
Strömberg K, Eketjäll S, Georgievska B, ..., Cowburn RF, Dabrowski M
FEBS J. 282 (1) 65-73 [2015-01-00; online 2014-11-07]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Body composition and bone mineral density in women with Cushing's syndrome in remission and the association with common genetic variants influencing glucocorticoid sensitivity.
Ragnarsson O, Glad CA, Bergthorsdottir R, ..., Wängberg B, Johannsson G
Eur. J. Endocrinol. 172 (1) 1-10 [2015-01-00; online 2014-11-26]
Mutation Analysis Facility (MAF)
DOI Crossref
Applied Enantioselective Aminocatalysis: α-Heteroatom Functionalization Reactions on the Carbapenem (β-Lactam Antibiotic) Core
Cele ZED, Arvidsson PI, Kruger HG, Govender T, Naicker T
Eur. J. Org. Chem. 2015 (3) 638-646 [2015-01-00; online 2014-12-11]
Drug Discovery and Development (DDD) [Collaborative]
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A Machine Learning Approach to Explain Drug Selectivity to Soluble and Membrane Protein Targets.
Freyhult E, Gustafsson MG, Strömbergsson H
Mol Inform 34 (1) 44-52 [2015-01-00; online 2015-01-08]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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The effect of N-methylation of amino acids (Ac-X-OMe) on solubility and conformation: a DFT study
Md. Abdur Rauf S, Arvidsson PI, Albericio F, ..., Kruger HG, Honarparvar B
Org. Biomol. Chem. 13 (39) 9993-10006 [2015-00-00; online 2015-00-00]
Drug Discovery and Development (DDD) [Collaborative]
DOI Crossref
Pd-catalyzed C–N coupling of vinylbromides and sulfonimidamides: a facile synthesis of N′-vinylsulfonimidamides
Nandi GC, Kota SR, Wakchaure PB, ..., Naicker T, Arvidsson PI
RSC Adv. 5 (76) 62084-62090 [2015-00-00; online 2015-00-00]
Drug Discovery and Development (DDD) [Technology development]
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Cytotoxicity, &lt;i&gt;in Vivo&lt;/i&gt; Skin Irritation and Acute Systemic Toxicity of the Mesoporous Magnesium Carbonate Upsalite&lt;sup&gt;&#174;&lt;/sup&gt;
Frykstrand S, Forsgren J, Zhang P, Strømme M, Ferraz N
JBNB 06 (04) 257-266 [2015-00-00; online 2015-00-00]
BioMaterial Interactions (BioMat)
DOI Crossref
Anti-Obesity Effects and Metabolism in DIO Mice of a Novel Hybrid Lipid with Lauric and Lipoic Acid
Madawala SR
J Obes Weight Loss Ther 05 (02) - [2015-00-00; online 2015-00-00]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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A novel cytosolic NADH:quinone oxidoreductase fromMethanothermobacter marburgensis
Ullmann E, Tan TC, Gundinger T, ..., Divne C, Spadiut O
Biosci. Rep. 34 (6) 893-904 [2014-12-23; online 2014-12-23]
Protein Science Facility (PSF) [Service]
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Inhibitory Activity of the Isoflavone Biochanin A on Intracellular Bacteria of Genus Chlamydia and Initial Development of a Buccal Formulation
Hanski L, Genina N, Uvell H, ..., Sandler N, Vuorela PM
PLoS ONE 9 (12) e115115 [2014-12-16; online 2014-12-16]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Exploration and pharmacokinetic profiling of phenylalanine based carbamates as novel substance p 1-7 analogues.
Fransson R, Nordvall G, Bylund J, ..., Hallberg M, Sandström A
ACS Med Chem Lett 5 (12) 1272-1277 [2014-12-11; online 2014-10-29]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Sensitive detection of aggregated prion protein via proximity ligation.
Hammond M, Wik L, Deslys JP, ..., Landegren U, Kamali-Moghaddam M
Prion 8 (3) 261-265 [2014-12-09; online 2014-12-09]
Affinity Proteomics Uppsala [Technology development] Clinical Biomarkers PLA and Single Cell Proteomics [Technology development]
PubMed DOI Crossref
Inhibition of tumor cell proliferation and motility by fibroblasts is both contact and soluble factor dependent.
Alkasalias T, Flaberg E, Kashuba V, ..., Klein G, Guven H
Proc. Natl. Acad. Sci. U.S.A. 111 (48) 17188-17193 [2014-12-02; online 2014-11-19]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Vinylated linear P2 pyrimidinyloxyphenylglycine based inhibitors of the HCV NS3/4A protease and corresponding macrocycles.
Lampa A, Alogheli H, Ehrenberg AE, ..., Karlén A, Sandström A
Bioorg. Med. Chem. 22 (23) 6595-6615 [2014-12-01; online 2014-12-03]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Both Lewis and secretor status mediate susceptibility to rotavirus infections in a rotavirus genotype-dependent manner.
Nordgren J, Sharma S, Bucardo F, ..., Larson G, Svensson L
Clin. Infect. Dis. 59 (11) 1567-1573 [2014-12-01; online 2014-08-07]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
An outbreak of respiratory tularemia caused by diverse clones of Francisella tularensis.
Johansson A, Lärkeryd A, Widerström M, ..., Forsman M, Larsson P
Clin. Infect. Dis. 59 (11) 1546-1553 [2014-12-01; online 2014-08-05]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
The lung-specific proteome defined by integration of transcriptomics and antibody-based profiling.
Lindskog C, Fagerberg L, Hallström B, ..., Pontén F, Micke P
FASEB J. 28 (12) 5184-5196 [2014-12-00; online 2014-08-28]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Tissue Profiling [Collaborative]
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Studies of plant colonisation by closely related Bacillus amyloliquefaciens biocontrol agents using strain specific quantitative PCR assays.
Johansson AH, Bejai S, Niazi A, ..., Bongcam-Rudloff E, Meijer J
Antonie Van Leeuwenhoek 106 (6) 1247-1257 [2014-12-00; online 2014-10-09]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Serotonin receptor gene (5HT-2A) polymorphism is associated with provoked vestibulodynia and comorbid symptoms of pain.
Heddini U, Bohm-Starke N, Grönbladh A, ..., Nilsson KW, Johannesson U
J Sex Med 11 (12) 3064-3071 [2014-12-00; online 2014-09-02]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Peritoneal carcinomatosis from small intestinal neuroendocrine tumors: Clinical course and genetic profiling.
Norlén O, Edfeldt K, Akerstrom G, ..., Bjorklund P, Stalberg P
Surgery 156 (6) 1512-21; discussion 1521-2 [2014-12-00; online 2014-11-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Large-scale metabolomic profiling identifies novel biomarkers for incident coronary heart disease.
Ganna A, Salihovic S, Sundström J, ..., Fall T, Ingelsson E
PLoS Genet. 10 (12) e1004801 [2014-12-00; online 2014-12-11]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] PLA and Single Cell Proteomics [Service]
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Intragenic duplication--a novel causative mechanism for SATB2-associated syndrome.
Liedén A, Kvarnung M, Nilssson D, Sahlin E, Lundberg ES
Am. J. Med. Genet. A 164A (12) 3083-3087 [2014-12-00; online 2014-09-25]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Insights into conifer giga-genomes.
De La Torre AR, Birol I, Bousquet J, ..., Zerbe P, Bohlmann J
Plant Physiol. 166 (4) 1724-1732 [2014-12-00; online 2014-10-29]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Inhibition of Insulin-Regulated Aminopeptidase (IRAP) by Arylsulfonamides.
Borhade SR, Rosenström U, Sävmarker J, ..., Larhed M, Hallberg M
ChemistryOpen 3 (6) 256-263 [2014-12-00; online 2014-11-21]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Collaborative]
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Gene expression associated with intersterility in Heterobasidion
Van der Nest MA, Olson Å, Karlsson M, ..., Wingfield BD, Stenlid J
Fungal Genetics and Biology 73 (-) 104-119 [2014-12-00; online 2014-12-00]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Evaluation of efficacy of a new MEK inhibitor, RO4987655, in human tumor xenografts by [(18)F] FDG-PET imaging combined with proteomic approaches.
Tegnebratt T, Ruge E, Bader S, ..., Tessier J, Stone-Elander S
EJNMMI Res 4 (1) 34 [2014-12-00; online 2014-09-09]
Fluorescence Tissue Profiling
PubMed DOI Crossref
Efficient application of next-generation sequencing for the diagnosis of rare genetic syndromes.
Madrigal I, Alvarez-Mora MI, Karlberg O, ..., Syvänen AC, Milà M
J. Clin. Pathol. 67 (12) 1099-1103 [2014-12-00; online 2014-10-02]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Donor or recipient origin of posttransplant lymphoproliferative disorders following solid organ transplantation.
Kinch A, Cavelier L, Bengtsson M, ..., Sundström C, Pauksens K
Am. J. Transplant. 14 (12) 2838-2845 [2014-12-00; online 2014-10-10]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Common genetic variants highlight the role of insulin resistance and body fat distribution in type 2 diabetes, independent of obesity.
Scott RA, Fall T, Pasko D, ..., Langenberg C, Wareham NJ
Diabetes 63 (12) 4378-4387 [2014-12-00; online 2014-06-19]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Applying polygenic risk scores to postpartum depression.
Byrne EM, Carrillo-Roa T, Penninx BW, ..., Meltzer-Brody S, Wray NR
Arch Womens Ment Health 17 (6) 519-528 [2014-12-00; online 2014-07-19]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
High opsin diversity in a non-visual infaunal brittle star.
Delroisse J, Ullrich-Lüter E, Ortega-Martinez O, ..., Mallefet J, Flammang P
BMC Genomics 15 (-) 1035 [2014-11-28; online 2014-11-28]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Complete Genome Sequence of Francisella endociliophora Strain FSC1006, Isolated from a Laboratory Culture of the Marine Ciliate Euplotes raikovi.
Sjödin A, Ohrman C, Bäckman S, ..., Stenberg P, Thelaus J
Genome Announc 2 (6) - [2014-11-26; online 2014-11-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
1p36 deletion is a marker for tumour dissemination in microsatellite stable stage II-III colon cancer.
Mayrhofer M, Kultima HG, Birgisson H, ..., Glimelius B, Isaksson A
BMC Cancer 14 (-) 872 [2014-11-24; online 2014-11-24]
Array and Analysis Facility
PubMed DOI Crossref
The Eph tyrosine kinase receptors EphB2 and EphA2 are novel proteolytic substrates of tissue factor/coagulation factor VIIa.
Eriksson O, Ramström M, Hörnaeus K, ..., Mokhtari D, Siegbahn A
J. Biol. Chem. 289 (47) 32379-32391 [2014-11-21; online 2014-10-05]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
DOI Crossref
Microwave Heated Flow Synthesis of Spiro-oxindole Dihydroquinazolinone Based IRAP Inhibitors
Engen K, Sävmarker J, Rosenström U, ..., Jenmalm-Jensen A, Larhed M
Org. Process Res. Dev. 18 (11) 1582-1588 [2014-11-21; online 2014-10-16]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Growth differentiation factor 15, a marker of oxidative stress and inflammation, for risk assessment in patients with atrial fibrillation: insights from the Apixaban for Reduction in Stroke and Other Thromboembolic Events in Atrial Fibrillation (ARISTOTLE) trial.
Wallentin L, Hijazi Z, Andersson U, ..., Siegbahn A, ARISTOTLE Investigators
Circulation 130 (21) 1847-1858 [2014-11-18; online 2014-10-07]
Affinity Proteomics Uppsala [Technology development] Clinical Biomarkers PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Metagenomic approaches to disclose disease-associated pathogens: detection of viral pathogens in honeybees.
Granberg F, Karlsson OE, Belák S
Methods Mol. Biol. 1247 (-) 491-511 [2014-11-17; online 2014-11-17]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Pathway analysis of cervical cancer genome-wide association study highlights the MHC region and pathways involved in response to infection.
Chen D, Enroth S, Ivansson E, Gyllensten U
Hum. Mol. Genet. 23 (22) 6047-6060 [2014-11-15; online 2014-06-18]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Leachability and desorption of PCBs from soil and their dependency on pH and dissolved organic matter.
Badea SL, Mustafa M, Lundstedt S, Tysklind M
Sci. Total Environ. 499 (-) 220-227 [2014-11-15; online 2014-09-07]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Genomic identification and characterization of the pseudoautosomal region in highly differentiated avian sex chromosomes
Smeds L, Kawakami T, Burri R, ..., Uebbing S, Ellegren H
Nat Commun 5 (-) 5448 [2014-11-07; online 2014-11-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Defining the human adipose tissue proteome to reveal metabolic alterations in obesity.
Mardinoglu A, Kampf C, Asplund A, ..., Uhlen M, Nielsen J
J. Proteome Res. 13 (11) 5106-5119 [2014-11-07; online 2014-09-16]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Tissue Profiling
PubMed DOI Crossref
Analysis of autoantibody profiles in osteoarthritis using comprehensive protein array concepts.
Henjes F, Lourido L, Ruiz-Romero C, ..., Nilsson P, Fuentes M
J. Proteome Res. 13 (11) 5218-5229 [2014-11-07; online 2014-10-09]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Affinity proteomic profiling of plasma, cerebrospinal fluid, and brain tissue within multiple sclerosis.
Byström S, Ayoglu B, Häggmark A, ..., Nilsson P, Schwenk JM
J. Proteome Res. 13 (11) 4607-4619 [2014-11-07; online 2014-09-19]
Affinity Proteomics Stockholm [Collaborative] Fluorescence Tissue Profiling
PubMed DOI Crossref
Multimodal fluorescence microscopy of prion strain specific PrP deposits stained by thiophene-based amyloid ligands.
Magnusson K, Simon R, Sjölander D, ..., Hammarström P, Nilsson KP
Prion 8 (4) 319-329 [2014-11-01; online 2014-11-01]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Aberrantly activated claudin 6 and 18.2 as potential therapy targets in non-small-cell lung cancer.
Micke P, Mattsson JS, Edlund K, ..., Sahin U, Türeci O
Int. J. Cancer 135 (9) 2206-2214 [2014-11-01; online 2014-04-09]
Tissue Profiling
PubMed DOI Crossref
Replicability and robustness of genome-wide-association studies for behavioral traits.
Rietveld CA, Conley D, Eriksson N, ..., Koellinger PD, Social Science Genetics Association Consortium
Psychol Sci 25 (11) 1975-1986 [2014-11-00; online 2014-10-06]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Parallel barcoding of antibodies for DNA-assisted proteomics.
Dezfouli M, Vickovic S, Iglesias MJ, Schwenk JM, Ahmadian A
Proteomics 14 (21-22) 2432-2436 [2014-11-00; online 2014-09-30]
Affinity Proteomics Stockholm [Technology development] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Integration of genome-wide of Stat3 binding and epigenetic modification mapping with transcriptome reveals novel Stat3 target genes in glioma cells.
Kruczyk M, Przanowski P, Dabrowski M, ..., Kaminska B, Komorowski J
Biochim. Biophys. Acta 1839 (11) 1341-1350 [2014-11-00; online 2014-08-12]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Human isolates of Listeria monocytogenes in Sweden during half a century (1958-2010).
Lopez-Valladares G, Tham W, Parihar VS, ..., Henriques-Normark B, Danielsson-Tham ML
Epidemiol. Infect. 142 (11) 2251-2260 [2014-11-00; online 2014-02-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Fat mass and obesity-associated gene (FTO) is linked to higher plasma levels of the hunger hormone ghrelin and lower serum levels of the satiety hormone leptin in older adults.
Benedict C, Axelsson T, Söderberg S, ..., Lind L, Schiöth HB
Diabetes 63 (11) 3955-3959 [2014-11-00; online 2014-06-06]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Evolution reveals a glutathione-dependent mechanism of 3-hydroxypropionic acid tolerance.
Kildegaard KR, Hallström BM, Blicher TH, ..., Nielsen J, Borodina I
Metab. Eng. 26 (-) 57-66 [2014-11-00; online 2014-09-30]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Estimation of linkage disequilibrium and interspecific gene flow in Ficedula flycatchers by a newly developed 50k single-nucleotide polymorphism array.
Kawakami T, Backström N, Burri R, ..., Qvarnström A, Ellegren H
Mol Ecol Resour 14 (6) 1248-1260 [2014-11-00; online 2014-05-03]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Defining the role of common variation in the genomic and biological architecture of adult human height.
Wood AR, Esko T, Yang J, ..., Hirschhorn JN, Frayling TM
Nat. Genet. 46 (11) 1173-1186 [2014-11-00; online 2014-10-06]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Defining the human gallbladder proteome by transcriptomics and affinity proteomics.
Kampf C, Mardinoglu A, Fagerberg L, ..., Pontén F, Uhlen M
Proteomics 14 (21-22) 2498-2507 [2014-11-00; online 2014-09-02]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Tissue Profiling
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Cesarean delivery and hematopoietic stem cell epigenetics in the newborn infant: implications for future health?
Almgren M, Schlinzig T, Gomez-Cabrero D, ..., Norman M, Ekström TJ
Am. J. Obstet. Gynecol. 211 (5) 502.e1-502.e8 [2014-11-00; online 2014-07-06]
Bioinformatics and Expression Analysis (BEA)
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Binning metagenomic contigs by coverage and composition.
Alneberg J, Bjarnason BS, de Bruijn I, ..., Andersson AF, Quince C
Nat. Methods 11 (11) 1144-1146 [2014-11-00; online 2014-09-15]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Bcl-2 maintains the mitochondrial membrane potential, but fails to affect production of reactive oxygen species and endoplasmic reticulum stress, in sodium palmitate-induced β-cell death.
Wang X, Welsh N
Ups. J. Med. Sci. 119 (4) 306-315 [2014-11-00; online 2014-10-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Antibody validation of immunohistochemistry for biomarker discovery: recommendations of a consortium of academic and pharmaceutical based histopathology researchers.
Howat WJ, Lewis A, Jones P, ..., Womack C, Warford A
Methods 70 (1) 34-38 [2014-11-00; online 2014-02-15]
Tissue Profiling
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Abolished InsP3R2 function inhibits sweat secretion in both humans and mice.
Klar J, Hisatsune C, Baig SM, ..., Mikoshiba K, Dahl N
J. Clin. Invest. 124 (11) 4773-4780 [2014-11-00; online 2014-10-20]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Melanoma patient-derived xenografts accurately model the disease and develop fast enough to guide treatment decisions.
Einarsdottir BO, Bagge RO, Bhadury J, ..., Ny L, Nilsson JA
Oncotarget 5 (20) 9609-9618 [2014-10-30; online 2014-09-18]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Populus tremula (European aspen) shows no evidence of sexual dimorphism.
Robinson KM, Delhomme N, Mähler N, ..., Jansson S, Street NR
BMC Plant Biol. 14 (-) 276 [2014-10-16; online 2014-10-16]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Allelic expression mapping across cellular lineages to establish impact of non-coding SNPs.
Adoue V, Schiavi A, Light N, ..., Syvänen A, Pastinen T
Mol. Syst. Biol. 10 (-) 754 [2014-10-16; online 2014-10-16]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Identification of 33 candidate oncogenes by screening for base-specific mutations.
Tuupanen S, Hänninen UA, Kondelin J, ..., Pitkänen E, Aaltonen LA
Br. J. Cancer 111 (8) 1657-1662 [2014-10-14; online 2014-08-15]
Karolinska High Throughput Center (KHTC)
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Human genetic evidence for involvement of CD137 in atherosclerosis.
Söderström LÅ, Gertow K, Folkersen L, ..., Hansson GK, Olofsson PS
Mol. Med. 20 (-) 456-465 [2014-10-14; online 2014-07-18]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Inter- and intratumoral heterogeneity of BCL2 correlates with IgH expression and prognosis in follicular lymphoma.
Barreca A, Martinengo C, Annaratone L, ..., van Oudenaarden A, Chiarle R
Blood Cancer J 4 (-) e249 [2014-10-10; online 2014-10-10]
Advanced FISH Technologies [Collaborative]
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Gene and protein expression and cellular localisation of cytochrome P450 enzymes of the 1A, 2A, 2C, 2D and 2E subfamilies in equine intestine and liver.
Tydén E, Tjälve H, Larsson P
Acta Vet. Scand. 56 (-) 69 [2014-10-08; online 2014-10-08]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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CanvasDB: a local database infrastructure for analysis of targeted- and whole genome re-sequencing projects.
Ameur A, Bunikis I, Enroth S, Gyllensten U
Database (Oxford) 2014 (-) - [2014-10-03; online 2014-10-03]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Biofuels. Altered sterol composition renders yeast thermotolerant.
Caspeta L, Chen Y, Ghiaci P, ..., Petranovic D, Nielsen J
Science 346 (6205) 75-78 [2014-10-03; online 2014-10-02]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Parent-of-origin-specific allelic associations among 106 genomic loci for age at menarche.
Perry JR, Day F, Elks CE, ..., Murabito JM, Ong KK
Nature 514 (7520) 92-97 [2014-10-02; online 2014-07-23]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Acetate availability and utilization supports the growth of mutant sub-populations on aging bacterial colonies.
Bergman JM, Wrande M, Hughes D
PLoS ONE 9 (10) e109255 [2014-10-02; online 2014-10-02]
Mass Spectrometry-based Proteomics, Uppsala
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Uneven distribution of human papillomavirus 16 in cervical carcinoma in situ and squamous cell carcinoma in older females: A retrospective database study.
Andersson S, Mints M, Gyllensten U, ..., Lambe M, Wilander E
Oncol Lett 8 (4) 1528-1532 [2014-10-00; online 2014-09-10]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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The human skeletal muscle transcriptome: sex differences, alternative splicing, and tissue homogeneity assessed with RNA sequencing.
Lindholm ME, Huss M, Solnestam BW, ..., Lundeberg J, Sundberg CJ
FASEB J. 28 (10) 4571-4581 [2014-10-00; online 2014-07-11]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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The DMRT3 'Gait keeper' mutation affects performance of Nordic and Standardbred trotters.
Jäderkvist K, Andersson LS, Johansson AM, ..., Andersson L, Lindgren G
J. Anim. Sci. 92 (10) 4279-4286 [2014-10-00; online 2014-08-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Signals that regulate the oncogenic fate of neural stem cells and progenitors.
Swartling FJ, Bolin S, Phillips JJ, Persson AI
Exp. Neurol. 260 (-) 56-68 [2014-10-00; online 2013-02-05]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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NPSR1 polymorphisms influence recurrent abdominal pain in children: a population-based study.
Henström M, Zucchelli M, Söderhäll C, ..., Olén O, D'Amato M
Neurogastroenterol. Motil. 26 (10) 1417-1425 [2014-10-00; online 2014-08-05]
Mutation Analysis Facility (MAF)
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Medium from γ-irradiated Escherichia coli bacteria stimulates a unique immune response in Drosophila cells.
Lindberg BG, Oldenvi S, Steiner H
Dev. Comp. Immunol. 46 (2) 392-400 [2014-10-00; online 2014-06-04]
Bioinformatics and Expression Analysis (BEA)
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In situ sequencing identifies TMPRSS2-ERG fusion transcripts, somatic point mutations and gene expression levels in prostate cancers.
Kiflemariam S, Mignardi M, Ali MA, ..., Nilsson M, Sjöblom T
J. Pathol. 234 (2) 253-261 [2014-10-00; online 2014-08-04]
Tissue Profiling
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HemR is an OmpR/PhoB-like response regulator from Leptospira, which simultaneously effects transcriptional activation and repression of key haem metabolism genes.
Morero NR, Botti H, Nitta KR, ..., Picardeau M, Buschiazzo A
Mol. Microbiol. 94 (2) 340-352 [2014-10-00; online 2014-08-26]
Karolinska High Throughput Center (KHTC)
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Evidence for autosomal recessive inheritance in SPG3A caused by homozygosity for a novel ATL1 missense mutation.
Khan TN, Klar J, Tariq M, ..., Baig SM, Dahl N
Eur. J. Hum. Genet. 22 (10) 1180-1184 [2014-10-00; online 2014-01-30]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Epoxy alcohol synthase of the rice blast fungus represents a novel subfamily of dioxygenase-cytochrome P450 fusion enzymes.
Hoffmann I, Jernerén F, Oliw EH
J. Lipid Res. 55 (10) 2113-2123 [2014-10-00; online 2014-08-15]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Design of a general-purpose European compound screening library for EU-OPENSCREEN.
Horvath D, Lisurek M, Rupp B, ..., Quintana J, Frank R
ChemMedChem 9 (10) 2309-2326 [2014-10-00; online 2014-07-15]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
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Controversies inASSAY and Drug Development Technologies: A Focus on Assessing Irreproducibility
Glickman JF, Lundbäck T, Napper AD, ..., Zaman GJR, Osada H
ASSAY and Drug Development Technologies 12 (8) 443-451 [2014-10-00; online 2014-10-00]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
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Analyses of historical and current populations of black grouse in Central Europe reveal strong effects of genetic drift and loss of genetic diversity
Segelbacher G, Strand TM, Quintela M, ..., Koelewijn HP, Höglund J
Conserv Genet 15 (5) 1183-1195 [2014-10-00; online 2014-04-27]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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A worldwide survey of genome sequence variation provides insight into the evolutionary history of the honeybee Apis mellifera.
Wallberg A, Han F, Wellhagen G, ..., Pirk CW, Webster MT
Nat. Genet. 46 (10) 1081-1088 [2014-10-00; online 2014-08-26]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Human cytomegalovirus tegument protein pp65 is detected in all intra- and extra-axial brain tumours independent of the tumour type or grade.
Libard S, Popova SN, Amini RM, ..., Ponten F, Alafuzoff I
PLoS ONE 9 (9) e108861 [2014-09-30; online 2014-09-30]
Tissue Profiling
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The Chironomus tentans genome sequence and the organization of the Balbiani ring genes.
Kutsenko A, Svensson T, Nystedt B, ..., Visa N, Wieslander L
BMC Genomics 15 (-) 819 [2014-09-27; online 2014-09-27]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Plasmidome interchange between Clostridium botulinum, Clostridium novyi and Clostridium haemolyticum converts strains of independent lineages into distinctly different pathogens.
Skarin H, Segerman B
PLoS ONE 9 (9) e107777 [2014-09-25; online 2014-09-25]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Oncoprotein stabilization in brain tumors.
Hede SM, Savov V, Weishaupt H, Sangfelt O, Swartling FJ
Oncogene 33 (39) 4709-4721 [2014-09-25; online 2013-10-30]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Glial origin of mesenchymal stem cells in a tooth model system.
Kaukua N, Shahidi MK, Konstantinidou C, ..., Fried K, Adameyko I
Nature 513 (7519) 551-554 [2014-09-25; online 2014-08-01]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Evidence that breast cancer risk at the 2q35 locus is mediated through IGFBP5 regulation.
Ghoussaini M, Edwards SL, Michailidou K, ..., Dunning AM, Australian Ovarian Cancer Management Group
Nat Commun 4 (1) 4999 [2014-09-23; online 2014-09-23]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Common genetic variants associated with cognitive performance identified using the proxy-phenotype method.
Rietveld CA, Esko T, Davies G, ..., Cesarini D, Koellinger PD
Proc. Natl. Acad. Sci. U.S.A. 111 (38) 13790-13794 [2014-09-23; online 2014-09-08]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Histidine-rich glycoprotein uptake and turnover is mediated by mononuclear phagocytes.
Tugues S, Roche F, Noguer O, ..., Tolmachev V, Claesson-Welsh L
PLoS ONE 9 (9) e107483 [2014-09-22; online 2014-09-22]
Tissue Profiling
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Distinguishing between driver and passenger mutations in individual cancer genomes by network enrichment analysis.
Merid SK, Goranskaya D, Alexeyenko A
BMC Bioinformatics 15 (-) 308 [2014-09-19; online 2014-09-19]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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A universal approach to prepare reagents for DNA-assisted protein analysis.
Yan J, Gu GJ, Jost C, ..., Landegren U, Kamali-Moghaddam M
PLoS ONE 9 (9) e108061 [2014-09-18; online 2014-09-18]
Affinity Proteomics Uppsala [Technology development] Clinical Biomarkers PLA and Single Cell Proteomics [Technology development]
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Characterization of stem-like cells in mucoepidermoid tracheal paediatric tumor.
Lim ML, Ooi BN, Jungebluth P, ..., Ahrlund-Richter L, Macchiarini P
PLoS ONE 9 (9) e107712 [2014-09-17; online 2014-09-17]
Bioinformatics and Expression Analysis (BEA)
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Structural and functional characterization of ochratoxinase, a novel mycotoxin-degrading enzyme.
Dobritzsch D, Wang H, Schneider G, Yu S
Biochem. J. 462 (3) 441-452 [2014-09-15; online 2014-06-21]
Protein Science Facility (PSF)
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The DEK oncoprotein binds to highly and ubiquitously expressed genes with a dual role in their transcriptional regulation.
Sandén C, Järvstråt L, Lennartsson A, ..., Nilsson B, Gullberg U
Mol. Cancer 13 (-) 215 [2014-09-12; online 2014-09-12]
Bioinformatics and Expression Analysis (BEA) NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Genome-wide analysis reveals DNA methylation markers that vary with both age and obesity.
Almén MS, Nilsson EK, Jacobsson JA, ..., Fredriksson R, Schiöth HB
Gene 548 (1) 61-67 [2014-09-10; online 2014-07-11]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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The prognostic value and therapeutic target role of stathmin-1 in urinary bladder cancer.
Hemdan T, Lindén M, Lind SB, ..., Malmström PU, Segersten U
Br. J. Cancer 111 (6) 1180-1187 [2014-09-09; online 2014-07-29]
Tissue Profiling [Collaborative]
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The Glanville fritillary genome retains an ancient karyotype and reveals selective chromosomal fusions in Lepidoptera.
Ahola V, Lehtonen R, Somervuo P, ..., Frilander MJ, Hanski I
Nat Commun 5 (-) 4737 [2014-09-05; online 2014-09-05]
Karolinska High Throughput Center (KHTC)
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Neu-Laxova syndrome is a heterogeneous metabolic disorder caused by defects in enzymes of the L-serine biosynthesis pathway.
Acuna-Hidalgo R, Schanze D, Kariminejad A, ..., Hoischen A, Zenker M
Am. J. Hum. Genet. 95 (3) 285-293 [2014-09-04; online 2014-08-26]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Abstract of the 35th Scandinavian Congress of Rheumatology, September 20-23, 2014, Stockholm, Sweden.
Scand J Rheumatol Suppl 43 (127) 1-97 [2014-09-04; online 2014-09-04]
Clinical Proteomics Mass spectrometry
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Predictive urinary biomarkers for steroid-resistant and steroid-sensitive focal segmental glomerulosclerosis using high resolution mass spectrometry and multivariate statistical analysis.
Kalantari S, Nafar M, Rutishauser D, ..., Yang H, Zubarev RA
BMC Nephrol 15 (-) 141 [2014-09-02; online 2014-09-02]
Advanced Mass Spectrometry Proteomics
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Metagenomics reveals that detoxification systems are underrepresented in marine bacterial communities.
Bengtsson-Palme J, Alm Rosenblad M, Molin M, Blomberg A
BMC Genomics 15 (-) 749 [2014-09-01; online 2014-09-01]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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An integrative analysis of the tumorigenic role of TAZ in human non-small cell lung cancer.
Noguchi S, Saito A, Horie M, ..., Micke P, Nagase T
Clin. Cancer Res. 20 (17) 4660-4672 [2014-09-01; online 2014-06-22]
Tissue Profiling
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Sexual structures and recombination of the wheat rust fungus Puccinia striiformis on Berberis vulgaris.
Rodriguez-Algaba J, Walter S, Sørensen CK, Hovmøller MS, Justesen AF
Fungal Genet. Biol. 70 (-) 77-85 [2014-09-00; online 2014-07-22]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Recurrent GATA1 mutations in Diamond-Blackfan anaemia.
Klar J, Khalfallah A, Arzoo PS, Gazda HT, Dahl N
Br. J. Haematol. 166 (6) 949-951 [2014-09-00; online 2014-04-29]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Productivity and salinity structuring of the microplankton revealed by comparative freshwater metagenomics
Eiler A, Zaremba‐Niedzwiedzka K, Martínez‐García M, ..., Andersson SGE, Bertilsson S
Environ Microbiol 16 (9) 2682-2698 [2014-09-00; online 2013-11-12]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Picocyanobacteria containing a novel pigment gene cluster dominate the brackish water Baltic Sea.
Larsson J, Celepli N, Ininbergs K, ..., Bergman B, Ekman M
ISME J 8 (9) 1892-1903 [2014-09-00; online 2014-03-14]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Interactive effects of KIBRA and CLSTN2 polymorphisms on episodic memory in old-age unipolar depression.
Pantzar A, Laukka EJ, Atti AR, ..., Fratiglioni L, Bäckman L
Neuropsychologia 62 (-) 137-142 [2014-09-00; online 2014-08-01]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Identification of three novel FGF16 mutations in X-linked recessive fusion of the fourth and fifth metacarpals and possible correlation with heart disease.
Laurell T, Nilsson D, Hofmeister W, ..., Grigelioniene G, Nordgren A
Mol Genet Genomic Med 2 (5) 402-411 [2014-09-00; online 2014-05-14]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Hypomethylated pollen bypasses the interploidy hybridization barrier in Arabidopsis.
Schatlowski N, Wolff P, Santos-González J, ..., Tamaru H, Köhler C
Plant Cell 26 (9) 3556-3568 [2014-09-00; online 2014-09-12]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genome of the avirulent human-infective trypanosome--Trypanosoma rangeli.
Stoco PH, Wagner G, Talavera-Lopez C, ..., de Vasconcelos AT, Grisard EC
PLoS Negl Trop Dis 8 (9) e3176 [2014-09-00; online 2014-09-18]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Do the same genes underlie parallel phenotypic divergence in different Littorina saxatilis populations?
Westram AM, Galindo J, Alm Rosenblad M, ..., Panova M, Butlin RK
Mol. Ecol. 23 (18) 4603-4616 [2014-09-00; online 2014-08-13]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
DOI Crossref
Cu(OAc)2 promoted Chan–Evans–Lam C–N cross coupling reactions on the N- and N′-nitrogen atoms of sulfonimidamides with aryl boronic acids
Nandi GC, Kota SR, Govender T, Kruger HG, Arvidsson PI
Tetrahedron 70 (35) 5428-5433 [2014-09-00; online 2014-09-00]
Drug Discovery and Development (DDD) [Technology development]
PubMed DOI Crossref
Splicing in the human brain.
Zaghlool A, Ameur A, Cavelier L, Feuk L
Int. Rev. Neurobiol. 116 (-) 95-125 [2014-08-31; online 2014-08-31]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Structural basis for regulation of the human acetyl-CoA thioesterase 12 and interactions with the steroidogenic acute regulatory protein-related lipid transfer (START) domain.
Swarbrick CM, Roman N, Cowieson N, ..., Lehtiö L, Forwood JK
J. Biol. Chem. 289 (35) 24263-24274 [2014-08-29; online 2014-07-09]
Protein Science Facility (PSF)
PubMed DOI Crossref
Rabbit genome analysis reveals a polygenic basis for phenotypic change during domestication.
Carneiro M, Rubin CJ, Di Palma F, ..., Lindblad-Toh K, Andersson L
Science 345 (6200) 1074-1079 [2014-08-29; online 2014-08-30]
Bioinformatics Support for Computational Resources NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Deep amplicon sequencing of preselected isolates of Parascaris equorum in β-tubulin codons associated with benzimidazole resistance in other nematodes.
Tydén E, Dahlberg J, Karlberg O, Höglund J
Parasit Vectors 7 (-) 410 [2014-08-29; online 2014-08-29]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
DOI Crossref
The Arthonialean challenge: Restructuring Arthoniaceae
Frisch A, Thor G, Ertz D, Grube M
Taxon 63 (4) 727-744 [2014-08-28; online 2014-08-28]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
A multicentre hospital outbreak in Sweden caused by introduction of a vanB2 transposon into a stably maintained pRUM-plasmid in an Enterococcus faecium ST192 clone.
Sivertsen A, Billström H, Melefors Ö, ..., Sundsfjord A, Hegstad K
PLoS ONE 9 (8) e103274 [2014-08-25; online 2014-08-25]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Strong effects of genetic and lifestyle factors on biomarker variation and use of personalized cutoffs.
Enroth S, Johansson A, Enroth SB, Gyllensten U
Nat Commun 5 (1) 4684 [2014-08-22; online 2014-08-22]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Small RNA sequence analysis of adenovirus VA RNA-derived miRNAs reveals an unexpected serotype-specific difference in structure and abundance.
Kamel W, Segerman B, Punga T, Akusjärvi G
PLoS ONE 9 (8) e105746 [2014-08-21; online 2014-08-21]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Missing genes, multiple ORFs, and C-to-U type RNA editing in Acrasis kona (Heterolobosea, Excavata) mitochondrial DNA.
Fu CJ, Sheikh S, Miao W, Andersson SG, Baldauf SL
Genome Biol Evol 6 (9) 2240-2257 [2014-08-21; online 2014-08-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Winter bloom of a rare betaproteobacterium in the Arctic Ocean.
Alonso-Sáez L, Zeder M, Harding T, ..., Bertilsson S, Pedrós-Alió C
Front Microbiol 5 (-) 425 [2014-08-20; online 2014-08-20]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Meta-analysis in more than 17,900 cases of ischemic stroke reveals a novel association at 12q24.12.
Kilarski LL, Achterberg S, Devan WJ, ..., Bevan S, GARNET Collaborative Research Group WTCCC2ASGCtMCatISGC
Neurology 83 (8) 678-685 [2014-08-19; online 2014-07-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Tandem RNA chimeras contribute to transcriptome diversity in human population and are associated with intronic genetic variants.
Greger L, Su J, Rung J, ..., Dermitzakis ET, Brazma A
PLoS ONE 9 (8) e104567 [2014-08-18; online 2014-08-18]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Species and gene divergence in Littorina snails detected by array comparative genomic hybridization.
Panova M, Johansson T, Canbäck B, ..., Tunlid A, André C
BMC Genomics 15 (-) 687 [2014-08-18; online 2014-08-18]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Evaluation of exome sequencing to estimate tumor burden in plasma.
Klevebring D, Neiman M, Sundling S, ..., Grönberg H, Lindberg J
PLoS ONE 9 (8) e104417 [2014-08-18; online 2014-08-18]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
BESST--efficient scaffolding of large fragmented assemblies.
Sahlin K, Vezzi F, Nystedt B, Lundeberg J, Arvestad L
BMC Bioinformatics 15 (-) 281 [2014-08-15; online 2014-08-15]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Genome analysis of Bacillus amyloliquefaciens Subsp. plantarum UCMB5113: a rhizobacterium that improves plant growth and stress management.
Niazi A, Manzoor S, Asari S, ..., Meijer J, Bongcam-Rudloff E
PLoS ONE 9 (8) e104651 [2014-08-13; online 2014-08-13]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
The cellular thermal shift assay for evaluating drug target interactions in cells
Jafari R, Almqvist H, Axelsson H, ..., Nordlund P, Molina DM
Nat Protoc 9 (9) 2100-2122 [2014-08-07; online 2014-08-07]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
PubMed DOI Crossref
Common genetic determinants of lung function, subclinical atherosclerosis and risk of coronary artery disease.
Sabater-Lleal M, Mälarstig A, Folkersen L, ..., Tobin MD, Hamsten A
PLoS ONE 9 (8) e104082 [2014-08-05; online 2014-08-05]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Differences in gene expression between mouse and human for dynamically regulated genes in early embryo.
Madissoon E, Töhönen V, Vesterlund L, ..., Hovatta O, Kere J
PLoS ONE 9 (8) e102949 [2014-08-04; online 2014-08-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
IgA measurements in over 12 000 Swedish twins reveal sex differential heritability and regulatory locus near CD30L.
Viktorin A, Frankowiack M, Padyukov L, ..., Hammarström L, Magnusson PK
Hum. Mol. Genet. 23 (15) 4177-4184 [2014-08-01; online 2014-03-27]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exome sequencing reveals frequent inactivating mutations in ARID1A, ARID1B, ARID2 and ARID4A in microsatellite unstable colorectal cancer.
Cajuso T, Hänninen UA, Kondelin J, ..., Kilpivaara O, Vahteristo P
Int. J. Cancer 135 (3) 611-623 [2014-08-01; online 2014-01-03]
Karolinska High Throughput Center (KHTC)
PubMed DOI Crossref
Analysis of candidate genes for lineage-specific expression changes in humans and primates.
Lindskog C, Kuhlwilm M, Davierwala A, ..., Pääbo S, Pontén F
J. Proteome Res. 13 (8) 3596-3606 [2014-08-01; online 2014-07-15]
Tissue Profiling
PubMed DOI Crossref
The human carotid body releases acetylcholine, ATP and cytokines during hypoxia.
Kåhlin J, Mkrtchian S, Ebberyd A, ..., Fagerlund MJ, Eriksson LI
Exp. Physiol. 99 (8) 1089-1098 [2014-08-00; online 2014-06-03]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Systematic investigation of contribution of genetic variation in the HLA-DP region to cervical cancer susceptibility.
Chen D, Gyllensten U
Carcinogenesis 35 (8) 1765-1769 [2014-08-00; online 2014-04-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Selectivity mechanism of a bacterial homolog of the human drug-peptide transporters PepT1 and PepT2.
Guettou F, Quistgaard EM, Raba M, ..., Löw C, Nordlund P
Nat. Struct. Mol. Biol. 21 (8) 728-731 [2014-08-00; online 2014-07-30]
Protein Science Facility (PSF)
PubMed DOI Crossref
Plasma profiling reveals three proteins associated to amyotrophic lateral sclerosis.
Häggmark A, Mikus M, Mohsenchian A, ..., Kuźma-Kozakiewicz M, Nilsson P
Ann Clin Transl Neurol 1 (8) 544-553 [2014-08-00; online 2014-07-14]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Multifactorial analysis of changes in body mass index across the adult life course: a study with 65 years of follow-up.
Dahl AK, Reynolds CA, Fall T, Magnusson PK, Pedersen NL
Int J Obes (Lond) 38 (8) 1133-1141 [2014-08-00; online 2013-11-07]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Mechanisms of mRNA export.
Björk P, Wieslander L
Semin. Cell Dev. Biol. 32 (-) 47-54 [2014-08-00; online 2014-05-13]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Influence of coronary artery disease-associated genetic variants on risk of venous thromboembolism.
Bruzelius M, Strawbridge RJ, Trégouët D, ..., Odeberg J, Hamsten A
Thromb. Res. 134 (2) 426-432 [2014-08-00; online 2014-04-22]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
High risk of tobacco-related cancers in CDKN2A mutation-positive melanoma families.
Helgadottir H, Höiom V, Jönsson G, ..., Olsson H, Hansson J
J. Med. Genet. 51 (8) 545-552 [2014-08-00; online 2014-06-18]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Genetic variation in the CYP1A1 gene is related to circulating PCB118 levels in a population-based sample.
Lind L, Penell J, Syvänen AC, ..., van Bavel B, Lind PM
Environ. Res. 133 (-) 135-140 [2014-08-00; online 2014-06-14]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genetic association study of QT interval highlights role for calcium signaling pathways in myocardial repolarization.
Arking DE, Pulit SL, Crotti L, ..., de Bakker PIW, Newton-Cheh C
Nat. Genet. 46 (8) 826-836 [2014-08-00; online 2014-06-24]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Fusions involving protein kinase C and membrane-associated proteins in benign fibrous histiocytoma.
Płaszczyca A, Nilsson J, Magnusson L, ..., Nord KH, Mertens F
Int. J. Biochem. Cell Biol. 53 (-) 475-481 [2014-08-00; online 2014-04-08]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Distinct roles of Candida albicans-specific genes in host-pathogen interactions.
Wilson D, Mayer FL, Miramón P, ..., Jacobsen ID, Hube B
Eukaryotic Cell 13 (8) 977-989 [2014-08-00; online 2014-03-13]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Differential methylation in CN-AML preferentially targets non-CGI regions and is dictated by DNMT3A mutational status and associated with predominant hypomethylation of HOX genes.
Qu Y, Lennartsson A, Gaidzik VI, ..., Döhner K, Lehmann S
Epigenetics 9 (8) 1108-1119 [2014-08-00; online 2014-05-29]
Bioinformatics and Expression Analysis (BEA) NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
DegePrime, a program for degenerate primer design for broad-taxonomic-range PCR in microbial ecology studies.
Hugerth LW, Wefer HA, Lundin S, ..., Engstrand L, Andersson AF
Appl. Environ. Microbiol. 80 (16) 5116-5123 [2014-08-00; online 2014-06-15]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Cluster of infections caused by methicillin-resistant Staphylococcus pseudintermedius in humans in a tertiary hospital.
Starlander G, Börjesson S, Grönlund-Andersson U, Tellgren-Roth C, Melhus A
J. Clin. Microbiol. 52 (8) 3118-3120 [2014-08-00; online 2014-05-30]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
A high-density linkage map enables a second-generation collared flycatcher genome assembly and reveals the patterns of avian recombination rate variation and chromosomal evolution.
Kawakami T, Smeds L, Backström N, ..., Olason P, Ellegren H
Mol. Ecol. 23 (16) 4035-4058 [2014-08-00; online 2014-05-28]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Nuclease-assisted suppression of human DNA background in sepsis.
Song Y, Giske CG, Gille-Johnson P, ..., Lundeberg J, Gyarmati P
PLoS ONE 9 (7) e103610 [2014-07-30; online 2014-07-30]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Polymorphisms in genes implicated in dopamine, serotonin and noradrenalin metabolism suggest association with cerebrospinal fluid monoamine metabolite concentrations in psychosis.
Andreou D, Söderman E, Axelsson T, ..., Agartz I, Jönsson EG
Behav Brain Funct 10 (-) 26 [2014-07-29; online 2014-07-29]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Analysis of stranded information using an automated procedure for strand specific RNA sequencing.
Sigurgeirsson B, Emanuelsson O, Lundeberg J
BMC Genomics 15 (-) 631 [2014-07-28; online 2014-07-28]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Identification of a small molecule that stabilizes lipoprotein lipase in vitro and lowers triglycerides in vivo.
Larsson M, Caraballo R, Ericsson M, ..., Nilsson SK, Olivecrona G
Biochem. Biophys. Res. Commun. 450 (2) 1063-1069 [2014-07-25; online 2014-07-02]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Biological insights from 108 schizophrenia-associated genetic loci.
Schizophrenia Working Group of the Psychiatric Genomics Consortium
Nature 511 (7510) 421-427 [2014-07-24; online 2014-07-22]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
A Picea abies linkage map based on SNP markers identifies QTLs for four aspects of resistance to Heterobasidion parviporum infection.
Lind M, Källman T, Chen J, ..., Lascoux M, Stenlid J
PLoS ONE 9 (7) e101049 [2014-07-18; online 2014-07-18]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Single nucleotide polymorphisms with cis-regulatory effects on long non-coding transcripts in human primary monocytes.
Almlöf JC, Lundmark P, Lundmark A, ..., Ouwehand WH, Syvänen AC
PLoS ONE 9 (7) e102612 [2014-07-15; online 2014-07-15]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genome-wide profiling of AP-1-regulated transcription provides insights into the invasiveness of triple-negative breast cancer.
Zhao C, Qiao Y, Jonsson P, ..., Williams C, Dahlman-Wright K
Cancer Res. 74 (14) 3983-3994 [2014-07-15; online 2014-05-17]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Comparative structural analysis of the putative mono-ADP-ribosyltransferases of the ARTD/PARP family.
Pinto AF, Schüler H
Curr. Top. Microbiol. Immunol. 384 (-) 153-166 [2014-07-13; online 2014-07-13]
Protein Science Facility (PSF)
PubMed DOI Crossref
Peroxiredoxin-1 protects estrogen receptor α from oxidative stress-induced suppression and is a protein biomarker of favorable prognosis in breast cancer.
O'Leary PC, Terrile M, Bajor M, ..., Zagozdzon R, Gallagher WM
Breast Cancer Res. 16 (4) R79 [2014-07-10; online 2014-07-10]
Tissue Profiling
PubMed DOI Crossref
Structural and biochemical characterization of human PR70 in isolation and in complex with the scaffolding subunit of protein phosphatase 2A.
Dovega R, Tsutakawa S, Quistgaard EM, ..., Löw C, Nordlund P
PLoS ONE 9 (7) e101846 [2014-07-09; online 2014-07-09]
Protein Science Facility (PSF)
PubMed DOI Crossref
The archaeal legacy of eukaryotes: a phylogenomic perspective.
Guy L, Saw JH, Ettema TJ
Cold Spring Harb Perspect Biol 6 (10) a016022 [2014-07-03; online 2014-07-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Transcriptome analysis reveals signature of adaptation to landscape fragmentation.
Somervuo P, Kvist J, Ikonen S, ..., Ahola V, Hanski I
PLoS ONE 9 (7) e101467 [2014-07-02; online 2014-07-02]
Karolinska High Throughput Center (KHTC)
PubMed DOI Crossref
Large-scale genome-wide association studies and meta-analyses of longitudinal change in adult lung function.
Tang W, Kowgier M, Loth DW, ..., Hall IP, Cassano PA
PLoS ONE 9 (7) e100776 [2014-07-01; online 2014-07-01]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
l-Proline organocatalyzed Michael synthesis of monobactam and carbapenem β-lactam cores
Khanyase S, Naicker T, Maguire GEM, ..., Arvidsson PI, Govender T
Tetrahedron: Asymmetry 25 (13-14) 969-973 [2014-07-00; online 2014-07-00]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
The human liver-specific proteome defined by transcriptomics and antibody-based profiling.
Kampf C, Mardinoglu A, Fagerberg L, ..., Nielsen J, Uhlen M
FASEB J. 28 (7) 2901-2914 [2014-07-00; online 2014-03-22]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Spatial Proteomics Tissue Profiling
PubMed DOI Crossref
Structural basis for PTPA interaction with the invariant C-terminal tail of PP2A.
Löw C, Quistgaard EM, Kovermann M, ..., Balbach J, Nordlund P
Biol. Chem. 395 (7-8) 881-889 [2014-07-00; online 2014-07-09]
Protein Science Facility (PSF)
PubMed DOI Crossref
Screening for inhibition of Vibrio cholerae VipA-VipB interaction identifies small-molecule compounds active against type VI secretion.
Sun K, Bröms J, Lavander M, ..., Elofsson M, Sjöstedt A
Antimicrob. Agents Chemother. 58 (7) 4123-4130 [2014-07-00; online 2014-05-07]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Polymorphism of the cystatin C gene in patients with acute coronary syndromes: Results from the PLATelet inhibition and patient Outcomes study.
Akerblom A, Eriksson N, Wallentin L, ..., James SK, PLATO Investigators
Am. Heart J. 168 (1) 96-102.e2 [2014-07-00; online 2014-04-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Novel approach identifies SNPs in SLC2A10 and KCNK9 with evidence for parent-of-origin effect on body mass index.
Hoggart CJ, Venturini G, Mangino M, ..., Loos RJ, Kutalik Z
PLoS Genet. 10 (7) e1004508 [2014-07-00; online 2014-07-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
MiR-146a negatively regulates TLR2-induced inflammatory responses in keratinocytes.
Meisgen F, Xu Landén N, Wang A, ..., Breton L, Pivarcsi A
J. Invest. Dermatol. 134 (7) 1931-1940 [2014-07-00; online 2014-03-29]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Management intensity at field and landscape levels affects the structure of generalist predator communities.
Rusch A, Birkhofer K, Bommarco R, Smith HG, Ekbom B
Oecologia 175 (3) 971-983 [2014-07-00; online 2014-05-09]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Hepatic uptake of atorvastatin: influence of variability in transporter expression on uptake clearance and drug-drug interactions.
Vildhede A, Karlgren M, Svedberg EK, ..., Norén A, Artursson P
Drug Metab. Dispos. 42 (7) 1210-1218 [2014-07-00; online 2014-05-05]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Harmonization of Neuroticism and Extraversion phenotypes across inventories and cohorts in the Genetics of Personality Consortium: an application of Item Response Theory.
van den Berg SM, de Moor MH, McGue M, ..., Martin NG, Boomsma DI
Behav. Genet. 44 (4) 295-313 [2014-07-00; online 2014-05-15]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Haplotypes of the inducible nitric oxide synthase gene are strongly associated with exhaled nitric oxide levels in adults: a population-based study.
Dahgam S, Modig L, Torinsson Naluai Å, Olin AC, Nyberg F
J. Med. Genet. 51 (7) 449-454 [2014-07-00; online 2014-04-15]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Genome-wide association analysis identifies six new loci associated with forced vital capacity.
Loth DW, Soler Artigas M, Gharib SA, ..., Tobin MD, London SJ
Nat. Genet. 46 (7) 669-677 [2014-07-00; online 2014-06-15]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome wide association identifies common variants at the SERPINA6/SERPINA1 locus influencing plasma cortisol and corticosteroid binding globulin.
Bolton JL, Hayward C, Direk N, ..., Walker BR, CORtisol NETwork (CORNET) Consortium
PLoS Genet. 10 (7) e1004474 [2014-07-00; online 2014-07-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic variants in CDC42 and NXPH1 as susceptibility factors for constipation and diarrhoea predominant irritable bowel syndrome.
Wouters MM, Lambrechts D, Knapp M, ..., D'Amato M, Boeckxstaens G
Gut 63 (7) 1103-1111 [2014-07-00; online 2013-09-18]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Characterization of an experimental vaccine for bovine respiratory syncytial virus.
Hägglund S, Hu K, Blodörn K, ..., Valarcher JF, Eléouët JF
Clin. Vaccine Immunol. 21 (7) 997-1004 [2014-07-00; online 2014-05-16]
Mass Spectrometry-based Proteomics, Uppsala
PubMed DOI Crossref
CXCR4 Antagonists: A Screening Strategy for Identification of Functionally Selective Ligands.
Castaldo C, Benicchi T, Otrocka M, ..., Varrone M, Porcari V
J Biomol Screen 19 (6) 859-869 [2014-07-00; online 2014-03-14]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Autosomal dominant brachyolmia in a large Swedish family: phenotypic spectrum and natural course.
Grigelioniene G, Geiberger S, Horemuzova E, ..., Nordgren A, Mäkitie O
Am. J. Med. Genet. A 164A (7) 1635-1641 [2014-07-00; online 2014-03-29]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Affinity proteomics within rare diseases: a BIO-NMD study for blood biomarkers of muscular dystrophies.
Ayoglu B, Chaouch A, Lochmüller H, ..., Nilsson P, Al-Khalili Szigyarto C
EMBO Mol Med 6 (7) 918-936 [2014-07-00; online 2014-06-13]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
'Geoarchaeote NAG1' is a deeply rooting lineage of the archaeal order Thermoproteales rather than a new phylum.
Guy L, Spang A, Saw JH, Ettema TJ
ISME J 8 (7) 1353-1357 [2014-07-00; online 2014-02-14]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
A universal genomic coordinate translator for comparative genomics.
Zamani N, Sundström G, Meadows JR, ..., Haas BJ, Grabherr MG
BMC Bioinformatics 15 (-) 227 [2014-06-30; online 2014-06-30]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Large tilts in transmembrane helices can be induced during tertiary structure formation.
Virkki M, Boekel C, Illergård K, ..., von Heijne G, Nilsson I
J. Mol. Biol. 426 (13) 2529-2538 [2014-06-26; online 2014-04-30]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Exome sequencing circumvents missing clinical data and identifies a BSCL2 mutation in congenital lipodystrophy.
Schuster J, Khan TN, Tariq M, ..., Baig SM, Klar J
BMC Med. Genet. 15 (-) 71 [2014-06-24; online 2014-06-24]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Short-term variation in sperm competition causes sperm-mediated epigenetic effects on early offspring performance in the zebrafish.
Zajitschek S, Hotzy C, Zajitschek F, Immler S
Proc. Biol. Sci. 281 (1785) 20140422 [2014-06-22; online 2014-05-03]
Genome Engineering Zebrafish
PubMed DOI Crossref
The genomic landscape underlying phenotypic integrity in the face of gene flow in crows
Poelstra JW, Vijay N, Bossu CM, ..., Grabherr MG, Wolf JBW
Science 344 (6190) 1410-1414 [2014-06-20; online 2014-06-19]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Myelodysplastic syndromes are propagated by rare and distinct human cancer stem cells in vivo.
Woll PS, Kjällquist U, Chowdhury O, ..., Linnarsson S, Jacobsen SE
Cancer Cell 25 (6) 794-808 [2014-06-16; online 2014-05-15]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Complete genome sequence of a plant associated bacterium Bacillus amyloliquefaciens subsp. plantarum UCMB5033.
Niazi A, Manzoor S, Bejai S, Meijer J, Bongcam-Rudloff E
Stand Genomic Sci 9 (3) 718-725 [2014-06-15; online 2014-02-15]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Tyrosine phosphorylation profiling via in situ proximity ligation assay.
Elfineh L, Classon C, Asplund A, ..., Kamali-Moghaddam M, Lind SB
BMC Cancer 14 (-) 435 [2014-06-13; online 2014-06-13]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
PubMed DOI Crossref
Patterns of sequencing coverage bias revealed by ultra-deep sequencing of vertebrate mitochondria.
Ekblom R, Smeds L, Ellegren H
BMC Genomics 15 (-) 467 [2014-06-12; online 2014-06-12]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Mapping-by-sequencing accelerates forward genetics in barley.
Mascher M, Jost M, Kuon JE, ..., Graner A, Stein N
Genome Biol. 15 (6) R78 [2014-06-10; online 2014-06-10]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Normalyzer: a tool for rapid evaluation of normalization methods for omics data sets.
Chawade A, Alexandersson E, Levander F
J. Proteome Res. 13 (6) 3114-3120 [2014-06-06; online 2014-04-29]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Efficient de novo assembly of large and complex genomes by massively parallel sequencing of Fosmid pools.
Alexeyenko A, Nystedt B, Vezzi F, ..., Wu CC, Lundeberg J
BMC Genomics 15 (-) 439 [2014-06-06; online 2014-06-06]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Scanning inverse fluorescence correlation spectroscopy.
Bergstrand J, Rönnlund D, Widengren J, Wennmalm S
Opt Express 22 (11) 13073-13090 [2014-06-02; online 2014-06-13]
Fluorescence Correlation Spectroscopy [Technology development] Integrated Microscopy Technologies Stockholm
PubMed DOI Crossref
Crystal structure of human CRMP-4: correction of intensities for lattice-translocation disorder
Ponnusamy R, Lebedev AA, Pahlow S, Lohkamp B
Acta Crystallogr. D Biol. Crystallogr. 70 (6) 1680-1694 [2014-06-01; online 2014-05-30]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
p53 protein expression independently predicts outcome in patients with lower-risk myelodysplastic syndromes with del(5q).
Saft L, Karimi M, Ghaderi M, ..., MacBeth KJ, Hellström-Lindberg E
Haematologica 99 (6) 1041-1049 [2014-06-00; online 2014-04-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
microRNA-34b/c on chromosome 11q23 is aberrantly methylated in chronic lymphocytic leukemia.
Deneberg S, Kanduri M, Ali D, ..., Lennartsson A, Lehmann S
Epigenetics 9 (6) 910-917 [2014-06-00; online 2014-04-02]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The human testis-specific proteome defined by transcriptomics and antibody-based profiling.
Djureinovic D, Fagerberg L, Hallström B, ..., Uhlén M, Pontén F
Mol. Hum. Reprod. 20 (6) 476-488 [2014-06-00; online 2014-03-07]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Tissue Profiling
PubMed DOI Crossref
The benefits of staying active in old age: physical activity counteracts the negative influence of PICALM, BIN1, and CLU risk alleles on episodic memory functioning.
Ferencz B, Laukka EJ, Welmer AK, ..., Lövdén M, Bäckman L
Psychol Aging 29 (2) 440-449 [2014-06-00; online 2014-03-26]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
The age and genomic integrity of neurons after cortical stroke in humans.
Huttner HB, Bergmann O, Salehpour M, ..., Lundeberg J, Frisén J
Nat. Neurosci. 17 (6) 801-803 [2014-06-00; online 2014-04-20]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The HLA locus contains novel foetal susceptibility alleles for congenital heart block with significant paternal influence.
Meisgen S, Östberg T, Salomonsson S, ..., Kockum I, Wahren-Herlenius M
J. Intern. Med. 275 (6) 640-651 [2014-06-00; online 2013-12-21]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
SpliceVista, a tool for splice variant identification and visualization in shotgun proteomics data.
Zhu Y, Hultin-Rosenberg L, Forshed J, ..., Orre LM, Lehtiö J
Mol. Cell Proteomics 13 (6) 1552-1562 [2014-06-00; online 2014-04-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Simultaneous uptake of lignocellulose-based monosaccharides by Escherichia coli.
Jarmander J, Hallström BM, Larsson G
Biotechnol. Bioeng. 111 (6) 1108-1115 [2014-06-00; online 2014-01-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Recurrent activating mutation in PRKACA in cortisol-producing adrenal tumors.
Goh G, Scholl UI, Healy JM, ..., Carling T, Lifton RP
Nat. Genet. 46 (6) 613-617 [2014-06-00; online 2014-04-22]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Recurrent EWSR1-CREB3L1 gene fusions in sclerosing epithelioid fibrosarcoma.
Arbajian E, Puls F, Magnusson L, ..., Kindblom LG, Mertens F
Am. J. Surg. Pathol. 38 (6) 801-808 [2014-06-00; online 2014-01-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Proteome-wide epitope mapping of antibodies using ultra-dense peptide arrays.
Forsström B, Axnäs BB, Stengele K, ..., Rockberg J, Uhlen M
Mol. Cell Proteomics 13 (6) 1585-1597 [2014-06-00; online 2014-04-08]
Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
Old but not (so) degenerated--slow evolution of largely homomorphic sex chromosomes in ratites.
Yazdi HP, Ellegren H
Mol. Biol. Evol. 31 (6) 1444-1453 [2014-06-00; online 2014-03-13]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Numerical compression schemes for proteomics mass spectrometry data.
Teleman J, Dowsey AW, Gonzalez-Galarza FF, ..., Deutsch EW, Levander F
Mol. Cell Proteomics 13 (6) 1537-1542 [2014-06-00; online 2014-03-29]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Nucleosome regulatory dynamics in response to TGFβ.
Enroth S, Andersson R, Bysani M, ..., Komorowski J, Wadelius C
Nucleic Acids Res. 42 (11) 6921-6934 [2014-06-00; online 2014-04-29]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Mosaic loss of chromosome Y in peripheral blood is associated with shorter survival and higher risk of cancer.
Forsberg LA, Rasi C, Malmqvist N, ..., Lind L, Dumanski JP
Nat. Genet. 46 (6) 624-628 [2014-06-00; online 2014-04-30]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Impact of type 2 diabetes susceptibility variants on quantitative glycemic traits reveals mechanistic heterogeneity.
Dimas AS, Lagou V, Barker A, ..., Prokopenko I, MAGIC Investigators
Diabetes 63 (6) 2158-2171 [2014-06-00; online 2013-12-04]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Immunoproteomics using polyclonal antibodies and stable isotope-labeled affinity-purified recombinant proteins.
Edfors F, Boström T, Forsström B, ..., Mann M, Uhlen M
Mol. Cell Proteomics 13 (6) 1611-1624 [2014-06-00; online 2014-04-12]
Spatial Proteomics
PubMed DOI Crossref
Immunomodulatory activity of commonly used drugs on Fc-receptor-mediated human natural killer cell activation.
Theorell J, Gustavsson AL, Tesi B, ..., Lundbäck T, Bryceson YT
Cancer Immunol. Immunother. 63 (6) 627-641 [2014-06-00; online 2014-03-30]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Identification of a large protein network involved in epigenetic transmission in replicating DNA of embryonic stem cells.
Aranda S, Rutishauser D, Ernfors P
Nucleic Acids Res. 42 (11) 6972-6986 [2014-06-00; online 2014-05-24]
Advanced Mass Spectrometry Proteomics
PubMed DOI Crossref
Genetic factors may play a prominent role in the development of coronary heart disease dependent on important environmental factors.
Song C, Chang Z, Magnusson PK, Ingelsson E, Pedersen NL
J. Intern. Med. 275 (6) 631-639 [2014-06-00; online 2013-12-18]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Genetic associations to germinal centre formation in primary Sjogren's syndrome.
Reksten TR, Johnsen SJ, Jonsson MV, ..., Jonsson R, Nordmark G
Ann. Rheum. Dis. 73 (6) 1253-1258 [2014-06-00; online 2013-04-23]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Garbage in, garbage out: a critical evaluation of strategies used for validation of immunohistochemical biomarkers.
O'Hurley G, Sjöstedt E, Rahman A, ..., Gallagher WM, Lindskog C
Mol Oncol 8 (4) 783-798 [2014-06-00; online 2014-04-15]
Tissue Profiling
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Diversity and abundance of aromatic catabolic genes in lake sediments in response to temperature change.
Osman OA, Gudasz C, Bertilsson S
FEMS Microbiol. Ecol. 88 (3) 468-481 [2014-06-00; online 2014-03-07]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Decreased decorin expression in the tumor microenvironment.
Bozoky B, Savchenko A, Guven H, ..., Klein G, Szekely L
Cancer Med 3 (3) 485-491 [2014-06-00; online 2014-03-19]
Tissue Profiling
PubMed DOI Crossref
Identification of candidate risk gene variations by whole-genome sequence analysis of four rat strains commonly used in inflammation research.
Bäckdahl L, Ekman D, Jagodic M, Olsson T, Holmdahl R
BMC Genomics 15 (-) 391 [2014-05-21; online 2014-05-21]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Genetic architecture of main effect QTL for heading date in European winter wheat.
Zanke C, Ling J, Plieske J, ..., Ganal MW, Röder MS
Front Plant Sci 5 (-) 217 [2014-05-20; online 2014-05-20]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Genomic diversity and admixture differs for Stone-Age Scandinavian foragers and farmers.
Skoglund P, Malmström H, Omrak A, ..., Götherström A, Jakobsson M
Science 344 (6185) 747-750 [2014-05-16; online 2014-04-24]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Structure and inhibition of mouse leukotriene C4 synthase.
Niegowski D, Kleinschmidt T, Ahmad S, ..., Rinaldo-Matthis A, Haeggström JZ
PLoS ONE 9 (5) e96763 [2014-05-08; online 2014-05-08]
Chemical Biology Consortium Sweden (CBCS) [Service] Protein Science Facility (PSF)
PubMed DOI Crossref
Genetic variation in the CYP2B6 gene is related to circulating 2,2',4,4'-tetrabromodiphenyl ether (BDE-47) concentrations: an observational population-based study.
Penell J, Lind L, Fall T, ..., Ingelsson E, Lind PM
Environ Health 13 (1) 34 [2014-05-08; online 2014-05-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Responsibility and cooperativeness are constrained, not determined.
Garcia D, Stråge A, Lundström S, ..., Kerekes N, Anckarsäter H
Front Psychol 5 (-) 308 [2014-05-07; online 2014-05-07]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Structural basis for phosphoinositide substrate recognition, catalysis, and membrane interactions in human inositol polyphosphate 5-phosphatases.
Trésaugues L, Silvander C, Flodin S, ..., Berglund H, Nordlund P
Structure 22 (5) 744-755 [2014-05-06; online 2014-04-08]
Protein Science Facility (PSF)
PubMed DOI Crossref
Bead arrays for antibody and complement profiling reveal joint contribution of antibody isotypes to C3 deposition.
Ayoglu B, Szarka E, Huber K, ..., Nilsson P, Papp K
PLoS ONE 9 (5) e96403 [2014-05-05; online 2014-05-05]
Affinity Proteomics Stockholm [Collaborative] Autoimmunity and Serology Profiling [Technology development]
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Smoke-related DNA methylation changes in the etiology of human disease.
Besingi W, Johansson A
Hum. Mol. Genet. 23 (9) 2290-2297 [2014-05-01; online 2013-12-18]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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DNA mismatch repair gene MSH6 implicated in determining age at natural menopause.
Perry JR, Hsu YH, Chasman DI, ..., Karasik D, Murray A
Hum. Mol. Genet. 23 (9) 2490-2497 [2014-05-01; online 2013-12-19]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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miR-20b regulates expression of proteinase-activated receptor-1 (PAR-1) thrombin receptor in melanoma cells.
Saleiban A, Faxälv L, Claesson K, Jönsson JI, Osman A
Pigment Cell Melanoma Res 27 (3) 431-441 [2014-05-00; online 2014-02-06]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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The role of pleiotropy and linkage in genes affecting a sexual ornament and bone allocation in the chicken.
Johnsson M, Rubin CJ, Höglund A, ..., Jensen P, Wright D
Mol. Ecol. 23 (9) 2275-2286 [2014-05-00; online 2014-03-25]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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The role of SATB2 as a diagnostic marker for tumors of colorectal origin: Results of a pathology-based clinical prospective study.
Dragomir A, de Wit M, Johansson C, Uhlen M, Pontén F
Am. J. Clin. Pathol. 141 (5) 630-638 [2014-05-00; online 2014-04-10]
Tissue Profiling
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The RING-Finger E3 Ubiquitin Ligase COP1 SUPPRESSOR1 Negatively Regulates COP1 Abundance in Maintaining COP1 Homeostasis in Dark-Grown Arabidopsis Seedlings.
Xu D, Lin F, Jiang Y, ..., Holm M, Deng XW
Plant Cell 26 (5) 1981-1991 [2014-05-00; online 2014-05-16]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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The H1-receptor antagonist cetirizine protects partially against cytokine- and hydrogen peroxide-induced β-TC6 cell death in vitro.
Anvari E, Fred RG, Welsh N
Pancreas 43 (4) 624-629 [2014-05-00; online 2014-04-11]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Somatic cells with a heavy mitochondrial DNA mutational load render induced pluripotent stem cells with distinct differentiation defects.
Wahlestedt M, Ameur A, Moraghebi R, ..., Woods NB, Bryder D
Stem Cells 32 (5) 1173-1182 [2014-05-00; online 2014-01-22]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Single cell genomics of deep ocean bacteria
Zhao W, Andersson SGE
Trends Microbiol. 22 (5) 233-234 [2014-05-00; online 2014-05-00]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Quality control and conduct of genome-wide association meta-analyses.
Winkler TW, Day FR, Croteau-Chonka DC, ..., Loos RJ, Genetic Investigation of Anthropometric Traits (GIANT) Consortium
Nat Protoc 9 (5) 1192-1212 [2014-05-00; online 2014-04-24]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Protein biomarker validation via proximity ligation assays.
Blokzijl A, Nong R, Darmanis S, ..., Landegren U, Kamali-Moghaddam M
Biochim. Biophys. Acta 1844 (5) 933-939 [2014-05-00; online 2013-08-13]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
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PTPN6 expression is epigenetically regulated and influences survival and response to chemotherapy in high-grade gliomas.
Sooman L, Ekman S, Tsakonas G, ..., Gullbo J, Lennartsson J
Tumour Biol. 35 (5) 4479-4488 [2014-05-00; online 2014-02-11]
Tissue Profiling
PubMed DOI Crossref
N-acylated derivatives of sulfamethoxazole and sulfafurazole inhibit intracellular growth of Chlamydia trachomatis.
Marwaha S, Uvell H, Salin O, ..., Elofsson M, Gylfe A
Antimicrob. Agents Chemother. 58 (5) 2968-2971 [2014-05-00; online 2014-02-26]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
DOI Crossref
Impact of soil transfer between test fields on fungal diversity and wood durability
Råberg U, Terziev N, Daniel G
International Wood Products Journal 5 (2) 83-91 [2014-05-00; online 2013-12-19]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Genetic influences on political ideologies: twin analyses of 19 measures of political ideologies from five democracies and genome-wide findings from three populations.
Hatemi PK, Medland SE, Klemmensen R, ..., Eaves LJ, Martin NG
Behav. Genet. 44 (3) 282-294 [2014-05-00; online 2014-02-27]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
GRM1 is upregulated through gene fusion and promoter swapping in chondromyxoid fibroma.
Nord KH, Lilljebjörn H, Vezzi F, ..., Hogendoorn PC, Szuhai K
Nat. Genet. 46 (5) 474-477 [2014-05-00; online 2014-03-25]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
A new look at adenovirus splicing.
Zhao H, Chen M, Pettersson U
Virology 456-457 (-) 329-341 [2014-05-00; online 2014-04-25]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Fish oil and krill oil supplementations differentially regulate lipid catabolic and synthetic pathways in mice.
Tillander V, Bjørndal B, Burri L, ..., Berge RK, Alexson SE
Nutr Metab (Lond) 11 (-) 20 [2014-04-27; online 2014-04-27]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
The complete genome of Blastobotrys (Arxula) adeninivorans LS3 - a yeast of biotechnological interest.
Kunze G, Gaillardin C, Czernicka M, ..., Scholz U, Neuvéglise C
Biotechnol Biofuels 7 (-) 66 [2014-04-24; online 2014-04-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
High-throughput transcription profiling identifies putative epigenetic regulators of hematopoiesis.
Prasad P, Rönnerblad M, Arner E, ..., Ekwall K, FANTOM consortium
Blood 123 (17) e46-e57 [2014-04-24; online 2014-03-29]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Analysis of the DNA methylome and transcriptome in granulopoiesis reveals timed changes and dynamic enhancer methylation.
Rönnerblad M, Andersson R, Olofsson T, ..., Lennartsson A, FANTOM consortium
Blood 123 (17) e79-e89 [2014-04-24; online 2014-03-29]
Bioinformatics and Expression Analysis (BEA) NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Seasonal pattern of lesion development in diseased Fraxinus excelsior infected by Hymenoscyphus pseudoalbidus.
Bengtsson SB, Barklund P, von Brömssen C, Stenlid J
PLoS ONE 9 (4) e76429 [2014-04-23; online 2014-04-23]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Systematic design of 18S rRNA gene primers for determining eukaryotic diversity in microbial consortia.
Hugerth LW, Muller EE, Hu YO, ..., Wilmes P, Andersson AF
PLoS ONE 9 (4) e95567 [2014-04-22; online 2014-04-22]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Oppositional defiant- and conduct disorder-like problems: neurodevelopmental predictors and genetic background in boys and girls, in a nationwide twin study.
Kerekes N, Lundström S, Chang Z, ..., Nilsson T, Anckarsäter H
PeerJ 2 (-) e359 [2014-04-22; online 2014-04-22]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Erysipelothrix rhusiopathiae contamination in the poultry house environment during erysipelas outbreaks in organic laying hen flocks.
Eriksson H, Bagge E, Båverud V, Fellström C, Jansson DS
Avian Pathol. 43 (3) 231-237 [2014-04-22; online 2014-03-26]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Elucidating the interactions between the human gut microbiota and its host through metabolic modeling.
Shoaie S, Nielsen J
Front Genet 5 (-) 86 [2014-04-22; online 2014-04-22]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
A Drosophila immune response against Ras-induced overgrowth.
Hauling T, Krautz R, Markus R, ..., Kucerova L, Theopold U
Biol Open 3 (4) 250-260 [2014-04-15; online 2014-03-25]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Clinical and genetic features of pediatric acute lymphoblastic leukemia in Down syndrome in the Nordic countries.
Lundin C, Forestier E, Klarskov Andersen M, ..., Swedish Cytogenetic Leukemia Study Group (SCLSG) , NOPHO Leukemia Cytogenetic Study Group (NLCSG)
J Hematol Oncol 7 (-) 32 [2014-04-11; online 2014-04-11]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Vulnerability of glioblastoma cells to catastrophic vacuolization and death induced by a small molecule.
Kitambi SS, Toledo EM, Usoskin D, ..., Hammarström LGJ, Ernfors P
Cell 157 (2) 313-328 [2014-04-10; online 2014-03-25]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
MTH1 inhibition eradicates cancer by preventing sanitation of the dNTP pool.
Gad H, Koolmeister T, Jemth A, ..., Berglund UW, Helleday T
Nature 508 (7495) 215-221 [2014-04-10; online 2014-04-02]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Collaborative] Protein Science Facility (PSF)
PubMed DOI Crossref
A high-throughput cell-based method to predict the unbound drug fraction in the brain.
Mateus A, Matsson P, Artursson P
J. Med. Chem. 57 (7) 3005-3010 [2014-04-10; online 2014-03-20]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
PubMed DOI Crossref
ZBED6 modulates the transcription of myogenic genes in mouse myoblast cells.
Jiang L, Wallerman O, Younis S, ..., Andersson G, Andersson L
PLoS ONE 9 (4) e94187 [2014-04-08; online 2014-04-08]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Autosomal recessive transmission of a rare KRT74 variant causes hair and nail ectodermal dysplasia: allelism with dominant woolly hair/hypotrichosis.
Raykova D, Klar J, Azhar A, ..., Baig SM, Dahl N
PLoS ONE 9 (4) e93607 [2014-04-08; online 2014-04-08]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
RNA- and antibody-based profiling of the human proteome with focus on chromosome 19.
Stadler C, Fagerberg L, Sivertsson Å, ..., Lundberg E, Uhlén M
J. Proteome Res. 13 (4) 2019-2027 [2014-04-04; online 2014-03-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Spatial Proteomics
PubMed DOI Crossref
Quantitative label-free phosphoproteomics of six different life stages of the late blight pathogen Phytophthora infestans reveals abundant phosphorylation of members of the CRN effector family.
Resjö S, Ali A, Meijer HJ, ..., Govers F, Andreasson E
J. Proteome Res. 13 (4) 1848-1859 [2014-04-04; online 2014-03-05]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Genome-scale metabolic reconstructions of Bifidobacterium adolescentis L2-32 and Faecalibacterium prausnitzii A2-165 and their interaction.
El-Semman IE, Karlsson FH, Shoaie S, ..., Soliman TH, Nielsen J
BMC Syst Biol 8 (-) 41 [2014-04-03; online 2014-04-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Fine mapping seronegative and seropositive rheumatoid arthritis to shared and distinct HLA alleles by adjusting for the effects of heterogeneity.
Han B, Diogo D, Eyre S, ..., de Bakker PI, Raychaudhuri S
Am. J. Hum. Genet. 94 (4) 522-532 [2014-04-03; online 2014-03-20]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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CDKAL1-related single nucleotide polymorphisms are associated with insulin resistance in a cross-sectional cohort of Greek children.
Rask-Andersen M, Philippot G, Moschonis G, ..., Fredriksson R, Schiöth HB
PLoS ONE 9 (4) e93193 [2014-04-02; online 2014-04-02]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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WNT5A-mediated β-catenin-independent signalling is a novel regulator of cancer cell metabolism.
Sherwood V, Chaurasiya SK, Ekström EJ, ..., James P, Andersson T
Carcinogenesis 35 (4) 784-794 [2014-04-00; online 2013-12-03]
Tissue Profiling
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Temporal profiling of cytokine-induced genes in pancreatic β-cells by meta-analysis and network inference.
Lopes M, Kutlu B, Miani M, ..., Bontempi G, Eizirik DL
Genomics 103 (4) 264-275 [2014-04-00; online 2014-01-28]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Organocatalytic Mannich Reactions on a Carbapenem Core - Synthesis of Mannich Bases and Bicyclic Diazanonanes
Cele ZED, Pawar SA, Naicker T, ..., Kruger HG, Govender T
Eur. J. Org. Chem. 2014 (11) 2253-2260 [2014-04-00; online 2014-02-06]
Drug Discovery and Development (DDD) [Collaborative]
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Loss-of-function mutations in SLC30A8 protect against type 2 diabetes.
Flannick J, Thorleifsson G, Beer NL, ..., Stefansson K, Altshuler D
Nat. Genet. 46 (4) 357-363 [2014-04-00; online 2014-03-02]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Investigation of molecular alterations of AKT-3 in triple-negative breast cancer.
O'Hurley G, Daly E, O'Grady A, ..., Kay EW, Gallagher WM
Histopathology 64 (5) 660-670 [2014-04-00; online 2013-10-22]
Tissue Profiling
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Disassembly of the divisome in Escherichia coli: evidence that FtsZ dissociates before compartmentalization.
Söderström B, Skoog K, Blom H, ..., von Heijne G, Daley DO
Mol. Microbiol. 92 (1) 1-9 [2014-04-00; online 2014-02-20]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
DNA methylation changes in genes frequently mutated in sporadic colorectal cancer and in the DNA repair and Wnt/β-catenin signaling pathway genes.
Farkas SA, Vymetalkova V, Vodickova L, Vodicka P, Nilsson TK
Epigenomics 6 (2) 179-191 [2014-04-00; online 2014-05-09]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Affinity proteomics reveals elevated muscle proteins in plasma of children with cerebral malaria.
Bachmann J, Burté F, Pramana S, ..., Fernandez-Reyes D, Nilsson P
PLoS Pathog. 10 (4) e1004038 [2014-04-00; online 2014-04-17]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
A novel SERPINE1-FOSB fusion gene results in transcriptional up-regulation of FOSB in pseudomyogenic haemangioendothelioma.
Walther C, Tayebwa J, Lilljebjörn H, ..., Fletcher CD, Mertens F
J. Pathol. 232 (5) 534-540 [2014-04-00; online 2014-01-29]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
A central role for GRB10 in regulation of islet function in man.
Prokopenko I, Poon W, Mägi R, ..., Groop L, Lyssenko V
PLoS Genet. 10 (4) e1004235 [2014-04-00; online 2014-04-03]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Syntheses and biological evaluation of 2-amino-3-acyl-tetrahydrobenzothiophene derivatives; antibacterial agents with antivirulence activity.
Dang HT, Chorell E, Uvell H, ..., Hultgren SJ, Almqvist F
Org. Biomol. Chem. 12 (12) 1942-1956 [2014-03-28; online 2014-02-17]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
A replication study of GWAS findings in migraine identifies association in a Swedish case-control sample.
Ran C, Graae L, Magnusson PK, ..., Olson L, Belin AC
BMC Med. Genet. 15 (-) 38 [2014-03-28; online 2014-03-28]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Impact of stereospecific intramolecular hydrogen bonding on cell permeability and physicochemical properties.
Over B, McCarren P, Artursson P, ..., Duvall JR, Kihlberg J
J. Med. Chem. 57 (6) 2746-2754 [2014-03-27; online 2014-02-15]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
High prevalence of pfcrt-CVIET haplotype in isolates from asymptomatic and symptomatic patients in south-central Oromia, Ethiopia.
Golassa L, Enweji N, Erko B, Aseffa A, Swedberg G
Malar. J. 13 (-) 120 [2014-03-27; online 2014-03-27]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Design, synthesis, crystallographic studies, and preliminary biological appraisal of new substituted triazolo[4,3-b]pyridazin-8-amine derivatives as tankyrase inhibitors.
Liscio P, Carotti A, Asciutti S, ..., Pellicciari R, Camaioni E
J. Med. Chem. 57 (6) 2807-2812 [2014-03-27; online 2014-02-18]
Protein Science Facility (PSF)
PubMed DOI Crossref
Visualization of angiogenesis during cancer development in the polyoma middle T breast cancer model: molecular imaging with (R)-[11C]PAQ.
Samén E, Lu L, Mulder J, ..., Rundqvist H, Stone-Elander S
EJNMMI Res 4 (1) 17 [2014-03-26; online 2014-03-26]
Fluorescence Tissue Profiling
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The novel diagnostic biomarkers for focal segmental glomerulosclerosis.
Nafar M, Kalantari S, Samavat S, ..., Rutishuser D, Zubarev RA
Int J Nephrol 2014 (-) 574261 [2014-03-26; online 2014-03-26]
Advanced Mass Spectrometry Proteomics
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Nanoscopic spine localization of Norbin, an mGluR5 accessory protein.
Westin L, Reuss M, Lindskog M, Aperia A, Brismar H
BMC Neurosci 15 (-) 45 [2014-03-26; online 2014-03-26]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
Neuronal calcium-binding proteins 1/2 localize to dorsal root ganglia and excitatory spinal neurons and are regulated by nerve injury.
Zhang MD, Tortoriello G, Hsueh B, ..., Harkany T, Hökfelt TG
Proc. Natl. Acad. Sci. U.S.A. 111 (12) E1149-E1158 [2014-03-25; online 2014-03-13]
Fluorescence Tissue Profiling
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An international effort towards developing standards for best practices in analysis, interpretation and reporting of clinical genome sequencing results in the CLARITY Challenge.
Brownstein CA, Beggs AH, Homer N, ..., Kohane IS, Margulies DM
Genome Biol. 15 (3) R53 [2014-03-25; online 2014-03-25]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Draft Genome Sequence of Pseudomonas aeruginosa SG17M, an Environmental Isolate Belonging to Clone C, Prevalent in Patients and Aquatic Habitats.
Lee C, Peters V, Melefors O, Römling U
Genome Announc 2 (2) - [2014-03-20; online 2014-03-20]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Identification of anticancer drugs for hepatocellular carcinoma through personalized genome-scale metabolic modeling.
Agren R, Mardinoglu A, Asplund A, ..., Uhlen M, Nielsen J
Mol. Syst. Biol. 10 (-) 721 [2014-03-19; online 2014-03-19]
Tissue Profiling
PubMed DOI Crossref
Comprehensive profiling of the vaginal microbiome in HIV positive women using massive parallel semiconductor sequencing.
Ameur A, Meiring TL, Bunikis I, ..., Williamson AL, Gyllensten U
Sci Rep 4 (-) 4398 [2014-03-18; online 2014-03-18]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Binding of Pro-Gly-Pro at the active site of leukotriene A4 hydrolase/aminopeptidase and development of an epoxide hydrolase selective inhibitor.
Stsiapanava A, Olsson U, Wan M, ..., Rinaldo-Matthis A, Haeggström JZ
Proc. Natl. Acad. Sci. U.S.A. 111 (11) 4227-4232 [2014-03-18; online 2014-03-05]
Advanced Mass Spectrometry Proteomics Protein Science Facility (PSF)
PubMed DOI Crossref
Genetic characterization of a novel Iflavirus associated with vomiting disease in the Chinese oak silkmoth Antheraea pernyi.
Geng P, Li W, Lin L, ..., An L, Terenius O
PLoS ONE 9 (3) e92107 [2014-03-17; online 2014-03-17]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Sequencing degraded RNA addressed by 3' tag counting.
Sigurgeirsson B, Emanuelsson O, Lundeberg J
PLoS ONE 9 (3) e91851 [2014-03-14; online 2014-03-14]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Novel Peptidomimetic Hepatitis C Virus NS3/4A Protease Inhibitors Spanning the P2-P1' Region.
Lampa AK, Bergman SM, Gustafsson SS, ..., Karlén A, Sandström A
ACS Med Chem Lett 5 (3) 249-254 [2014-03-13; online 2013-08-02]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Achiral pyrazinone-based inhibitors of the hepatitis C virus NS3 protease and drug-resistant variants with elongated substituents directed toward the S2 pocket.
Gising J, Belfrage AK, Alogheli H, ..., Larhed M, Sandström A
J. Med. Chem. 57 (5) 1790-1801 [2014-03-13; online 2013-03-23]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Epitope-specific antibody response is controlled by immunoglobulin V(H) polymorphisms.
Raposo B, Dobritzsch D, Ge C, ..., Schneider G, Holmdahl R
J. Exp. Med. 211 (3) 405-411 [2014-03-10; online 2014-02-19]
Protein Science Facility (PSF)
PubMed DOI Crossref
A chromosome-centric analysis of antibodies directed toward the human proteome using Antibodypedia.
Alm T, von Feilitzen K, Lundberg E, Sivertsson Å, Uhlén M
J. Proteome Res. 13 (3) 1669-1676 [2014-03-07; online 2014-02-19]
Spatial Proteomics
PubMed DOI Crossref
Whole genome sequencing of the black grouse (Tetrao tetrix): reference guided assembly suggests faster-Z and MHC evolution.
Wang B, Ekblom R, Bunikis I, Siitari H, Höglund J
BMC Genomics 15 (-) 180 [2014-03-06; online 2014-03-06]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
ZapE is a novel cell division protein interacting with FtsZ and modulating the Z-ring dynamics.
Marteyn BS, Karimova G, Fenton AK, ..., Sansonetti PJ, Tang CM
MBio 5 (2) e00022-e00014 [2014-03-04; online 2014-03-04]
Protein Science Facility (PSF)
PubMed DOI Crossref
Molecular- and organelle-based predictive paradigm underlying recovery by left ventricular assist device support.
Liem DA, Nsair A, Setty SP, ..., Ping P, Deng MC
Circ Heart Fail 7 (2) 359-366 [2014-03-01; online 2014-03-20]
Spatial Proteomics Tissue Profiling
PubMed DOI Crossref
A study of embryonic stem cell-related proteins in human astrocytomas: identification of Nanog as a predictor of survival.
Elsir T, Edqvist PH, Carlson J, ..., Nistér M, Smits A
Int. J. Cancer 134 (5) 1123-1131 [2014-03-01; online 2013-09-17]
Tissue Profiling
PubMed DOI Crossref
Urinary prognostic biomarkers in patients with focal segmental glomerulosclerosis.
Kalantari S, Nafar M, Samavat S, ..., Rutishauser D, Zubarev R
Nephrourol Mon 6 (2) e16806 [2014-03-00; online 2014-03-09]
Advanced Mass Spectrometry Proteomics
PubMed DOI Crossref
The Dictyostelium discoideum RNA-dependent RNA polymerase RrpC silences the centromeric retrotransposon DIRS-1 post-transcriptionally and is required for the spreading of RNA silencing signals.
Wiegand S, Meier D, Seehafer C, ..., Söderbom F, Hammann C
Nucleic Acids Res. 42 (5) 3330-3345 [2014-03-00; online 2013-12-27]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Purification, stability, and immunogenicity analyses of five bluetongue virus proteins for use in development of a subunit vaccine that allows differentiation of infected from vaccinated animals.
Anderson J, Bréard E, Lövgren Bengtsson K, ..., Valarcher JF, Hägglund S
Clin. Vaccine Immunol. 21 (3) 443-452 [2014-03-00; online 2014-01-24]
Mass Spectrometry-based Proteomics, Uppsala
PubMed DOI Crossref
On the biogeography of Centipeda: a species-tree diffusion approach.
Nylinder S, Lemey P, De Bruyn M, ..., Walsh N, Anderberg AA
Syst. Biol. 63 (2) 178-191 [2014-03-00; online 2013-12-18]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
MAX mutations status in Swedish patients with pheochromocytoma and paraganglioma tumours.
Crona J, Maharjan R, Delgado Verdugo A, ..., Hellman P, Björklund P
Fam. Cancer 13 (1) 121-125 [2014-03-00; online 2013-06-08]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Investigation of a putative melanoma susceptibility locus at chromosome 3q29.
Tuominen R, Jönsson G, Enerbäck C, ..., Hansson J, Höiom V
Cancer Genet 207 (3) 70-74 [2014-03-00; online 2014-02-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Genome-wide trans-ancestry meta-analysis provides insight into the genetic architecture of type 2 diabetes susceptibility.
DIAbetes Genetics Replication And Meta-analysis (DIAGRAM) Consortium , Asian Genetic Epidemiology Network Type 2 Diabetes (AGEN-T2D) Consortium , South Asian Type 2 Diabetes (SAT2D) Consortium , ..., McCarthy MI, Morris AP
Nat. Genet. 46 (3) 234-244 [2014-03-00; online 2014-02-11]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Feasibility of targeted next-generation sequencing of the TP53 and ATM genes in chronic lymphocytic leukemia.
Mansouri L, Sutton LA, Ljungström V, ..., Nilsson M, Rosenquist R
Leukemia 28 (3) 694-696 [2014-03-00; online 2013-10-31]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Detection of enterovirus in the islet cells of patients with type 1 diabetes: what do we learn from immunohistochemistry?
Hansson SF, Korsgren S, Pontén F, Korsgren O
Diabetologia 57 (3) 645-646 [2014-03-00; online 2013-12-20]
Tissue Profiling
PubMed DOI Crossref
Centromeric histone H2B monoubiquitination promotes noncoding transcription and chromatin integrity.
Sadeghi L, Siggens L, Svensson JP, Ekwall K
Nat. Struct. Mol. Biol. 21 (3) 236-243 [2014-03-00; online 2014-02-18]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Cancer death is related to high palmitoleic acid in serum and to polymorphisms in the SCD-1 gene in healthy Swedish men.
Byberg L, Kilander L, Warensjö Lemming E, Michaëlsson K, Vessby B
Am. J. Clin. Nutr. 99 (3) 551-558 [2014-03-00; online 2013-12-26]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Antibody performance in western blot applications is context-dependent.
Algenäs C, Agaton C, Fagerberg L, ..., Ottosson Takanen J, Hober S
Biotechnol J 9 (3) 435-445 [2014-03-00; online 2014-01-10]
Spatial Proteomics Tissue Profiling
DOI Crossref
Analysis of plasma from prostate cancer patients links decreased carnosine dipeptidase 1 levels to lymph node metastasis
Qundos U, Johannesson H, Fredolini C, ..., Nilsson P, Schwenk JM
Translational Proteomics 2 (-) 14-24 [2014-03-00; online 2014-03-00]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Robust isolation of malignant plasma cells in multiple myeloma
Frigyesi I, Adolfsson J, Ali M, ..., Hansson M, Nilsson B
Blood 123 (9) 1336-1340 [2014-02-27; online 2014-02-27]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Functional tradeoffs underpin salinity-driven divergence in microbial community composition.
Dupont CL, Larsson J, Yooseph S, ..., Venter JC, Bergman B
PLoS ONE 9 (2) e89549 [2014-02-27; online 2014-02-27]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Crystal structures of leukotriene C4 synthase in complex with product analogs: implications for the enzyme mechanism.
Niegowski D, Kleinschmidt T, Olsson U, ..., Rinaldo-Matthis A, Haeggström JZ
J. Biol. Chem. 289 (8) 5199-5207 [2014-02-21; online 2013-12-25]
Protein Science Facility (PSF)
PubMed DOI Crossref
Genetics of rheumatoid arthritis contributes to biology and drug discovery.
Okada Y, Wu D, Trynka G, ..., Yamamoto K, Plenge RM
Nature 506 (7488) 376-381 [2014-02-20; online 2013-12-25]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
An alternative root for the eukaryote tree of life.
He D, Fiz-Palacios O, Fu CJ, ..., Tsai CC, Baldauf SL
Curr. Biol. 24 (4) 465-470 [2014-02-17; online 2014-02-11]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Integrative genome and transcriptome analyses reveal two distinct types of ring chromosome in soft tissue sarcomas.
Nord KH, Macchia G, Tayebwa J, ..., Mandahl N, Mertens F
Hum. Mol. Genet. 23 (4) 878-888 [2014-02-15; online 2013-09-28]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
BET bromodomain inhibition of MYC-amplified medulloblastoma.
Bandopadhayay P, Bergthold G, Nguyen B, ..., Beroukhim R, Cho YJ
Clin. Cancer Res. 20 (4) 912-925 [2014-02-15; online 2013-12-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Microevolution during an Anthrax outbreak leading to clonal heterogeneity and penicillin resistance.
Ågren J, Finn M, Bengtsson B, Segerman B
PLoS ONE 9 (2) e89112 [2014-02-13; online 2014-02-13]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Structural and functional insights into peptidoglycan access for the lytic amidase LytA of Streptococcus pneumoniae.
Mellroth P, Sandalova T, Kikhney A, ..., Henriques-Normark B, Achour A
MBio 5 (1) e01120-e01113 [2014-02-11; online 2014-02-11]
Protein Science Facility (PSF)
PubMed DOI Crossref
Sequential pH-driven dimerization and stabilization of the N-terminal domain enables rapid spider silk formation.
Kronqvist N, Otikovs M, Chmyrov V, ..., Jaudzems K, Johansson J
Nat Commun 5 (-) 3254 [2014-02-11; online 2014-02-11]
Fluorescence Correlation Spectroscopy [Collaborative] Integrated Microscopy Technologies Stockholm
PubMed DOI Crossref
Prognostic polypeptide blood plasma biomarkers of Alzheimer's disease progression.
Yang H, Lyutvinskiy Y, Herukka SK, ..., Rutishauser D, Zubarev RA
J. Alzheimers Dis. 40 (3) 659-666 [2014-02-08; online 2014-02-08]
Advanced Mass Spectrometry Proteomics
PubMed DOI Crossref
Identification of novel downstream molecules of tissue factor activation by comparative proteomic analysis.
Kask L, Jorsback A, Winkvist M, ..., Bergquist J, Siegbahn A
J. Proteome Res. 13 (2) 477-488 [2014-02-07; online 2013-12-11]
Affinity Proteomics Uppsala [Technology development] Clinical Biomarkers PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Visual detection of DNA on paper chips.
Song Y, Gyarmati P, Araújo AC, ..., Brumer H, Ståhl PL
Anal. Chem. 86 (3) 1575-1582 [2014-02-04; online 2014-01-17]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Removal of total organic carbon from sewage wastewater using poly(ethylenimine)-functionalized magnetic nanoparticles.
Lakshmanan R, Sanchez-Dominguez M, Matutes-Aquino JA, Wennmalm S, Kuttuva Rajarao G
Langmuir 30 (4) 1036-1044 [2014-02-04; online 2014-01-17]
Fluorescence Correlation Spectroscopy [Collaborative] Integrated Microscopy Technologies Stockholm
PubMed DOI Crossref
Intraclonal variations among Streptococcus pneumoniae isolates influence the likelihood of invasive disease in children.
Browall S, Norman M, Tångrot J, ..., Normark S, Henriques-Normark B
J. Infect. Dis. 209 (3) 377-388 [2014-02-01; online 2013-09-07]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
WNT10A mutations account for ¼ of population-based isolated oligodontia and show phenotypic correlations.
Arzoo PS, Klar J, Bergendal B, Norderyd J, Dahl N
Am. J. Med. Genet. A 164A (2) 353-359 [2014-02-00; online 2014-01-23]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The genome of Spironucleus salmonicida highlights a fish pathogen adapted to fluctuating environments.
Xu F, Jerlström-Hultqvist J, Einarsson E, ..., Svärd SG, Andersson JO
PLoS Genet. 10 (2) e1004053 [2014-02-00; online 2014-02-06]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Subtyping of gliomas of various WHO grades by the application of immunohistochemistry.
Popova SN, Bergqvist M, Dimberg A, ..., Sooman L, Alafuzoff I
Histopathology 64 (3) 365-379 [2014-02-00; online 2014-01-15]
Tissue Profiling
PubMed DOI Crossref
Rearrangements of chromosome bands 15q12-q21 are secondary to HMGA2 deregulation in conventional lipoma.
Macchia G, Nord KH, D'Alessandro G, ..., Storlazzi CT, Mertens F
Oncol. Rep. 31 (2) 807-811 [2014-02-00; online 2013-12-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Product formation controlled by substrate dynamics in leukotriene A4 hydrolase.
Stsiapanava A, Tholander F, Kumar RB, ..., Haeggström JZ, Rinaldo-Matthis A
Biochim. Biophys. Acta 1844 (2) 439-446 [2014-02-00; online 2013-12-18]
Protein Science Facility (PSF)
PubMed DOI Crossref
Lipid mediator profiles differ between lung compartments in asthmatic and healthy humans.
Larsson N, Lundström SL, Pinto R, ..., Wheelock CE, Nording ML
Eur. Respir. J. 43 (2) 453-463 [2014-02-00; online 2013-09-17]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Global DNA methylation patterns through an array-based approach in small intestinal neuroendocrine tumors.
Verdugo AD, Crona J, Starker L, ..., Hellman P, Björklund P
Endocr. Relat. Cancer 21 (1) L5-L7 [2014-02-00; online 2013-11-07]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Glioma-derived macrophage migration inhibitory factor (MIF) promotes mast cell recruitment in a STAT5-dependent manner.
Põlajeva J, Bergström T, Edqvist PH, ..., Forsberg Nilsson K, Tchougounova E
Mol Oncol 8 (1) 50-58 [2014-02-00; online 2013-10-05]
Tissue Profiling
PubMed DOI Crossref
Collecting and preserving biological samples from challenging environments for DNA analysis.
Buś MM, Allen M
Biopreserv Biobank 12 (1) 17-22 [2014-02-00; online 2014-03-14]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Analysis of the human tissue-specific expression by genome-wide integration of transcriptomics and antibody-based proteomics.
Fagerberg L, Hallström BM, Oksvold P, ..., Ponten F, Uhlén M
Mol. Cell Proteomics 13 (2) 397-406 [2014-02-00; online 2013-12-07]
Affinity Proteomics Stockholm [Technology development] Autoimmunity and Serology Profiling [Technology development] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Spatial Proteomics Tissue Profiling
PubMed DOI Crossref
A prostate cancer susceptibility allele at 6q22 increases RFX6 expression by modulating HOXB13 chromatin binding.
Huang Q, Whitington T, Gao P, ..., Taipale J, Wei GH
Nat. Genet. 46 (2) 126-135 [2014-02-00; online 2014-01-07]
Karolinska High Throughput Center (KHTC)
PubMed DOI Crossref
A possible genetic association with chronic fatigue in primary Sjögren's syndrome: a candidate gene study.
Norheim KB, Le Hellard S, Nordmark G, ..., Jonsson R, Omdal R
Rheumatol. Int. 34 (2) 191-197 [2014-02-00; online 2013-09-04]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
DOI Crossref
2′-(Z)-Cinnamoylsalicortin: A novel salicinoid isolated from Populus tremula
Keefover-Ring K, Carlsson M, Albrectsen BR
Phytochemistry Letters 7 (-) 212-216 [2014-02-00; online 2014-02-00]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Increased alpha-9 human papillomavirus species viral load in human immunodeficiency virus positive women.
Mbulawa ZZ, Johnson LF, Marais DJ, ..., Gyllensten U, Williamson AL
BMC Infect. Dis. 14 (-) 51 [2014-01-31; online 2014-01-31]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Trypanosoma cruzi Clone Dm28c Draft Genome Sequence.
Grisard EC, Teixeira SM, de Almeida LG, ..., Andersson B, de Vasconcelos AT
Genome Announc 2 (1) - [2014-01-30; online 2014-01-30]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Aspirin degradation in surface-charged TEMPO-oxidized mesoporous crystalline nanocellulose.
Carlsson DO, Hua K, Forsgren J, Mihranyan A
Int J Pharm 461 (1-2) 74-81 [2014-01-30; online 2013-12-03]
BioMaterial Interactions (BioMat)
PubMed DOI Crossref
Mycobacteria bypass mucosal NF-kB signalling to induce an epithelial anti-inflammatory IL-22 and IL-10 response.
Lutay N, Håkansson G, Alaridah N, ..., Westergren-Thorsson G, Godaly G
PLoS ONE 9 (1) e86466 [2014-01-28; online 2014-01-28]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Isolation and characterization of anti-adenoviral secondary metabolites from marine actinobacteria.
Strand M, Carlsson M, Uvell H, ..., Wadell G, Almqvist F
Mar Drugs 12 (2) 799-821 [2014-01-28; online 2014-01-28]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Metabolic enzyme expression highlights a key role for MTHFD2 and the mitochondrial folate pathway in cancer.
Nilsson R, Jain M, Madhusudhan N, ..., Asplund A, Mootha VK
Nat Commun 5 (-) 3128 [2014-01-24; online 2014-01-24]
Tissue Profiling
PubMed DOI Crossref
BDNF polymorphisms are linked to poorer working memory performance, reduced cerebellar and hippocampal volumes and differences in prefrontal cortex in a Swedish elderly population.
Brooks SJ, Nilsson EK, Jacobsson JA, ..., Lind L, Schiöth HB
PLoS ONE 9 (1) e82707 [2014-01-23; online 2014-01-23]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Integrative genetic characterization and phenotype correlations in pheochromocytoma and paraganglioma tumours.
Crona J, Nordling M, Maharjan R, ..., Hellman P, Björklund P
PLoS ONE 9 (1) e86756 [2014-01-22; online 2014-01-22]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Structural basis for binding of fluorinated glucose and galactose to Trametes multicolor pyranose 2-oxidase variants with improved galactose conversion.
Tan TC, Spadiut O, Gandini R, Haltrich D, Divne C
PLoS ONE 9 (1) e86736 [2014-01-21; online 2014-01-21]
Protein Science Facility (PSF)
PubMed DOI Crossref
Eight New Genomes and Synthetic Controls Increase the Accessibility of Rapid Melt-MAMA SNP Typing of Coxiella burnetii
Karlsson E, Macellaro A, Byström M, ..., Sjödin A, Myrtennäs K
PLoS ONE 9 (1) e85417 [2014-01-21; online 2014-01-21]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Host-specificity and dynamics in bacterial communities associated with Bloom-forming freshwater phytoplankton.
Bagatini IL, Eiler A, Bertilsson S, ..., Tessarolli LP, Vieira AAH
PLoS ONE 9 (1) e85950 [2014-01-20; online 2014-01-20]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
FuseFISH: robust detection of transcribed gene fusions in single cells.
Semrau S, Crosetto N, Bienko M, ..., Chiarle R, van Oudenaarden A
Cell Rep 6 (1) 18-23 [2014-01-16; online 2013-12-27]
Advanced FISH Technologies [Technology development]
PubMed DOI Crossref
Transmission of hepatitis C virus among intravenous drug users in the Uppsala region of Sweden.
Danielsson A, Palanisamy N, Golbob S, ..., Sylvan S, Lennerstrand J
Infect Ecol Epidemiol 4 (-) - [2014-01-15; online 2014-01-15]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
The basic keratin 10-binding domain of the virulence-associated pneumococcal serine-rich protein PsrP adopts a novel MSCRAMM fold.
Schulte T, Löfling J, Mikaelsson C, ..., Henriques-Normark B, Achour A
Open Biol 4 (-) 130090 [2014-01-15; online 2014-01-15]
Protein Science Facility (PSF)
PubMed DOI Crossref
Genome-scale metabolic modelling of hepatocytes reveals serine deficiency in patients with non-alcoholic fatty liver disease.
Mardinoglu A, Agren R, Kampf C, ..., Uhlen M, Nielsen J
Nat Commun 5 (-) 3083 [2014-01-15; online 2014-01-15]
Tissue Profiling
PubMed DOI Crossref
Dating the diversification of the major lineages of Passeriformes (Aves).
Ericson PG, Klopfstein S, Irestedt M, Nguyen JM, Nylander JA
BMC Evol. Biol. 14 (-) 8 [2014-01-15; online 2014-01-15]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
An N-Terminal Missense Mutation in STX11 Causative of FHL4 Abrogates Syntaxin-11 Binding to Munc18-2.
Müller ML, Chiang SC, Meeths M, ..., Naqvi A, Bryceson YT
Front Immunol 4 (-) 515 [2014-01-14; online 2014-01-14]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Draft Genome Sequence of Saccharopolyspora rectivirgula.
Pettersson BM, Behra PR, Manduva S, ..., Bhattacharya A, Kirsebom LA
Genome Announc 2 (1) - [2014-01-09; online 2014-01-09]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Assessment of whole genome amplification for sequence capture and massively parallel sequencing.
Hasmats J, Gréen H, Orear C, ..., Käller M, Lundeberg J
PLoS ONE 9 (1) e84785 [2014-01-07; online 2014-01-07]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Metrics for the Human Proteome Project 2013-2014 and strategies for finding missing proteins.
Lane L, Bairoch A, Beavis RC, ..., Lundberg E, Omenn GS
J. Proteome Res. 13 (1) 15-20 [2014-01-03; online 2013-12-25]
Spatial Proteomics
PubMed DOI Crossref
Dominant mutations in GRHL3 cause Van der Woude Syndrome and disrupt oral periderm development.
Peyrard-Janvid M, Leslie EJ, Kousa YA, ..., Kere J, Schutte BC
Am. J. Hum. Genet. 94 (1) 23-32 [2014-01-02; online 2013-12-24]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
RipD (Rv1566c) from Mycobacterium tuberculosis: adaptation of an NlpC/p60 domain to a non-catalytic peptidoglycan-binding function.
Böth D, Steiner EM, Izumi A, Schneider G, Schnell R
Biochem. J. 457 (1) 33-41 [2014-01-01; online 2013-10-11]
Protein Science Facility (PSF)
PubMed DOI Crossref
Why time matters: codon evolution and the temporal dynamics of dN/dS.
Mugal CF, Wolf JB, Kaj I
Mol. Biol. Evol. 31 (1) 212-231 [2014-01-00; online 2013-10-17]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The maintenance of mitochondrial genetic variation by negative frequency-dependent selection.
Kazancıoğlu E, Arnqvist G
Ecol. Lett. 17 (1) 22-27 [2014-01-00; online 2013-10-19]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
SNPs within the GH-signaling pathway are associated with the early IGF1 response to GH replacement therapy in GHD adults.
Glad CA, Barbosa EJ, Filipsson Nyström H, ..., Svensson PA, Johannsson G
Eur. J. Endocrinol. 170 (1) 101-107 [2014-01-00; online 2013-10-12]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Protein biomarkers in vernix with potential to predict the development of atopic eczema in early childhood.
Holm T, Rutishauser D, Kai-Larsen Y, ..., Alm J, Scheynius A
Allergy 69 (1) 104-112 [2014-01-00; online 2013-11-12]
Advanced Mass Spectrometry Proteomics
PubMed DOI Crossref
Polymorphisms in the dopamine receptor 2 gene region influence improvements during working memory training in children and adolescents.
Söderqvist S, Matsson H, Peyrard-Janvid M, Kere J, Klingberg T
J Cogn Neurosci 26 (1) 54-62 [2014-01-00; online 2013-09-05]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Magnetic bead assisted labeling of antibodies at nanogram scale.
Dezfouli M, Vickovic S, Iglesias MJ, ..., Schwenk JM, Ahmadian A
Proteomics 14 (1) 14-18 [2014-01-00; online 2013-12-07]
Affinity Proteomics Stockholm [Technology development] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
HiRIEF LC-MS enables deep proteome coverage and unbiased proteogenomics.
Branca RM, Orre LM, Johansson HJ, ..., Käll L, Lehtiö J
Nat. Methods 11 (1) 59-62 [2014-01-00; online 2013-11-17]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Different mutations in PDE4D associated with developmental disorders with mirror phenotypes.
Lindstrand A, Grigelioniene G, Nilsson D, ..., Mäkitie O, Nordgren A
J. Med. Genet. 51 (1) 45-54 [2014-01-00; online 2013-11-10]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Detection of the human endogenous retrovirus ERV3-encoded Env-protein in human tissues using antibody-based proteomics.
Fei C, Atterby C, Edqvist PH, ..., Larsson E, Ryan FP
J R Soc Med 107 (1) 22-29 [2014-01-00; online 2013-11-23]
Tissue Profiling
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Data processing methods and quality control strategies for label-free LC-MS protein quantification.
Sandin M, Teleman J, Malmström J, Levander F
Biochim. Biophys. Acta 1844 (1 Pt A) 29-41 [2014-01-00; online 2013-04-10]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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A systematic analysis of commonly used antibodies in cancer diagnostics.
Gremel G, Bergman J, Djureinovic D, ..., Micke P, Pontén F
Histopathology 64 (2) 293-305 [2014-01-00; online 2013-12-18]
Tissue Profiling
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A population-based assessment of germline HOXB13 G84E mutation and prostate cancer risk.
Karlsson R, Aly M, Clements M, ..., Grönberg H, Wiklund F
Eur. Urol. 65 (1) 169-176 [2014-01-00; online 2012-07-20]
Mutation Analysis Facility (MAF)
DOI Crossref
Translational study between structure and biological response of nanocellulose from wood and green algae
Hua K, Carlsson DO, Ålander E, ..., Mihranyan A, Ferraz N
RSC Adv. 4 (6) 2892-2903 [2014-00-00; online 2014-00-00]
BioMaterial Interactions (BioMat)
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Proline N-oxides: modulators of the 3D conformation of linear peptides through “NO-turns”
Farahani MD, Honarparvar B, Albericio F, ..., Arvidsson PI, Kruger HG
Org. Biomol. Chem. 12 (25) 4479 [2014-00-00; online 2014-00-00]
Drug Discovery and Development (DDD) [Collaborative]
DOI Crossref
Photocatalysis induces bioactivity of an organic polymer based material
Cai Y, Strømme M, Zhang P, Engqvist H, Welch K
RSC Adv. 4 (101) 57715-57723 [2014-00-00; online 2014-00-00]
BioMaterial Interactions (BioMat)
DOI Crossref
Disinfection Kinetics and Contribution of Reactive Oxygen Species When Eliminating Bacteria with TiO&lt;sub&gt;2&lt;/sub&gt; Induced Photocatalysis
Cai Y, Strømme M, Welch K
JBNB 05 (03) 200-209 [2014-00-00; online 2014-00-00]
BioMaterial Interactions (BioMat)
DOI Crossref
A luminescence-based assay of UDP-sugar producing pyrophosphorylases
Decker D, Lindberg S, Eriksson J, Kleczkowski LA
Anal. Methods 6 (1) 57-61 [2014-00-00; online 2014-00-00]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Structure-activity relationships of synthetic cordycepin analogues as experimental therapeutics for African trypanosomiasis.
Vodnala SK, Lundbäck T, Yeheskieli E, ..., Hammarström LG, Rottenberg ME
J. Med. Chem. 56 (24) 9861-9873 [2013-12-27; online 2013-12-10]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Association of STAT4 polymorphism with severe renal insufficiency in lupus nephritis.
Bolin K, Sandling JK, Zickert A, ..., Gunnarsson I, Nordmark G
PLoS ONE 8 (12) e84450 [2013-12-27; online 2013-12-27]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Profiling post-centrifugation delay of serum and plasma with antibody bead arrays.
Qundos U, Hong M, Tybring G, ..., Nilsson P, Schwenk JM
J Proteomics 95 (-) 46-54 [2013-12-16; online 2013-05-02]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Automated quality control system for LC-SRM setups.
Teleman J, Waldemarson S, Malmström J, Levander F
J Proteomics 95 (-) 77-83 [2013-12-16; online 2013-04-16]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Combining genetic mapping with genome-wide expression in experimental autoimmune encephalomyelitis highlights a gene network enriched for T cell functions and candidate genes regulating autoimmunity.
Thessen Hedreul M, Möller S, Stridh P, ..., Olsson T, Jagodic M
Hum. Mol. Genet. 22 (24) 4952-4966 [2013-12-15; online 2013-07-29]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Genome-wide analyses implicate 33 loci in heritable dog osteosarcoma, including regulatory variants near CDKN2A/B.
Karlsson EK, Sigurdsson S, Ivansson E, ..., Breen M, Lindblad-Toh K
Genome Biol. 14 (12) R132 [2013-12-12; online 2013-12-12]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Chemical probes to study ADP-ribosylation: synthesis and biochemical evaluation of inhibitors of the human ADP-ribosyltransferase ARTD3/PARP3.
Lindgren AE, Karlberg T, Ekblad T, ..., Schüler H, Elofsson M
J. Med. Chem. 56 (23) 9556-9568 [2013-12-12; online 2013-11-06]
Protein Science Facility (PSF)
PubMed DOI Crossref
Linkage analysis in familial non-Lynch syndrome colorectal cancer families from Sweden.
Kontham V, von Holst S, Lindblom A
PLoS ONE 8 (12) e83936 [2013-12-11; online 2013-12-11]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Utilizing twins as controls for non-twin case-materials in genome wide association studies.
Ganna A, Ortega-Alonso A, Havulinna A, ..., Hultman CM, Magnusson PKE
PLoS ONE 8 (12) e83101 [2013-12-10; online 2013-12-10]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Statistical molecular design: a tool to follow up hits from small-molecule screening.
Lindgren AE, Larsson A, Linusson A, Elofsson M
Methods Mol. Biol. 1056 (-) 169-188 [2013-12-07; online 2013-12-07]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
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Urinary prognostic biomarkers and classification of IgA nephropathy by high resolution mass spectrometry coupled with liquid chromatography.
Kalantari S, Rutishauser D, Samavat S, ..., Rezaei-Tavirani M, Zubarev RA
PLoS ONE 8 (12) e80830 [2013-12-05; online 2013-12-05]
Advanced Mass Spectrometry Proteomics
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Accurate detection of subclonal single nucleotide variants in whole genome amplified and pooled cancer samples using HaloPlex target enrichment.
Berglund EC, Lindqvist CM, Hayat S, ..., Lönnerholm G, Syvänen AC
BMC Genomics 14 (-) 856 [2013-12-05; online 2013-12-05]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
The resveratrol tetramer (-)-hopeaphenol inhibits type III secretion in the gram-negative pathogens Yersinia pseudotuberculosis and Pseudomonas aeruginosa.
Zetterström CE, Hasselgren J, Salin O, ..., Sundin C, Elofsson M
PLoS ONE 8 (12) e81969 [2013-12-04; online 2013-12-04]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Integrated molecular portrait of non-small cell lung cancers.
Lazar V, Suo C, Orear C, ..., Hansson J, Pawitan Y
BMC Med Genomics 6 (-) 53 [2013-12-03; online 2013-12-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
A genome-wide association study of atopic dermatitis identifies loci with overlapping effects on asthma and psoriasis.
Weidinger S, Willis-Owen SA, Kamatani Y, ..., Irvine AD, Moffatt MF
Hum. Mol. Genet. 22 (23) 4841-4856 [2013-12-01; online 2013-07-28]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Using transcriptomics to improve butanol tolerance of Synechocystis sp. strain PCC 6803.
Anfelt J, Hallström B, Nielsen J, Uhlén M, Hudson EP
Appl. Environ. Microbiol. 79 (23) 7419-7427 [2013-12-00; online 2013-09-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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The association between plasma homocysteine and coronary heart disease is modified by the MTHFR 677C>T polymorphism.
Mehlig K, Leander K, de Faire U, ..., Lissner L, Thelle D
Heart 99 (23) 1761-1765 [2013-12-00; online 2013-09-10]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Selectivity analysis of single binder assays used in plasma protein profiling.
Neiman M, Fredolini C, Johansson H, ..., Nilsson P, Schwenk JM
Proteomics 13 (23-24) 3406-3410 [2013-12-00; online 2013-10-24]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Protein expansion is primarily due to indels in intrinsically disordered regions.
Light S, Sagit R, Sachenkova O, Ekman D, Elofsson A
Mol. Biol. Evol. 30 (12) 2645-2653 [2013-12-00; online 2013-09-17]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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High expression of glycolytic and pigment proteins is associated with worse clinical outcome in stage III melanoma.
Falkenius J, Lundeberg J, Johansson H, ..., Hansson J, Egyhazi Brage S
Melanoma Res. 23 (6) 452-460 [2013-12-00; online 2013-10-17]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Genetic variation at the IGF1 locus shows association with post-stroke outcome and to circulating IGF1.
Aberg ND, Olsson S, Aberg D, ..., Isgaard J, Jern C
Eur. J. Endocrinol. 169 (6) 759-765 [2013-12-00; online 2013-10-21]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Evaluation of real-time immunohistochemistry and interaction map as an alternative objective assessment of HER2 expression in human breast cancer tissue.
Gedda L, Björkelund H, Lebel L, ..., Malmqvist M, Andersson K
Appl. Immunohistochem. Mol. Morphol. 21 (6) 497-505 [2013-12-00; online 2013-03-05]
Tissue Profiling
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Distinct loci in the CHRNA5/CHRNA3/CHRNB4 gene cluster are associated with onset of regular smoking.
Stephens SH, Hartz SM, Hoft NR, ..., Bierut LJ, Ehringer MA
Genet. Epidemiol. 37 (8) 846-859 [2013-12-00; online 2013-11-05]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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DNA damage leads to progressive replicative decline but extends the life span of long-lived mutant animals.
Lans H, Lindvall JM, Thijssen K, ..., Nilsen H, Vermeulen W
Cell Death Differ. 20 (12) 1709-1718 [2013-12-00; online 2013-09-10]
Bioinformatics and Expression Analysis (BEA)
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Single-cell genomics reveal low recombination frequencies in freshwater bacteria of the SAR11 clade.
Zaremba-Niedzwiedzka K, Viklund J, Zhao W, ..., Stepanauskas R, Andersson SG
Genome Biol. 14 (11) R130 [2013-11-28; online 2013-11-28]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Identification of candidate serum proteins for classifying well-differentiated small intestinal neuroendocrine tumors.
Darmanis S, Cui T, Drobin K, ..., Schwenk JM, Giandomenico V
PLoS ONE 8 (11) e81712 [2013-11-25; online 2013-11-25]
Affinity Proteomics Stockholm [Collaborative]
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Germline genetic contributions to risk for esophageal adenocarcinoma, Barrett's esophagus, and gastroesophageal reflux.
Ek WE, Levine DM, D'Amato M, ..., MacGregor S, BEACON study investigators
J. Natl. Cancer Inst. 105 (22) 1711-1718 [2013-11-20; online 2013-10-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Rule-based models of the interplay between genetic and environmental factors in childhood allergy.
Bornelöv S, Sääf A, Melén E, ..., Pershagen G, Komorowski J
PLoS ONE 8 (11) e80080 [2013-11-19; online 2013-11-19]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
De novo SNP discovery in the Scandinavian brown bear (Ursus arctos).
Norman AJ, Street NR, Spong G
PLoS ONE 8 (11) e81012 [2013-11-18; online 2013-11-18]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
miR-128 regulates non-myocyte hyperplasia, deposition of extracellular matrix and Islet1 expression during newt cardiac regeneration.
Witman N, Heigwer J, Thaler B, Lui WO, Morrison JI
Dev. Biol. 383 (2) 253-263 [2013-11-15; online 2013-09-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Substrate specificity and oligomerization of human GMP synthetase.
Welin M, Lehtiö L, Johansson A, ..., Gräslund S, Nordlund P
J. Mol. Biol. 425 (22) 4323-4333 [2013-11-15; online 2013-07-03]
Protein Science Facility (PSF)
PubMed DOI Crossref
Early B-cell factor 1 regulates the expansion of B-cell progenitors in a dose-dependent manner.
Åhsberg J, Ungerbäck J, Strid T, ..., Qian H, Sigvardsson M
J. Biol. Chem. 288 (46) 33449-33461 [2013-11-15; online 2013-09-27]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Discovery of an allosteric inhibitor binding site in 3-Oxo-acyl-ACP reductase from Pseudomonas aeruginosa.
Cukier CD, Hope AG, Elamin AA, ..., Gray DW, Schneider G
ACS Chem. Biol. 8 (11) 2518-2527 [2013-11-15; online 2013-09-11]
Protein Science Facility (PSF)
DOI Crossref
Polymer–Pendant Interactions in Poly(pyrrol-3-ylhydroquinone): A Solution for the Use of Conducting Polymers at Stable Conditions
Karlsson C, Huang H, Strømme M, Gogoll A, Sjödin M
J. Phys. Chem. C 117 (45) 23558-23567 [2013-11-14; online 2013-11-05]
Swedish NMR Centre (SNC) [Service]
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Efficient cellular fractionation improves RNA sequencing analysis of mature and nascent transcripts from human tissues.
Zaghlool A, Ameur A, Nyberg L, ..., Cavelier L, Feuk L
BMC Biotechnol. 13 (-) 99 [2013-11-13; online 2013-11-13]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Disturbance induced decoupling between host genetics and composition of the associated microbiome.
Wegner KM, Volkenborn N, Peter H, Eiler A
BMC Microbiol. 13 (-) 252 [2013-11-09; online 2013-11-09]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
ChIP-seq in steatohepatitis and normal liver tissue identifies candidate disease mechanisms related to progression to cancer.
Bysani M, Wallerman O, Bornelöv S, ..., Komorowski J, Wadelius C
BMC Med Genomics 6 (-) 50 [2013-11-08; online 2013-11-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Inference of the genetic architecture underlying BMI and height with the use of 20,240 sibling pairs.
Hemani G, Yang J, Vinkhuyzen A, ..., Martin NG, Visscher PM
Am. J. Hum. Genet. 93 (5) 865-875 [2013-11-07; online 2013-10-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of candidate genes and mutations in QTL regions for chicken growth using bioinformatic analysis of NGS and SNP-chip data.
Ahsan M, Li X, Lundberg AE, ..., Carlborg O, Marklund S
Front Genet 4 (-) 226 [2013-11-05; online 2013-11-05]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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In vitro and in vivo evaluation of osteoporosis therapeutic peptide PTH 1-34 loaded pegylated chitosan nanoparticles.
Narayanan D, Anitha A, Jayakumar R, Chennazhi KP
Mol. Pharm. 10 (11) 4159-4167 [2013-11-04; online 2013-09-07]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Combined in vitro-in vivo approach to assess the hepatobiliary disposition of a novel oral thrombin inhibitor.
Matsson EM, Eriksson UG, Palm JE, ..., Schützer K, Lennernäs H
Mol. Pharm. 10 (11) 4252-4262 [2013-11-04; online 2013-10-02]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
7,8- and 5,8-Linoleate diol synthases support the heterolytic scission of oxygen-oxygen bonds by different amide residues.
Hoffmann I, Oliw EH
Arch. Biochem. Biophys. 539 (1) 87-91 [2013-11-01; online 2013-09-26]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Wobble decoding by the Escherichia coli selenocysteine insertion machinery.
Xu J, Croitoru V, Rutishauser D, Cheng Q, Arnér ES
Nucleic Acids Res. 41 (21) 9800-9811 [2013-11-00; online 2013-08-29]
Advanced Mass Spectrometry Proteomics
PubMed DOI Crossref
Variants at multiple loci implicated in both innate and adaptive immune responses are associated with Sjögren's syndrome.
Lessard CJ, Li H, Adrianto I, ..., Harley JB, Sivils KL
Nat. Genet. 45 (11) 1284-1292 [2013-11-00; online 2013-10-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Reproducibility of high-throughput mRNA and small RNA sequencing across laboratories.
't Hoen PA, Friedländer MR, Almlöf J, ..., Dermitzakis ET, Lappalainen T
Nat. Biotechnol. 31 (11) 1015-1022 [2013-11-00; online 2013-09-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Metal-mediated crystallization of the xylose transporter XylE from Escherichia coli in three different crystal forms.
Quistgaard EM, Löw C, Moberg P, Nordlund P
J. Struct. Biol. 184 (2) 375-378 [2013-11-00; online 2013-09-26]
Protein Science Facility (PSF)
PubMed DOI Crossref
Genomic mechanisms accounting for the adaptation to parasitism in nematode-trapping fungi.
Meerupati T, Andersson KM, Friman E, ..., Tunlid A, Ahrén D
PLoS Genet. 9 (11) e1003909 [2013-11-00; online 2013-11-14]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Genome-wide DNA methylation assay reveals novel candidate biomarker genes in cervical cancer.
Farkas SA, Milutin-Gašperov N, Grce M, Nilsson TK
Epigenetics 8 (11) 1213-1225 [2013-11-00; online 2013-09-14]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Discovery and refinement of loci associated with lipid levels.
Global Lipids Genetics Consortium N, Willer CJ, Schmidt EM, ..., Ingelsson E, Abecasis GR
Nat. Genet. 45 (11) 1274-1283 [2013-11-00; online 2013-10-08]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Comparative drug pair screening across multiple glioblastoma cell lines reveals novel drug-drug interactions.
Schmidt L, Kling T, Monsefi N, ..., Gerlee P, Nelander S
Neuro-oncology 15 (11) 1469-1478 [2013-11-00; online 2013-10-06]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Common variants associated with plasma triglycerides and risk for coronary artery disease.
Do R, Willer CJ, Schmidt EM, ..., Neale BM, Kathiresan S
Nat. Genet. 45 (11) 1345-1352 [2013-11-00; online 2013-10-08]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Association of genes in the NF-κB pathway with antibody-positive primary Sjögren's syndrome.
Nordmark G, Wang C, Vasaitis L, ..., Syvänen AC, UK Primary Sjögren’s Syndrome Registry
Scand. J. Immunol. 78 (5) 447-454 [2013-11-00; online 2013-08-16]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Antibodies biotinylated using a synthetic Z-domain from protein A provide stringent in situ protein detection.
Andersson S, Konrad A, Ashok N, ..., Hober S, Asplund A
J. Histochem. Cytochem. 61 (11) 773-784 [2013-11-00; online 2013-08-08]
Tissue Profiling
PubMed DOI Crossref
In situ Protein Detection for Companion Diagnostics.
Gremel G, Grannas K, Sutton LA, Pontén F, Zieba A
Front Oncol 3 (-) 271 [2013-10-31; online 2013-10-31]
Tissue Profiling
PubMed DOI Crossref
Proteins of novel lactic acid bacteria from Apis mellifera mellifera: an insight into the production of known extra-cellular proteins during microbial stress.
Butler È, Alsterfjord M, Olofsson TC, ..., Malmström J, Vásquez A
BMC Microbiol. 13 (-) 235 [2013-10-22; online 2013-10-22]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Nanobody mediated crystallization of an archeal mechanosensitive channel.
Löw C, Yau YH, Pardon E, ..., Steyaert J, Nordlund P
PLoS ONE 8 (10) e77984 [2013-10-21; online 2013-10-21]
Protein Science Facility (PSF)
PubMed DOI Crossref
Eleven candidate susceptibility genes for common familial colorectal cancer.
Gylfe AE, Katainen R, Kondelin J, ..., Karhu A, Aaltonen LA
PLoS Genet. 9 (10) e1003876 [2013-10-17; online 2013-10-17]
Karolinska High Throughput Center (KHTC)
PubMed DOI Crossref
Transcriptome signatures in Helicobacter pylori-infected mucosa identifies acidic mammalian chitinase loss as a corpus atrophy marker.
Nookaew I, Thorell K, Worah K, ..., Nielsen J, Lundin SB
BMC Med Genomics 6 (-) 41 [2013-10-11; online 2013-10-11]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Divergent structure-activity relationships of structurally similar acetylcholinesterase inhibitors.
Andersson CD, Forsgren N, Akfur C, ..., Ekström F, Linusson A
J. Med. Chem. 56 (19) 7615-7624 [2013-10-10; online 2013-08-30]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Chemical fragmentation for massively parallel sequencing library preparation.
Gyarmati P, Song Y, Hällman J, Käller M
J. Biotechnol. 168 (1) 95-100 [2013-10-10; online 2013-09-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Molecular characterization of the α-subunit of Na⁺/K⁺ ATPase from the euryhaline barnacle Balanus improvisus reveals multiple genes and differential expression of alternative splice variants.
Lind U, Alm Rosenblad M, Wrange AL, ..., Havenhand J, Blomberg A
PLoS ONE 8 (10) e77069 [2013-10-09; online 2013-10-09]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Brain proteomics supports the role of glutamate metabolism and suggests other metabolic alterations in protein l-isoaspartyl methyltransferase (PIMT)-knockout mice.
Yang H, Lowenson JD, Clarke S, Zubarev RA
J. Proteome Res. 12 (10) 4566-4576 [2013-10-04; online 2013-08-21]
Advanced Mass Spectrometry Proteomics
PubMed DOI Crossref
Aneuploidy in neuroblastoma tumors is not associated with inactivating point mutations in the STAG2 gene.
Djos A, Fransson S, Kogner P, Martinsson T
BMC Med. Genet. 14 (-) 102 [2013-10-02; online 2013-10-02]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Transcription factor ZBED6 affects gene expression, proliferation, and cell death in pancreatic beta cells.
Wang X, Jiang L, Wallerman O, ..., Andersson L, Welsh N
Proc. Natl. Acad. Sci. U.S.A. 110 (40) 15997-16002 [2013-10-01; online 2013-09-16]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Structural diversity of signal recognition particle RNAs in plastids.
Rosenblad MA, Träger C, Schünemann D
Plant Signal Behav 8 (10) doi: 10.4161/psb.26848 [2013-10-00; online 2014-02-05]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Recent advances in crayfish hematopoietic stem cell culture: a model for studies of hemocyte differentiation and immunity.
Söderhäll I
Cytotechnology 65 (5) 691-695 [2013-10-00; online 2013-05-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Profiling of atherosclerotic lesions by gene and tissue microarrays reveals PCSK6 as a novel protease in unstable carotid atherosclerosis.
Perisic L, Hedin E, Razuvaev A, ..., Odeberg J, Hedin U
Arterioscler. Thromb. Vasc. Biol. 33 (10) 2432-2443 [2013-10-00; online 2013-08-03]
Tissue Profiling
PubMed DOI Crossref
Heart research advances using database search engines, Human Protein Atlas and the Sydney Heart Bank.
Li A, Estigoy C, Raftery M, ..., Lal S, Dos Remedios CG
Heart Lung Circ 22 (10) 819-826 [2013-10-00; online 2013-07-17]
Tissue Profiling
PubMed DOI Crossref
Determining indicator taxa across spatial and seasonal gradients in the Columbia River coastal margin.
Fortunato CS, Eiler A, Herfort L, ..., Peterson TD, Crump BC
ISME J 7 (10) 1899-1911 [2013-10-00; online 2013-05-31]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Comprehensive genetic analysis identifies a pathognomonic NAB2/STAT6 fusion gene, nonrandom secondary genomic imbalances, and a characteristic gene expression profile in solitary fibrous tumor.
Mohajeri A, Tayebwa J, Collin A, ..., Nord KH, Mertens F
Genes Chromosomes Cancer 52 (10) 873-886 [2013-10-00; online 2013-06-14]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Transcriptome and genome sequencing uncovers functional variation in humans.
Lappalainen T, Sammeth M, Friedländer MR, ..., Estivill X, Dermitzakis ET
Nature 501 (7468) 506-511 [2013-09-26; online 2013-09-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
FHOD1, a formin upregulated in epithelial-mesenchymal transition, participates in cancer cell migration and invasion.
Gardberg M, Kaipio K, Lehtinen L, ..., Koivisto M, Carpén O
PLoS ONE 8 (9) e74923 [2013-09-26; online 2013-09-26]
Tissue Profiling
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Genetic variants of coagulation factor XI show association with ischemic stroke up to 70 years of age.
Hanson E, Nilsson S, Jood K, ..., Melander O, Jern C
PLoS ONE 8 (9) e75286 [2013-09-25; online 2013-09-25]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Spinal deformity in aged zebrafish is accompanied by degenerative changes to their vertebrae that resemble osteoarthritis.
Hayes AJ, Reynolds S, Nowell MA, ..., Caterson B, Hammond CL
PLoS ONE 8 (9) e75787 [2013-09-24; online 2013-09-24]
Genome Engineering Zebrafish
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Genome-wide signatures of differential DNA methylation in pediatric acute lymphoblastic leukemia.
Nordlund J, Bäcklin CL, Wahlberg P, ..., Lönnerholm G, Syvänen AC
Genome Biol. 14 (9) r105 [2013-09-24; online 2013-09-24]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Equine multiple congenital ocular anomalies and silver coat colour result from the pleiotropic effects of mutant PMEL.
Andersson LS, Wilbe M, Viluma A, ..., Ewart S, Lindgren G
PLoS ONE 8 (9) e75639 [2013-09-23; online 2013-09-23]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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A metagenomics transect into the deepest point of the Baltic Sea reveals clear stratification of microbial functional capacities.
Thureborn P, Lundin D, Plathan J, ..., Sjöberg BM, Sjöling S
PLoS ONE 8 (9) e74983 [2013-09-23; online 2013-09-23]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Ebsulfur is a benzisothiazolone cytocidal inhibitor targeting the trypanothione reductase of Trypanosoma brucei.
Lu J, Vodnala SK, Gustavsson AL, ..., Rottenberg ME, Holmgren A
J. Biol. Chem. 288 (38) 27456-27468 [2013-09-20; online 2013-07-29]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Hydrogenosomes in the diplomonad Spironucleus salmonicida.
Jerlström-Hultqvist J, Einarsson E, Xu F, ..., Andersson JO, Svärd SG
Nat Commun 4 (-) 2493 [2013-09-18; online 2013-09-18]
Mass Spectrometry-based Proteomics, Uppsala
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Multiethnic meta-analysis of genome-wide association studies in >100 000 subjects identifies 23 fibrinogen-associated Loci but no strong evidence of a causal association between circulating fibrinogen and cardiovascular disease.
Sabater-Lleal M, Huang J, Chasman D, ..., Hamsten A, O'Donnell CJ
Circulation 128 (12) 1310-1324 [2013-09-17; online 2013-08-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Blood plasma IgG Fc glycans are significantly altered in Alzheimer's disease and progressive mild cognitive impairment.
Lundström SL, Yang H, Lyutvinskiy Y, ..., Soininen H, Zubarev RA
J. Alzheimers Dis. 38 (3) 567-579 [2013-09-14; online 2013-09-14]
Advanced Mass Spectrometry Proteomics
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Deep resequencing of GWAS loci identifies rare variants in CARD9, IL23R and RNF186 that are associated with ulcerative colitis.
Beaudoin M, Goyette P, Boucher G, ..., Daly MJ, Rioux JD
PLoS Genet. 9 (9) e1003723 [2013-09-12; online 2013-09-12]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
A tosyl-activated magnetic bead cellulose as solid support for sensitive protein detection.
Yan J, Horák D, Lenfeld J, Hammond M, Kamali-Moghaddam M
J. Biotechnol. 167 (3) 235-240 [2013-09-10; online 2013-07-03]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
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The Oct1 homolog Nubbin is a repressor of NF-κB-dependent immune gene expression that increases the tolerance to gut microbiota.
Dantoft W, Davis MM, Lindvall JM, ..., Beskow A, Engström Y
BMC Biol. 11 (-) 99 [2013-09-06; online 2013-09-06]
Bioinformatics and Expression Analysis (BEA)
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Post-zygotic and inter-individual structural genetic variation in a presumptive enhancer element of the locus between the IL10Rβ and IFNAR1 genes.
Razzaghian HR, Forsberg LA, Prakash KR, ..., Absher D, Dumanski JP
PLoS ONE 8 (9) e67752 [2013-09-04; online 2013-09-04]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Structural insights into substrate recognition in proton-dependent oligopeptide transporters.
Guettou F, Quistgaard EM, Trésaugues L, ..., Nordlund P, Löw C
EMBO Rep. 14 (9) 804-810 [2013-09-00; online 2013-07-23]
Protein Science Facility (PSF)
PubMed DOI Crossref
Role of individual MARK isoforms in phosphorylation of tau at Ser²⁶² in Alzheimer's disease.
Gu GJ, Lund H, Wu D, ..., Sunnemark D, Kamali-Moghaddam M
Neuromolecular Med. 15 (3) 458-469 [2013-09-00; online 2013-05-12]
Affinity Proteomics Uppsala [Technology development] Clinical Biomarkers PLA and Single Cell Proteomics
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Progesterone receptor negativity is an independent risk factor for relapse in patients with early stage endometrioid endometrial adenocarcinoma.
Huvila J, Talve L, Carpén O, ..., Grénman S, Auranen A
Gynecol. Oncol. 130 (3) 463-469 [2013-09-00; online 2013-06-20]
Tissue Profiling
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Phylogeography of willow grouse (Lagopus lagopus) in the Arctic: taxonomic discordance as inferred from molecular data
Höglund J, Wang B, Axelsson T, Quintela M
Biol J Linn Soc Lond 110 (1) 77-90 [2013-09-00; online 2013-05-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Multilocus genetic risk scores for coronary heart disease prediction.
Ganna A, Magnusson PKE, Pedersen NL, ..., Hamsten A, Ingelsson E
Arterioscler. Thromb. Vasc. Biol. 33 (9) 2267-2272 [2013-09-00; online 2013-05-21]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Identification of candidate oncogenes in human colorectal cancers with microsatellite instability.
Gylfe AE, Kondelin J, Turunen M, ..., Vahteristo P, Aaltonen LA
Gastroenterology 145 (3) 540-3.e22 [2013-09-00; online 2013-05-21]
Karolinska High Throughput Center (KHTC)
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High modal number and triple trisomies are highly correlated favorable factors in childhood B-cell precursor high hyperdiploid acute lymphoblastic leukemia treated according to the NOPHO ALL 1992/2000 protocols.
Paulsson K, Forestier E, Andersen MK, ..., Swedish Cytogenetic Leukemia Study Group (SCLSG) , NOPHO Leukemia Cytogenetic Study Group (NLCSG)
Haematologica 98 (9) 1424-1432 [2013-09-00; online 2013-05-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Glutamatergic GRIN2B and polyaminergic ODC1 genes in suicide attempts: associations and gene-environment interactions with childhood/adolescent physical assault.
Sokolowski M, Ben-Efraim YJ, Wasserman J, Wasserman D
Mol. Psychiatry 18 (9) 985-992 [2013-09-00; online 2012-08-02]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Global DNA hypermethylation is associated with high serum levels of persistent organic pollutants in an elderly population.
Lind L, Penell J, Luttropp K, ..., Ingelsson E, Lind PM
Environ Int 59 (-) 456-461 [2013-09-00; online 2013-08-13]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genome-wide analysis shows association of epigenetic changes in regulators of Rab and Rho GTPases with spinal muscular atrophy severity.
Zheleznyakova GY, Voisin S, Kiselev AV, ..., Baranov VS, Schiöth HB
Eur. J. Hum. Genet. 21 (9) 988-993 [2013-09-00; online 2013-01-10]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Genetic relationship between five psychiatric disorders estimated from genome-wide SNPs.
Cross-Disorder Group of the Psychiatric Genomics Consortium N, Lee SH, Ripke S, ..., Wray NR, International Inflammatory Bowel Disease Genetics Consortium (IIBDGC) N
Nat. Genet. 45 (9) 984-994 [2013-09-00; online 2013-08-13]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genes identified in Asian SLE GWASs are also associated with SLE in Caucasian populations.
Wang C, Ahlford A, Järvinen TM, ..., Syvänen AC, Sandling JK
Eur. J. Hum. Genet. 21 (9) 994-999 [2013-09-00; online 2012-12-20]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Autoantibody profiling in multiple sclerosis using arrays of human protein fragments.
Ayoglu B, Häggmark A, Khademi M, ..., Schwenk JM, Nilsson P
Mol. Cell Proteomics 12 (9) 2657-2672 [2013-09-00; online 2013-06-05]
Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
Comparison of the nodule vs. root transcriptome of the actinorhizal plant Datisca glomerata: actinorhizal nodules contain a specific class of defensins.
Demina IV, Persson T, Santos P, Plaszczyca M, Pawlowski K
PLoS ONE 8 (8) e72442 [2013-08-29; online 2013-08-29]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Genome-wide transcriptional analysis of Drosophila larvae infected by entomopathogenic nematodes shows involvement of complement, recognition and extracellular matrix proteins.
Arefin B, Kucerova L, Dobes P, ..., Zurovec M, Theopold U
J Innate Immun 6 (2) 192-204 [2013-08-27; online 2013-08-27]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Structure-Guided Design of Novel Thiazolidine Inhibitors ofO-Acetyl Serine Sulfhydrylase from Mycobacterium tuberculosis
Poyraz Ö, Jeankumar VU, Saxena S, ..., Sriram D, Schneider G
J. Med. Chem. 56 (16) 6457-6466 [2013-08-22; online 2013-08-22]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Genome-wide relatedness of Treponema pedis, from gingiva and necrotic skin lesions of pigs, with the human oral pathogen Treponema denticola.
Svartström O, Mushtaq M, Pringle M, Segerman B
PLoS ONE 8 (8) e71281 [2013-08-19; online 2013-08-19]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Automated serial extraction of DNA and RNA from biobanked tissue specimens.
Mathot L, Wallin M, Sjöblom T
BMC Biotechnol. 13 (-) 66 [2013-08-19; online 2013-08-19]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
PARP inhibitor with selectivity toward ADP-ribosyltransferase ARTD3/PARP3.
Lindgren AE, Karlberg T, Thorsell AG, ..., Elofsson M, Schüler H
ACS Chem. Biol. 8 (8) 1698-1703 [2013-08-16; online 2013-06-08]
Protein Science Facility (PSF)
PubMed DOI Crossref
Transcription factor binding in human cells occurs in dense clusters formed around cohesin anchor sites.
Yan J, Enge M, Whitington T, ..., Taipale M, Taipale J
Cell 154 (4) 801-813 [2013-08-15; online 2013-08-21]
Bioinformatics and Expression Analysis (BEA) Karolinska High Throughput Center (KHTC)
PubMed DOI Crossref
The STK33-linked SNP rs4929949 is associated with obesity and BMI in two independent cohorts of Swedish and Greek children.
Rask-Andersen M, Moschonis G, Chrousos GP, ..., Fredriksson R, Schiöth HB
PLoS ONE 8 (8) e71353 [2013-08-15; online 2013-08-15]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Investigation of six testicular germ cell tumor susceptibility genes suggests a parent-of-origin effect in SPRY4.
Karlsson R, Andreassen KE, Kristiansen W, ..., Grotmol T, Wiklund F
Hum. Mol. Genet. 22 (16) 3373-3380 [2013-08-15; online 2013-05-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structural and biophysical characterization of the cytoplasmic domains of human BAP29 and BAP31.
Quistgaard EM, Löw C, Moberg P, ..., Maddi K, Nordlund P
PLoS ONE 8 (8) e71111 [2013-08-13; online 2013-08-13]
Advanced Mass Spectrometry Proteomics Protein Science Facility (PSF)
PubMed DOI Crossref
Meta-analysis of gene-level associations for rare variants based on single-variant statistics.
Hu Y, Berndt SI, Gustafsson S, ..., Ingelsson E, Lin D
Am. J. Hum. Genet. 93 (2) 236-248 [2013-08-08; online 2013-07-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Temperament and character in the Child and Adolescent Twin Study in Sweden (CATSS): comparison to the general population, and genetic structure analysis.
Garcia D, Lundström S, Brändström S, ..., Nilsson T, Anckarsäter H
PLoS ONE 8 (8) e70475 [2013-08-05; online 2013-08-05]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
An Integratedin VitroModel for Simultaneous Assessment of Drug Uptake, Metabolism, and Efflux
Neve EPA, Artursson P, Ingelman-Sundberg M, Karlgren M
Mol. Pharmaceutics 10 (8) 3152-3163 [2013-08-05; online 2013-08-05]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Improved production of membrane proteins in Escherichia coli by selective codon substitutions.
Nørholm MH, Toddo S, Virkki MT, ..., von Heijne G, Daley DO
FEBS Lett. 587 (15) 2352-2358 [2013-08-02; online 2013-06-19]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Identification of adenovirus-encoded small RNAs by deep RNA sequencing.
Zhao H, Chen M, Pettersson U
Virology 442 (2) 148-155 [2013-08-01; online 2013-05-11]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Chronic airway-induced allergy in mice modifies gene expression in the brain toward insulin resistance and inflammatory responses.
Sarlus H, Wang X, Cedazo-Minguez A, Schultzberg M, Oprica M
J Neuroinflammation 10 (-) 99 [2013-08-01; online 2013-08-01]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Tumour expression of bladder cancer-associated urinary proteins.
Lindén M, Segersten U, Runeson M, ..., Lind SB, Malmström PU
BJU Int. 112 (3) 407-415 [2013-08-00; online 2013-03-09]
Tissue Profiling
PubMed DOI Crossref
Synergistic interactions between camptothecin and EGFR or RAC1 inhibitors and between imatinib and Notch signaling or RAC1 inhibitors in glioblastoma cell lines.
Sooman L, Ekman S, Andersson C, ..., Lennartsson J, Gullbo J
Cancer Chemother. Pharmacol. 72 (2) 329-340 [2013-08-00; online 2013-06-06]
Array and Analysis Facility
PubMed DOI Crossref
Proteome of the nematode-trapping cells of the fungus Monacrosporium haptotylum.
Andersson KM, Meerupati T, Levander F, ..., Ahrén D, Tunlid A
Appl. Environ. Microbiol. 79 (16) 4993-5004 [2013-08-00; online 2013-06-19]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
DOI Crossref
Molecular identification and phylogenic analysis by sequencing the rDNA of copper-tolerant soft-rot Phialophora spp.
Karunasekera H, Daniel G
International Biodeterioration & Biodegradation 82 (-) 45-52 [2013-08-00; online 2013-08-00]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
In silico instrumental response correction improves precision of label-free proteomics and accuracy of proteomics-based predictive models.
Lyutvinskiy Y, Yang H, Rutishauser D, Zubarev RA
Mol. Cell Proteomics 12 (8) 2324-2331 [2013-08-00; online 2013-04-17]
Advanced Mass Spectrometry Proteomics
PubMed DOI Crossref
High-resolution structure of TBP with TAF1 reveals anchoring patterns in transcriptional regulation.
Anandapadamanaban M, Andresen C, Helander S, ..., Moche M, Sunnerhagen M
Nat. Struct. Mol. Biol. 20 (8) 1008-1014 [2013-08-00; online 2013-07-16]
Protein Science Facility (PSF)
PubMed DOI Crossref
Genetic variation in the dimethylarginine dimethylaminohydrolase 1 gene (DDAH1) is related to asymmetric dimethylarginine (ADMA) levels, but not to endothelium-dependent vasodilation.
Lind L, Ingelsson E, Kumar J, ..., Axelsson T, Teerlink T
Vasc Med 18 (4) 192-199 [2013-08-00; online 2013-07-31]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Expression of chondroitin/dermatan sulfate glycosyltransferases during early zebrafish development.
Filipek-Górniok B, Holmborn K, Haitina T, ..., Kreuger J, Ledin J
Dev. Dyn. 242 (8) 964-975 [2013-08-00; online 2013-06-18]
Genome Engineering Zebrafish
PubMed DOI Crossref
Design of a highly selective and potent class of non-planar estrogen receptor β agonists.
Sundén H, Ma JN, Hansen LK, ..., Burstein ES, Olsson R
ChemMedChem 8 (8) 1283-1294 [2013-08-00; online 2013-06-19]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Antibody-based profiling of cerebrospinal fluid within multiple sclerosis.
Häggmark A, Byström S, Ayoglu B, ..., Schwenk JM, Nilsson P
Proteomics 13 (15) 2256-2267 [2013-08-00; online 2013-05-23]
Affinity Proteomics Stockholm [Collaborative]
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A novel intellectual disability syndrome caused by GPI anchor deficiency due to homozygous mutations in PIGT.
Kvarnung M, Nilsson D, Lindstrand A, ..., Nordenskjöld M, Nordgren A
J. Med. Genet. 50 (8) 521-528 [2013-08-00; online 2013-05-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
New viruses in veterinary medicine, detected by metagenomic approaches.
Belák S, Karlsson OE, Blomström AL, Berg M, Granberg F
Vet. Microbiol. 165 (1-2) 95-101 [2013-07-26; online 2013-02-23]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Gene × physical activity interactions in obesity: combined analysis of 111,421 individuals of European ancestry.
Ahmad S, Rukh G, Varga TV, ..., Orho-Melander M, Franks PW
PLoS Genet. 9 (7) e1003607 [2013-07-25; online 2013-07-25]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
NCR3/NKp30 contributes to pathogenesis in primary Sjogren's syndrome.
Rusakiewicz S, Nocturne G, Lazure T, ..., Zitvogel L, Mariette X
Sci Transl Med 5 (195) 195ra96 [2013-07-24; online 2013-07-26]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Retinoic acid receptor alpha is associated with tamoxifen resistance in breast cancer.
Johansson HJ, Sanchez BC, Mundt F, ..., Linderholm BK, Lehtiö J
Nat Commun 4 (-) 2175 [2013-07-23; online 2013-07-23]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Genetic variants in hormone-related genes and risk of breast cancer.
Clendenen T, Zeleniuch-Jacquotte A, Wirgin I, ..., Shore RE, Chen Y
PLoS ONE 8 (7) e69367 [2013-07-23; online 2013-07-23]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
SNP in TXNRD2 associated with radiation-induced fibrosis: a study of genetic variation in reactive oxygen species metabolism and signaling.
Edvardsen H, Landmark-Høyvik H, Reinertsen KV, ..., Fosså SD, Kristensen VN
Int. J. Radiat. Oncol. Biol. Phys. 86 (4) 791-799 [2013-07-15; online 2013-04-20]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Novel signatures of cancer-associated fibroblasts.
Bozóky B, Savchenko A, Csermely P, ..., Székely L, Klein G
Int. J. Cancer 133 (2) 286-293 [2013-07-15; online 2013-01-16]
Tissue Profiling
PubMed DOI Crossref
Prevalence, comorbidity and heritability of hoarding symptoms in adolescence: a population based twin study in 15-year olds.
Ivanov VZ, Mataix-Cols D, Serlachius E, ..., Långström N, Rück C
PLoS ONE 8 (7) e69140 [2013-07-10; online 2013-07-10]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Amyloid-β protofibrils: size, morphology and synaptotoxicity of an engineered mimic.
Dubnovitsky A, Sandberg A, Rahman MM, ..., Lendel C, Härd T
PLoS ONE 8 (7) e66101 [2013-07-02; online 2013-07-02]
Mass Spectrometry-based Proteomics, Uppsala
PubMed DOI Crossref
Genome-wide association and longitudinal analyses reveal genetic loci linking pubertal height growth, pubertal timing and childhood adiposity.
Cousminer DL, Berry DJ, Timpson NJ, ..., Widén E, Early Growth Genetics (EGG) Consortium
Hum. Mol. Genet. 22 (13) 2735-2747 [2013-07-01; online 2013-02-27]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Somatic mutations in H-RAS in sporadic pheochromocytoma and paraganglioma identified by exome sequencing.
Crona J, Delgado Verdugo A, Maharjan R, ..., Hellman P, Björklund P
J. Clin. Endocrinol. Metab. 98 (7) E1266-E1271 [2013-07-00; online 2013-05-04]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Response of Acidithiobacillus caldus toward suboptimal pH conditions.
Mangold S, Rao Jonna V, Dopson M
Extremophiles 17 (4) 689-696 [2013-07-00; online 2013-05-29]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Republished: Non-heritable genetics of human disease: spotlight on post-zygotic genetic variation acquired during lifetime.
Forsberg LA, Absher D, Dumanski JP
Postgrad Med J 89 (1053) 417-426 [2013-07-00; online 2013-06-20]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Massive functional mapping of a 5'-UTR by saturation mutagenesis, phenotypic sorting and deep sequencing.
Holmqvist E, Reimegård J, Wagner EG
Nucleic Acids Res. 41 (12) e122 [2013-07-00; online 2013-04-24]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Implications of baseline polymorphisms for potential resistance to NS3 protease inhibitors in Hepatitis C virus genotypes 1a, 2b and 3a.
Palanisamy N, Danielsson A, Kokkula C, ..., Duberg AS, Lennerstrand J
Antiviral Res. 99 (1) 12-17 [2013-07-00; online 2013-05-08]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Family-based study of HTR2A in suicide attempts: observed gene, gene × environment and parent-of-origin associations.
Ben-Efraim YJ, Wasserman D, Wasserman J, Sokolowski M
Mol. Psychiatry 18 (7) 758-766 [2013-07-00; online 2012-07-04]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Family-based study of AVPR1B association and interaction with stressful life events on depression and anxiety in suicide attempts.
Ben-Efraim YJ, Wasserman D, Wasserman J, Sokolowski M
Neuropsychopharmacology 38 (8) 1504-1511 [2013-07-00; online 2013-02-21]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Estrogen receptor β expression induces changes in the microRNA pool in human colon cancer cells.
Edvardsson K, Nguyen-Vu T, Kalasekar SM, ..., Gustafsson JÅ, Williams C
Carcinogenesis 34 (7) 1431-1441 [2013-07-00; online 2013-02-26]
Tissue Profiling
PubMed DOI Crossref
Enzymatic production of 'monoclonal stoichiometric' single-stranded DNA oligonucleotides.
Ducani C, Kaul C, Moche M, Shih WM, Högberg B
Nat. Methods 10 (7) 647-652 [2013-07-00; online 2013-06-04]
Protein Science Facility (PSF)
PubMed DOI Crossref
Computational Prospecting for Drug–Transporter Interactions
Matsson P, Artursson P
Clin Pharmacol Ther 94 (1) 30-32 [2013-07-00; online 2013-04-02]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
PubMed DOI Crossref
Clinical depression, antidepressant use and risk of future cardiovascular disease.
Rahman I, Humphreys K, Bennet AM, ..., Pedersen NL, Magnusson PK
Eur. J. Epidemiol. 28 (7) 589-595 [2013-07-00; online 2013-07-09]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Cenani-Lenz syndrome restricted to limb and kidney anomalies associated with a novel LRP4 missense mutation.
Khan TN, Klar J, Ali Z, ..., Baig SM, Dahl N
Eur J Med Genet 56 (7) 371-374 [2013-07-00; online 2013-05-15]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
CDK-mediated activation of the SCF(FBXO) (28) ubiquitin ligase promotes MYC-driven transcription and tumourigenesis and predicts poor survival in breast cancer.
Cepeda D, Ng HF, Sharifi HR, ..., Larsson LG, Sangfelt O
EMBO Mol Med 5 (7) 1067-1086 [2013-07-00; online 2013-06-19]
Tissue Profiling
PubMed DOI Crossref
Active nitrogen-fixing heterotrophic bacteria at and below the chemocline of the central Baltic Sea.
Farnelid H, Bentzon-Tilia M, Andersson AF, ..., Jürgens K, Riemann L
ISME J 7 (7) 1413-1423 [2013-07-00; online 2013-03-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Unbiased approach for virus detection in skin lesions.
Bzhalava D, Johansson H, Ekström J, ..., Forslund O, Dillner J
PLoS ONE 8 (6) e65953 [2013-06-28; online 2013-06-28]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Continuous Aging of the Human DNA Methylome Throughout the Human Lifespan.
Johansson A, Enroth S, Gyllensten U
PLoS ONE 8 (6) e67378 [2013-06-27; online 2013-06-27]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Constrained H-Phe-Phe-NH2 analogues with high affinity to the substance P 1-7 binding site and with improved metabolic stability and cell permeability.
Fransson R, Sköld C, Kratz JM, ..., Hallberg M, Sandström A
J. Med. Chem. 56 (12) 4953-4965 [2013-06-27; online 2013-06-06]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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The crystal structure of the lumenal domain of Erv41p, a protein involved in transport between the endoplasmic reticulum and Golgi apparatus.
Biterova EI, Svärd M, Possner DD, Guy JE
J. Mol. Biol. 425 (12) 2208-2218 [2013-06-26; online 2013-03-26]
Protein Science Facility (PSF)
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The role of adiposity in cardiometabolic traits: a Mendelian randomization analysis.
Fall T, Hägg S, Mägi R, ..., Prokopenko I, European Network for Genetic and Genomic Epidemiology (ENGAGE) consortium N
PLoS Med. 10 (6) e1001474 [2013-06-25; online 2013-06-25]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Lampa S, Dahlö M, Olason PI, Hagberg J, Spjuth O
Gigascience 2 (1) 9 [2013-06-25; online 2013-06-25]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Chen MW, Lohkamp B, Schnell R, Lescar J, Schneider G
PLoS ONE 8 (6) e66936 [2013-06-21; online 2013-06-21]
Protein Science Facility (PSF)
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Rietveld CA, Medland SE, Derringer J, ..., Cesarini D, Koellinger PD
Science 340 (6139) 1467-1471 [2013-06-21; online 2013-06-01]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Vandetanib combined with a p38 MAPK inhibitor synergistically reduces glioblastoma cell survival.
Sooman L, Lennartsson J, Gullbo J, ..., Blomquist E, Ekman S
Med. Oncol. 30 (3) 638 [2013-06-20; online 2013-06-20]
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Brunberg E, Jensen P, Isaksson A, Keeling LJ
PLoS ONE 8 (6) e66513 [2013-06-18; online 2013-06-18]
Array and Analysis Facility
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Stable isotope labeling methods in protein profiling.
Lengqvist J, Sandberg A
Methods Mol. Biol. 1023 (-) 21-51 [2013-06-15; online 2013-06-15]
Clinical Proteomics Mass spectrometry
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Protein quantification by peptide quality control (PQPQ) of shotgun proteomics data.
Forshed J
Methods Mol. Biol. 1023 (-) 149-158 [2013-06-15; online 2013-06-15]
Clinical Proteomics Mass spectrometry
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Narrow-range peptide isoelectric focusing as peptide prefractionation method prior to tandem mass spectrometry analysis.
Pernemalm M
Methods Mol. Biol. 1023 (-) 3-11 [2013-06-15; online 2013-06-15]
Clinical Proteomics Mass spectrometry
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Highly multiplexed antibody suspension bead arrays for plasma protein profiling.
Drobin K, Nilsson P, Schwenk JM
Methods Mol. Biol. 1023 (-) 137-145 [2013-06-15; online 2013-06-15]
Affinity Proteomics Stockholm [Technology development]
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Comprehensive analysis of MHC ligands in clinical material by immunoaffinity-mass spectrometry.
Kasuga K
Methods Mol. Biol. 1023 (-) 203-218 [2013-06-15; online 2013-06-15]
Clinical Proteomics Mass spectrometry
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Molecular genetics and subjective well-being.
Rietveld CA, Cesarini D, Benjamin DJ, ..., Krueger RF, Bartels M
Proc. Natl. Acad. Sci. U.S.A. 110 (24) 9692-9697 [2013-06-11; online 2013-05-28]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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The prognostic relevance of tumour-infiltrating plasma cells and immunoglobulin kappa C indicates an important role of the humoral immune response in non-small cell lung cancer.
Lohr M, Edlund K, Botling J, ..., Rahnenführer J, Micke P
Cancer Lett. 333 (2) 222-228 [2013-06-10; online 2013-02-02]
Tissue Profiling
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Contribution of antibody-based protein profiling to the human Chromosome-centric Proteome Project (C-HPP).
Fagerberg L, Oksvold P, Skogs M, ..., von Feilitzen K, Uhlén M
J. Proteome Res. 12 (6) 2439-2448 [2013-06-07; online 2013-01-02]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Spatial Proteomics Tissue Profiling
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Promoter DNA methylation pattern identifies prognostic subgroups in childhood T-cell acute lymphoblastic leukemia.
Borssén M, Palmqvist L, Karrman K, ..., Roos G, Degerman S
PLoS ONE 8 (6) e65373 [2013-06-06; online 2013-06-06]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Mateus A, Matsson P, Artursson P
Mol. Pharmaceutics 10 (6) 2467-2478 [2013-06-03; online 2013-06-03]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
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Next-generation sequencing in the clinical genetic screening of patients with pheochromocytoma and paraganglioma.
Crona J, Verdugo AD, Granberg D, ..., Hellman P, Björklund P
Endocr Connect 2 (2) 104-111 [2013-06-01; online 2013-05-28]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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The value of selected in vitro and in silico methods to predict acute oral toxicity in a regulatory context: results from the European Project ACuteTox.
Prieto P, Kinsner-Ovaskainen A, Stanzel S, ..., Zurbano MJ, Kopp-Schneider A
Toxicol In Vitro 27 (4) 1357-1376 [2013-06-00; online 2012-08-28]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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The impact of splicing on protein domain architecture.
Light S, Elofsson A
Curr. Opin. Struct. Biol. 23 (3) 451-458 [2013-06-00; online 2013-04-09]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Quistgaard EM, Löw C, Moberg P, Trésaugues L, Nordlund P
Nat. Struct. Mol. Biol. 20 (6) 766-768 [2013-06-00; online 2013-04-30]
Protein Science Facility (PSF)
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Structural and dynamic insights into substrate binding and catalysis of human lipocalin prostaglandin D synthase.
Lim SM, Chen D, Teo H, ..., Pervushin K, Nordlund P
J. Lipid Res. 54 (6) 1630-1643 [2013-06-00; online 2013-03-26]
Protein Science Facility (PSF)
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Stepping-stone expansion and habitat loss explain a peculiar genetic structure and distribution of a forest insect.
Cassel-Lundhagen A, Ronnås C, Battisti A, Wallén J, Larsson S
Mol. Ecol. 22 (12) 3362-3375 [2013-06-00; online 2013-05-31]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Sortilin receptor 1 predicts longitudinal cognitive change.
Reynolds CA, Zavala C, Gatz M, ..., Prince JA, Pedersen NL
Neurobiol. Aging 34 (6) 1710.e11-1710.e18 [2013-06-00; online 2013-01-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Solid-phase proximity ligation assays for individual or parallel protein analyses with readout via real-time PCR or sequencing.
Nong RY, Wu D, Yan J, ..., Landegren U, Darmanis S
Nat Protoc 8 (6) 1234-1248 [2013-06-00; online 2013-05-30]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
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Sex-stratified genome-wide association studies including 270,000 individuals show sexual dimorphism in genetic loci for anthropometric traits.
Randall JC, Winkler TW, Kutalik Z, ..., North KE, Heid IM
PLoS Genet. 9 (6) e1003500 [2013-06-00; online 2013-06-06]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Kaarme J, Molin Y, Olsen B, Melhus A
Acta Paediatr. 102 (6) 655-660 [2013-06-00; online 2013-02-20]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Parallel visualization of multiple protein complexes in individual cells in tumor tissue.
Leuchowius KJ, Clausson CM, Grannas K, ..., Landegren U, Söderberg O
Mol. Cell Proteomics 12 (6) 1563-1571 [2013-06-00; online 2013-02-26]
Affinity Proteomics Uppsala [Technology development] NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure PLA and Single Cell Proteomics
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No association of primary Sjögren's syndrome with Fcγ receptor gene variants.
Haldorsen K, Appel S, Le Hellard S, ..., Jonsson R, Bolstad AI
Genes Immun. 14 (4) 234-237 [2013-06-00; online 2013-04-05]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Initial quantitative proteomic map of 28 mouse tissues using the SILAC mouse.
Geiger T, Velic A, Macek B, ..., Cox J, Mann M
Mol. Cell Proteomics 12 (6) 1709-1722 [2013-06-00; online 2013-02-26]
Spatial Proteomics Tissue Profiling
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Identification of heart rate-associated loci and their effects on cardiac conduction and rhythm disorders.
den Hoed M, Eijgelsheim M, Esko T, ..., Samani NJ, Loos RJF
Nat. Genet. 45 (6) 621-631 [2013-06-00; online 2013-04-16]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Gambogic acid is cytotoxic to cancer cells through inhibition of the ubiquitin-proteasome system.
Felth J, Lesiak-Mieczkowska K, D'Arcy P, ..., Fryknäs M, Rickardson L
Invest New Drugs 31 (3) 587-598 [2013-06-00; online 2012-11-28]
Array and Analysis Facility
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Exome sequencing in diagnostic evaluation of colorectal cancer predisposition in young patients.
Tanskanen T, Gylfe AE, Katainen R, ..., Vahteristo P, Aaltonen LA
Scand. J. Gastroenterol. 48 (6) 672-678 [2013-06-00; online 2013-04-03]
Karolinska High Throughput Center (KHTC)
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Coronary heart disease in systemic lupus erythematosus is associated with interferon regulatory factor-8 gene variants.
Leonard D, Svenungsson E, Sandling JK, ..., Syvänen AC, Rönnblom L
Circ Cardiovasc Genet 6 (3) 255-263 [2013-06-00; online 2013-05-11]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Wang C, Ahlford A, Laxman N, ..., Rönnblom L, Syvänen AC
Genes Immun. 14 (4) 217-222 [2013-06-00; online 2013-03-29]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Circadian regulation of melanization and prokineticin homologues is conserved in the brain of freshwater crayfish and zebrafish.
Noonin C, Watthanasurorot A, Winberg S, Söderhäll I
Dev. Comp. Immunol. 40 (2) 218-226 [2013-06-00; online 2013-03-19]
Genome Engineering Zebrafish NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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A significant fraction of 21-nucleotide small RNA originates from phased degradation of resistance genes in several perennial species.
Källman T, Chen J, Gyllenstrand N, Lagercrantz U
Plant Physiol. 162 (2) 741-754 [2013-06-00; online 2013-04-13]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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The Norway spruce genome sequence and conifer genome evolution.
Nystedt B, Street NR, Wetterbom A, ..., Lundeberg J, Jansson S
Nature 497 (7451) 579-584 [2013-05-30; online 2013-05-22]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support for Computational Resources Bioinformatics Support, Infrastructure and Training NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Metagenomic de novo assembly of an aquatic representative of the verrucomicrobial class Spartobacteria.
Herlemann DP, Lundin D, Labrenz M, ..., Aspeborg H, Andersson AF
MBio 4 (3) e00569-e00512 [2013-05-28; online 2013-05-28]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Dynamic gradients of an intermediate filament-like cytoskeleton are recruited by a polarity landmark during apical growth.
Fuchino K, Bagchi S, Cantlay S, ..., Flärdh K, Ausmees N
Proc. Natl. Acad. Sci. U.S.A. 110 (21) E1889-E1897 [2013-05-21; online 2013-05-04]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
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A texture based pattern recognition approach to distinguish melanoma from non-melanoma cells in histopathological tissue microarray sections.
Rexhepaj E, Agnarsdóttir M, Bergman J, ..., Lundberg E, Ponten F
PLoS ONE 8 (5) e62070 [2013-05-17; online 2013-05-17]
Spatial Proteomics Tissue Profiling
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Adaptive mutations and replacements of virulence traits in the Escherichia coli O104:H4 outbreak population.
Guy L, Jernberg C, Arvén Norling J, ..., Engstrand L, Andersson SGE
PLoS ONE 8 (5) e63027 [2013-05-10; online 2013-05-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Age dependence of tumor genetics in unfavorable neuroblastoma: arrayCGH profiles of 34 consecutive cases, using a Swedish 25-year neuroblastoma cohort for validation.
Cetinkaya C, Martinsson T, Sandgren J, ..., Díaz de Ståhl T, Hedborg F
BMC Cancer 13 (-) 231 [2013-05-09; online 2013-05-09]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Genome-wide association study of susceptibility loci for cervical cancer.
Chen D, Juko-Pecirep I, Hammer J, ..., Wilander E, Gyllensten U
J. Natl. Cancer Inst. 105 (9) 624-633 [2013-05-01; online 2013-03-12]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Active transcriptomic and proteomic reprogramming in the C. elegans nucleotide excision repair mutant xpa-1.
Arczewska KD, Tomazella GG, Lindvall JM, ..., Thiede B, Nilsen H
Nucleic Acids Res. 41 (10) 5368-5381 [2013-05-01; online 2013-04-13]
Bioinformatics and Expression Analysis (BEA)
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Variation in genes in the endothelin pathway and endothelium-dependent and endothelium-independent vasodilation in an elderly population.
Lind L, Syvänen AC, Axelsson T, ..., Hägg S, Larsson A
Acta Physiol (Oxf) 208 (1) 88-94 [2013-05-00; online 2013-01-23]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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The combined effects of single-nucleotide polymorphisms, tobacco products, and ethanol on normal resting blood mononuclear cells.
Cederblad L, Thunberg U, Engström M, ..., Rutqvist LE, Laytragoon-Lewin N
Nicotine Tob. Res. 15 (5) 890-895 [2013-05-00; online 2012-10-09]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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The adenovirus VA RNA-derived miRNAs are not essential for lytic virus growth in tissue culture cells.
Kamel W, Segerman B, Öberg D, Punga T, Akusjärvi G
Nucleic Acids Res. 41 (9) 4802-4812 [2013-05-00; online 2013-03-26]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Membrane protein shaving with thermolysin can be used to evaluate topology predictors.
Bendz M, Skwark M, Nilsson D, ..., Käll L, Elofsson A
Proteomics 13 (9) 1467-1480 [2013-05-00; online 2013-03-21]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Long indels are disordered: a study of disorder and indels in homologous eukaryotic proteins.
Light S, Sagit R, Ekman D, Elofsson A
Biochim. Biophys. Acta 1834 (5) 890-897 [2013-05-00; online 2013-01-22]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Identification of acetate-oxidizing bacteria in a coastal marine surface sediment by RNA-stable isotope probing in anoxic slurries and intact cores.
Vandieken V, Thamdrup B
FEMS Microbiol. Ecol. 84 (2) 373-386 [2013-05-00; online 2013-01-08]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Identification of a functional apolipoprotein E promoter polymorphism regulating plasma apolipoprotein E concentration.
Mannila MN, Mahdessian H, Franco-Cereceda A, ..., Hamsten A, van 't Hooft FM
Arterioscler. Thromb. Vasc. Biol. 33 (5) 1063-1069 [2013-05-00; online 2013-02-23]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Identification and expression of stressosomal proteins in Mycobacterium marinum under various growth and stress conditions.
Pettersson BMF, Nitharwal RG, Das S, ..., Bhattacharya A, Kirsebom LA
FEMS Microbiol. Lett. 342 (2) 98-105 [2013-05-00; online 2013-03-14]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture.
Berndt SI, Gustafsson S, Mägi R, ..., Loos RJF, Ingelsson E
Nat. Genet. 45 (5) 501-512 [2013-05-00; online 2013-04-09]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Genome-wide analysis in German shepherd dogs reveals association of a locus on CFA 27 with atopic dermatitis.
Tengvall K, Kierczak M, Bergvall K, ..., Hedhammar Å, Lindblad-Toh K
PLoS Genet. 9 (5) e1003475 [2013-05-00; online 2013-05-09]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Genetic determinants of mortality. Can findings from genome-wide association studies explain variation in human mortality?
Ganna A, Rivadeneira F, Hofman A, ..., Ingelsson E, Tiemeier H
Hum. Genet. 132 (5) 553-561 [2013-05-00; online 2013-01-29]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Comprehensive analysis of copy number variation in monozygotic twins discordant for bipolar disorder or schizophrenia.
Bloom RJ, Kähler AK, Collins AL, ..., Hultman C, Sullivan PF
Schizophr. Res. 146 (1-3) 289-290 [2013-05-00; online 2013-03-20]
Mutation Analysis Facility (MAF)
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An adaptive alignment algorithm for quality-controlled label-free LC-MS.
Sandin M, Ali A, Hansson K, ..., Resjö S, Levander F
Mol. Cell Proteomics 12 (5) 1407-1420 [2013-05-00; online 2013-01-12]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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A phylogeny of the highly diverse cup-fungus family Pyronemataceae (Pezizomycetes, Ascomycota) clarifies relationships and evolution of selected life history traits.
Hansen K, Perry BA, Dranginis AW, Pfister DH
Mol. Phylogenet. Evol. 67 (2) 311-335 [2013-05-00; online 2013-02-14]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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SoxB1-driven transcriptional network underlies neural-specific interpretation of morphogen signals.
Oosterveen T, Kurdija S, Ensterö M, ..., Muhr J, Ericson J
Proc. Natl. Acad. Sci. U.S.A. 110 (18) 7330-7335 [2013-04-30; online 2013-04-15]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Employment of complementary dissociation techniques for body fluid characterization and biomarker discovery.
Good DM, Rutishauser D
Methods Mol. Biol. 1002 (-) 223-232 [2013-04-30; online 2013-04-30]
Advanced Mass Spectrometry Proteomics
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Majority of differentially expressed genes are down-regulated during malignant transformation in a four-stage model.
Danielsson F, Skogs M, Huss M, ..., Uhlén M, Lundberg E
Proc. Natl. Acad. Sci. U.S.A. 110 (17) 6853-6858 [2013-04-23; online 2013-04-10]
Spatial Proteomics
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Expression of fusion proteins of Aspergillus terreus reveals a novel allene oxide synthase.
Hoffmann I, Jernerén F, Oliw EH
J. Biol. Chem. 288 (16) 11459-11469 [2013-04-19; online 2013-03-13]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Renal sensory and sympathetic nerves reinnervate the kidney in a similar time-dependent fashion after renal denervation in rats.
Mulder J, Hökfelt T, Knuepfer MM, Kopp UC
Am. J. Physiol. Regul. Integr. Comp. Physiol. 304 (8) R675-R682 [2013-04-15; online 2013-02-15]
Fluorescence Tissue Profiling
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Eating problems and overlap with ADHD and autism spectrum disorders in a nationwide twin study of 9- and 12-year-old children.
Råstam M, Täljemark J, Tajnia A, ..., Anckarsäter H, Kerekes N
ScientificWorldJournal 2013 (-) 315429 [2013-04-15; online 2013-04-15]
Mutation Analysis Facility (MAF)
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Viral Metagenomics – New applications for the broad-range detection of viromes in veterinary and public health settings
Karlsson OE, Norling M, Granberg F, Belák S, Bongcam-Rudloff E
EMBnet j. 19 (A) 21 [2013-04-08; online 2013-04-08]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Metagenomics sample preparation and sequencing.
Karlsson OE, Norling M, Bongcam-Rudloff E
EMBnet j. 19 (A) 55 [2013-04-08; online 2013-04-08]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Ion Torrent sequencing and pipeline assembly of the first genome sequence of a mesophilic syntrophic acetate oxidizing bacterium (SAOB)
Manzoor S, Bongcam-Rudloff E, Schnürer A, Müller B
EMBnet j. 19 (A) 60 [2013-04-08; online 2013-04-08]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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European H16N3 gull influenza virus attaches to the human respiratory tract and eye.
Lindskog C, Ellström P, Olsen B, ..., Kuiken T, Jourdain E
PLoS ONE 8 (4) e60757 [2013-04-08; online 2013-04-08]
Tissue Profiling
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The molecular genetic architecture of self-employment.
van der Loos MJHM, Rietveld CA, Eklund N, ..., Hofman A, Thurik AR
PLoS ONE 8 (4) e60542 [2013-04-04; online 2013-04-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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β-thymosins and hemocyte homeostasis in a crustacean.
Saelee N, Noonin C, Nupan B, ..., Söderhäll K, Söderhäll I
PLoS ONE 8 (4) e60974 [2013-04-02; online 2013-04-02]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Systematic antibody generation and validation via tissue microarray technology leading to identification of a novel protein prognostic panel in breast cancer.
O Leary PC, Penny SA, Dolan RT, ..., Jirström K, Gallagher WM
BMC Cancer 13 (-) 175 [2013-04-02; online 2013-04-02]
Tissue Profiling
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Interaction between retinoid acid receptor-related orphan receptor alpha (RORA) and neuropeptide S receptor 1 (NPSR1) in asthma.
Acevedo N, Sääf A, Söderhäll C, ..., Kere J, Pulkkinen V
PLoS ONE 8 (4) e60111 [2013-04-02; online 2013-04-02]
Mutation Analysis Facility (MAF)
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Genetic determinants of dabigatran plasma levels and their relation to bleeding.
Paré G, Eriksson N, Lehr T, ..., Yusuf S, Wallentin L
Circulation 127 (13) 1404-1412 [2013-04-02; online 2013-03-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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RNA-binding protein QKI regulates Glial fibrillary acidic protein expression in human astrocytes.
Radomska KJ, Halvardson J, Reinius B, ..., Feuk L, Jazin E
Hum. Mol. Genet. 22 (7) 1373-1382 [2013-04-01; online 2013-01-15]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Welander distal myopathy caused by an ancient founder mutation in TIA1 associated with perturbed splicing.
Klar J, Sobol M, Melberg A, ..., Casar-Borota O, Dahl N
Hum. Mutat. 34 (4) 572-577 [2013-04-00; online 2013-01-26]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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The transporter ABCB7 is a mediator of the phenotype of acquired refractory anemia with ring sideroblasts.
Nikpour M, Scharenberg C, Liu A, ..., Grandien A, Hellström-Lindberg E
Leukemia 27 (4) 889-896 [2013-04-00; online 2012-10-17]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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The mitochondrial and autosomal mutation landscapes of prostate cancer.
Lindberg J, Mills IG, Klevebring D, ..., Egevad L, Grönberg H
Eur. Urol. 63 (4) 702-708 [2013-04-00; online 2012-12-26]
Karolinska High Throughput Center (KHTC) NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Modelling the effects of dispersal mechanisms and hydrodynamic regimes upon the structure of microbial communities within fluvial biofilms.
Woodcock S, Besemer K, Battin TJ, Curtis TP, Sloan WT
Environ. Microbiol. 15 (4) 1216-1225 [2013-04-00; online 2012-12-18]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Lack of dosage compensation accompanies the arrested stage of sex chromosome evolution in ostriches.
Adolfsson S, Ellegren H
Mol. Biol. Evol. 30 (4) 806-810 [2013-04-00; online 2013-01-19]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Immunofluorescence and fluorescent-protein tagging show high correlation for protein localization in mammalian cells.
Stadler C, Rexhepaj E, Singan VR, ..., Simpson JC, Lundberg E
Nat. Methods 10 (4) 315-323 [2013-04-00; online 2013-02-26]
Spatial Proteomics
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Identification of seven loci affecting mean telomere length and their association with disease.
Codd V, Nelson CP, Albrecht E, ..., van der Harst P, Samani NJ
Nat. Genet. 45 (4) 422-7, 427e1-2 [2013-04-00; online 2013-03-29]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Hereditary uveal melanoma: a report of a germline mutation in BAP1.
Höiom V, Edsgärd D, Helgadottir H, ..., Emanuelsson O, Hansson J
Genes Chromosomes Cancer 52 (4) 378-384 [2013-04-00; online 2013-01-23]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
DOI Crossref
Degradation of Scots pine and beech wood exposed in four test fields used for testing of wood preservatives
Råberg U, Terziev N, Daniel G
International Biodeterioration & Biodegradation 79 (-) 20-27 [2013-04-00; online 2013-04-00]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Comparative genomics of Wolbachia and the bacterial species concept.
Ellegaard KM, Klasson L, Näslund K, Bourtzis K, Andersson SG
PLoS Genet. 9 (4) e1003381 [2013-04-00; online 2013-04-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Automated classification of immunostaining patterns in breast tissue from the human protein atlas.
Swamidoss IN, Kårsnäs A, Uhlmann V, ..., Wählby C, Strand R
J Pathol Inform 4 (Suppl) S14 [2013-03-30; online 2013-03-30]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development] Tissue Profiling
PubMed DOI Crossref
Genetic variants from lipid-related pathways and risk for incident myocardial infarction.
Song C, Pedersen NL, Reynolds CA, ..., Prince JA, Ingelsson E
PLoS ONE 8 (3) e60454 [2013-03-29; online 2013-03-29]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Transcriptome profiling of Giardia intestinalis using strand-specific RNA-seq.
Franzén O, Jerlström-Hultqvist J, Einarsson E, ..., Andersson B, Svärd SG
PLoS Comput. Biol. 9 (3) e1003000 [2013-03-28; online 2013-03-28]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Optimizing Solubility and Permeability of a Biopharmaceutics Classification System (BCS) Class 4 Antibiotic Drug Using Lipophilic Fragments Disturbing the Crystal Lattice
Tehler U, Fagerberg JH, Svensson R, ..., Artursson P, Bergström CAS
J. Med. Chem. 56 (6) 2690-2694 [2013-03-28; online 2013-03-28]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
PubMed DOI Crossref
Patchwork: allele-specific copy number analysis of whole-genome sequenced tumor tissue.
Mayrhofer M, DiLorenzo S, Isaksson A
Genome Biol. 14 (3) R24 [2013-03-25; online 2013-03-25]
Array and Analysis Facility
PubMed DOI Crossref
Offshoots of the ESF functional genomics programme.
Landegren U
N Biotechnol 30 (3) 296-298 [2013-03-25; online 2013-01-09]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
PubMed DOI Crossref
The genomic signature of dog domestication reveals adaptation to a starch-rich diet.
Axelsson E, Ratnakumar A, Arendt M, ..., Hedhammar A, Lindblad-Toh K
Nature 495 (7441) 360-364 [2013-03-21; online 2013-01-29]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Integration of clinical data with a genome-scale metabolic model of the human adipocyte.
Mardinoglu A, Agren R, Kampf C, ..., Uhlen M, Nielsen J
Mol. Syst. Biol. 9 (-) 649 [2013-03-21; online 2013-03-21]
Tissue Profiling
PubMed DOI Crossref
Genome Sequence of a Plant-Associated Bacterium, Bacillus amyloliquefaciens Strain UCMB5036.
Manzoor S, Niazi A, Bejai S, Meijer J, Bongcam-Rudloff E
Genome Announc 1 (2) e0011113 [2013-03-21; online 2013-03-21]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Identification of genetic variants influencing the human plasma proteome.
Johansson Å, Enroth S, Palmblad M, ..., Bergquist J, Gyllensten U
Proc. Natl. Acad. Sci. U.S.A. 110 (12) 4673-4678 [2013-03-19; online 2013-03-15]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Identification and verification of microRNAs by high-throughput sequencing.
Hällman J, Avesson L, Reimegård J, Käller M, Söderbom F
Methods Mol. Biol. 983 (-) 125-138 [2013-03-16; online 2013-03-16]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
DNA topoisomerase III localizes to centromeres and affects centromeric CENP-A levels in fission yeast.
Norman-Axelsson U, Durand-Dubief M, Prasad P, Ekwall K
PLoS Genet. 9 (3) e1003371 [2013-03-14; online 2013-03-14]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Transcriptome of the alternative ethanol production strain Dekkera bruxellensis CBS 11270 in sugar limited, low oxygen cultivation.
Tiukova IA, Petterson ME, Tellgren-Roth C, ..., Pettersson OV, Passoth V
PLoS ONE 8 (3) e58455 [2013-03-13; online 2013-03-13]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
The HUPO proteomics standards initiative- mass spectrometry controlled vocabulary.
Mayer G, Montecchi-Palazzi L, Ovelleiro D, ..., Eisenacher M, HUPO-PSI Group
Database (Oxford) 2013 (-) bat009 [2013-03-12; online 2013-03-12]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Gene rearrangements in hormone receptor negative breast cancers revealed by mate pair sequencing.
Jiao X, Hooper SD, Djureinovic T, ..., Botling J, Sjöblom T
BMC Genomics 14 (-) 165 [2013-03-12; online 2013-03-12]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Hierarchical molecular tagging to resolve long continuous sequences by massively parallel sequencing.
Lundin S, Gruselius J, Nystedt B, ..., Käller M, Lundeberg J
Sci Rep 3 (-) 1186 [2013-03-09; online 2013-03-09]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Recognition of mono-ADP-ribosylated ARTD10 substrates by ARTD8 macrodomains.
Forst AH, Karlberg T, Herzog N, ..., Schüler H, Lüscher B
Structure 21 (3) 462-475 [2013-03-05; online 2013-03-12]
Protein Science Facility (PSF)
PubMed DOI Crossref
TagGD: fast and accurate software for DNA Tag generation and demultiplexing.
Costea PI, Lundeberg J, Akan P
PLoS ONE 8 (3) e57521 [2013-03-04; online 2013-03-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
DOI Crossref
The genetic structure of the Lithuanian wolf population
Baltrūnaitė L, Balčiauskas L, Åkesson M
Open Life Sci 8 (5) 440-447 [2013-03-01; online 2013-03-01]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
The effect of substrate and operational parameters on the abundance of sulphate-reducing bacteria in industrial anaerobic biogas digesters.
Moestedt J, Nilsson Påledal S, Schnürer A
Bioresour. Technol. 132 (-) 327-332 [2013-03-00; online 2013-02-19]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Structure of LdtMt2, an L,D-transpeptidase from Mycobacterium tuberculosis.
Böth D, Steiner EM, Stadler D, ..., Schnell R, Schneider G
Acta Crystallogr. D Biol. Crystallogr. 69 (Pt 3) 432-441 [2013-03-00; online 2013-02-16]
Protein Science Facility (PSF)
PubMed DOI Crossref
Secretion of two novel enzymes, manganese 9S-lipoxygenase and epoxy alcohol synthase, by the rice pathogen Magnaporthe salvinii.
Wennman A, Oliw EH
J. Lipid Res. 54 (3) 762-775 [2013-03-00; online 2012-12-13]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
DOI Crossref
Oral rehydration solution with glycerol to dairy calves: Effects on fluid balance, metabolism, and intestinal microbiota
Omazic AW, Tråvén M, Roos S, Mellgren E, Holtenius K
Acta Agriculturae Scandinavica, Section A - Animal Science 63 (1) 47-56 [2013-03-00; online 2013-03-00]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Higher magnesium intake is associated with lower fasting glucose and insulin, with no evidence of interaction with select genetic loci, in a meta-analysis of 15 CHARGE Consortium Studies.
Hruby A, Ngwa JS, Renström F, ..., McKeown NM, Nettleton JA
J. Nutr. 143 (3) 345-353 [2013-03-00; online 2013-01-25]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genetic effects on old-age cognitive functioning: a population-based study.
Laukka EJ, Lövdén M, Herlitz A, ..., Fratiglioni L, Bäckman L
Psychol Aging 28 (1) 262-274 [2013-03-00; online 2013-01-02]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Genetic determinants of plasma β₂-glycoprotein I levels: a genome-wide association study in extended pedigrees from Spain.
Athanasiadis G, Sabater-Lleal M, Buil A, ..., Hamsten A, Soria JM
J. Thromb. Haemost. 11 (3) 521-528 [2013-03-00; online 2013-01-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Fine-mapping of restless legs locus 4 (RLS4) identifies a haplotype over the SPATS2L and KCTD18 genes.
Pichler I, Schwienbacher C, Zanon A, ..., Hicks AA, Pramstaller PP
J. Mol. Neurosci. 49 (3) 600-605 [2013-03-00; online 2012-10-12]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Determination of the obesity-associated gene variants within the entire FTO gene by ultra-deep targeted sequencing in obese and lean children.
Sällman Almén M, Rask-Andersen M, Jacobsson JA, ..., Fredriksson R, Schiöth HB
Int J Obes (Lond) 37 (3) 424-431 [2013-03-00; online 2012-04-24]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Brain gene expression differences are associated with abnormal tail biting behavior in pigs.
Brunberg E, Jensen P, Isaksson A, Keeling LJ
Genes Brain Behav. 12 (2) 275-281 [2013-03-00; online 2012-11-14]
Array and Analysis Facility
PubMed DOI Crossref
Astakine 2--the dark knight linking melatonin to circadian regulation in crustaceans.
Watthanasurorot A, Saelee N, Phongdara A, ..., Söderhäll K, Söderhäll I
PLoS Genet. 9 (3) e1003361 [2013-03-00; online 2013-03-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
A modified Glenn shunt improves haemodynamics in acute right ventricular failure in an experimental model.
Vikholm P, Schiller P, Johansson J, Hellgren L
Eur J Cardiothorac Surg 43 (3) 612-618 [2013-03-00; online 2012-07-05]
Array and Analysis Facility
PubMed DOI Crossref
A genome-wide assessment of variability in human serum metabolism.
Hong MG, Karlsson R, Magnusson PK, ..., Wiklund F, Prince JA
Hum. Mutat. 34 (3) 515-524 [2013-03-00; online 2013-01-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
A gene transfer agent and a dynamic repertoire of secretion systems hold the keys to the explosive radiation of the emerging pathogen Bartonella.
Guy L, Nystedt B, Toft C, ..., Eriksson AS, Andersson SG
PLoS Genet. 9 (3) e1003393 [2013-03-00; online 2013-03-28]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Metagenomic detection of viral pathogens in Spanish honeybees: co-infection by Aphid Lethal Paralysis, Israel Acute Paralysis and Lake Sinai Viruses.
Granberg F, Vicente-Rubiano M, Rubio-Guerri C, ..., Belák S, Sánchez-Vizcaíno JM
PLoS ONE 8 (2) e57459 [2013-02-27; online 2013-02-27]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Origin and evolution of medium chain alcohol dehydrogenases.
Jörnvall H, Hedlund J, Bergman T, ..., Cederlund E, Persson B
Chem. Biol. Interact. 202 (1-3) 91-96 [2013-02-25; online 2012-12-04]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Classification and nomenclature of the superfamily of short-chain dehydrogenases/reductases (SDRs).
Persson B, Kallberg Y
Chem. Biol. Interact. 202 (1-3) 111-115 [2013-02-25; online 2012-12-04]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Evolution of sperm structure and energetics in passerine birds.
Rowe M, Laskemoen T, Johnsen A, Lifjeld JT
Proc. Biol. Sci. 280 (1753) 20122616 [2013-02-22; online 2013-01-04]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Imatinib ameliorates neuroinflammation in a rat model of multiple sclerosis by enhancing blood-brain barrier integrity and by modulating the peripheral immune response.
Adzemovic MV, Adzemovic MZ, Zeitelhofer M, ..., Olsson T, Nilsson I
PLoS ONE 8 (2) e56586 [2013-02-20; online 2013-02-20]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
The synthetic progestin levonorgestrel is a potent androgen in the three-spined stickleback (Gasterosteus aculeatus).
Svensson J, Fick J, Brandt I, Brunström B
Environ. Sci. Technol. 47 (4) 2043-2051 [2013-02-19; online 2013-02-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
STC1 expression by cancer-associated fibroblasts drives metastasis of colorectal cancer.
Peña C, Céspedes MV, Lindh MB, ..., Augsten M, Ostman A
Cancer Res. 73 (4) 1287-1297 [2013-02-15; online 2012-12-18]
Tissue Profiling
PubMed DOI Crossref
Coastal bacterioplankton community dynamics in response to a natural disturbance.
Yeo SK, Huggett MJ, Eiler A, Rappé MS
PLoS ONE 8 (2) e56207 [2013-02-07; online 2013-02-07]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Causal relationship between obesity and vitamin D status: bi-directional Mendelian randomization analysis of multiple cohorts.
Vimaleswaran KS, Berry DJ, Lu C, ..., Hingorani AD, Hyppönen E
PLoS Med. 10 (2) e1001383 [2013-02-05; online 2013-02-05]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
FANTOM: Functional and taxonomic analysis of metagenomes.
Sanli K, Karlsson FH, Nookaew I, Nielsen J
BMC Bioinformatics 14 (-) 38 [2013-02-01; online 2013-02-01]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
The phylogeographic pattern of Francisella tularensis in Sweden indicates a Scandinavian origin of Eurosiberian tularaemia.
Karlsson E, Svensson K, Lindgren P, ..., Forsman M, Johansson A
Environ. Microbiol. 15 (2) 634-645 [2013-02-00; online 2012-12-16]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
The Swedish Twin Registry: establishment of a biobank and other recent developments.
Magnusson PKE, Almqvist C, Rahman I, ..., Pedersen NL, Lichtenstein P
Twin Res Hum Genet 16 (1) 317-329 [2013-02-00; online 2012-11-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Sequence variation in mitochondrialATPsynthase subunit 6 & 8and nuclear genesITS1andITS2in 17 cyprinid species
Demandt MH
J. Appl. Ichthyol. 29 (1) 278-280 [2013-02-00; online 2012-06-22]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Population pharmacokinetic modeling and deconvolution of enantioselective absorption of eflornithine in the rat
Johansson CC, Gennemark P, Artursson P, ..., Ashton M, Jansson-Löfmark R
J Pharmacokinet Pharmacodyn 40 (1) 117-128 [2013-02-00; online 2013-01-10]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Olfactory receptor 51E1 protein as a potential novel tissue biomarker for small intestine neuroendocrine carcinomas.
Cui T, Tsolakis AV, Li S, ..., Öberg K, Giandomenico V
Eur. J. Endocrinol. 168 (2) 253-261 [2013-02-00; online 2012-11-28]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
In vitro and in vivo activities of 2-aminopyrazines and 2-aminopyridines in experimental models of human African trypanosomiasis.
Vodnala SK, Lundbäck T, Sjöberg B, ..., Rottenberg ME, Hammarström LGJ
Antimicrob. Agents Chemother. 57 (2) 1012-1018 [2013-02-00; online 2012-12-21]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Genome-wide association analyses identify 18 new loci associated with serum urate concentrations.
Köttgen A, Albrecht E, Teumer A, ..., Bochud M, Gieger C
Nat. Genet. 45 (2) 145-154 [2013-02-00; online 2012-12-25]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
First insights into the syntrophic acetate-oxidizing bacteria--a genetic study.
Müller B, Sun L, Schnürer A
Microbiologyopen 2 (1) 35-53 [2013-02-00; online 2012-12-15]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Exome sequencing of prostate cancer supports the hypothesis of independent tumour origins.
Lindberg J, Klevebring D, Liu W, ..., Egevad L, Grönberg H
Eur. Urol. 63 (2) 347-353 [2013-02-00; online 2012-04-17]
Karolinska High Throughput Center (KHTC) NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Epigenome-wide association data implicate DNA methylation as an intermediary of genetic risk in rheumatoid arthritis.
Liu Y, Aryee MJ, Padyukov L, ..., Ekström TJ, Feinberg AP
Nat. Biotechnol. 31 (2) 142-147 [2013-02-00; online 2013-01-22]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Early-phase GVHD gene expression profile in target versus non-target tissues: kidney, a possible target?
Sadeghi B, Al-Chaqmaqchi H, Al-Hashmi S, ..., Moshfegh A, Hassan M
Bone Marrow Transplant. 48 (2) 284-293 [2013-02-00; online 2012-07-25]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Early cone setting in Picea abies acrocona is associated with increased transcriptional activity of a MADS box transcription factor.
Uddenberg D, Reimegård J, Clapham D, ..., Emanuelsson O, Sundström JF
Plant Physiol. 161 (2) 813-823 [2013-02-00; online 2012-12-12]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
An MBL-like protein may interfere with the activation of the proPO-system, an important innate immune reaction in invertebrates.
Wu C, Charoensapsri W, Nakamura S, ..., Söderhäll I, Söderhäll K
Immunobiology 218 (2) 159-168 [2013-02-00; online 2012-03-31]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Adipose tissue resting energy expenditure and expression of genes involved in mitochondrial function are higher in women than in men.
Nookaew I, Svensson PA, Jacobson P, ..., Nielsen J, Carlsson LM
J. Clin. Endocrinol. Metab. 98 (2) E370-E378 [2013-02-00; online 2012-12-25]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
A versatile genome-scale PCR-based pipeline for high-definition DNA FISH.
Bienko M, Crosetto N, Teytelman L, ..., Itzkovitz S, van Oudenaarden A
Nat. Methods 10 (2) 122-124 [2013-02-00; online 2012-12-23]
Advanced FISH Technologies [Technology development]
PubMed DOI Crossref
A gene-centric study of common carotid artery remodelling.
Harrison SC, Zabaneh D, Asselbergs FW, ..., Hamsten A, Humphries SE
Atherosclerosis 226 (2) 440-446 [2013-02-00; online 2012-12-19]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Workshop on laboratory protocol standards for the Molecular Methods Database.
Klingström T, Soldatova L, Stevens R, ..., Landegren U, Bongcam-Rudloff E
N Biotechnol 30 (2) 109-113 [2013-01-25; online 2012-06-02]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
PubMed DOI Crossref
Protein tag-mediated conjugation of oligonucleotides to recombinant affinity binders for proximity ligation.
Gu GJ, Friedman M, Jost C, ..., Landegren U, Söderberg O
N Biotechnol 30 (2) 144-152 [2013-01-25; online 2012-06-06]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
PubMed DOI Crossref
Multiplex protein detection with DNA readout via mass spectrometry.
Flanigon J, Kamali-Moghaddam M, Burbulis I, ..., Landegren U, Cantor C
N Biotechnol 30 (2) 153-158 [2013-01-25; online 2012-12-04]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
PubMed DOI Crossref
DNA methylation in the Neuropeptide S Receptor 1 (NPSR1) promoter in relation to asthma and environmental factors.
Reinius LE, Gref A, Sääf A, ..., Söderhäll C, Kere J
PLoS ONE 8 (1) e53877 [2013-01-23; online 2013-01-23]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Unveiling distribution patterns of freshwater phytoplankton by a next generation sequencing based approach.
Eiler A, Drakare S, Bertilsson S, ..., Znachor P, Lindström ES
PLoS ONE 8 (1) e53516 [2013-01-22; online 2013-01-22]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Genomic insights into the atopic eczema-associated skin commensal yeast Malassezia sympodialis.
Gioti A, Nystedt B, Li W, ..., Heitman J, Scheynius A
MBio 4 (1) e00572-e00512 [2013-01-22; online 2013-01-22]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
DNA-binding specificities of human transcription factors.
Jolma A, Yan J, Whitington T, ..., Kivioja T, Taipale J
Cell 152 (1-2) 327-339 [2013-01-17; online 2013-01-22]
Karolinska High Throughput Center (KHTC)
PubMed DOI Crossref
A genome-wide association study identifies genomic regions for virulence in the non-model organism Heterobasidion annosum s.s.
Dalman K, Himmelstrand K, Olson Å, ..., Brandström-Durling M, Stenlid J
PLoS ONE 8 (1) e53525 [2013-01-16; online 2013-01-16]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Meta-analysis investigating associations between healthy diet and fasting glucose and insulin levels and modification by loci associated with glucose homeostasis in data from 15 cohorts.
Nettleton JA, Hivert MF, Lemaitre RN, ..., Meigs JB, Franks PW
Am. J. Epidemiol. 177 (2) 103-115 [2013-01-15; online 2012-12-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data.
Teschendorff AE, Marabita F, Lechner M, ..., Gomez-Cabrero D, Beck S
Bioinformatics 29 (2) 189-196 [2013-01-15; online 2012-11-24]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Gene expression deregulation in postnatal skeletal muscle of TK2 deficient mice reveals a lower pool of proliferating myogenic progenitor cells.
Paredes JA, Zhou X, Höglund S, Karlsson A
PLoS ONE 8 (1) e53698 [2013-01-14; online 2013-01-14]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Exome RNA sequencing reveals rare and novel alternative transcripts.
Halvardson J, Zaghlool A, Feuk L
Nucleic Acids Res. 41 (1) e6 [2013-01-07; online 2012-08-31]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
RNA deep sequencing as a tool for selection of cell lines for systematic subcellular localization of all human proteins.
Danielsson F, Wiking M, Mahdessian D, ..., Uhlén M, Lundberg E
J. Proteome Res. 12 (1) 299-307 [2013-01-04; online 2012-12-12]
Spatial Proteomics
PubMed DOI Crossref
A chromosome-centric human proteome project (C-HPP) to characterize the sets of proteins encoded in chromosome 17.
Liu S, Im H, Bairoch A, ..., Beavis RC, Hancock WS
J. Proteome Res. 12 (1) 45-57 [2013-01-04; online 2012-12-25]
Spatial Proteomics
PubMed DOI Crossref
Biomarker discovery in non-small cell lung cancer: integrating gene expression profiling, meta-analysis, and tissue microarray validation.
Botling J, Edlund K, Lohr M, ..., Hengstler JG, Micke P
Clin. Cancer Res. 19 (1) 194-204 [2013-01-01; online 2012-10-02]
Array and Analysis Facility Tissue Profiling
PubMed DOI Crossref
Proceedings of the 15th International Congress on Circumpolar Health
International Journal of Circumpolar Health 72 (1) 22447 [2013-01-00; online 2013-08-05]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Non-heritable genetics of human disease: spotlight on post-zygotic genetic variation acquired during lifetime.
Forsberg LA, Absher D, Dumanski JP
J. Med. Genet. 50 (1) 1-10 [2013-01-00; online 2012-11-23]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Large-scale association analysis identifies new risk loci for coronary artery disease.
CARDIoGRAMplusC4D Consortium N, Deloukas P, Kanoni S, ..., Schunkert H, Samani NJ
Nat. Genet. 45 (1) 25-33 [2013-01-00; online 2012-12-04]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Genome-wide profiling of target genes for the systemic lupus erythematosus-associated transcription factors IRF5 and STAT4.
Wang C, Sandling JK, Hagberg N, ..., Eloranta ML, Syvänen AC
Ann. Rheum. Dis. 72 (1) 96-103 [2013-01-00; online 2012-06-26]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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First Genome Sequence of a Syntrophic Acetate-Oxidizing Bacterium, Tepidanaerobacter acetatoxydans Strain Re1.
Manzoor S, Bongcam-Rudloff E, Schnürer A, Müller B
Genome Announc 1 (1) - [2013-01-00; online 2013-02-21]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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450K-array analysis of chronic lymphocytic leukemia cells reveals global DNA methylation to be relatively stable over time and similar in resting and proliferative compartments.
Cahill N, Bergh AC, Kanduri M, ..., Rosén A, Rosenquist R
Leukemia 27 (1) 150-158 [2013-01-00; online 2012-08-28]
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DOI Crossref
The A-CD analogue of 16β,17α-estriol is a potent and highly selective estrogen receptor β agonist
Sauvée C, Schäfer A, Sundén H, ..., Burstein ES, Olsson R
Med. Chem. Commun. 4 (11) 1439 [2013-00-00; online 2013-00-00]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Nanoscale elucidation of Na,K-ATPase isoforms in dendritic spines
Liebmann T, Blom H, Aperia A, Brismar H
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Powerful identification of cis-regulatory SNPs in human primary monocytes using allele-specific gene expression.
Almlöf JC, Lundmark P, Lundmark A, ..., Cambien F, Syvänen A
PLoS ONE 7 (12) e52260 [2012-12-26; online 2012-12-26]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Genomic diversity of the 2011 European outbreaks of Escherichia coli O104:H4.
Guy L, Jernberg C, Ivarsson S, ..., Engstrand L, Andersson SG
Proc. Natl. Acad. Sci. U.S.A. 109 (52) E3627-E3628 [2012-12-26; online 2012-12-19]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Genome-wide sequencing for the identification of rearrangements associated with Tourette syndrome and obsessive-compulsive disorder.
Hooper SD, Johansson AC, Tellgren-Roth C, ..., Cavelier L, Feuk L
BMC Med. Genet. 13 (-) 123 [2012-12-19; online 2012-12-19]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Integration of genome-wide association studies with biological knowledge identifies six novel genes related to kidney function.
Chasman DI, Fuchsberger C, Pattaro C, ..., Fox CS, Köttgen A
Hum. Mol. Genet. 21 (24) 5329-5343 [2012-12-15; online 2012-09-11]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Similar but different: thermodynamic and structural characterization of a pair of enantiomers binding to acetylcholinesterase.
Berg L, Niemiec MS, Qian W, ..., Ekström F, Linusson A
Angew. Chem. Int. Ed. Engl. 51 (51) 12716-12720 [2012-12-14; online 2012-11-20]
Chemical Biology Consortium Sweden (CBCS) [Service]
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Evidence for small RNAs homologous to effector-encoding genes and transposable elements in the oomycete Phytophthora infestans.
Vetukuri RR, Åsman AKM, Tellgren-Roth C, ..., Whisson SC, Dixelius C
PLoS ONE 7 (12) e51399 [2012-12-14; online 2012-12-14]
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Novel missense mutation in the RSPO4 gene in congenital hyponychia and evidence for a polymorphic initiation codon (p.M1I).
Khan TN, Klar J, Nawaz S, ..., Baig SM, Dahl N
BMC Med. Genet. 13 (-) 120 [2012-12-13; online 2012-12-13]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Mice lacking a Myc enhancer that includes human SNP rs6983267 are resistant to intestinal tumors.
Sur IK, Hallikas O, Vähärautio A, ..., Aaltonen LA, Taipale J
Science 338 (6112) 1360-1363 [2012-12-07; online 2012-11-03]
Karolinska High Throughput Center (KHTC)
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EGFR gene variants are associated with specific somatic aberrations in glioma.
Wibom C, Ghasimi S, Van Loo P, ..., Rydén P, Melin B
PLoS ONE 7 (12) e47929 [2012-12-07; online 2012-12-07]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Symptomatic atherosclerosis is associated with an altered gut metagenome.
Karlsson FH, Fåk F, Nookaew I, ..., Bäckhed F, Nielsen J
Nat Commun 3 (-) 1245 [2012-12-06; online 2012-12-06]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Genome-wide association study for circulating levels of PAI-1 provides novel insights into its regulation.
Huang J, Sabater-Lleal M, Asselbergs FW, ..., O'Donnell CJ, Hamsten A
Blood 120 (24) 4873-4881 [2012-12-06; online 2012-09-20]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Interferometry and Fluorescence Detection for Simultaneous Analysis of Labeled and Unlabeled Nanoparticles in Solution
Wennmalm S, Widengren J
J. Am. Chem. Soc. 134 (48) 19516-19519 [2012-12-05; online 2012-11-16]
Fluorescence Correlation Spectroscopy [Service]
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Distinct transcriptional control in major immunogenetic subsets of chronic lymphocytic leukemia exhibiting subset-biased global DNA methylation profiles.
Kanduri M, Marincevic M, Halldórsdóttir AM, ..., Stamatopoulos K, Rosenquist R
Epigenetics 7 (12) 1435-1442 [2012-12-01; online 2012-11-17]
Array and Analysis Facility
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Transcription factor PROX1: its role in development and cancer.
Elsir T, Smits A, Lindström MS, Nistér M
Cancer Metastasis Rev. 31 (3-4) 793-805 [2012-12-00; online 2012-06-27]
Tissue Profiling
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The impact of intronic single nucleotide polymorphisms and ethnic diversity for studies on the obesity gene FTO.
Jacobsson JA, Schiöth HB, Fredriksson R
Obes Rev 13 (12) 1096-1109 [2012-12-00; online 2012-08-31]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
PCR-based multiparametric assays in single cells.
Darmanis S, Gallant C, Landegren U
Clin. Chem. 58 (12) 1618-1619 [2012-12-00; online 2012-10-17]
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Methylenetetrahydrofolate reductase (MTHFR) C677T polymorphism and age at onset of schizophrenia: no consistent evidence for an association in the Nordic population.
Saetre P, Grove J, Børglum AD, ..., Terenius L, Jönsson EG
Am. J. Med. Genet. B Neuropsychiatr. Genet. 159B (8) 981-986 [2012-12-00; online 2012-10-19]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Integration of genetics into a systems model of electrocardiographic traits using HumanCVD BeadChip.
Gaunt TR, Shah S, Nelson CP, ..., Kumari M, Day IN
Circ Cardiovasc Genet 5 (6) 630-638 [2012-12-00; online 2012-11-10]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Insights into p53 transcriptional function via genome-wide chromatin occupancy and gene expression analysis.
Nikulenkov F, Spinnler C, Li H, ..., Taipale J, Selivanova G
Cell Death Differ. 19 (12) 1992-2002 [2012-12-00; online 2012-07-14]
Karolinska High Throughput Center (KHTC)
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Identification of the BCAR1-CFDP1-TMEM170A locus as a determinant of carotid intima-media thickness and coronary artery disease risk.
Gertow K, Sennblad B, Strawbridge RJ, ..., Humphries SE, Hamsten A
Circ Cardiovasc Genet 5 (6) 656-665 [2012-12-00; online 2012-11-16]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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High-resolution mapping of linear antibody epitopes using ultrahigh-density peptide microarrays.
Buus S, Rockberg J, Forsström B, ..., Uhlen M, Schafer-Nielsen C
Mol. Cell Proteomics 11 (12) 1790-1800 [2012-12-00; online 2012-09-18]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
High-density genetic mapping identifies new susceptibility loci for rheumatoid arthritis.
Eyre S, Bowes J, Diogo D, ..., Gregersen PK, Worthington J
Nat. Genet. 44 (12) 1336-1340 [2012-12-00; online 2012-11-13]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Genome sequence of Francisella tularensis subspecies holarctica strain FSC200, isolated from a child with tularemia.
Svensson K, Sjödin A, Byström M, ..., Larsson P, Johansson A
J. Bacteriol. 194 (24) 6965-6966 [2012-12-00; online 2012-12-05]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Evolution from the prokaryotic to the higher plant chloroplast signal recognition particle: the signal recognition particle RNA is conserved in plastids of a wide range of photosynthetic organisms.
Träger C, Rosenblad MA, Ziehe D, ..., Aronsson H, Schünemann D
Plant Cell 24 (12) 4819-4836 [2012-12-00; online 2012-12-28]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Epitope-specificity of recombinant antibodies reveals promiscuous peptide-binding properties.
Olsson N, Wallin S, James P, Borrebaeck CA, Wingren C
Protein Sci. 21 (12) 1897-1910 [2012-12-00; online 2012-10-05]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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A genome-wide association study of monozygotic twin-pairs suggests a locus related to variability of serum high-density lipoprotein cholesterol.
Surakka I, Whitfield JB, Perola M, ..., Peltonen L, GenomEUtwin Project N
Twin Res Hum Genet 15 (6) 691-699 [2012-12-00; online 2012-10-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Automated analysis and reannotation of subcellular locations in confocal images from the Human Protein Atlas.
Li J, Newberg JY, Uhlén M, Lundberg E, Murphy RF
PLoS ONE 7 (11) e50514 [2012-11-30; online 2012-11-30]
Spatial Proteomics
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The genomic landscape of species divergence in Ficedula flycatchers.
Ellegren H, Smeds L, Burri R, ..., Uebbing S, Wolf JB
Nature 491 (7426) 756-760 [2012-11-29; online 2012-10-30]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Estimating microtubule distributions from 2D immunofluorescence microscopy images reveals differences among human cultured cell lines.
Li J, Shariff A, Wiking M, ..., Rohde GK, Murphy RF
PLoS ONE 7 (11) e50292 [2012-11-28; online 2012-11-28]
Spatial Proteomics
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Strong signatures of selection in the domestic pig genome.
Rubin C, Megens H, Martinez Barrio A, ..., Groenen MAM, Andersson L
Proc. Natl. Acad. Sci. U.S.A. 109 (48) 19529-19536 [2012-11-27; online 2012-11-16]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Sequence based analysis of U-2973, a cell line established from a double-hit B-cell lymphoma with concurrent MYC and BCL2 rearrangements.
Hooper SD, Jiao X, Sundström E, ..., Sjöblom T, Cavelier L
BMC Res Notes 5 (-) 648 [2012-11-22; online 2012-11-22]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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The plant short-chain dehydrogenase (SDR) superfamily: genome-wide inventory and diversification patterns.
Moummou H, Kallberg Y, Tonfack LB, Persson B, van der Rest B
BMC Plant Biol. 12 (-) 219 [2012-11-20; online 2012-11-20]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Population-scale sequencing reveals genetic differentiation due to local adaptation in Atlantic herring.
Lamichhaney S, Martinez Barrio A, Rafati N, ..., Ryman N, Andersson L
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NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Polymorphisms in peptidylarginine deiminase associate with rheumatoid arthritis in diverse Asian populations: evidence from MyEIRA study and meta-analysis.
Too CL, Murad S, Dhaliwal JS, ..., Klareskog L, Padyukov L
Arthritis Res. Ther. 14 (6) R250 [2012-11-19; online 2012-11-19]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Comprehensive analysis of the genome transcriptome and proteome landscapes of three tumor cell lines.
Akan P, Alexeyenko A, Costea PI, ..., Uhlén M, Lundeberg J
Genome Med 4 (11) 86 [2012-11-18; online 2012-11-18]
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CD99 is a novel prognostic stromal marker in non-small cell lung cancer.
Edlund K, Lindskog C, Saito A, ..., Ostman A, Micke P
Int. J. Cancer 131 (10) 2264-2273 [2012-11-15; online 2012-03-07]
Array and Analysis Facility Tissue Profiling
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Genetic variants and associations of 25-hydroxyvitamin D concentrations with major clinical outcomes.
Levin GP, Robinson-Cohen C, de Boer IH, ..., Siscovick D, Kestenbaum B
JAMA 308 (18) 1898-1905 [2012-11-14; online 2012-11-15]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Library preparation and multiplex capture for massive parallel sequencing applications made efficient and easy.
Neiman M, Sundling S, Grönberg H, ..., Lindberg J, Klevebring D
PLoS ONE 7 (11) e48616 [2012-11-05; online 2012-11-05]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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A 2nd generation linkage map of Heterobasidion annosum s.l. based on in silico anchoring of AFLP markers.
Lind M, van der Nest M, Olson Å, Brandström-Durling M, Stenlid J
PLoS ONE 7 (11) e48347 [2012-11-05; online 2012-11-05]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Sequencing of the needle transcriptome from Norway spruce (Picea abies Karst L.) reveals lower substitution rates, but similar selective constraints in gymnosperms and angiosperms.
Chen J, Uebbing S, Gyllenstrand N, ..., Lascoux M, Källman T
BMC Genomics 13 (-) 589 [2012-11-02; online 2012-11-02]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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A comprehensive comparison of RNA-Seq-based transcriptome analysis from reads to differential gene expression and cross-comparison with microarrays: a case study in Saccharomyces cerevisiae.
Nookaew I, Papini M, Pornputtapong N, ..., Uhlén M, Nielsen J
Nucleic Acids Res. 40 (20) 10084-10097 [2012-11-01; online 2012-09-12]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Unexpected T-cell recognition of an altered peptide ligand is driven by reversed thermodynamics.
Allerbring EB, Duru AD, Uchtenhagen H, ..., Nygren PÅ, Achour A
Eur. J. Immunol. 42 (11) 2990-3000 [2012-11-00; online 2012-07-28]
Protein Science Facility (PSF)
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Transcriptional profiling of human glioblastoma vessels indicates a key role of VEGF-A and TGFβ2 in vascular abnormalization.
Dieterich LC, Mellberg S, Langenkamp E, ..., Alafuzoff I, Dimberg A
J. Pathol. 228 (3) 378-390 [2012-11-00; online 2012-07-13]
Array and Analysis Facility Tissue Profiling
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TPX2 and AURKA promote 20q amplicon-driven colorectal adenoma to carcinoma progression.
Sillars-Hardebol AH, Carvalho B, Tijssen M, ..., Fijneman RJ, Meijer GA
Gut 61 (11) 1568-1575 [2012-11-00; online 2011-12-31]
Tissue Profiling
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Reclassification of the Candida haemulonii complex as Candida haemulonii (C. haemulonii group I), C. duobushaemulonii sp. nov. (C. haemulonii group II), and C. haemulonii var. vulnera var. nov.: three multiresistant human pathogenic yeasts.
Cendejas-Bueno E, Kolecka A, Alastruey-Izquierdo A, ..., Gómez-López A, Boekhout T
J. Clin. Microbiol. 50 (11) 3641-3651 [2012-11-00; online 2012-09-07]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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2-[4,5-Difluoro-2-(2-fluorobenzoylamino)-benzoylamino]benzoic acid, an antiviral compound with activity against acyclovir-resistant isolates of herpes simplex virus types 1 and 2.
Strand M, Islam K, Edlund K, ..., Elofsson M, Wadell G
Antimicrob. Agents Chemother. 56 (11) 5735-5743 [2012-11-00; online 2012-08-22]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Human cord blood derived immature basophils show dual characteristics, expressing both basophil and eosinophil associated proteins.
Grundström J, Reimer JM, Magnusson SE, ..., Wernersson S, Hellman L
PLoS ONE 7 (10) e48308 [2012-10-31; online 2012-10-31]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Comparison of total and cytoplasmic mRNA reveals global regulation by nuclear retention and miRNAs.
Solnestam BW, Stranneheim H, Hällman J, ..., Lundeberg J, Akan P
BMC Genomics 13 (-) 574 [2012-10-30; online 2012-10-30]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Spatial Proteomics
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Secretagogin is expressed in sensory CGRP neurons and in spinal cord of mouse and complements other calcium-binding proteins, with a note on rat and human.
Shi TJ, Xiang Q, Zhang MD, ..., Harkany T, Hökfelt T
Mol Pain 8 (-) 80 [2012-10-29; online 2012-10-29]
Fluorescence Tissue Profiling
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Strategy for minimizing between-study variation of large-scale phenotypic experiments using multivariate analysis.
Pinto RC, Gerber L, Eliasson M, Sundberg B, Trygg J
Anal. Chem. 84 (20) 8675-8681 [2012-10-16; online 2012-09-18]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Chromosome 1p13 genetic variants antagonize the risk of myocardial infarction associated with high ApoB serum levels.
Gigante B, Leander K, Vikström M, Ye S, de Faire U
BMC Cardiovasc Disord 12 (-) 90 [2012-10-16; online 2012-10-16]
Mutation Analysis Facility (MAF)
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A novel mutation in the Lipase H gene underlies autosomal recessive hypotrichosis and woolly hair.
Tariq M, Azhar A, Baig SM, Dahl N, Klar J
Sci Rep 2 (-) 730 [2012-10-12; online 2012-10-12]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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The Pseudomonas aeruginosa N-acylhomoserine lactone quorum sensing molecules target IQGAP1 and modulate epithelial cell migration.
Karlsson T, Turkina MV, Yakymenko O, Magnusson K, Vikström E
PLoS Pathog. 8 (10) e1002953 [2012-10-11; online 2012-10-11]
Integrated Microscopy Technologies Stockholm [Service]
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Multiply-primed rolling circle amplification of human papillomavirus using sequence-specific primers.
Marincevic-Zuniga Y, Gustavsson I, Gyllensten U
Virology 432 (1) 57-62 [2012-10-10; online 2012-06-29]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Scheffersomyces stipitis: a comparative systems biology study with the Crabtree positive yeast Saccharomyces cerevisiae.
Papini M, Nookaew I, Uhlén M, Nielsen J
Microb. Cell Fact. 11 (-) 136 [2012-10-09; online 2012-10-09]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Proteomic analysis reveals drug accessible cell surface N-glycoproteins of primary and established glioblastoma cell lines.
Bock T, Moest H, Omasits U, ..., Frei K, Wollscheid B
J. Proteome Res. 11 (10) 4885-4893 [2012-10-05; online 2012-08-23]
Spatial Proteomics
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Multiplex epitope mapping using bacterial surface display reveals both linear and conformational epitopes.
Hudson EP, Uhlen M, Rockberg J
Sci Rep 2 (-) 706 [2012-10-04; online 2012-10-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed
The science of librarianship. University of Wales at Aberystwyth, July 31, 1917.
Osler W
J Med Libr Assoc 100 (4 Suppl) A [2012-10-00; online 2013-03-21]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Selected polymorphisms in sex hormone-related genes, circulating sex hormones and risk of endometrial cancer.
Lundin E, Wirgin I, Lukanova A, ..., Shore RE, Zeleniuch-Jacquotte A
Cancer Epidemiol 36 (5) 445-452 [2012-10-00; online 2012-05-29]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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MicroRNAs in Amoebozoa: deep sequencing of the small RNA population in the social amoeba Dictyostelium discoideum reveals developmentally regulated microRNAs.
Avesson L, Reimegård J, Wagner EGH, Söderbom F
RNA 18 (10) 1771-1782 [2012-10-00; online 2012-08-10]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Mapping QTL affecting a systemic sclerosis-like disorder in a cross between UCD-200 and red jungle fowl chickens.
Ek W, Sahlqvist AS, Crooks L, ..., Kämpe O, Kerje S
Dev. Comp. Immunol. 38 (2) 352-359 [2012-10-00; online 2012-07-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Lack of association between the regulator of G-protein signaling 4 (RGS4) rs951436 polymorphism and schizophrenia.
Jönsson EG, Saetre P, Nyholm H, ..., Agartz I, Terenius L
Psychiatr. Genet. 22 (5) 263-264 [2012-10-00; online 2011-12-14]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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High-resolution insights into binding of unfolded polypeptides by the PPIase chaperone SlpA.
Quistgaard EM, Nordlund P, Löw C
FASEB J. 26 (10) 4003-4013 [2012-10-00; online 2012-06-28]
Protein Science Facility (PSF)
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Genetic variation in Puccinia graminis collected from oats, rye, and barberry.
Berlin A, Djurle A, Samils B, Yuen J
Phytopathology 102 (10) 1006-1012 [2012-10-00; online 2012-06-28]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed
Evaluating the effectiveness of clinical medical librarian programs: a systematic review of the literature. J Med Libr Assoc 92(1) January 2004.
Wagner KC, Byrd GD
J Med Libr Assoc 100 (4 Suppl) J [2012-10-00; online 2013-03-21]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
D-amino acid oxidase activator gene (DAOA) variation affects cerebrospinal fluid homovanillic acid concentrations in healthy Caucasians.
Andreou D, Saetre P, Werge T, ..., Terenius L, Jönsson EG
Eur Arch Psychiatry Clin Neurosci 262 (7) 549-556 [2012-10-00; online 2012-03-29]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Consistent mutation status within histologically heterogeneous lung cancer lesions.
Mattsson JS, Imgenberg-Kreuz J, Edlund K, Botling J, Micke P
Histopathology 61 (4) 744-748 [2012-10-00; online 2012-03-31]
Tissue Profiling
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Chemosensory proteins, major salivary factors in caterpillar mandibular glands.
Celorio-Mancera Mde L, Sundmalm SM, Vogel H, ..., Zubarev RA, Janz N
Insect Biochem. Mol. Biol. 42 (10) 796-805 [2012-10-00; online 2012-08-14]
Advanced Mass Spectrometry Proteomics
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On the roles and regulation of chondroitin sulfate and heparan sulfate in zebrafish pharyngeal cartilage morphogenesis.
Holmborn K, Habicher J, Kasza Z, ..., Kreuger J, Ledin J
J. Biol. Chem. 287 (40) 33905-33916 [2012-09-28; online 2012-08-06]
Genome Engineering Zebrafish
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Genome-wide and locus specific alterations in CDC73/HRPT2-mutated parathyroid tumors.
Sulaiman L, Haglund F, Hashemi J, ..., Larsson C, Juhlin CC
PLoS ONE 7 (9) e46325 [2012-09-28; online 2012-09-28]
Bioinformatics and Expression Analysis (BEA)
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Gene expression profiles in paired gingival biopsies from periodontitis-affected and healthy tissues revealed by massively parallel sequencing.
Davanian H, Stranneheim H, Båge T, ..., Lundeberg J, Yucel-Lindberg T
PLoS ONE 7 (9) e46440 [2012-09-28; online 2012-09-28]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Microscopic particles in two fractions of fresh cerebrospinal fluid in twins with schizophrenia or bipolar disorder and in healthy controls.
Johansson V, Nybom R, Wetterberg L, ..., Ekman CJ, Landén M
PLoS ONE 7 (9) e45994 [2012-09-25; online 2012-09-25]
Mutation Analysis Facility (MAF)
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Elevated MARK2-dependent phosphorylation of Tau in Alzheimer's disease.
Gu GJ, Wu D, Lund H, ..., Landegren U, Kamali-Moghaddam M
J. Alzheimers Dis. 33 (3) 699-713 [2012-09-25; online 2012-09-25]
Affinity Proteomics Uppsala [Technology development] Clinical Biomarkers PLA and Single Cell Proteomics
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Comprehensive exploration of the effects of miRNA SNPs on monocyte gene expression.
Greliche N, Zeller T, Wild PS, ..., Blankenberg S, Trégouët DA
PLoS ONE 7 (9) e45863 [2012-09-21; online 2012-09-21]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Role of sepsis in the development of limb muscle weakness in a porcine intensive care unit model.
Aare S, Radell P, Eriksson LI, ..., Hoffman EP, Larsson L
Physiol. Genomics 44 (18) 865-877 [2012-09-18; online 2012-08-02]
Array and Analysis Facility
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Molecular tools for companion diagnostics.
Zieba A, Grannas K, Söderberg O, ..., Nilsson M, Landegren U
N Biotechnol 29 (6) 634-640 [2012-09-15; online 2012-05-24]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
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Catalytic convergence of manganese and iron lipoxygenases by replacement of a single amino acid.
Wennman A, Jernerén F, Hamberg M, Oliw EH
J. Biol. Chem. 287 (38) 31757-31765 [2012-09-14; online 2012-07-24]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Discovery of Ligands for ADP-Ribosyltransferases via Docking-Based Virtual Screening
Andersson CD, Karlberg T, Ekblad T, ..., Schüler H, Linusson A
J. Med. Chem. 55 (17) 7706-7718 [2012-09-13; online 2012-09-13]
Chemical Biology Consortium Sweden (CBCS) [Service] Protein Science Facility (PSF)
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Loss-of-heterozygosity on chromosome 19q in early-stage serous ovarian cancer is associated with recurrent disease.
Skirnisdottir I, Mayrhofer M, Rydåker M, Akerud H, Isaksson A
BMC Cancer 12 (-) 407 [2012-09-12; online 2012-09-12]
Array and Analysis Facility
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GCH1-polymorphism and pain sensitivity among women with provoked vestibulodynia.
Heddini U, Bohm-Starke N, Grönbladh A, ..., Nilsson KW, Johannesson U
Mol Pain 8 (-) 68 [2012-09-12; online 2012-09-12]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Evolutionary conservation of the ribosomal biogenesis factor Rbm19/Mrd1: implications for function.
Kallberg Y, Segerstolpe Å, Lackmann F, Persson B, Wieslander L
PLoS ONE 7 (9) e43786 [2012-09-12; online 2012-09-12]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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A tool to facilitate clinical biomarker studies--a tissue dictionary based on the Human Protein Atlas.
Kampf C, Bergman J, Oksvold P, ..., Uhlén M, Ponten F
BMC Med 10 (-) 103 [2012-09-12; online 2012-09-12]
Spatial Proteomics Tissue Profiling
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Identification of candidate SNPs for drug induced toxicity from differentially expressed genes in associated tissues.
Hasmats J, Kupershmidt I, Rodríguez-Antona C, ..., Lundeberg J, Green H
Gene 506 (1) 62-68 [2012-09-10; online 2012-07-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Five simple guidelines for establishing basic authenticity and reliability of newly generated fungal ITS sequences
Nilsson RH, Tedersoo L, Abarenkov K, ..., Larsson E, Kõljalg U
MycoKeys 4 (-) 37-63 [2012-09-05; online 2012-09-05]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Improved gap size estimation for scaffolding algorithms.
Sahlin K, Street N, Lundeberg J, Arvestad L
Bioinformatics 28 (17) 2215-2222 [2012-09-01; online 2012-08-28]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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The evolution of filamin-a protein domain repeat perspective.
Light S, Sagit R, Ithychanda SS, Qin J, Elofsson A
J. Struct. Biol. 179 (3) 289-298 [2012-09-00; online 2012-03-15]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Stepping stones in DNA sequencing.
Stranneheim H, Lundeberg J
Biotechnol J 7 (9) 1063-1073 [2012-09-00; online 2012-08-08]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Large-scale association analysis provides insights into the genetic architecture and pathophysiology of type 2 diabetes.
Morris AP, Voight BF, Teslovich TM, ..., McCarthy MI, DIAbetes Genetics Replication And Meta-analysis (DIAGRAM) Consortium
Nat. Genet. 44 (9) 981-990 [2012-09-00; online 2012-08-14]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Large-scale association analyses identify new loci influencing glycemic traits and provide insight into the underlying biological pathways.
Scott RA, Lagou V, Welch RP, ..., Prokopenko I, Barroso I
Nat. Genet. 44 (9) 991-1005 [2012-09-00; online 2012-08-14]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Global transcriptional response to ISCOM-Matrix adjuvant at the site of administration and in the draining lymph node early after intramuscular injection in pigs.
Ahlberg V, Lövgren Bengtsson K, Wallgren P, Fossum C
Dev. Comp. Immunol. 38 (1) 17-26 [2012-09-00; online 2012-03-20]
Array and Analysis Facility
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Mutations in DMRT3 affect locomotion in horses and spinal circuit function in mice.
Andersson LS, Larhammar M, Memic F, ..., Andersson L, Kullander K
Nature 488 (7413) 642-646 [2012-08-30; online 2012-08-31]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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A sexual ornament in chickens is affected by pleiotropic alleles at HAO1 and BMP2, selected during domestication.
Johnsson M, Gustafson I, Rubin C, ..., Jensen P, Wright D
PLoS Genet. 8 (8) e1002914 [2012-08-30; online 2012-08-30]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Validation of whole genome amplification for analysis of the p53 tumor suppressor gene in limited amounts of tumor samples.
Hasmats J, Green H, Solnestam BW, ..., Bjursell M, Lundeberg J
Biochem. Biophys. Res. Commun. 425 (2) 379-383 [2012-08-24; online 2012-07-31]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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MicroRNA-125b down-regulates matrix metallopeptidase 13 and inhibits cutaneous squamous cell carcinoma cell proliferation, migration, and invasion.
Xu N, Zhang L, Meisgen F, ..., Sonkoly E, Pivarcsi A
J. Biol. Chem. 287 (35) 29899-29908 [2012-08-24; online 2012-07-12]
Bioinformatics and Expression Analysis (BEA)
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Use of allele-specific FAIRE to determine functional regulatory polymorphism using large-scale genotyping arrays.
Smith AJ, Howard P, Shah S, ..., Talmud PJ, Humphries SE
PLoS Genet. 8 (8) e1002908 [2012-08-16; online 2012-08-16]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Expression analysis in multiple muscle groups and serum reveals complexity in the microRNA transcriptome of the mdx mouse with implications for therapy.
Roberts TC, Blomberg KE, McClorey G, ..., Smith CI, Wood MJ
Mol Ther Nucleic Acids 1 (-) e39 [2012-08-14; online 2012-08-14]
Bioinformatics and Expression Analysis (BEA)
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Evidence of association between interferon regulatory factor 5 gene polymorphisms and asthma.
Wang C, Rose-Zerilli MJ, Koppelman GH, ..., Syvänen AC, Dideberg V
Gene 504 (2) 220-225 [2012-08-10; online 2012-05-23]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Proteomic screen reveals Fbw7 as a modulator of the NF-κB pathway.
Arabi A, Ullah K, Branca RM, ..., Lehtiö J, Sangfelt O
Nat Commun 3 (-) 976 [2012-08-07; online 2012-08-07]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Platelet-derived growth factor over-expression in retinal progenitors results in abnormal retinal vessel formation.
Edqvist PH, Niklasson M, Vidal-Sanz M, Hallböök F, Forsberg-Nilsson K
PLoS ONE 7 (8) e42488 [2012-08-03; online 2012-08-03]
Tissue Profiling
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Erlin-2 is associated with active γ-secretase in brain and affects amyloid β-peptide production.
Teranishi Y, Hur JY, Gu GJ, ..., Frykman S, Tjernberg LO
Biochem. Biophys. Res. Commun. 424 (3) 476-481 [2012-08-03; online 2012-07-10]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
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Loss of cancer drug activity in colon cancer HCT-116 cells during spheroid formation in a new 3-D spheroid cell culture system.
Karlsson H, Fryknäs M, Larsson R, Nygren P
Exp. Cell Res. 318 (13) 1577-1585 [2012-08-01; online 2012-04-11]
Array and Analysis Facility
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Unraveling assembly of stream biofilm communities.
Besemer K, Peter H, Logue JB, ..., Tranvik LJ, Battin TJ
ISME J 6 (8) 1459-1468 [2012-08-00; online 2012-01-13]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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The novel tyrosine kinase inhibitor AKN-028 has significant antileukemic activity in cell lines and primary cultures of acute myeloid leukemia
Eriksson A, Hermanson M, Wickström M, ..., Parrow V, Höglund M
Blood Cancer J 2 (8) e81 [2012-08-00; online 2012-08-00]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Quantitative proteomics targeting classes of motif-containing peptides using immunoaffinity-based mass spectrometry.
Olsson N, James P, Borrebaeck CA, Wingren C
Mol. Cell Proteomics 11 (8) 342-354 [2012-08-00; online 2012-05-01]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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QTL and quantitative genetic analysis of beak morphology reveals patterns of standing genetic variation in an Estrildid finch.
Knief U, Schielzeth H, Kempenaers B, Ellegren H, Forstmeier W
Mol. Ecol. 21 (15) 3704-3717 [2012-08-00; online 2012-06-15]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Polymorphisms in sh2b1 and spns1 loci are associated with triglyceride levels in a healthy population in northern Sweden.
Västermark Å, Jacobsson JA, Johansson Å, ..., Gyllensten U, Schiöth HB
J. Genet. 91 (2) 237-240 [2012-08-00; online 2012-09-04]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Long noncoding RNA-mediated maintenance of DNA methylation and transcriptional gene silencing.
Mohammad F, Pandey GK, Mondal T, ..., Gyllensten U, Kanduri C
Development 139 (15) 2792-2803 [2012-08-00; online 2012-06-23]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Intractable epilepsy of infancy due to homozygous mutation in the EFHC1 gene.
Berger I, Dor T, Halvardson J, ..., Feuk L, Elpeleg O
Epilepsia 53 (8) 1436-1440 [2012-08-00; online 2012-06-12]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Impact of common variation in bone-related genes on type 2 diabetes and related traits.
Billings LK, Hsu YH, Ackerman RJ, ..., Kiel DP, Florez JC
Diabetes 61 (8) 2176-2186 [2012-08-00; online 2012-06-16]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Evidence-based approach to assess passive diffusion and carrier-mediated drug transport
Di L, Artursson P, Avdeef A, ..., Lennernäs H, Sugano K
Drug Discovery Today 17 (15-16) 905-912 [2012-08-00; online 2012-08-00]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
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Design, synthesis and evaluation of triazole functionalized ring-fused 2-pyridones as antibacterial agents.
Bengtsson C, Lindgren AEG, Uvell H, Almqvist F
Eur J Med Chem 54 (-) 637-646 [2012-08-00; online 2012-07-04]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Compensatory mutations in agrC partly restore fitness in vitro to peptide deformylase inhibitor-resistant Staphylococcus aureus.
Zorzet A, Andersen JM, Nilsson AI, Møller NF, Andersson DI
J. Antimicrob. Chemother. 67 (8) 1835-1842 [2012-08-00; online 2012-05-12]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
A-to-I editing of microRNAs in the mammalian brain increases during development.
Ekdahl Y, Farahani HS, Behm M, Lagergren J, Öhman M
Genome Res. 22 (8) 1477-1487 [2012-08-00; online 2012-05-31]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
A genome-wide association study identifies KNG1 as a genetic determinant of plasma factor XI Level and activated partial thromboplastin time.
Sabater-Lleal M, Martinez-Perez A, Buil A, ..., Hamsten A, Soria JM
Arterioscler. Thromb. Vasc. Biol. 32 (8) 2008-2016 [2012-08-00; online 2012-06-16]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Polyploidy and the evolution of complex traits.
Huminiecki L, Conant GC
Int J Evol Biol 2012 (-) 292068 [2012-07-30; online 2012-07-30]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Differential DNA methylation in purified human blood cells: implications for cell lineage and studies on disease susceptibility.
Reinius LE, Acevedo N, Joerink M, ..., Scheynius A, Kere J
PLoS ONE 7 (7) e41361 [2012-07-25; online 2012-07-25]
Bioinformatics and Expression Analysis (BEA)
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The presence of tumor associated macrophages in tumor stroma as a prognostic marker for breast cancer patients.
Medrek C, Pontén F, Jirström K, Leandersson K
BMC Cancer 12 (-) 306 [2012-07-23; online 2012-07-23]
Tissue Profiling
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Functional analysis of two PLA2G2A variants associated with secretory phospholipase A2-IIA levels.
Exeter HJ, Folkersen L, Palmen J, ..., Humphries SE, Talmud PJ
PLoS ONE 7 (7) e41139 [2012-07-17; online 2012-07-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Small molecule screening for inhibitors of the YopH phosphatase of Yersinia pseudotuberculosis.
Eriksson J, Grundström C, Sauer-Eriksson AE, ..., Wolf-Watz H, Elofsson M
Adv. Exp. Med. Biol. 954 (-) 357-363 [2012-07-12; online 2012-07-12]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Profiling cellular protein complexes by proximity ligation with dual tag microarray readout.
Hammond M, Nong RY, Ericsson O, Pardali K, Landegren U
PLoS ONE 7 (7) e40405 [2012-07-10; online 2012-07-10]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
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Automated selected reaction monitoring software for accurate label-free protein quantification.
Teleman J, Karlsson C, Waldemarson S, ..., Malmström J, Levander F
J. Proteome Res. 11 (7) 3766-3773 [2012-07-06; online 2012-06-05]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Ethanol effects on apparent solubility of poorly soluble drugs in simulated intestinal fluid.
Fagerberg JH, Al-Tikriti Y, Ragnarsson G, Bergström CAS
Mol. Pharm. 9 (7) 1942-1952 [2012-07-02; online 2012-06-02]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Polymorphisms and variants in the prion protein sequence of European moose (Alces alces), reindeer (Rangifer tarandus), roe deer (Capreolus capreolus) and fallow deer (Dama dama) in Scandinavia.
Wik L, Mikko S, Klingeborn M, ..., Simonsson M, Linné T
Prion 6 (3) 256-260 [2012-07-01; online 2012-03-24]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
The role of obesity-related genetic loci in insulin sensitivity.
Fall T, Arnlöv J, Berne C, Ingelsson E
Diabet. Med. 29 (7) e62-e66 [2012-07-00; online 2012-03-27]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Pain sensitivity and opioid analgesia: a pharmacogenomic twin study.
Angst MS, Phillips NG, Drover DR, ..., Lazzeroni LC, Clark JD
Pain 153 (7) 1397-1409 [2012-07-00; online 2012-03-27]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Next generation RNA-sequencing in prognostic subsets of chronic lymphocytic leukemia.
Mansouri L, Gunnarsson R, Sutton LA, ..., Gyllensten U, Rosenquist R
Am. J. Hematol. 87 (7) 737-740 [2012-07-00; online 2012-06-03]
Array and Analysis Facility NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Intercellular variation in signaling through the TGF-β pathway and its relation to cell density and cell cycle phase.
Zieba A, Pardali K, Söderberg O, ..., Heldin CH, Landegren U
Mol. Cell Proteomics 11 (7) M111.013482 [2012-07-00; online 2012-03-24]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
PubMed DOI Crossref
Ichthyin/NIPAL4 localizes to keratins and desmosomes in epidermis and Ichthyin mutations affect epidermal lipid metabolism.
Dahlqvist J, Westermark GT, Vahlquist A, Dahl N
Arch. Dermatol. Res. 304 (5) 377-386 [2012-07-00; online 2012-01-20]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Heterozygosity-fitness correlations in zebra finches: microsatellite markers can be better than their reputation.
Forstmeier W, Schielzeth H, Mueller JC, Ellegren H, Kempenaers B
Mol. Ecol. 21 (13) 3237-3249 [2012-07-00; online 2012-05-05]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Effects of redox modulation by inhibition of thioredoxin reductase on radiosensitivity and gene expression.
Selenius M, Hedman M, Brodin D, ..., Björnstedt M, Fernandes AP
J. Cell. Mol. Med. 16 (7) 1593-1605 [2012-07-00; online 2011-10-19]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Aversive and reinforcing opioid effects: a pharmacogenomic twin study.
Angst MS, Lazzeroni LC, Phillips NG, ..., Swan GE, Clark JD
Anesthesiology 117 (1) 22-37 [2012-07-00; online 2012-06-21]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Antibodies for profiling the human proteome-The Human Protein Atlas as a resource for cancer research.
Asplund A, Edqvist PH, Schwenk JM, Pontén F
Proteomics 12 (13) 2067-2077 [2012-07-00; online 2012-05-25]
Affinity Proteomics Stockholm [Technology development] Tissue Profiling
DOI Crossref
1012 Synergistic Effects of PI3K or P38 MAPK Inhibition in Combination With Vandetanib Treatment in Glioblastoma Cells
Sooman L, Ekman S, Andersson C, ..., Lennartsson J, Gullbo J
European Journal of Cancer 48 (-) S244 [2012-07-00; online 2012-07-00]
Array and Analysis Facility
PubMed DOI Crossref
Preferential genome targeting of the CBP co-activator by Rel and Smad proteins in early Drosophila melanogaster embryos.
Holmqvist P, Boija A, Philip P, ..., Stenberg P, Mannervik M
PLoS Genet. 8 (6) e1002769 [2012-06-21; online 2012-06-21]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Geographic differences in genetic susceptibility to IgA nephropathy: GWAS replication study and geospatial risk analysis.
Kiryluk K, Li Y, Sanna-Cherchi S, ..., Lifton RP, Gharavi AG
PLoS Genet. 8 (6) e1002765 [2012-06-21; online 2012-06-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Visualising individual sequence-specific protein-DNA interactions in situ.
Weibrecht I, Gavrilovic M, Lindbom L, ..., Wählby C, Söderberg O
N Biotechnol 29 (5) 589-598 [2012-06-15; online 2011-09-13]
Affinity Proteomics Uppsala [Collaborative] BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] PLA and Single Cell Proteomics
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Validation of affinity reagents using antigen microarrays.
Sjöberg R, Sundberg M, Gundberg A, ..., Uhlén M, Nilsson P
N Biotechnol 29 (5) 555-563 [2012-06-15; online 2011-12-03]
Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
Local contamination in relation to population genetic diversity and resilience of an arctic marine amphipod.
Bach L, Dahllöf I
Aquat. Toxicol. 114-115 (-) 58-66 [2012-06-15; online 2012-03-17]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Classification of protein profiles from antibody microarrays using heat and detergent treatment.
Häggmark A, Neiman M, Drobin K, ..., Nilsson P, Schwenk JM
N Biotechnol 29 (5) 564-570 [2012-06-15; online 2011-10-26]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Data-driven unbiased curation of the TP53 tumor suppressor gene mutation database and validation by ultradeep sequencing of human tumors.
Edlund K, Larsson O, Ameur A, ..., Botling J, Soussi T
Proc. Natl. Acad. Sci. U.S.A. 109 (24) 9551-9556 [2012-06-12; online 2012-05-24]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Integrative approach to pain genetics identifies pain sensitivity loci across diseases.
Ruau D, Dudley JT, Chen R, ..., Butte AJ, Angst MS
PLoS Comput. Biol. 8 (6) e1002538 [2012-06-07; online 2012-06-07]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Which sequencing depth is sufficient to describe patterns in bacterial α- and β-diversity?
Lundin D, Severin I, Logue JB, ..., Andersson AF, Lindström ES
Environ Microbiol Rep 4 (3) 367-372 [2012-06-00; online 2012-04-23]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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The Rose-comb mutation in chickens constitutes a structural rearrangement causing both altered comb morphology and defective sperm motility.
Imsland F, Feng C, Boije H, ..., Li N, Andersson L
PLoS Genet. 8 (6) e1002775 [2012-06-00; online 2012-06-28]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Selection-driven gene loss in bacteria.
Koskiniemi S, Sun S, Berg OG, Andersson DI
PLoS Genet. 8 (6) e1002787 [2012-06-00; online 2012-06-28]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Freshwater bacterioplankton richness in oligotrophic lakes depends on nutrient availability rather than on species-area relationships.
Logue JB, Langenheder S, Andersson AF, ..., Lanzén A, Lindström ES
ISME J 6 (6) 1127-1136 [2012-06-00; online 2011-12-16]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Digital gene expression profiling of primary acute lymphoblastic leukemia cells.
Nordlund J, Kiialainen A, Karlberg O, ..., Lönnerholm G, Syvänen AC
Leukemia 26 (6) 1218-1227 [2012-06-00; online 2011-12-16]
Array and Analysis Facility NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Common and low-frequency genetic variants in the PCSK9 locus influence circulating PCSK9 levels.
Chernogubova E, Strawbridge R, Mahdessian H, ..., Hamsten A, van 't Hooft FM
Arterioscler. Thromb. Vasc. Biol. 32 (6) 1526-1534 [2012-06-00; online 2012-03-31]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Association between genetic variants in the tumour necrosis factor/lymphotoxin α/lymphotoxin β locus and primary Sjogren's syndrome in Scandinavian samples.
Bolstad AI, Le Hellard S, Kristjansdottir G, ..., Nordmark G, Jonsson R
Ann. Rheum. Dis. 71 (6) 981-988 [2012-06-00; online 2012-02-02]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Accelerated proliferation and differential global gene expression in pancreatic islets of five-week-old heterozygous Men1 mice: Men1 is a haploinsufficient suppressor.
Lejonklou MH, Barbu A, Stålberg P, Skogseid B
Endocrinology 153 (6) 2588-2598 [2012-06-00; online 2012-04-12]
Array and Analysis Facility
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A novel variant in plakophilin-2 gene detected in a family with arrhythmogenic right ventricular cardiomyopathy.
Ostrowska Dahlgren B, Allen M, Lindström AC, Bjerke M, Blomström-Lundqvist C
J Interv Card Electrophysiol 34 (1) 11-18 [2012-06-00; online 2011-12-16]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
A non-peptide receptor inhibitor with selectivity for one of the neutrophil formyl peptide receptors, FPR 1
Çevik-Aras H, Kalderén C, Jenmalm Jensen A, ..., Dahlgren C, Forsman H
Biochemical Pharmacology 83 (12) 1655-1662 [2012-06-00; online 2012-06-00]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Production of tissue microarrays, immunohistochemistry staining and digitalization within the human protein atlas.
Kampf C, Olsson I, Ryberg U, Sjöstedt E, Pontén F
J Vis Exp - (63) - [2012-05-31; online 2012-05-31]
Tissue Profiling
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Evidence for a negative association between schizophrenia and a polymorphism in the insulin receptor substrate-3 (IRS-3) gene.
Melkersson K, Persson B
Neuro Endocrinol. Lett. 33 (3) 321-330 [2012-05-29; online 2012-05-29]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Classification of Inhibitors of Hepatic Organic Anion Transporting Polypeptides (OATPs): Influence of Protein Expression on Drug–Drug Interactions
Karlgren M, Vildhede A, Norinder U, ..., Haglund U, Artursson P
J. Med. Chem. 55 (10) 4740-4763 [2012-05-24; online 2012-05-15]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
The MAP2K5-linked SNP rs2241423 is associated with BMI and obesity in two cohorts of Swedish and Greek children.
Rask-Andersen M, Jacobsson JA, Moschonis G, ..., Fredriksson R, Schiöth HB
BMC Med. Genet. 13 (-) 36 [2012-05-17; online 2012-05-17]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Novel pancreatic beta cell-specific proteins: antibody-based proteomics for identification of new biomarker candidates.
Lindskog C, Korsgren O, Pontén F, ..., Johansson L, Danielsson A
J Proteomics 75 (9) 2611-2620 [2012-05-17; online 2012-04-03]
Tissue Profiling
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GABA-A channel subunit expression in human glioma correlates with tumor histology and clinical outcome.
Smits A, Jin Z, Elsir T, ..., Aronica E, Birnir B
PLoS ONE 7 (5) e37041 [2012-05-17; online 2012-05-17]
Tissue Profiling
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Association between a genetic variant in the serotonin transporter gene (SLC6A4) and suicidal behavior in patients with schizophrenia.
Lindholm Carlström E, Saetre P, Rosengren A, ..., Terenius L, Jönsson EG
Behav Brain Funct 8 (-) 24 [2012-05-17; online 2012-05-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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MAGI1 copy number variation in bipolar affective disorder and schizophrenia.
Karlsson R, Graae L, Lekman M, ..., Belin AC, Paddock S
Biol. Psychiatry 71 (10) 922-930 [2012-05-15; online 2012-03-03]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Derivatives of 8-hydroxyquinoline--antibacterial agents that target intra- and extracellular Gram-negative pathogens.
Enquist P, Gylfe A, Hägglund U, ..., Sundin C, Elofsson M
Bioorg. Med. Chem. Lett. 22 (10) 3550-3553 [2012-05-15; online 2012-04-25]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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A genome-wide approach accounting for body mass index identifies genetic variants influencing fasting glycemic traits and insulin resistance.
Manning AK, Hivert MF, Scott RA, ..., Meigs JB, Langenberg C
Nat. Genet. 44 (6) 659-669 [2012-05-13; online 2012-05-13]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women.
Fox CS, Liu Y, White CC, ..., Cupples LA, Borecki IB
PLoS Genet. 8 (5) e1002695 [2012-05-10; online 2012-05-10]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Prediction of ischemic events on the basis of transcriptomic and genomic profiling in patients undergoing carotid endarterectomy.
Folkersen L, Persson J, Ekstrand J, ..., Hedin U, Paulsson-Berne G
Mol. Med. 18 (-) 669-675 [2012-05-09; online 2012-03-01]
Bioinformatics and Expression Analysis (BEA) NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Multimodel pathway enrichment methods for functional evaluation of expression regulation.
Kirik U, Cifani P, Albrekt AS, ..., Heyden A, Levander F
J. Proteome Res. 11 (5) 2955-2967 [2012-05-04; online 2012-04-05]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Genetic adaptation of fatty-acid metabolism: a human-specific haplotype increasing the biosynthesis of long-chain omega-3 and omega-6 fatty acids.
Ameur A, Enroth S, Johansson A, ..., Campbell H, Gyllensten U
Am. J. Hum. Genet. 90 (5) 809-820 [2012-05-04; online 2012-04-12]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Differential evolutionary wiring of the tyrosine kinase Btk.
Nawaz HM, Kylsten P, Hamada N, ..., Smith CI, Lindvall JM
PLoS ONE 7 (5) e35640 [2012-05-04; online 2012-05-04]
Bioinformatics and Expression Analysis (BEA)
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A comprehensive analysis of human gene expression profiles identifies stromal immunoglobulin κ C as a compatible prognostic marker in human solid tumors.
Schmidt M, Hellwig B, Hammad S, ..., Rahnenführer J, Hengstler JG
Clin. Cancer Res. 18 (9) 2695-2703 [2012-05-01; online 2012-02-22]
Array and Analysis Facility
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Transgenerational effects of early experience on behavioral, hormonal and gene expression responses to acute stress in the precocial chicken.
Goerlich VC, Nätt D, Elfwing M, Macdonald B, Jensen P
Horm Behav 61 (5) 711-718 [2012-05-00; online 2012-04-03]
Array and Analysis Facility
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No interactions between previously associated 2-hour glucose gene variants and physical activity or BMI on 2-hour glucose levels.
Scott RA, Chu AY, Grarup N, ..., Wareham NJ, Langenberg C
Diabetes 61 (5) 1291-1296 [2012-05-00; online 2012-03-15]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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A novel mutation in lysophosphatidic acid receptor 6 gene in autosomal recessive hypotrichosis and evidence for a founder effect.
Azhar A, Tariq M, Baig SM, Dahl N, Klar J
Eur J Dermatol 22 (4) 464-466 [2012-04-26; online 2012-04-26]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Common SNPs explain some of the variation in the personality dimensions of neuroticism and extraversion.
Vinkhuyzen AA, Pedersen NL, Yang J, ..., Visscher PM, Wray NR
Transl Psychiatry 2 (-) e102 [2012-04-17; online 2012-04-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Synthesis, biological evaluation, and structure-activity relationships of 2-[2-(benzoylamino)benzoylamino]benzoic acid analogues as inhibitors of adenovirus replication.
Öberg CT, Strand M, Andersson EK, ..., Wadell G, Elofsson M
J. Med. Chem. 55 (7) 3170-3181 [2012-04-12; online 2012-03-01]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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DNA methylation analysis of bone marrow cells at diagnosis of acute lymphoblastic leukemia and at remission.
Nordlund J, Milani L, Lundmark A, Lönnerholm G, Syvänen AC
PLoS ONE 7 (4) e34513 [2012-04-06; online 2012-04-06]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Systematic validation of antibody binding and protein subcellular localization using siRNA and confocal microscopy.
Stadler C, Hjelmare M, Neumann B, ..., Uhlén M, Lundberg E
J Proteomics 75 (7) 2236-2251 [2012-04-03; online 2012-03-01]
Spatial Proteomics
PubMed DOI Crossref
Tumor-mast cell interactions: induction of pro-tumorigenic genes and anti-tumorigenic 4-1BB in MCs in response to Lewis Lung Carcinoma.
Wensman H, Kamgari N, Johansson A, ..., Rönnberg E, Pejler G
Mol. Immunol. 50 (4) 210-219 [2012-04-00; online 2012-02-22]
Array and Analysis Facility
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The plastid redox insensitive 2 mutant of Arabidopsis is impaired in PEP activity and high light-dependent plastid redox signalling to the nucleus.
Kindgren P, Kremnev D, Blanco NE, ..., Small I, Strand A
Plant J. 70 (2) 279-291 [2012-04-00; online 2012-01-04]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Proteinase production in Pseudomonas fluorescens ON2 is affected by carbon sources and allows surface-attached but not planktonic cells to utilize protein for growth in lake water.
Nicolaisen MH, Worm J, Jørgensen NOG, Middelboe M, Nybroe O
FEMS Microbiol. Ecol. 80 (1) 168-178 [2012-04-00; online 2012-01-10]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Prevalence of Rickettsia spp., Anaplasma phagocytophilum, and Coxiella burnetii in adult Ixodes ricinus ticks from 29 study areas in central and southern Sweden.
Wallménius K, Pettersson JH, Jaenson TGT, Nilsson K
Ticks Tick Borne Dis 3 (2) 100-106 [2012-04-00; online 2012-01-09]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Mutational analysis of human glutathione transferase A2-2 identifies structural elements supporting high activity with the prodrug azathioprine.
Modén O, Zhang W, Mannervik B
Protein Eng. Des. Sel. 25 (4) 189-197 [2012-04-00; online 2012-02-16]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Mantle cell lymphoma displays a homogenous methylation profile: a comparative analysis with chronic lymphocytic leukemia.
Halldórsdóttir AM, Kanduri M, Marincevic M, ..., Ehrencrona H, Rosenquist R
Am. J. Hematol. 87 (4) 361-367 [2012-04-00; online 2012-03-01]
Array and Analysis Facility NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Manipulating the genetic code for membrane protein production: what have we learnt so far?
Nørholm MH, Light S, Virkki MT, ..., von Heijne G, Daley DO
Biochim. Biophys. Acta 1818 (4) 1091-1096 [2012-04-00; online 2011-09-03]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Can weed hosts increase aggressiveness of Phytophthora infestans on potato?
Grönberg L, Andersson B, Yuen J
Phytopathology 102 (4) 429-433 [2012-04-00; online 2011-12-22]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
The interleukin-6 receptor as a target for prevention of coronary heart disease: a mendelian randomisation analysis.
Interleukin-6 Receptor Mendelian Randomisation Analysis (IL6R MR) Consortium , Swerdlow DI, Holmes MV, ..., Hingorani AD, Casas JP
Lancet 379 (9822) 1214-1224 [2012-03-31; online 2012-03-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Interleukin-6 receptor pathways in coronary heart disease: a collaborative meta-analysis of 82 studies.
IL6R Genetics Consortium Emerging Risk Factors Collaboration , Sarwar N, Butterworth AS, ..., Harari O, Danesh J
Lancet 379 (9822) 1205-1213 [2012-03-31; online 2012-03-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Novel loci for adiponectin levels and their influence on type 2 diabetes and metabolic traits: a multi-ethnic meta-analysis of 45,891 individuals.
Dastani Z, Hivert MF, Timpson N, ..., Rader DJ, Kathiresan S
PLoS Genet. 8 (3) e1002607 [2012-03-29; online 2012-03-29]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Genome-wide association and functional follow-up reveals new loci for kidney function.
Pattaro C, Köttgen A, Teumer A, ..., Kao WH, Fox CS
PLoS Genet. 8 (3) e1002584 [2012-03-29; online 2012-03-29]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Toward the single-hour high-quality genome.
Ståhl PL, Lundeberg J
Annu. Rev. Biochem. 81 (-) 359-378 [2012-03-20; online 2012-03-20]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The transcriptome of the adenovirus infected cell.
Zhao H, Dahlö M, Isaksson A, Syvänen AC, Pettersson U
Virology 424 (2) 115-128 [2012-03-15; online 2012-01-13]
Array and Analysis Facility NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Neurobeachin, a regulator of synaptic protein targeting, is associated with body fat mass and feeding behavior in mice and body-mass index in humans.
Olszewski PK, Rozman J, Jacobsson JA, ..., Schiöth HB, Kilimann MW
PLoS Genet. 8 (3) e1002568 [2012-03-15; online 2012-03-15]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Inflammation-associated nitrotyrosination affects TCR recognition through reduced stability and alteration of the molecular surface of the MHC complex.
Madhurantakam C, Duru AD, Sandalova T, Webb JR, Achour A
PLoS ONE 7 (3) e32805 [2012-03-14; online 2012-03-14]
Protein Science Facility (PSF)
PubMed DOI Crossref
Antibiotic-induced change of bacterial communities associated with the copepod Nitocra spinipes.
Edlund A, Ek K, Breitholtz M, Gorokhova E
PLoS ONE 7 (3) e33107 [2012-03-12; online 2012-03-12]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Infantile cerebellar-retinal degeneration associated with a mutation in mitochondrial aconitase, ACO2.
Spiegel R, Pines O, Ta-Shma A, ..., Feuk L, Elpeleg O
Am. J. Hum. Genet. 90 (3) 518-523 [2012-03-09; online 2012-03-13]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Scalable in situ hybridization on tissue arrays for validation of novel cancer and tissue-specific biomarkers.
Kiflemariam S, Andersson S, Asplund A, Pontén F, Sjöblom T
PLoS ONE 7 (3) e32927 [2012-03-08; online 2012-03-08]
Tissue Profiling
DOI Crossref
Ecosystem effects of materials proposed for thin‑layer capping of contaminated sediments
Näslund J, Samuelsson G, Gunnarsson J, ..., Cornelissen G, Schaanning M
Mar. Ecol. Prog. Ser. 449 (-) 27-40 [2012-03-08; online 2012-03-08]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Variation in the oxytocin receptor gene is associated with pair-bonding and social behavior.
Walum H, Lichtenstein P, Neiderhiser JM, ..., Larsson H, Westberg L
Biol. Psychiatry 71 (5) 419-426 [2012-03-01; online 2011-10-22]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Can silencing of transposons contribute to variation in effector gene expression in Phytophthora infestans?
Whisson S, Vetukuri R, Avrova A, Dixelius C
Mob Genet Elements 2 (2) 110-114 [2012-03-01; online 2012-08-31]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Systematic analysis of protein pools, isoforms, and modifications affecting turnover and subcellular localization.
Ahmad Y, Boisvert FM, Lundberg E, Uhlen M, Lamond AI
Mol. Cell Proteomics 11 (3) M111.013680 [2012-03-00; online 2011-10-18]
Spatial Proteomics
PubMed DOI Crossref
Signaling pathways involved in the regulation of TNFα-induced toll-like receptor 2 expression in human gingival fibroblasts.
Davanian H, Båge T, Lindberg J, ..., Sällberg Chen M, Yucel-Lindberg T
Cytokine 57 (3) 406-416 [2012-03-00; online 2012-01-10]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Phenotypic variation within a clonal lineage of Phytophthora infestans infecting both tomato and potato in Nicaragua.
Blandón-Díaz JU, Widmark A, Hannukkala A, ..., Högberg N, Yuen JE
Phytopathology 102 (3) 323-330 [2012-03-00; online 2011-11-17]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Oral contraceptive and progestin-only use correlates to tissue tumor marker expression in women with cervical intraepithelial neoplasia.
Samir R, Asplund A, Tot T, Pekar G, Hellberg D
Contraception 85 (3) 288-293 [2012-03-00; online 2011-11-10]
Tissue Profiling
PubMed DOI Crossref
Novel amplifications in pediatric medulloblastoma identified by genome-wide copy number profiling.
Nord H, Pfeifer S, Nilsson P, ..., Nistér M, Díaz de Ståhl T
J. Neurooncol. 107 (1) 37-49 [2012-03-00; online 2011-10-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Microarray profiling of diaphyseal bone of rats suffering from hypervitaminosis A.
Lind T, Hu L, Lind PM, ..., Jacobson A, Melhus H
Calcif. Tissue Int. 90 (3) 219-229 [2012-03-00; online 2012-01-05]
Array and Analysis Facility
PubMed DOI Crossref
Identification of autophagosome-associated proteins and regulators by quantitative proteomic analysis and genetic screens.
Dengjel J, Høyer-Hansen M, Nielsen MO, ..., Jäättelä M, Andersen JS
Mol. Cell Proteomics 11 (3) M111.014035 [2012-03-00; online 2012-02-06]
Spatial Proteomics
PubMed DOI Crossref
Genome-wide and gene-based association implicates FRMD6 in alzheimer disease
Hong MG, Reynolds CA, Feldman AL, ..., Pedersen NL, Prince JA
Human Mutation 33 (3) 521-529 [2012-03-00; online 2012-01-23]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genome wide analysis reveals association of a FTO gene variant with epigenetic changes.
Almén MS, Jacobsson JA, Moschonis G, ..., Fredriksson R, Schiöth HB
Genomics 99 (3) 132-137 [2012-03-00; online 2012-01-12]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Characterization of MRFAP1 turnover and interactions downstream of the NEDD8 pathway.
Larance M, Kirkwood KJ, Xirodimas DP, ..., Uhlen M, Lamond AI
Mol. Cell Proteomics 11 (3) M111.014407 [2012-03-00; online 2011-10-29]
Spatial Proteomics
PubMed DOI Crossref
Antibody-based protein profiling of the human chromosome 21.
Uhlén M, Oksvold P, Älgenäs C, ..., Kondo T, Sivertsson Å
Mol. Cell Proteomics 11 (3) M111.013458 [2012-03-00; online 2011-11-02]
Spatial Proteomics Tissue Profiling
PubMed DOI Crossref
A Protein Epitope Signature Tag (PrEST) library allows SILAC-based absolute quantification and multiplexed determination of protein copy numbers in cell lines.
Zeiler M, Straube WL, Lundberg E, Uhlen M, Mann M
Mol. Cell Proteomics 11 (3) O111.009613 [2012-03-00; online 2011-10-04]
Spatial Proteomics
PubMed DOI Crossref
A dimerized single-chain variable fragment system for the assessment of neutralizing activity of phage display-selected antibody fragments specific for cytomegalovirus.
Carlsson F, Trilling M, Perez F, Ohlin M
J. Immunol. Methods 376 (1-2) 69-78 [2012-02-28; online 2011-12-14]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Combined chromatin and expression analysis reveals specific regulatory mechanisms within cytokine genes in the macrophage early immune response.
Iglesias MJ, Jesus Iglesias M, Reilly SJ, ..., Hamsten A, Odeberg J
PLoS ONE 7 (2) e32306 [2012-02-27; online 2012-02-27]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Coexpression network analysis in abdominal and gluteal adipose tissue reveals regulatory genetic loci for metabolic syndrome and related phenotypes.
Min JL, Nicholson G, Halgrimsdottir I, ..., Lindgren CM, Zondervan KT
PLoS Genet. 8 (2) e1002505 [2012-02-23; online 2012-02-23]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Tetrahydrodipicolinate N-succinyltransferase and dihydrodipicolinate synthase from Pseudomonas aeruginosa: structure analysis and gene deletion.
Schnell R, Oehlmann W, Sandalova T, ..., Singh M, Schneider G
PLoS ONE 7 (2) e31133 [2012-02-16; online 2012-02-16]
Protein Science Facility (PSF)
PubMed DOI Crossref
Genome-wide association study identifies novel loci associated with circulating phospho- and sphingolipid concentrations.
Demirkan A, van Duijn CM, Ugocsai P, ..., Schmitz G, EUROSPAN consortium
PLoS Genet. 8 (2) e1002490 [2012-02-16; online 2012-02-16]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Syntheses of pseudoceramines A-D and a new synthesis of spermatinamine, bromotyrosine natural products from marine sponges.
Hillgren JM, Oberg CT, Elofsson M
Org. Biomol. Chem. 10 (6) 1246-1254 [2012-02-14; online 2011-12-20]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
High-resolution structure of a BRICHOS domain and its implications for anti-amyloid chaperone activity on lung surfactant protein C.
Willander H, Askarieh G, Landreh M, ..., Knight SD, Johansson J
Proc. Natl. Acad. Sci. U.S.A. 109 (7) 2325-2329 [2012-02-14; online 2012-02-07]
Protein Science Facility (PSF)
PubMed DOI Crossref
Age-related somatic structural changes in the nuclear genome of human blood cells.
Forsberg LA, Rasi C, Razzaghian HR, ..., Absher D, Dumanski JP
Am. J. Hum. Genet. 90 (2) 217-228 [2012-02-10; online 2012-02-07]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genetic and environmental contributions to weight, height, and BMI from birth to 19 years of age: an international study of over 12,000 twin pairs.
Dubois L, Ohm Kyvik K, Girard M, ..., Lichtenstein P, Martin NG
PLoS ONE 7 (2) e30153 [2012-02-08; online 2012-02-08]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Heritable genome-wide variation of gene expression and promoter methylation between wild and domesticated chickens.
Nätt D, Rubin CJ, Wright D, ..., Andersson L, Jensen P
BMC Genomics 13 (-) 59 [2012-02-04; online 2012-02-04]
Array and Analysis Facility
PubMed DOI Crossref
Characterization of the lipid droplet proteome of a clonal insulin-producing β-cell line (INS-1 832/13).
Larsson S, Resjö S, Gomez MF, James P, Holm C
J. Proteome Res. 11 (2) 1264-1273 [2012-02-03; online 2012-01-25]
Bioinformatics (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
PubMed DOI Crossref
Sequential closure of the cytoplasm and then the periplasm during cell division in Escherichia coli.
Skoog K, Söderström B, Widengren J, von Heijne G, Daley DO
J. Bacteriol. 194 (3) 584-586 [2012-02-00; online 2011-11-22]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Low diversity of the gut microbiota in infants with atopic eczema.
Abrahamsson TR, Jakobsson HE, Andersson AF, ..., Engstrand L, Jenmalm MC
J. Allergy Clin. Immunol. 129 (2) 434-40, 440.e1-2 [2012-02-00; online 2011-12-14]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
In vitro and in silico strategies to identify OATP1B1 inhibitors and predict clinical drug-drug interactions.
Karlgren M, Ahlin G, Bergström CA, ..., Palm J, Artursson P
Pharm. Res. 29 (2) 411-426 [2012-02-00; online 2011-08-23]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
PubMed DOI Crossref
Can balancing selection on MHC loci counteract genetic drift in small fragmented populations of black grouse?
Strand TM, Segelbacher G, Quintela M, ..., Axelsson T, Höglund J
Ecol Evol 2 (2) 341-353 [2012-02-00; online 2012-03-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
BCL2L1 has a functional role in colorectal cancer and its protein expression is associated with chromosome 20q gain.
Sillars-Hardebol AH, Carvalho B, Beliën JA, ..., Fijneman RJ, Meijer GA
J. Pathol. 226 (3) 442-450 [2012-02-00; online 2011-10-20]
Tissue Profiling
PubMed DOI Crossref
Association of TMEM18 variants with BMI and waist circumference in children and correlation of mRNA expression in the PFC with body weight in rats.
Rask-Andersen M, Jacobsson JA, Moschonis G, ..., Fredriksson R, Schiöth HB
Eur. J. Hum. Genet. 20 (2) 192-197 [2012-02-00; online 2011-09-29]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Mutations in CTC1, encoding conserved telomere maintenance component 1, cause Coats plus.
Anderson BH, Kasher PR, Mayer J, ..., Rice GI, Crow YJ
Nat. Genet. 44 (3) 338-342 [2012-01-22; online 2012-01-22]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Meta-analyses identify 13 loci associated with age at menopause and highlight DNA repair and immune pathways.
Stolk L, Perry JR, Chasman DI, ..., Visser JA, Lunetta KL
Nat. Genet. 44 (3) 260-268 [2012-01-22; online 2012-01-22]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Non-bullous congentital ichthyosiform erythroderma associated with homozygosity for a novel missense mutation in an ATP binding domain of ABCA12.
Nawaz S, Tariq M, Ahmad I, ..., Dahl N, Klar J
Eur J Dermatol 22 (2) 178-181 [2012-01-20; online 2012-01-20]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
A strand specific high resolution normalization method for chip-sequencing data employing multiple experimental control measurements.
Enroth S, Andersson CR, Andersson R, ..., Gustafsson MG, Komorowski J
Algorithms Mol Biol 7 (1) 2 [2012-01-16; online 2012-01-16]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Long-range DNA looping and gene expression analyses identify DEXI as an autoimmune disease candidate gene.
Davison LJ, Wallace C, Cooper JD, ..., Syvannen AC, Tennstedt S
Hum. Mol. Genet. 21 (2) 322-333 [2012-01-15; online 2011-10-13]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Deregulation of the A-to-I RNA editing mechanism in psychiatric disorders.
Silberberg G, Lundin D, Navon R, Öhman M
Hum. Mol. Genet. 21 (2) 311-321 [2012-01-15; online 2011-10-11]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Contribution of TMC6 and TMC8 (EVER1 and EVER2) variants to cervical cancer susceptibility.
Castro FA, Ivansson EL, Schmitt M, ..., Gyllensten UB, Pawlita M
Int. J. Cancer 130 (2) 349-355 [2012-01-15; online 2011-03-10]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Structural genetic variation in the context of somatic mosaicism.
Dumanski JP, Piotrowski A
Methods Mol. Biol. 838 (-) 249-272 [2012-01-10; online 2012-01-10]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Differential expression patterns of conserved miRNAs and isomiRs during Atlantic halibut development.
Bizuayehu TT, Lanes CFC, Furmanek T, ..., Johansen SD, Babiak I
BMC Genomics 13 (-) 11 [2012-01-10; online 2012-01-10]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Combinations of histone modifications mark exon inclusion levels.
Enroth S, Bornelöv S, Wadelius C, Komorowski J
PLoS ONE 7 (1) e29911 [2012-01-05; online 2012-01-05]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
A genome-wide association search for type 2 diabetes genes in African Americans.
Palmer ND, McDonough CW, Hicks PJ, ..., Mooser V, Sladek R
PLoS ONE 7 (1) e29202 [2012-01-04; online 2012-01-04]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
siRNA silencing of proteasome maturation protein (POMP) activates the unfolded protein response and constitutes a model for KLICK genodermatosis.
Dahlqvist J, Törmä H, Badhai J, Dahl N
PLoS ONE 7 (1) e29471 [2012-01-03; online 2012-01-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Lymphoblastoid cell line with B1 cell characteristics established from a chronic lymphocytic leukemia clone by in vitro EBV infection.
Rosén A, Bergh AC, Gogok P, ..., Rosenquist R, Klein E
Oncoimmunology 1 (1) 18-27 [2012-01-01; online 2012-06-22]
Array and Analysis Facility
PubMed DOI Crossref
Sequencing of high-complexity DNA pools for identification of nucleotide and structural variants in regions associated with complex traits.
Zaboli G, Ameur A, Igl W, ..., Gyllensten U, EUROSPAN Consortium
Eur. J. Hum. Genet. 20 (1) 77-83 [2012-01-00; online 2011-08-03]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
QTL linkage mapping of zebra finch beak color shows an oligogenic control of a sexually selected trait.
Schielzeth H, Kempenaers B, Ellegren H, Forstmeier W
Evolution 66 (1) 18-30 [2012-01-00; online 2011-09-20]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
QTL linkage mapping of wing length in zebra finch using genome-wide single nucleotide polymorphisms markers.
Schielzeth H, Forstmeier W, Kempenaers B, Ellegren H
Mol. Ecol. 21 (2) 329-339 [2012-01-00; online 2011-11-25]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Kynurenine 3-monooxygenase polymorphisms: relevance for kynurenic acid synthesis in patients with schizophrenia and healthy controls.
Holtze M, Saetre P, Engberg G, ..., Schalling M, Erhardt S
J Psychiatry Neurosci 37 (1) 53-57 [2012-01-00; online 2011-06-23]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
High-throughput single-cell sequencing identifies photoheterotrophs and chemoautotrophs in freshwater bacterioplankton.
Martinez-Garcia M, Swan BK, Poulton NJ, ..., Sieracki ME, Stepanauskas R
ISME J 6 (1) 113-123 [2012-01-00; online 2011-07-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Genetic variants near the MGAT1 gene are associated with body weight, BMI and fatty acid metabolism among adults and children.
Jacobsson JA, Rask-Andersen M, Risérus U, ..., Schiöth HB, Fredriksson R
Int J Obes (Lond) 36 (1) 119-129 [2012-01-00; online 2011-02-10]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
DOI Crossref
Biosensor Based Protein Profiling on Reverse Phase Serum Microarray
Sjöberg R, Hammarström L, Nilsson P
JPB 05 (08) - [2012-00-00; online 2012-00-00]
Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
A Complex Genomic Rearrangement Involving the Endothelin 3 Locus Causes Dermal Hyperpigmentation in the Chicken
Dorshorst B, Molin AM, Rubin CJ, ..., Ashwell C, Andersson L
PLoS Genet. 7 (12) e1002412 [2011-12-22; online 2011-12-22]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Mechanisms underlying the sparing of masticatory versus limb muscle function in an experimental critical illness model.
Aare S, Ochala J, Norman HS, ..., Hoffman EP, Larsson L
Physiol. Genomics 43 (24) 1334-1350 [2011-12-16; online 2011-10-20]
Array and Analysis Facility
PubMed DOI Crossref
Polymorphisms in B3GAT1, SLC9A9 and MGAT5 are associated with variation within the human plasma N-glycome of 3533 European adults.
Huffman JE, Knezevic A, Vitart V, ..., Wright AF, Lauc G
Hum. Mol. Genet. 20 (24) 5000-5011 [2011-12-15; online 2011-09-13]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Identification of immunogenic proteins in Treponema phagedenis-like strain V1 from digital dermatitis lesions by phage display.
Rosander A, Guss B, Frykberg L, ..., Näslund K, Pringle M
Vet. Microbiol. 153 (3-4) 315-322 [2011-12-15; online 2011-07-19]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed
Association between body mass index and insulin receptor substrate-4 (IRS-4) gene polymorphisms in patients with schizophrenia.
Melkersson K, Persson B
Neuro Endocrinol. Lett. 32 (5) 634-640 [2011-12-15; online 2011-12-15]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
The inner nuclear membrane proteins Man1 and Ima1 link to two different types of chromatin at the nuclear periphery in S. pombe.
Steglich B, Filion GJ, van Steensel B, Ekwall K
Nucleus 3 (1) 77-87 [2011-12-14; online 2011-12-14]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Muscle wasting and the temporal gene expression pattern in a novel rat intensive care unit model.
Llano-Diez M, Gustafson AM, Olsson C, Goransson H, Larsson L
BMC Genomics 12 (-) 602 [2011-12-13; online 2011-12-13]
Array and Analysis Facility
PubMed DOI Crossref
Blood pressure loci identified with a gene-centric array.
Johnson T, Gaunt TR, Newhouse SJ, ..., Caulfield MJ, Munroe PB
Am. J. Hum. Genet. 89 (6) 688-700 [2011-12-09; online 2011-11-22]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Common variants of the BRCA1 wild-type allele modify the risk of breast cancer in BRCA1 mutation carriers.
Cox DG, Simard J, Sinnett D, ..., Sinilnikova OM, Consortium of Investigators of Modifiers of BRCA1/2
Hum. Mol. Genet. 20 (23) 4732-4747 [2011-12-01; online 2011-09-06]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Salt-inducible kinase 1 influences Na(+),K(+)-ATPase activity in vascular smooth muscle cells and associates with variations in blood pressure.
Popov S, Silveira A, Wågsäter D, ..., Melander O, Bertorello AM
J. Hypertens. 29 (12) 2395-2403 [2011-12-00; online 2011-11-03]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Pathway-based analysis of genetic susceptibility to cervical cancer in situ: HLA-DPB1 affects risk in Swedish women.
Ivansson EL, Juko-Pecirep I, Erlich HA, Gyllensten UB
Genes Immun. 12 (8) 605-614 [2011-12-00; online 2011-07-01]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
High nuclear RBM3 expression is associated with an improved prognosis in colorectal cancer.
Hjelm B, Brennan DJ, Zendehrokh N, ..., Jirström K, Uhlen M
Proteomics Clin Appl 5 (11-12) 624-635 [2011-12-00; online 2011-10-01]
Tissue Profiling
PubMed DOI Crossref
Targeting acetylcholinesterase: identification of chemical leads by high throughput screening, structure determination and molecular modeling.
Berg L, Andersson CD, Artursson E, ..., Linusson A, Ekström F
PLoS ONE 6 (11) e26039 [2011-11-30; online 2011-11-30]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Next-generation sequencing technologies and applications for human genetic history and forensics.
Berglund EC, Kiialainen A, Syvänen AC
Investig Genet 2 (-) 23 [2011-11-24; online 2011-11-24]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Counting absolute numbers of molecules using unique molecular identifiers.
Kivioja T, Vähärautio A, Karlsson K, ..., Linnarsson S, Taipale J
Nat. Methods 9 (1) 72-74 [2011-11-20; online 2011-11-20]
Karolinska High Throughput Center (KHTC)
PubMed DOI Crossref
Variance decomposition of protein profiles from antibody arrays using a longitudinal twin model.
Kato BS, Nicholson G, Neiman M, ..., Spector TD, Schwenk JM
Proteome Sci 9 (-) 73 [2011-11-17; online 2011-11-17]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Prognostic DNA methylation patterns in cytogenetically normal acute myeloid leukemia are predefined by stem cell chromatin marks.
Deneberg S, Guardiola P, Lennartsson A, ..., Döhner K, Lehmann S
Blood 118 (20) 5573-5582 [2011-11-17; online 2011-10-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Genome sequencing reveals a phage in Helicobacter pylori.
Lehours P, Vale FF, Bjursell MK, ..., Engstrand L, Andersson AF
MBio 2 (6) - [2011-11-15; online 2011-11-15]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Abdominal aortic aneurysm is associated with a variant in low-density lipoprotein receptor-related protein 1.
Bown MJ, Jones GT, Harrison SC, ..., Deloukas P, Samani NJ
Am. J. Hum. Genet. 89 (5) 619-627 [2011-11-11; online 2011-11-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Total RNA sequencing reveals nascent transcription and widespread co-transcriptional splicing in the human brain.
Ameur A, Zaghlool A, Halvardson J, ..., Cavelier L, Feuk L
Nat. Struct. Mol. Biol. 18 (12) 1435-1440 [2011-11-06; online 2011-11-06]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Inhibition of proteasome deubiquitinating activity as a new cancer therapy.
D'Arcy P, Brnjic S, Olofsson MH, ..., Larsson R, Linder S
Nat. Med. 17 (12) 1636-1640 [2011-11-06; online 2011-11-06]
Array and Analysis Facility
PubMed DOI Crossref
Plasma profiling reveals human fibulin-1 as candidate marker for renal impairment.
Neiman M, Hedberg JJ, Dönnes PR, ..., Schwenk JM, Nilsson P
J. Proteome Res. 10 (11) 4925-4934 [2011-11-04; online 2011-09-29]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
SWI/SNF regulates the alternative processing of a specific subset of pre-mRNAs in Drosophila melanogaster.
Waldholm J, Wang Z, Brodin D, ..., Farrants AK, Visa N
BMC Mol. Biol. 12 (-) 46 [2011-11-02; online 2011-11-02]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Hypothalamic mitochondrial dysfunction associated with anorexia in the anx/anx mouse.
Lindfors C, Nilsson IA, Garcia-Roves PM, ..., Schalling M, Johansen JE
Proc. Natl. Acad. Sci. U.S.A. 108 (44) 18108-18113 [2011-11-01; online 2011-10-26]
Fluorescence Tissue Profiling
PubMed DOI Crossref
Abundant class of non-coding RNA regulates development in the social amoeba Dictyostelium discoideum.
Avesson L, Schumacher HT, Fechter P, ..., Hellman U, Söderbom F
RNA Biol 8 (6) 1094-1104 [2011-11-01; online 2011-09-24]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Western blotting via proximity ligation for high performance protein analysis.
Liu Y, Gu J, Hagner-McWhirter Å, ..., Ivansson D, Landegren U
Mol. Cell Proteomics 10 (11) O111.011031 [2011-11-00; online 2011-08-02]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
PubMed DOI Crossref
The Human Protein Atlas as a proteomic resource for biomarker discovery.
Pontén F, Schwenk JM, Asplund A, Edqvist PH
J. Intern. Med. 270 (5) 428-446 [2011-11-00; online 2011-08-03]
Affinity Proteomics Stockholm [Technology development] Tissue Profiling
PubMed DOI Crossref
Targeted enrichment of genomic DNA regions for next-generation sequencing.
Mertes F, Elsharawy A, Sauer S, ..., Lehrach H, Brookes AJ
Brief Funct Genomics 10 (6) 374-386 [2011-11-00; online 2011-11-26]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Generation of monospecific antibodies based on affinity capture of polyclonal antibodies.
Hjelm B, Forsström B, Igel U, ..., Johansson C, Uhlén M
Protein Sci. 20 (11) 1824-1835 [2011-11-00; online 2011-09-08]
Affinity Proteomics Stockholm [Technology development] Autoimmunity and Serology Profiling [Technology development] Spatial Proteomics
PubMed DOI Crossref
Gene copy number aberrations are associated with survival in histologic subgroups of non-small cell lung cancer.
Micke P, Edlund K, Holmberg L, ..., Isaksson A, Botling J
J Thorac Oncol 6 (11) 1833-1840 [2011-11-00; online 2011-10-21]
Array and Analysis Facility
PubMed DOI Crossref
Increasing the dynamic range of in situ PLA.
Clausson C, Allalou A, Weibrecht I, ..., Wählby C, Söderberg O
Nat. Methods 8 (11) 892-893 [2011-10-28; online 2011-10-28]
Affinity Proteomics Uppsala [Collaborative] BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] PLA and Single Cell Proteomics
PubMed DOI Crossref
Allele-specific copy number analysis of tumor samples with aneuploidy and tumor heterogeneity.
Rasmussen M, Sundström M, Göransson Kultima H, ..., Glimelius B, Isaksson A
Genome Biol. 12 (10) R108 [2011-10-24; online 2011-10-24]
Array and Analysis Facility
PubMed DOI Crossref
Genome-wide association study identifies loci influencing concentrations of liver enzymes in plasma.
Chambers JC, Zhang W, Sehmi J, ..., Elliott P, Kooner JS
Nat. Genet. 43 (11) 1131-1138 [2011-10-16; online 2011-10-16]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
MED12, the mediator complex subunit 12 gene, is mutated at high frequency in uterine leiomyomas.
Mäkinen N, Mehine M, Tolvanen J, ..., Vahteristo P, Aaltonen LA
Science 334 (6053) 252-255 [2011-10-14; online 2011-08-27]
Karolinska High Throughput Center (KHTC)
PubMed DOI Crossref
Deep resequencing of GWAS loci identifies independent rare variants associated with inflammatory bowel disease.
Rivas MA, Beaudoin M, Gardet A, ..., Xavier RJ, Daly MJ
Nat. Genet. 43 (11) 1066-1073 [2011-10-09; online 2011-10-09]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Pseudoceramines A-D, new antibacterial bromotyrosine alkaloids from the marine sponge Pseudoceratina sp.
Yin S, Davis RA, Shelper T, ..., Sundin C, Quinn RJ
Org. Biomol. Chem. 9 (19) 6755-6760 [2011-10-07; online 2011-08-19]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Adenosine kinase deficiency disrupts the methionine cycle and causes hypermethioninemia, encephalopathy, and abnormal liver function.
Bjursell MK, Blom HJ, Cayuela JA, ..., Lundeberg J, Wedell A
Am. J. Hum. Genet. 89 (4) 507-515 [2011-10-07; online 2011-10-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
DOI Crossref
Tracking Phytophthora infestans with SSR markers within and between seasons - a field study in Sweden
Widmark AK, Andersson B, Sandström M, Yuen JE
Plant Pathol 60 (5) 938-945 [2011-10-00; online 2011-03-16]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
No evidence for an association between genetic variation at the SERPINI1 locus and ischemic stroke.
Tjärnlund-Wolf A, Olsson S, Jood K, Blomstrand C, Jern C
J. Neurol. 258 (10) 1885-1887 [2011-10-00; online 2011-04-14]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Histone modifications influence mediator interactions with chromatin.
Zhu X, Zhang Y, Bjornsdottir G, ..., Gustafsson CM, Myers LC
Nucleic Acids Res. 39 (19) 8342-8354 [2011-10-00; online 2011-07-12]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
High-risk HPV infection and CIN grade correlates to the expression of c-myc, CD4+, FHIT, E-cadherin, Ki-67, and p16INK4a.
Samir R, Asplund A, Tot T, Pekar G, Hellberg D
J Low Genit Tract Dis 15 (4) 280-286 [2011-10-00; online 2011-05-12]
Tissue Profiling
PubMed DOI Crossref
Genome-wide association identifies nine common variants associated with fasting proinsulin levels and provides new insights into the pathophysiology of type 2 diabetes.
Strawbridge RJ, Dupuis J, Prokopenko I, ..., Hamsten A, Florez JC
Diabetes 60 (10) 2624-2634 [2011-10-00; online 2011-08-30]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genetic variation in complement component C3 shows association with ischaemic stroke.
Olsson S, Stokowska A, Holmegaard L, ..., Pekna M, Jern C
Eur. J. Neurol. 18 (10) 1272-1274 [2011-10-00; online 2011-03-19]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Evidence for involvement of Dicer-like, Argonaute and histone deacetylase proteins in gene silencing in Phytophthora infestans.
Vetukuri RR, Avrova AO, Grenville-Briggs LJ, ..., Whisson SC, Dixelius C
Mol. Plant Pathol. 12 (8) 772-785 [2011-10-00; online 2011-07-06]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Early transcriptional regulation by C-peptide in freshly isolated rat proximal tubular cells.
Lindahl E, Nordquist L, Müller P, ..., Palm F, Jörnvall H
Diabetes Metab. Res. Rev. 27 (7) 697-704 [2011-10-00; online 2011-05-28]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
The Lin28/let-7 axis regulates glucose metabolism.
Zhu H, Shyh-Chang N, Segrè AV, ..., Altshuler D, Daley GQ
Cell 147 (1) 81-94 [2011-09-30; online 2011-10-04]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
ProteinSeq: high-performance proteomic analyses by proximity ligation and next generation sequencing.
Darmanis S, Nong RY, Vänelid J, ..., Kamali-Moghaddam M, Landegren U
PLoS ONE 6 (9) e25583 [2011-09-29; online 2011-09-29]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
PubMed DOI Crossref
High RBM3 expression in prostate cancer independently predicts a reduced risk of biochemical recurrence and disease progression.
Jonsson L, Gaber A, Ulmert D, ..., Bjartell A, Jirström K
Diagn Pathol 6 (-) 91 [2011-09-28; online 2011-09-28]
Tissue Profiling
PubMed DOI Crossref
Genome-wide association study identifies six new loci influencing pulse pressure and mean arterial pressure.
Wain LV, Verwoert GC, O'Reilly PF, ..., Elliott P, van Duijn CM
Nat. Genet. 43 (10) 1005-1011 [2011-09-11; online 2011-09-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Engineering GST M2-2 for high activity with indene 1,2-oxide and indication of an H-site residue sustaining catalytic promiscuity.
Norrgård MA, Mannervik B
J. Mol. Biol. 412 (1) 111-120 [2011-09-09; online 2011-08-09]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Large-scale protein profiling in human cell lines using antibody-based proteomics.
Fagerberg L, Strömberg S, El-Obeid A, ..., Ponten F, Asplund A
J. Proteome Res. 10 (9) 4066-4075 [2011-09-02; online 2011-07-06]
Tissue Profiling
PubMed DOI Crossref
Transcriptional profiling of C. elegans DAF-19 uncovers a ciliary base-associated protein and a CDK/CCRK/LF2p-related kinase required for intraflagellar transport.
Phirke P, Efimenko E, Mohan S, ..., Leroux MR, Swoboda P
Dev. Biol. 357 (1) 235-247 [2011-09-01; online 2011-07-12]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Variants in STAT5B associate with serum TC and LDL-C levels.
Kornfeld JW, Isaacs A, Vitart V, ..., Pramstaller PP, Hicks AA
J. Clin. Endocrinol. Metab. 96 (9) E1496-E1501 [2011-09-00; online 2011-07-15]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Total zinc intake may modify the glucose-raising effect of a zinc transporter (SLC30A8) variant: a 14-cohort meta-analysis.
Kanoni S, Nettleton JA, Hivert MF, ..., Franks PW, Dedoussis GV
Diabetes 60 (9) 2407-2416 [2011-09-00; online 2011-08-04]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Structural features determining the intestinal epithelial permeability and efflux of novel HIV-1 protease inhibitors.
Lazorova L, Hubatsch I, Ekegren JK, ..., Larhed M, Artursson P
J Pharm Sci 100 (9) 3763-3772 [2011-09-00; online 2011-04-15]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Large-scale gene-centric analysis identifies novel variants for coronary artery disease.
IBC 50K CAD Consortium N
PLoS Genet. 7 (9) e1002260 [2011-09-00; online 2011-09-22]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genomic and clinical characteristics of six patients with partially overlapping interstitial deletions at 10p12p11.
Wentzel C, Rajcan-Separovic E, Ruivenkamp CA, ..., Giurgea I, Thuresson AC
Eur. J. Hum. Genet. 19 (9) 959-964 [2011-09-00; online 2011-04-28]
Array and Analysis Facility NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Dystrobrevin-binding protein 1 gene (DTNBP1) variants associated with cerebrospinal fluid homovanillic acid and 5-hydroxyindoleacetic acid concentrations in healthy volunteers.
Andreou D, Saetre P, Kähler AK, ..., Terenius L, Jönsson EG
Eur Neuropsychopharmacol 21 (9) 700-704 [2011-09-00; online 2011-02-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Combinations of SNPs related to signal transduction in bipolar disorder.
Koefoed P, Andreassen OA, Bennike B, ..., Werge T, Mellerup E
PLoS ONE 6 (8) e23812 [2011-08-29; online 2011-08-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of Bacterial Target Proteins for the Salicylidene Acylhydrazide Class of Virulence-blocking Compounds
Wang D, Zetterström CE, Gabrielsen M, ..., Elofsson M, Roe AJ
J. Biol. Chem. 286 (34) 29922-29931 [2011-08-26; online 2011-07-01]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Changes in the acetogenic population in a mesophilic anaerobic digester in response to increasing ammonia concentration.
Westerholm M, Müller B, Arthurson V, Schnürer A
Microbes Environ. 26 (4) 347-353 [2011-08-24; online 2011-08-24]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Identification of cis- and trans-acting genetic variants explaining up to half the variation in circulating vascular endothelial growth factor levels.
Debette S, Visvikis-Siest S, Chen MH, ..., Vasan RS, Seshadri S
Circ. Res. 109 (5) 554-563 [2011-08-19; online 2011-07-16]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Characterization of a 8q21.11 microdeletion syndrome associated with intellectual disability and a recognizable phenotype.
Palomares M, Delicado A, Mansilla E, ..., Hennekam RC, Lapunzina P
Am. J. Hum. Genet. 89 (2) 295-301 [2011-08-12; online 2011-08-02]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Genetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis.
International Multiple Sclerosis Genetics Consortium N, Wellcome Trust Case Control Consortium 2 N, Sawcer S, ..., Donnelly P, Compston A
Nature 476 (7359) 214-219 [2011-08-10; online 2011-08-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Functional and prognostic relevance of the homeobox protein MSX2 in malignant melanoma.
Gremel G, Ryan D, Rafferty M, ..., Ponten F, Gallagher WM
Br. J. Cancer 105 (4) 565-574 [2011-08-09; online 2011-07-07]
Tissue Profiling
PubMed DOI Crossref
Mapping the subcellular protein distribution in three human cell lines.
Fagerberg L, Stadler C, Skogs M, ..., Uhlén M, Lundberg E
J. Proteome Res. 10 (8) 3766-3777 [2011-08-05; online 2011-06-17]
Spatial Proteomics
PubMed DOI Crossref
The genetic structure of the Swedish population.
Humphreys K, Grankvist A, Leu M, ..., Palmgren J, Magnusson PK
PLoS ONE 6 (8) e22547 [2011-08-04; online 2011-08-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Complete genome sequence of Brachyspira intermedia reveals unique genomic features in Brachyspira species and phage-mediated horizontal gene transfer.
Håfström T, Jansson DS, Segerman B
BMC Genomics 12 (-) 395 [2011-08-04; online 2011-08-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Influence of the COMT genotype on working memory and brain activity changes during development.
Dumontheil I, Roggeman C, Ziermans T, ..., Kere J, Klingberg T
Biol. Psychiatry 70 (3) 222-229 [2011-08-01; online 2011-04-26]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
The short non-coding transcriptome of the protozoan parasite Trypanosoma cruzi.
Franzén O, Arner E, Ferella M, ..., Andersson B, Daub CO
PLoS Negl Trop Dis 5 (8) e1283 [2011-08-00; online 2011-08-30]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
RBM3-regulated genes promote DNA integrity and affect clinical outcome in epithelial ovarian cancer.
Ehlén Å, Nodin B, Rexhepaj E, ..., Brennan DJ, Jirström K
Transl Oncol 4 (4) 212-221 [2011-08-00; online 2011-08-01]
Tissue Profiling
PubMed DOI Crossref
Lack of association between two dopamine D2 receptor gene polymorphisms and schizophrenia.
Caprini S, Saetre P, Melle I, ..., Terenius L, Jönsson EG
Psychiatr. Genet. 21 (4) 214-215 [2011-08-00; online 2011-06-30]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Lack of association between genetic variations in the KALRN region and ischemic stroke.
Olsson S, Jood K, Melander O, ..., Lindgren A, Jern C
Clin. Biochem. 44 (12) 1018-1020 [2011-08-00; online 2011-06-06]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Hyphae-colonizing Burkholderia sp.--a new source of biological control agents against sheath blight disease (Rhizoctonia solani AG1-IA) in rice.
Cuong ND, Nicolaisen MH, Sørensen J, Olsson S
Microb. Ecol. 62 (2) 425-434 [2011-08-00; online 2011-03-03]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Gene-environment interactions between CRHR1 variants and physical assault in suicide attempts.
Ben-Efraim YJ, Wasserman D, Wasserman J, Sokolowski M
Genes Brain Behav. 10 (6) 663-672 [2011-08-00; online 2011-05-25]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Evaluation of Fanconi anaemia genes FANCA, FANCC and FANCL in cervical cancer susceptibility.
Juko-Pecirep I, Ivansson EL, Gyllensten UB
Gynecol. Oncol. 122 (2) 377-381 [2011-08-00; online 2011-05-06]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Correlation between LRIG1 and LRIG2 expressions and expression of 11 tumor markers, with special reference to tumor suppressors, in CIN and normal cervical epithelium.
Lindström AK, Asplund A, Hellberg D
Gynecol. Oncol. 122 (2) 372-376 [2011-08-00; online 2011-06-03]
Tissue Profiling
PubMed DOI Crossref
Array-based genomic screening at diagnosis and during follow-up in chronic lymphocytic leukemia.
Gunnarsson R, Mansouri L, Isaksson A, ..., Juliusson G, Rosenquist R
Haematologica 96 (8) 1161-1169 [2011-08-00; online 2011-05-07]
Array and Analysis Facility NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Antimicrobial susceptibility of Brachyspira spp. isolated from commercial laying hens and free-living wild mallards (Anas platyrhynchos).
Jansson DS, Pringle M
Avian Pathol. 40 (4) 387-393 [2011-08-00; online 2011-08-05]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Performance of ultra-deep pyrosequencing in analysis of HIV-1 pol gene variation.
Mild M, Hedskog C, Jernberg J, Albert J
PLoS ONE 6 (7) e22741 [2011-07-25; online 2011-07-25]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Structural alterations from multiple displacement amplification of a human genome revealed by mate-pair sequencing.
Jiao X, Rosenlund M, Hooper SD, ..., Mangion J, Sjöblom T
PLoS ONE 6 (7) e22250 [2011-07-22; online 2011-07-22]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Low RBM3 protein expression correlates with tumour progression and poor prognosis in malignant melanoma: an analysis of 215 cases from the Malmö Diet and Cancer Study.
Jonsson L, Bergman J, Nodin B, ..., Uhlén M, Jirström K
J Transl Med 9 (-) 114 [2011-07-21; online 2011-07-21]
Tissue Profiling
PubMed DOI Crossref
The use of genome-wide eQTL associations in lymphoblastoid cell lines to identify novel genetic pathways involved in complex traits.
Min JL, Taylor JM, Richards JB, ..., Spector TD, Zondervan KT
PLoS ONE 6 (7) e22070 [2011-07-15; online 2011-07-15]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Scalable transcriptome preparation for massive parallel sequencing.
Stranneheim H, Werne B, Sherwood E, Lundeberg J
PLoS ONE 6 (7) e21910 [2011-07-07; online 2011-07-07]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Identification of noncoding transcripts from within CENP-A chromatin at fission yeast centromeres.
Choi ES, Strålfors A, Castillo AG, ..., Ekwall K, Allshire RC
J. Biol. Chem. 286 (26) 23600-23607 [2011-07-01; online 2011-05-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Species sorting and neutral processes are both important during the initial assembly of bacterial communities.
Langenheder S, Székely AJ
ISME J 5 (7) 1086-1094 [2011-07-00; online 2011-01-29]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
SATB2 in combination with cytokeratin 20 identifies over 95% of all colorectal carcinomas.
Magnusson K, de Wit M, Brennan DJ, ..., Jirström K, Pontén F
Am. J. Surg. Pathol. 35 (7) 937-948 [2011-07-00; online 2011-06-17]
Spatial Proteomics Tissue Profiling
PubMed DOI Crossref
Replication and explorations of high-order epistasis using a large advanced intercross line pedigree.
Pettersson M, Besnier F, Siegel PB, Carlborg O
PLoS Genet. 7 (7) e1002180 [2011-07-00; online 2011-07-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Prostasomal DNA characterization and transfer into human sperm.
Ronquist GK, Larsson A, Ronquist G, ..., Carlsson L, Stavreus-Evers A
Mol. Reprod. Dev. 78 (7) 467-476 [2011-07-00; online 2011-06-04]
Array and Analysis Facility
PubMed DOI Crossref
Potential association of muscarinic receptor 3 gene variants with primary Sjogren's syndrome.
Appel S, Le Hellard S, Bruland O, ..., Wahren-Herlenius M, Jonsson R
Ann. Rheum. Dis. 70 (7) 1327-1329 [2011-07-00; online 2011-04-01]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genetic architecture of circulating lipid levels.
Demirkan A, Amin N, Isaacs A, ..., van Duijn CM, ENGAGE CONSORTIUM
Eur. J. Hum. Genet. 19 (7) 813-819 [2011-07-00; online 2011-03-30]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Concomitant autoimmunity in myasthenia gravis--lack of association with IgA deficiency.
Ramanujam R, Piehl F, Pirskanen R, Gregersen PK, Hammarström L
J. Neuroimmunol. 236 (1-2) 118-122 [2011-07-00; online 2011-06-15]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Genome wide association study identifies KCNMA1 contributing to human obesity.
Jiao H, Arner P, Hoffstedt J, ..., Clement K, Dahlman I
BMC Med Genomics 4 (-) 51 [2011-06-28; online 2011-06-28]
Bioinformatics and Expression Analysis (BEA) Mutation Analysis Facility (MAF) NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genetic variation near IRS1 associates with reduced adiposity and an impaired metabolic profile.
Kilpeläinen TO, Zillikens MC, Stančákova A, ..., Laakso M, Loos RJ
Nat. Genet. 43 (8) 753-760 [2011-06-26; online 2011-06-26]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Specific syndecan-1 domains regulate mesenchymal tumor cell adhesion, motility and migration.
Zong F, Fthenou E, Mundt F, ..., Hjerpe A, Dobra K
PLoS ONE 6 (6) e14816 [2011-06-23; online 2011-06-23]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Translational database selection and multiplexed sequence capture for up front filtering of reliable breast cancer biomarker candidates.
Ståhl PL, Bjursell MK, Mahdessian H, ..., Jirström K, Lundeberg J
PLoS ONE 6 (6) e20794 [2011-06-15; online 2011-06-15]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
KIT pathway alterations in mucosal melanomas of the vulva and other sites.
Omholt K, Grafström E, Kanter-Lewensohn L, Hansson J, Ragnarsson-Olding BK
Clin. Cancer Res. 17 (12) 3933-3942 [2011-06-15; online 2011-06-18]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The fat mass and obesity gene is linked to reduced verbal fluency in overweight and obese elderly men.
Benedict C, Jacobsson JA, Rönnemaa E, ..., Kilander L, Schiöth HB
Neurobiol. Aging 32 (6) 1159.e1-1159.e5 [2011-06-00; online 2011-04-05]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Tepidanaerobacter acetatoxydans sp. nov., an anaerobic, syntrophic acetate-oxidizing bacterium isolated from two ammonium-enriched mesophilic methanogenic processes.
Westerholm M, Roos S, Schnürer A
Syst. Appl. Microbiol. 34 (4) 260-266 [2011-06-00; online 2011-04-19]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Genetic association and gene expression analysis identify FGFR1 as a new susceptibility gene for human obesity.
Jiao H, Arner P, Dickson SL, ..., Clement K, Dahlman I
J. Clin. Endocrinol. Metab. 96 (6) E962-E966 [2011-06-00; online 2011-03-25]
Bioinformatics and Expression Analysis (BEA) Mutation Analysis Facility (MAF) NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Feather pecking behavior in laying hens: hypothalamic gene expression in birds performing and receiving pecks.
Brunberg E, Jensen P, Isaksson A, Keeling L
Poult. Sci. 90 (6) 1145-1152 [2011-06-00; online 2011-05-21]
Array and Analysis Facility
PubMed DOI Crossref
Cytochrome P450 1A, 1B, and 1C mRNA induction patterns in three-spined stickleback exposed to a transient and a persistent inducer.
Gao K, Brandt I, Goldstone JV, Jönsson ME
Comp. Biochem. Physiol. C Toxicol. Pharmacol. 154 (1) 42-55 [2011-06-00; online 2011-03-01]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Co-occurring SHOC2 and PTPN11 mutations in a patient with severe/complex Noonan syndrome-like phenotype.
Ekvall S, Hagenäs L, Allanson J, Annerén G, Bondeson ML
Am. J. Med. Genet. A 155A (6) 1217-1224 [2011-06-00; online 2011-05-07]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
(R,S)-dichlorprop herbicide in agricultural soil induces proliferation and expression of multiple dioxygenase-encoding genes in the indigenous microbial community.
Paulin MM, Nicolaisen MH, Sørensen J
Environ. Microbiol. 13 (6) 1513-1523 [2011-06-00; online 2011-03-23]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Detailed analysis of variants in FTO in association with body composition in a cohort of 70-year-olds suggests a weakened effect among elderly.
Jacobsson JA, Almén MS, Benedict C, ..., Lind L, Schiöth HB
PLoS ONE 6 (5) e20158 [2011-05-27; online 2011-05-27]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Multiple recognition assay reveals prostasomes as promising plasma biomarkers for prostate cancer.
Tavoosidana G, Ronquist G, Darmanis S, ..., Landegren UD, Kamali-Moghaddam M
Proc. Natl. Acad. Sci. U.S.A. 108 (21) 8809-8814 [2011-05-24; online 2011-05-11]
Affinity Proteomics Uppsala [Technology development] Clinical Biomarkers PLA and Single Cell Proteomics
PubMed DOI Crossref
Sequence and generation of mature ribosomal RNA transcripts in Dictyostelium discoideum.
Boesler C, Kruse J, Söderbom F, Hammann C
J. Biol. Chem. 286 (20) 17693-17703 [2011-05-20; online 2011-04-02]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Cardio-facio-cutaneous syndrome: does genotype predict phenotype?
Allanson JE, Annerén G, Aoki Y, ..., Verloes A, Zenker M
Am J Med Genet C Semin Med Genet 157C (2) 129-135 [2011-05-15; online 2011-04-16]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
A roadmap to generate renewable protein binders to the human proteome.
Colwill K, Renewable Protein Binder Working Group , Gräslund S
Nat. Methods 8 (7) 551-558 [2011-05-15; online 2011-05-15]
Affinity Proteomics Stockholm [Technology development] Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
Experimental evidence supports a sex-specific selective sieve in mitochondrial genome evolution.
Innocenti P, Morrow EH, Dowling DK
Science 332 (6031) 845-848 [2011-05-13; online 2011-05-14]
Array and Analysis Facility
PubMed DOI Crossref
Cys-X scanning for expansion of active-site residues and modulation of catalytic functions in a glutathione transferase.
Norrgård MA, Hellman U, Mannervik B
J. Biol. Chem. 286 (19) 16871-16878 [2011-05-13; online 2011-04-02]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Methods for Analysis of Transcription Factor DNA-Binding Specificity In Vitro.
Jolma A, Taipale J
Subcell. Biochem. 52 (-) 155-173 [2011-05-11; online 2011-05-11]
Karolinska High Throughput Center (KHTC)
PubMed DOI Crossref
Growth differentiation factor 15: a prognostic marker for recurrence in colorectal cancer.
Wallin U, Glimelius B, Jirström K, ..., Påhlman L, Birgisson H
Br. J. Cancer 104 (10) 1619-1627 [2011-05-10; online 2011-04-07]
Tissue Profiling
PubMed DOI Crossref
Melanoma cells produce multiple laminin isoforms and strongly migrate on α5 laminin(s) via several integrin receptors.
Oikawa Y, Hansson J, Sasaki T, ..., Tryggvason K, Patarroyo M
Exp. Cell Res. 317 (8) 1119-1133 [2011-05-01; online 2011-01-05]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Characterization of NPY Y2 receptor protein expression in the mouse brain. II. Coexistence with NPY, the Y1 receptor, and other neurotransmitter-related molecules.
Stanić D, Mulder J, Watanabe M, Hökfelt T
J. Comp. Neurol. 519 (7) 1219-1257 [2011-05-01; online 2011-04-01]
Fluorescence Tissue Profiling
PubMed DOI Crossref
The 12q14 microdeletion syndrome: six new cases confirming the role of HMGA2 in growth.
Lynch SA, Foulds N, Thuresson AC, ..., Ennis S, Sharkey F
Eur. J. Hum. Genet. 19 (5) 534-539 [2011-05-00; online 2011-01-27]
Array and Analysis Facility NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Parental criticism and externalizing behavior problems in adolescents: the role of environment and genotype-environment correlation.
Narusyte J, Neiderhiser JM, Andershed AK, ..., Ganiban J, Lichtenstein P
J Abnorm Psychol 120 (2) 365-376 [2011-05-00; online 2011-02-02]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Directional genetic selection by pulp mill effluent on multiple natural populations of three-spined stickleback (Gasterosteus aculeatus).
Lind EE, Grahn M
Ecotoxicology 20 (3) 503-512 [2011-05-00; online 2011-04-02]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Nitrogenase gene amplicons from global marine surface waters are dominated by genes of non-cyanobacteria.
Farnelid H, Andersson AF, Bertilsson S, ..., Hagström Å, Riemann L
PLoS ONE 6 (4) e19223 [2011-04-29; online 2011-04-29]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Large scale library generation for high throughput sequencing.
Borgström E, Lundin S, Lundeberg J
PLoS ONE 6 (4) e19119 [2011-04-27; online 2011-04-27]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Structure and assembly-disassembly properties of wild-type transthyretin amyloid protofibrils observed with atomic force microscopy.
Pires RH, Saraiva MJ, Damas AM, Kellermayer MS
J. Mol. Recognit. 24 (3) 467-476 [2011-04-20; online 2011-04-20]
Mass Spectrometry-based Proteomics, Uppsala
PubMed DOI Crossref
Novel asymmetrically localizing components of human centrosomes identified by complementary proteomics methods.
Jakobsen L, Vanselow K, Skogs M, ..., Hyman AA, Andersen JS
EMBO J. 30 (8) 1520-1535 [2011-04-20; online 2011-03-15]
Spatial Proteomics
PubMed DOI Crossref
Clostridium botulinum group III: a group with dual identity shaped by plasmids, phages and mobile elements.
Skarin H, Håfström T, Westerberg J, Segerman B
BMC Genomics 12 (-) 185 [2011-04-12; online 2011-04-12]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Utilizing twins concordance rates to infer the predisposition to myasthenia gravis.
Ramanujam R, Pirskanen R, Ramanujam S, Hammarström L
Twin Res Hum Genet 14 (2) 129-136 [2011-04-00; online 2011-03-24]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Synthesis and application of a bromomethyl substituted scaffold to be used for efficient optimization of anti-virulence activity.
Chorell E, Bengtsson C, Sainte-Luce Banchelin T, ..., Hultgren SJ, Almqvist F
Eur J Med Chem 46 (4) 1103-1116 [2011-04-00; online 2011-01-21]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Kynurenine 3-monooxygenase (KMO) polymorphisms in schizophrenia: An association study
Holtze M, Saetre P, Erhardt S, ..., Jönsson EG, Schalling M
Schizophr. Res. 127 (1-3) 270-272 [2011-04-00; online 2011-04-00]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
A candidate gene study of the type I interferon pathway implicates IKBKE and IL8 as risk loci for SLE.
Sandling JK, Garnier S, Sigurdsson S, ..., Rönnblom L, Syvänen AC
Eur. J. Hum. Genet. 19 (4) 479-484 [2011-04-00; online 2010-12-24]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
FATP4 missense and nonsense mutations cause similar features in Ichthyosis Prematurity Syndrome.
Sobol M, Dahl N, Klar J
BMC Res Notes 4 (-) 90 [2011-03-30; online 2011-03-30]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Human oral, gut, and plaque microbiota in patients with atherosclerosis.
Koren O, Spor A, Felin J, ..., Ley RE, Bäckhed F
Proc. Natl. Acad. Sci. U.S.A. 108 Suppl 1 (-) 4592-4598 [2011-03-15; online 2010-10-13]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Molecular characterization of acquired tolerance of tumor cells to picropodophyllin (PPP).
Hashemi J, Worrall C, Vasilcanu D, ..., Larsson O, Larsson C
PLoS ONE 6 (3) e14757 [2011-03-14; online 2011-03-14]
Mutation Analysis Facility (MAF)
PubMed
An assessment of CETP sequence variation in relation to cognitive decline and dementia risk.
Reynolds CA, Gatz M, Pedersen NL, Prince JA
Int J Mol Epidemiol Genet 2 (2) 122-129 [2011-03-10; online 2011-03-10]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Decoding a substantial set of samples in parallel by massive sequencing.
Neiman M, Lundin S, Savolainen P, Ahmadian A
PLoS ONE 6 (3) e17785 [2011-03-09; online 2011-03-09]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
A genome-wide association study in Europeans and South Asians identifies five new loci for coronary artery disease.
Coronary Artery Disease (C4D) Genetics Consortium
Nat. Genet. 43 (4) 339-344 [2011-03-06; online 2011-03-06]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Antibody suspension bead arrays.
Schwenk JM, Nilsson P
Methods Mol. Biol. 723 (-) 29-36 [2011-03-04; online 2011-03-04]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Bioinformatic tools for using whole genome sequencing as a rapid high resolution diagnostic typing tool when tracing bioterror organisms in the food and feed chain.
Segerman B, De Medici D, Ehling Schulz M, ..., Van Rotterdam B, Knutsson R
Int. J. Food Microbiol. 145 Suppl 1 (-) S167-S176 [2011-03-01; online 2010-09-10]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Ultra-deep sequencing of mouse mitochondrial DNA: mutational patterns and their origins.
Ameur A, Stewart JB, Freyer C, ..., Larsson NG, Gyllensten U
PLoS Genet. 7 (3) e1002028 [2011-03-00; online 2011-03-24]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Systematic antibody and antigen-based proteomic profiling with microarrays.
Ayoglu B, Häggmark A, Neiman M, ..., Schwenk JM, Nilsson P
Expert Rev. Mol. Diagn. 11 (2) 219-234 [2011-03-00; online 2011-03-17]
Affinity Proteomics Stockholm [Technology development] Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
Genome-wide association analysis identifies variants associated with nonalcoholic fatty liver disease that have distinct effects on metabolic traits.
Speliotes EK, Yerges-Armstrong LM, Wu J, ..., Borecki IB, GOLD Consortium
PLoS Genet. 7 (3) e1001324 [2011-03-00; online 2011-03-10]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
CUBN is a gene locus for albuminuria.
Böger CA, Chen MH, Tin A, ..., Fox CS, Kao WH
J. Am. Soc. Nephrol. 22 (3) 555-570 [2011-03-00; online 2011-03-01]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Association of EBF1, FAM167A(C8orf13)-BLK and TNFSF4 gene variants with primary Sjögren's syndrome.
Nordmark G, Kristjansdottir G, Theander E, ..., Jonsson R, Syvänen AC
Genes Immun. 12 (2) 100-109 [2011-03-00; online 2010-09-23]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
A novel unstable duplication upstream of HAS2 predisposes to a breed-defining skin phenotype and a periodic fever syndrome in Chinese Shar-Pei dogs.
Olsson M, Meadows JRS, Truvé K, ..., Tintle L, Lindblad-Toh K
PLoS Genet. 7 (3) e1001332 [2011-03-00; online 2011-03-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Expression of 5,8-LDS of Aspergillus fumigatus and its dioxygenase domain. A comparison with 7,8-LDS, 10-dioxygenase, and cyclooxygenase.
Hoffmann I, Jernerén F, Garscha U, Oliw EH
Arch. Biochem. Biophys. 506 (2) 216-222 [2011-02-15; online 2010-12-07]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Identification of epigenetically regulated genes that predict patient outcome in neuroblastoma.
Carén H, Djos A, Nethander M, ..., Nilsson S, Martinsson T
BMC Cancer 11 (-) 66 [2011-02-11; online 2011-02-11]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Performance of microarray and liquid based capture methods for target enrichment for massively parallel sequencing and SNP discovery.
Kiialainen A, Karlberg O, Ahlford A, ..., Lindblad-Toh K, Syvänen AC
PLoS ONE 6 (2) e16486 [2011-02-09; online 2011-02-09]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genetic association of sequence variants near AGER/NOTCH4 and dementia.
Bennet AM, Reynolds CA, Eriksson UK, ..., Pedersen NL, Prince JA
J. Alzheimers Dis. 24 (3) 475-484 [2011-02-08; online 2011-02-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
The Swedish new variant of Chlamydia trachomatis.
Unemo M, Clarke IN
Curr. Opin. Infect. Dis. 24 (1) 62-69 [2011-02-00; online 2010-12-16]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Sun-induced nonsynonymous p53 mutations are extensively accumulated and tolerated in normal appearing human skin.
Ståhl PL, Stranneheim H, Asplund A, ..., Pontén F, Lundeberg J
J. Invest. Dermatol. 131 (2) 504-508 [2011-02-00; online 2010-10-15]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Reactive astrocytes and Wnt/β-catenin signaling link nigrostriatal injury to repair in 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine model of Parkinson's disease.
L'Episcopo F, Tirolo C, Testa N, ..., Pluchino S, Marchetti B
Neurobiol. Dis. 41 (2) 508-527 [2011-02-00; online 2010-11-09]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
High-resolution genomic screening in mantle cell lymphoma--specific changes correlate with genomic complexity, the proliferation signature and survival.
Halldórsdóttir AM, Sander B, Göransson H, ..., Rosenquist R, Ehrencrona H
Genes Chromosomes Cancer 50 (2) 113-121 [2011-02-00; online 2010-12-01]
Array and Analysis Facility NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Genetic variation on chromosome 9p21 shows association with the ischaemic stroke subtype large-vessel disease in a Swedish sample aged ≤ 70.
Olsson S, Jood K, Blomstrand C, Jern C
Eur. J. Neurol. 18 (2) 365-367 [2011-02-00; online 2010-05-27]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
GAD1 is a biomarker for benign and malignant prostatic tissue.
Jaraj SJ, Augsten M, Häggarth L, ..., Ostman A, Egevad L
Scand. J. Urol. Nephrol. 45 (1) 39-45 [2011-02-00; online 2010-11-26]
Tissue Profiling
PubMed DOI Crossref
Diagnostic biomarkers of prostate cancer.
Häggarth L, Hägglöf C, Jaraj SJ, ..., Ostman A, Egevad L
Scand. J. Urol. Nephrol. 45 (1) 60-67 [2011-02-00; online 2010-11-03]
Tissue Profiling
PubMed DOI Crossref
Common pathogenetic mechanism involving human chromosome 18 in familial and sporadic ileal carcinoid tumors.
Cunningham JL, Díaz de Ståhl T, Sjöblom T, ..., Dumanski JP, Janson ET
Genes Chromosomes Cancer 50 (2) 82-94 [2011-02-00; online 2010-11-26]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Tumor-specific HMG-CoA reductase expression in primary premenopausal breast cancer predicts response to tamoxifen.
Brennan DJ, Laursen H, O'Connor DP, ..., Rydén L, Jirström K
Breast Cancer Res. 13 (1) R12 [2011-01-31; online 2011-01-31]
Tissue Profiling
PubMed DOI Crossref
HRG inhibits tumor growth and metastasis by inducing macrophage polarization and vessel normalization through downregulation of PlGF.
Rolny C, Mazzone M, Tugues S, ..., Claesson-Welsh L, Carmeliet P
Cancer Cell 19 (1) 31-44 [2011-01-18; online 2011-01-11]
Tissue Profiling
PubMed DOI Crossref
Fine mapping and replication of QTL in outbred chicken advanced intercross lines.
Besnier F, Wahlberg P, Rönnegård L, ..., Siegel PB, Carlborg O
Genet. Sel. Evol. 43 (1) 3 [2011-01-17; online 2011-01-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
New CYP1 genes in the frog Xenopus (Silurana) tropicalis: induction patterns and effects of AHR agonists during development.
Jönsson ME, Berg C, Goldstone JV, Stegeman JJ
Toxicol. Appl. Pharmacol. 250 (2) 170-183 [2011-01-15; online 2010-10-23]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
A systems biology model of the regulatory network in Populus leaves reveals interacting regulators and conserved regulation.
Street NR, Jansson S, Hvidsten TR
BMC Plant Biol. 11 (-) 13 [2011-01-13; online 2011-01-13]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Vitamin D receptor genotypes, ultraviolet radiation exposure, and risk of non-Hodgkin lymphoma.
Smedby KE, Eloranta S, Duvefelt K, ..., Hjalgrim H, Chang ET
Am. J. Epidemiol. 173 (1) 48-54 [2011-01-01; online 2010-11-16]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Targeted resequencing of candidate genes using selector probes.
Johansson H, Isaksson M, Sörqvist EF, ..., Ericsson O, Nilsson M
Nucleic Acids Res. 39 (2) e8 [2011-01-00; online 2010-11-08]
Array and Analysis Facility NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Structure and etiology of co-occurring internalizing and externalizing disorders in adolescents.
Cosgrove VE, Rhee SH, Gelhorn HL, ..., Young SE, Hewitt JK
J Abnorm Child Psychol 39 (1) 109-123 [2011-01-00; online 2010-08-05]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Meta-analysis of the association between variants in SORL1 and Alzheimer disease.
Reitz C, Cheng R, Rogaeva E, ..., Mayeux R, Genetic and Environmental Risk in Alzheimer Disease 1 Consortium
Arch. Neurol. 68 (1) 99-106 [2011-01-00; online 2011-01-12]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Mechanisms of blast induced brain injuries, experimental studies in rats.
Risling M, Plantman S, Angeria M, ..., Arborelius U, Davidsson J
Neuroimage 54 Suppl 1 (-) S89-S97 [2011-01-00; online 2010-05-25]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Tryptophan hydroxylase gene 1 (TPH1) variants associated with cerebrospinal fluid 5-hydroxyindole acetic acid and homovanillic acid concentrations in healthy volunteers.
Andreou D, Saetre P, Werge T, ..., Terenius L, Jönsson EG
Psychiatry Res 180 (2-3) 63-67 [2010-12-30; online 2010-06-29]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Defining the transcriptome and proteome in three functionally different human cell lines.
Lundberg E, Fagerberg L, Klevebring D, ..., Mann M, Uhlen M
Mol. Syst. Biol. 6 (-) 450 [2010-12-21; online 2010-12-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure Spatial Proteomics
PubMed DOI Crossref
Unbalanced translocation 9;16 in two children with dysmorphic features, and severe developmental delay: Evidence of cross-over within derivative chromosome 9 in patient #1.
Zambrano RM, Wohler E, Annerén G, ..., Cutting GR, Batista DA
Eur J Med Genet 54 (2) 189-193 [2010-12-07; online 2010-12-07]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Analysis of transcript and protein overlap in a human osteosarcoma cell line.
Klevebring D, Fagerberg L, Lundberg E, ..., Uhlén M, Lundeberg J
BMC Genomics 11 (-) 684 [2010-12-02; online 2010-12-02]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure Spatial Proteomics
PubMed DOI Crossref
Associations of gene sequence variation and serum levels of C-reactive protein and interleukin-6 with Alzheimer's disease and dementia.
Eriksson UK, Pedersen NL, Reynolds CA, ..., Dickman PW, Bennet AM
J. Alzheimers Dis. 23 (2) 361-369 [2010-12-01; online 2010-12-01]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Towards a knowledge-based Human Protein Atlas.
Uhlen M, Oksvold P, Fagerberg L, ..., Björling L, Ponten F
Nat. Biotechnol. 28 (12) 1248-1250 [2010-12-00; online 2010-12-09]
Spatial Proteomics
PubMed DOI Crossref
Thirty new loci for age at menarche identified by a meta-analysis of genome-wide association studies.
Elks CE, Perry JR, Sulem P, ..., Ong KK, Murray A
Nat. Genet. 42 (12) 1077-1085 [2010-12-00; online 2010-11-26]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The genetic architecture of domestication in the chicken: effects of pleiotropy and linkage.
Wright D, Rubin CJ, Martinez Barrio A, ..., Jensen P, Andersson L
Mol. Ecol. 19 (23) 5140-5156 [2010-12-00; online 2010-11-03]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
SOX10 expression in superficial spreading and nodular malignant melanomas.
Agnarsdóttir M, Sooman L, Bolander A, ..., Uhlen M, Hedstrand H
Melanoma Res. 20 (6) 468-478 [2010-12-00; online 2010-10-05]
Tissue Profiling
PubMed DOI Crossref
SNPs in genes coding for ROS metabolism and signalling in association with docetaxel clearance.
Edvardsen H, Brunsvig PF, Solvang H, ..., Aamdal S, Kristensen VN
Pharmacogenomics J. 10 (6) 513-523 [2010-12-00; online 2010-02-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Interactions of dietary whole-grain intake with fasting glucose- and insulin-related genetic loci in individuals of European descent: a meta-analysis of 14 cohort studies.
Nettleton JA, McKeown NM, Kanoni S, ..., Franks PW, Meigs JB
Diabetes Care 33 (12) 2684-2691 [2010-12-00; online 2010-08-10]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
High frequency of p16(INK4A) promoter methylation in NRAS-mutated cutaneous melanoma.
Jonsson A, Tuominen R, Grafström E, Hansson J, Egyhazi S
J. Invest. Dermatol. 130 (12) 2809-2817 [2010-12-00; online 2010-08-13]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Distinct gene expression profiles in subsets of chronic lymphocytic leukemia expressing stereotyped IGHV4-34 B-cell receptors.
Marincevic M, Mansouri M, Kanduri M, ..., Stamatopoulos K, Rosenquist R
Haematologica 95 (12) 2072-2079 [2010-12-00; online 2010-08-31]
Array and Analysis Facility NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Common variants at 10 genomic loci influence hemoglobin A₁(C) levels via glycemic and nonglycemic pathways.
Soranzo N, Sanna S, Wheeler E, ..., Barroso I, Meigs JB
Diabetes 59 (12) 3229-3239 [2010-12-00; online 2010-09-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A pyrosequencing study in twins shows that gastrointestinal microbial profiles vary with inflammatory bowel disease phenotypes.
Willing BP, Dicksved J, Halfvarson J, ..., Jansson JK, Engstrand L
Gastroenterology 139 (6) 1844-1854.e1 [2010-12-00; online 2010-09-08]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
A high-density scan of the Z chromosome in Ficedula flycatchers reveals candidate loci for diversifying selection.
Backström N, Lindell J, Zhang Y, ..., Saetre GP, Ellegren H
Evolution 64 (12) 3461-3475 [2010-12-00; online 2010-07-16]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
The obesity related gene, FTO, interacts with APOE, and is associated with Alzheimer's disease risk: a prospective cohort study.
Keller L, Xu W, Wang HX, ..., Fratiglioni L, Graff C
J. Alzheimers Dis. 23 (3) 461-469 [2010-11-26; online 2010-11-26]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
SNP detection and prediction of variability between chicken lines using genome resequencing of DNA pools.
Marklund S, Carlborg O
BMC Genomics 11 (-) 665 [2010-11-25; online 2010-11-25]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Gene expression profiling and chromatin immunoprecipitation identify DBN1, SETMAR and HIG2 as direct targets of SOX11 in mantle cell lymphoma.
Wang X, Björklund S, Wasik AM, ..., Christensson B, Sander B
PLoS ONE 5 (11) e14085 [2010-11-22; online 2010-11-22]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Toward next generation plasma profiling via heat-induced epitope retrieval and array-based assays.
Schwenk JM, Igel U, Neiman M, ..., Nilsson P, Uhlen M
Mol. Cell Proteomics 9 (11) 2497-2507 [2010-11-00; online 2010-08-05]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Meta-analysis identifies 13 new loci associated with waist-hip ratio and reveals sexual dimorphism in the genetic basis of fat distribution.
Heid IM, Jackson AU, Randall JC, ..., Mohlke KL, Lindgren CM
Nat. Genet. 42 (11) 949-960 [2010-11-00; online 2010-10-12]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Meiofauna reduces bacterial mineralization of naphthalene in marine sediment.
Näslund J, Nascimento FJ, Gunnarsson JS
ISME J 4 (11) 1421-1430 [2010-11-00; online 2010-05-14]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Creation of an antibody-based subcellular protein atlas.
Lundberg E, Uhlén M
Proteomics 10 (22) 3984-3996 [2010-11-00; online 2010-07-22]
Spatial Proteomics
PubMed DOI Crossref
Common variants in the ATP2B1 gene are associated with susceptibility to hypertension: the Japanese Millennium Genome Project.
Tabara Y, Kohara K, Kita Y, ..., Ueshima H, Miki T
Hypertension 56 (5) 973-980 [2010-11-00; online 2010-10-06]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Four novel Loci (19q13, 6q24, 12q24, and 5q14) influence the microcirculation in vivo.
Ikram MK, Sim X, Xueling S, ..., Vingerling JR, Wong TY
PLoS Genet. 6 (10) e1001184 [2010-10-28; online 2010-10-28]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Sensitive detection of Aβ protofibrils by proximity ligation--relevance for Alzheimer's disease.
Kamali-Moghaddam M, Pettersson FE, Wu D, ..., Lannfelt L, Landegren U
BMC Neurosci 11 (-) 124 [2010-10-05; online 2010-10-05]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
PubMed DOI Crossref
Association analysis of PALB2 and BRCA2 in bipolar disorder and schizophrenia in a scandinavian case-control sample.
Tesli M, Athanasiu L, Mattingsdal M, ..., Djurovic S, Andreassen OA
Am. J. Med. Genet. B Neuropsychiatr. Genet. 153B (7) 1276-1282 [2010-10-05; online 2010-09-28]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
An exploratory model for G x E interaction on hippocampal volume in schizophrenia; obstetric complications and hypoxia-related genes.
Haukvik UK, Saetre P, McNeil T, ..., Jönsson EG, Agartz I
Prog. Neuropsychopharmacol. Biol. Psychiatry 34 (7) 1259-1265 [2010-10-01; online 2010-07-20]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Somatic mosaicism for chromosome X and Y aneuploidies in monozygotic twins heterozygous for sickle cell disease mutation.
Razzaghian HR, Shahi MH, Forsberg LA, ..., Westerman MP, Dumanski JP
Am. J. Med. Genet. A 152A (10) 2595-2598 [2010-10-00; online 2010-08-25]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
DOI Crossref
Lycosid spiders and alternative food: Feeding behavior and implications for biological control
Kuusk AK, Ekbom B
Biological Control 55 (1) 20-26 [2010-10-00; online 2010-10-00]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Linkage to 20p13 including the ANGPT4 gene in families with mixed Alzheimer's disease and vascular dementia.
Sillén A, Brohede J, Lilius L, ..., Winblad B, Graff C
J. Hum. Genet. 55 (10) 649-655 [2010-10-00; online 2010-07-03]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Brain gene expression in relation to fearfulness in female red junglefowl (Gallus gallus).
Jöngren M, Westander J, Nätt D, Jensen P
Genes Brain Behav. 9 (7) 751-758 [2010-10-00; online 2010-07-06]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
A chromatin-remodeling protein is a component of fission yeast mediator.
Khorosjutina O, Wanrooij PH, Walfridsson J, ..., Ekwall K, Gustafsson CM
J. Biol. Chem. 285 (39) 29729-29737 [2010-09-24; online 2010-07-14]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
A trans-acting locus regulates an anti-viral expression network and type 1 diabetes risk.
Heinig M, Petretto E, Wallace C, ..., Hubner N, Cook SA
Nature 467 (7314) 460-464 [2010-09-23; online 2010-09-10]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Pleiotropy in the presence of allelic heterogeneity: alternative genetic models for the influence of APOE on serum LDL, CSF amyloid-β42, and dementia.
Bennet AM, Reynolds CA, Gatz M, ..., Pedersen NL, Prince JA
J. Alzheimers Dis. 22 (1) 129-134 [2010-09-18; online 2010-09-18]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Trisomy and triploidy are sources of embryo mortality in the zebra finch.
Forstmeier W, Ellegren H
Proc. Biol. Sci. 277 (1694) 2655-2660 [2010-09-07; online 2010-05-07]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Small-molecule screening using a whole-cell viral replication reporter gene assay identifies 2-{[2-(benzoylamino)benzoyl]amino}-benzoic acid as a novel antiadenoviral compound.
Andersson EK, Strand M, Edlund K, ..., Mei Y, Wadell G
Antimicrob. Agents Chemother. 54 (9) 3871-3877 [2010-09-00; online 2010-06-30]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Profiling protein expression and interactions: proximity ligation as a tool for personalized medicine.
Blokzijl A, Friedman M, Pontén F, Landegren U
J. Intern. Med. 268 (3) 232-245 [2010-09-00; online 2010-08-11]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
PubMed DOI Crossref
Production of ectomycorrhizal mycelium peaks during canopy closure in Norway spruce forests.
Wallander H, Johansson U, Sterkenburg E, Brandström Durling M, Lindahl BD
New Phytol. 187 (4) 1124-1134 [2010-09-00; online 2010-06-22]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
High-density screening reveals a different spectrum of genomic aberrations in chronic lymphocytic leukemia patients with 'stereotyped' IGHV3-21 and IGHV4-34 B-cell receptors.
Marincevic M, Cahill N, Gunnarsson R, ..., Stamatopoulos K, Rosenquist R
Haematologica 95 (9) 1519-1525 [2010-09-00; online 2010-04-28]
Array and Analysis Facility
PubMed DOI Crossref
Association of IFIH1 and other autoimmunity risk alleles with selective IgA deficiency.
Ferreira RC, Pan-Hammarström Q, Graham RR, ..., Behrens TW, Hammarström L
Nat. Genet. 42 (9) 777-780 [2010-09-00; online 2010-08-10]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Expression of the RNA-binding protein RBM3 is associated with a favourable prognosis and cisplatin sensitivity in epithelial ovarian cancer.
Ehlén A, Brennan DJ, Nodin B, ..., Pontén F, Jirström K
J Transl Med 8 (-) 78 [2010-08-20; online 2010-08-20]
Tissue Profiling
PubMed DOI Crossref
Familial cutaneous melanoma.
Hansson J
Adv. Exp. Med. Biol. 685 (-) 134-145 [2010-08-07; online 2010-08-07]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Biological, clinical and population relevance of 95 loci for blood lipids.
Teslovich TM, Musunuru K, Smith AV, ..., Boehnke M, Kathiresan S
Nature 466 (7307) 707-713 [2010-08-05; online 2010-08-06]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Topoisomerase I amplification in melanoma is associated with more advanced tumours and poor prognosis.
Ryan D, Rafferty M, Hegarty S, ..., Dervan PA, Gallagher WM
Pigment Cell Melanoma Res 23 (4) 542-553 [2010-08-00; online 2010-05-15]
Tissue Profiling
PubMed DOI Crossref
The role of IL-1beta in reduced IL-7 production by stromal and epithelial cells: a model for impaired T-cell numbers in the gut during HIV-1 infection.
Thang PH, Ruffin N, Brodin D, ..., Vivar N, Chiodi F
J. Intern. Med. 268 (2) 181-193 [2010-08-00; online 2010-05-26]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Sex-linked barring in chickens is controlled by the CDKN2A /B tumour suppressor locus.
Hellström AR, Sundström E, Gunnarsson U, ..., Kerje S, Andersson L
Pigment Cell Melanoma Res 23 (4) 521-530 [2010-08-00; online 2010-03-29]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
No evidence for Z-chromosome rearrangements between the pied flycatcher and the collared flycatcher as judged by gene-based comparative genetic maps.
Backström N, Palkopoulou E, Qvarnström A, Ellegren H
Mol. Ecol. 19 (16) 3394-3405 [2010-08-00; online 2010-07-31]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Niemann-Pick C1 modulates hepatic triglyceride metabolism and its genetic variation contributes to serum triglyceride levels.
Uronen RL, Lundmark P, Orho-Melander M, ..., Syvänen AC, Ikonen E
Arterioscler. Thromb. Vasc. Biol. 30 (8) 1614-1620 [2010-08-00; online 2010-05-22]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genome-wide association study identifies a sequence variant within the DAB2IP gene conferring susceptibility to abdominal aortic aneurysm.
Gretarsdottir S, Baas AF, Thorleifsson G, ..., Thorsteinsdottir U, Stefansson K
Nat. Genet. 42 (8) 692-697 [2010-08-00; online 2010-07-14]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Association of genetic risk variants with expression of proximal genes identifies novel susceptibility genes for cardiovascular disease.
Folkersen L, van't Hooft F, Chernogubova E, ..., Eriksson P, BiKE and ASAP study groups
Circ Cardiovasc Genet 3 (4) 365-373 [2010-08-00; online 2010-06-22]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Identification of novel exons and transcribed regions by chimpanzee transcriptome sequencing.
Wetterbom A, Ameur A, Feuk L, Gyllensten U, Cavelier L
Genome Biol. 11 (7) R78 [2010-07-23; online 2010-07-23]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
A functional polymorphism in the HMGCR promoter affects transcriptional activity but not the risk for Alzheimer disease in Swedish populations.
Keller L, Murphy C, Wang HX, ..., Graff C, Meaney S
Brain Res. 1344 (-) 185-191 [2010-07-16; online 2010-05-11]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Induction patterns of new CYP1 genes in environmentally exposed rainbow trout.
Jönsson ME, Gao K, Olsson JA, Goldstone JV, Brandt I
Aquat. Toxicol. 98 (4) 311-321 [2010-07-15; online 2010-04-08]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Different SNP combinations in the GCH1 gene and use of labor analgesia.
Dabo F, Grönbladh A, Nyberg F, Sundström-Poromaa I, Akerud H
Mol Pain 6 (-) 41 [2010-07-15; online 2010-07-15]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Topoisomerase I regulates open chromatin and controls gene expression in vivo.
Durand-Dubief M, Persson J, Norman U, Hartsuiker E, Ekwall K
EMBO J. 29 (13) 2126-2134 [2010-07-07; online 2010-06-08]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Genome-wide analysis of ETS-family DNA-binding in vitro and in vivo.
Wei GH, Badis G, Berger MF, ..., Bulyk ML, Taipale J
EMBO J. 29 (13) 2147-2160 [2010-07-07; online 2010-06-03]
Karolinska High Throughput Center (KHTC)
PubMed DOI Crossref
Dynamics of HIV-1 quasispecies during antiviral treatment dissected using ultra-deep pyrosequencing.
Hedskog C, Mild M, Jernberg J, ..., Andersson B, Albert J
PLoS ONE 5 (7) e11345 [2010-07-07; online 2010-07-07]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Classification of DNA sequences using Bloom filters.
Stranneheim H, Käller M, Allander T, ..., Arvestad L, Lundeberg J
Bioinformatics 26 (13) 1595-1600 [2010-07-01; online 2010-05-18]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Tissue factor pathway inhibitor-2 is induced by fluid shear stress in vascular smooth muscle cells and affects cell proliferation and survival.
Ekstrand J, Razuvaev A, Folkersen L, Roy J, Hedin U
J. Vasc. Surg. 52 (1) 167-175 [2010-07-00; online 2010-06-12]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Subcellular distribution and expression of prenylated Rab acceptor 1 domain family, member 2 (PRAF2) in malignant glioma: Influence on cell survival and migration.
Borsics T, Lundberg E, Geerts D, ..., Wester K, Bachmann AS
Cancer Sci. 101 (7) 1624-1631 [2010-07-00; online 2010-03-19]
Spatial Proteomics
PubMed DOI Crossref
Revolutionizing membrane protein overexpression in bacteria.
Schlegel S, Klepsch M, Gialama D, ..., Slotboom DJ, de Gier JW
Microb Biotechnol 3 (4) 403-411 [2010-07-00; online 2009-09-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Ontogenetic complexity of sexual dimorphism and sex-specific selection.
Mank JE, Nam K, Brunström B, Ellegren H
Mol. Biol. Evol. 27 (7) 1570-1578 [2010-07-00; online 2010-02-10]
Array and Analysis Facility
PubMed DOI Crossref
Gene expression analysis in hypoplastic lungs in the nitrofen model of congenital diaphragmatic hernia.
Burgos CM, Uggla AR, Fagerström-Billai F, ..., Frenckner B, Nord M
J. Pediatr. Surg. 45 (7) 1445-1454 [2010-07-00; online 2010-07-20]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Characterization of the RNA content of chromatin.
Mondal T, Rasmussen M, Pandey GK, Isaksson A, Kanduri C
Genome Res. 20 (7) 899-907 [2010-07-00; online 2010-04-21]
Array and Analysis Facility NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genetic evidence of multiple loci in dystocia--difficult labour.
Algovik M, Kivinen K, Peterson H, Westgren M, Kere J
BMC Med. Genet. 11 (-) 105 [2010-06-30; online 2010-06-30]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
HIV-1 exposed uninfected men who have sex with men have increased levels of salivary CC-chemokines associated with sexual behavior.
Hasselrot K, Bratt G, Duvefelt K, ..., Sandström E, Broliden K
AIDS 24 (10) 1569-1575 [2010-06-19; online 2010-06-16]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Genome-wide mapping of estrogen receptor-beta-binding regions reveals extensive cross-talk with transcription factor activator protein-1.
Zhao C, Gao H, Liu Y, ..., Gustafsson JA, Dahlman-Wright K
Cancer Res. 70 (12) 5174-5183 [2010-06-15; online 2010-05-27]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Interstitial Deletions at 6q14.1-q15 Associated with Obesity, Developmental Delay and a Distinct Clinical Phenotype.
Wentzel C, Lynch SA, Stattin EL, ..., Annerén G, Thuresson AC
Mol Syndromol 1 (2) 75-81 [2010-06-09; online 2010-06-09]
Array and Analysis Facility NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Analysis of oestrogen regulation of alpha-, beta- and gamma-secretase gene and protein expression in cultured human neuronal and glial cells.
Nord LC, Sundqvist J, Andersson E, Fried G
Neurodegener Dis 7 (6) 349-364 [2010-06-04; online 2010-06-04]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Genetic diversity and differentiation among Lagopus lagopus populations in Scandinavia and Scotland: evolutionary significant units confirmed by SNP markers.
Quintela M, Berlin S, Wang B, Höglund J
Mol. Ecol. 19 (12) 2380-2393 [2010-06-01; online 2010-07-20]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Tissue tumor marker expression in smokers, including serum cotinine concentrations, in women with cervical intraepithelial neoplasia or normal squamous cervical epithelium.
Samir R, Asplund A, Tot T, Pekar G, Hellberg D
Am. J. Obstet. Gynecol. 202 (6) 579.e1-579.e7 [2010-06-00; online 2010-01-12]
Tissue Profiling
PubMed DOI Crossref
Multiplexed massively parallel SELEX for characterization of human transcription factor binding specificities.
Jolma A, Kivioja T, Toivonen J, ..., Ukkonen E, Taipale J
Genome Res. 20 (6) 861-873 [2010-06-00; online 2010-04-10]
Karolinska High Throughput Center (KHTC) NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Improving Bayesian credibility intervals for classifier error rates using maximum entropy empirical priors.
Gustafsson MG, Wallman M, Wickenberg Bolin U, ..., Andersson CR, Isaksson A
Artif Intell Med 49 (2) 93-104 [2010-06-00; online 2010-03-30]
Array and Analysis Facility
PubMed DOI Crossref
Genetics of HPA-axis, depression and suicidality.
Wasserman D, Wasserman J, Sokolowski M
Eur. Psychiatry 25 (5) 278-280 [2010-06-00; online 2010-05-07]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genetic analysis of metabolic traits in an intercross between body weight-selected chicken lines.
Ek W, Strömstedt L, Wahlberg P, ..., Andersson L, Carlborg O
Physiol. Genomics 42 (1) 20-22 [2010-06-00; online 2010-03-25]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed
Antibody-based proteomics for discovery and exploration of proteins expressed in pancreatic islets.
Lindskog C, Asplund A, Engkvist M, ..., Korsgren O, Ponten F
Discov Med 9 (49) 565-578 [2010-06-00; online 2010-07-01]
Tissue Profiling
PubMed
Alpha terpineol: a potential anticancer agent which acts through suppressing NF-kappaB signalling.
Hassan SB, Gali-Muhtasib H, Göransson H, Larsson R
Anticancer Res. 30 (6) 1911-1919 [2010-06-00; online 2010-07-24]
Array and Analysis Facility
PubMed DOI Crossref
A variant near the interleukin-6 gene is associated with fat mass in Caucasian men.
Andersson N, Strandberg L, Nilsson S, ..., Jansson JO, Osteoporotic Fractures in Men MrOS Research Group
Int J Obes (Lond) 34 (6) 1011-1019 [2010-06-00; online 2010-02-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Molecular make-up of the glomerular filtration barrier.
Patrakka J, Tryggvason K
Biochem. Biophys. Res. Commun. 396 (1) 164-169 [2010-05-21; online 2010-05-25]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Analysis of lipid pathway genes indicates association of sequence variation near SREBF1/TOM1L2/ATPAF2 with dementia risk.
Reynolds CA, Hong MG, Eriksson UK, ..., Pedersen NL, Prince JA
Hum. Mol. Genet. 19 (10) 2068-2078 [2010-05-15; online 2010-02-20]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Adipose tissue pathways involved in weight loss of cancer cachexia.
Dahlman I, Mejhert N, Linder K, ..., Rydén M, Arner P
Br. J. Cancer 102 (10) 1541-1548 [2010-05-11; online 2010-04-22]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Genetic risk factors in lupus nephritis and IgA nephropathy--no support of an overlap.
Vuong MT, Gunnarsson I, Lundberg S, ..., Jacobson SH, Padyukov L
PLoS ONE 5 (5) e10559 [2010-05-10; online 2010-05-10]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Chd1 remodelers maintain open chromatin and regulate the epigenetics of differentiation.
Persson J, Ekwall K
Exp. Cell Res. 316 (8) 1316-1323 [2010-05-01; online 2010-03-10]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Variation in STAT4 is associated with systemic lupus erythematosus in a Finnish family cohort.
Hellquist A, Sandling JK, Zucchelli M, ..., Syvänen AC, Kere J
Ann. Rheum. Dis. 69 (5) 883-886 [2010-05-00; online 2009-09-01]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
The impact of RNA standardization and heterogeneous gene expression on the results of cDNA array of human breast carcinoma.
Khoshnoud R, He Q, Sylván M, ..., Rutqvist L, Skog S
Int. J. Mol. Med. 25 (5) 735-741 [2010-05-00; online 2010-04-08]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Mapping of the fibroblast growth factors in human white adipose tissue.
Mejhert N, Galitzky J, Pettersson AT, ..., Arner P, Rydén M
J. Clin. Endocrinol. Metab. 95 (5) 2451-2457 [2010-05-00; online 2010-03-17]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Gene-specific and global methylation patterns predict outcome in patients with acute myeloid leukemia.
Deneberg S, Grövdal M, Karimi M, ..., Hellström-Lindberg E, Lehmann S
Leukemia 24 (5) 932-941 [2010-05-00; online 2010-03-20]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Detailed physiologic characterization reveals diverse mechanisms for novel genetic Loci regulating glucose and insulin metabolism in humans.
Ingelsson E, Langenberg C, Hivert MF, ..., Florez JC, MAGIC investigators
Diabetes 59 (5) 1266-1275 [2010-05-00; online 2010-02-27]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Abundance and expression of enantioselective rdpA and sdpA dioxygenase genes during degradation of the racemic herbicide (R,S)-2-(2,4-dichlorophenoxy)propionate in soil.
Paulin MM, Nicolaisen MH, Sørensen J
Appl. Environ. Microbiol. 76 (9) 2873-2883 [2010-05-00; online 2010-03-23]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
A STAT4 risk allele is associated with ischaemic cerebrovascular events and anti-phospholipid antibodies in systemic lupus erythematosus.
Svenungsson E, Gustafsson J, Leonard D, ..., Syvänen AC, Rönnblom L
Ann. Rheum. Dis. 69 (5) 834-840 [2010-05-00; online 2009-09-19]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
A single fixation protocol for proteome-wide immunofluorescence localization studies.
Stadler C, Skogs M, Brismar H, Uhlén M, Lundberg E
J Proteomics 73 (6) 1067-1078 [2010-04-18; online 2009-11-10]
Spatial Proteomics
PubMed DOI Crossref
Increased throughput by parallelization of library preparation for massive sequencing.
Lundin S, Stranneheim H, Pettersson E, Klevebring D, Lundeberg J
PLoS ONE 5 (4) e10029 [2010-04-06; online 2010-04-06]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Tumour-specific HMG-CoAR is an independent predictor of recurrence free survival in epithelial ovarian cancer.
Brennan DJ, Brändstedt J, Rexhepaj E, ..., O'Herlihy C, Jirstrom K
BMC Cancer 10 (-) 125 [2010-04-01; online 2010-04-01]
Tissue Profiling
PubMed DOI Crossref
The recombination landscape of the zebra finch Taeniopygia guttata genome.
Backström N, Forstmeier W, Schielzeth H, ..., Kempenaers B, Ellegren H
Genome Res. 20 (4) 485-495 [2010-04-00; online 2010-03-31]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Reaction mechanism of 5,8-linoleate diol synthase, 10R-dioxygenase, and 8,11-hydroperoxide isomerase of Aspergillus clavatus.
Jernerén F, Garscha U, Hoffmann I, Hamberg M, Oliw EH
Biochim. Biophys. Acta 1801 (4) 503-507 [2010-04-00; online 2010-01-05]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed
Increased serum progesterone and estradiol correlate to increased COX-2 tissue expression in cervical intraepithelial neoplasia.
Samir R, Tot T, Asplund A, Pekar G, Hellberg D
Anticancer Res. 30 (4) 1217-1222 [2010-04-00; online 2010-06-10]
Tissue Profiling
PubMed DOI Crossref
ELMOD2, a candidate gene for idiopathic pulmonary fibrosis, regulates antiviral responses.
Pulkkinen V, Bruce S, Rintahaka J, ..., Matikainen S, Kere J
FASEB J. 24 (4) 1167-1177 [2010-04-00; online 2009-12-08]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Copy number variation, chromosome rearrangement, and their association with recombination during avian evolution.
Völker M, Backström N, Skinner BM, ..., Ellegren H, Griffin DK
Genome Res. 20 (4) 503-511 [2010-04-00; online 2010-03-31]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Novel associations of multiple genetic loci with plasma levels of factor VII, factor VIII, and von Willebrand factor: The CHARGE (Cohorts for Heart and Aging Research in Genome Epidemiology) Consortium.
Smith NL, Chen MH, Dehghan A, ..., Tang W, O'Donnell CJ
Circulation 121 (12) 1382-1392 [2010-03-30; online 2010-03-17]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Whole-genome resequencing reveals loci under selection during chicken domestication.
Rubin C, Zody MC, Eriksson J, ..., Lindblad-Toh K, Andersson L
Nature 464 (7288) 587-591 [2010-03-25; online 2010-03-12]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
In-depth transcriptome analysis reveals novel TARs and prevalent antisense transcription in human cell lines.
Klevebring D, Bjursell M, Emanuelsson O, Lundeberg J
PLoS ONE 5 (3) e9762 [2010-03-25; online 2010-03-25]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Genome-wide characterisation of the Gcn5 histone acetyltransferase in budding yeast during stress adaptation reveals evolutionarily conserved and diverged roles.
Xue-Franzén Y, Johnsson A, Brodin D, ..., Bürglin TR, Wright AP
BMC Genomics 11 (-) 200 [2010-03-25; online 2010-03-25]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Short-term antibiotic treatment has differing long-term impacts on the human throat and gut microbiome.
Jakobsson HE, Jernberg C, Andersson AF, ..., Jansson JK, Engstrand L
PLoS ONE 5 (3) e9836 [2010-03-24; online 2010-03-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Sustained inflammation due to nuclear factor-kappa B activation in irradiated human arteries.
Halle M, Gabrielsen A, Paulsson-Berne G, ..., Farnebo F, Tornvall P
J. Am. Coll. Cardiol. 55 (12) 1227-1236 [2010-03-23; online 2010-03-20]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Investigation of gene dosage imbalances in patients with Noonan syndrome using multiplex ligation-dependent probe amplification analysis.
Nyström AM, Ekvall S, Thuresson AC, ..., Annerén G, Bondeson ML
Eur J Med Genet 53 (3) 117-121 [2010-03-17; online 2010-03-17]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Global and unbiased detection of splice junctions from RNA-seq data.
Ameur A, Wetterbom A, Feuk L, Gyllensten U
Genome Biol. 11 (3) R34 [2010-03-17; online 2010-03-17]
NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
The sexually antagonistic genes of Drosophila melanogaster.
Innocenti P, Morrow EH
PLoS Biol. 8 (3) e1000335 [2010-03-16; online 2010-03-16]
Array and Analysis Facility
PubMed DOI Crossref
The tryptophan hydroxylase 1 (TPH1) gene, schizophrenia susceptibility, and suicidal behavior: a multi-centre case-control study and meta-analysis.
Saetre P, Lundmark P, Wang A, ..., Terenius L, Jönsson EG
Am. J. Med. Genet. B Neuropsychiatr. Genet. 153B (2) 387-396 [2010-03-05; online 2009-06-16]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Association between methylenetetrahydrofolate reductase (MTHFR) C677T polymorphism and age of onset in schizophrenia.
Vares M, Saetre P, Deng H, ..., Terenius L, Jönsson EG
Am. J. Med. Genet. B Neuropsychiatr. Genet. 153B (2) 610-618 [2010-03-05; online 2009-09-12]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
The impact of tissue fixatives on morphology and antibody-based protein profiling in tissues and cells.
Paavilainen L, Edvinsson A, Asplund A, ..., Pontén F, Wester K
J. Histochem. Cytochem. 58 (3) 237-246 [2010-03-00; online 2009-11-11]
Tissue Profiling
PubMed DOI Crossref
Comparative genomics based on massive parallel transcriptome sequencing reveals patterns of substitution and selection across 10 bird species.
Künstner A, Wolf JB, Backström N, ..., Warren WC, Ellegren H
Mol. Ecol. 19 Suppl 1 (Suppl 1) 266-276 [2010-03-00; online 2010-04-02]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Appearance of Cxcl10-expressing cell clusters is common for traumatic brain injury and neurodegenerative disorders.
Israelsson C, Bengtsson H, Lobell A, ..., Hillered L, Ebendal T
Eur. J. Neurosci. 31 (5) 852-863 [2010-03-00; online 2010-04-09]
Array and Analysis Facility
PubMed
Molecular profiling using tissue microarrays as a tool to identify predictive biomarkers in laryngeal cancer treated with radiotherapy.
Holgersson G, Ekman S, Reizenstein J, ..., Hellström K, Bergström S
Cancer Genomics Proteomics 7 (1) 1-7 [2010-02-26; online 2010-02-26]
Tissue Profiling
PubMed DOI Crossref
Gene-specific FACS sorting method for target selection in high-throughput amplicon sequencing.
Sandberg J, Neiman M, Ahmadian A, Lundeberg J
BMC Genomics 11 (-) 140 [2010-02-26; online 2010-02-26]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
High-density linkage mapping and evolution of paralogs and orthologs in Salix and Populus.
Berlin S, Lagercrantz U, von Arnold S, Ost T, Rönnberg-Wästljung AC
BMC Genomics 11 (-) 129 [2010-02-23; online 2010-02-23]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
PubMed DOI Crossref
Coffee consumption and CYP1A2 genotype in relation to bone mineral density of the proximal femur in elderly men and women: a cohort study.
Hallström H, Melhus H, Glynn A, ..., Syvänen AC, Michaëlsson K
Nutr Metab (Lond) 7 (-) 12 [2010-02-22; online 2010-02-22]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
DNA methylation for subtype classification and prediction of treatment outcome in patients with childhood acute lymphoblastic leukemia.
Milani L, Lundmark A, Kiialainen A, ..., Lönnerholm G, Syvänen AC
Blood 115 (6) 1214-1225 [2010-02-11; online 2009-11-25]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
SUMOylation mediates the nuclear translocation and signaling of the IGF-1 receptor.
Sehat B, Tofigh A, Lin Y, ..., Lagergren J, Larsson O
Sci Signal 3 (108) ra10 [2010-02-09; online 2010-02-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Sequence variation in SORL1 and dementia risk in Swedes.
Reynolds CA, Hong MG, Eriksson UK, ..., Bennet AM, Prince JA
Neurogenetics 11 (1) 139-142 [2010-02-00; online 2009-08-05]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Sensitive plasma protein analysis by microparticle-based proximity ligation assays.
Darmanis S, Nong RY, Hammond M, ..., Landegren U, Kamali-Moghaddam M
Mol. Cell Proteomics 9 (2) 327-335 [2010-02-00; online 2009-12-04]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics
PubMed DOI Crossref
Schizosaccharomyces pombe genome-wide nucleosome mapping reveals positioning mechanisms distinct from those of Saccharomyces cerevisiae.
Lantermann AB, Straub T, Strålfors A, ..., Ekwall K, Korber P
Nat. Struct. Mol. Biol. 17 (2) 251-257 [2010-02-00; online 2010-01-31]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
New genetic loci implicated in fasting glucose homeostasis and their impact on type 2 diabetes risk.
Dupuis J, Langenberg C, Prokopenko I, ..., Florez JC, Barroso I
Nat. Genet. 42 (2) 105-116 [2010-02-00; online 2010-01-19]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Infection of mast cells with live streptococci causes a toll-like receptor 2- and cell-cell contact-dependent cytokine and chemokine response.
Rönnberg E, Guss B, Pejler G
Infect. Immun. 78 (2) 854-864 [2010-02-00; online 2009-11-26]
Array and Analysis Facility
PubMed DOI Crossref
Global gene expression analysis of rodent motor neurons following spinal cord injury associates molecular mechanisms with development of postinjury spasticity.
Wienecke J, Westerdahl AC, Hultborn H, Kiehn O, Ryge J
J. Neurophysiol. 103 (2) 761-778 [2010-02-00; online 2009-11-27]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Genetic variation in GIPR influences the glucose and insulin responses to an oral glucose challenge.
Saxena R, Hivert MF, Langenberg C, ..., Wareham NJ, Watanabe RM
Nat. Genet. 42 (2) 142-148 [2010-02-00; online 2010-01-19]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Genetic variants and disease-associated factors contribute to enhanced interferon regulatory factor 5 expression in blood cells of patients with systemic lupus erythematosus.
Feng D, Stone RC, Eloranta ML, ..., Rönnblom L, Barnes BJ
Arthritis Rheum. 62 (2) 562-573 [2010-02-00; online 2010-01-30]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Connective tissue growth factor is expressed in malignant cells of Hodgkin lymphoma but not in other mature B-cell lymphomas.
Birgersdotter A, Baumforth KR, Wei W, ..., Porwit A, Ernberg I
Am. J. Clin. Pathol. 133 (2) 271-280 [2010-02-00; online 2010-01-23]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Comparative protein profiling of serum and plasma using an antibody suspension bead array approach.
Schwenk JM, Igel U, Kato BS, ..., Uhlén M, Nilsson P
Proteomics 10 (3) 532-540 [2010-02-00; online 2009-12-03]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Coexisting NRAS and BRAF mutations in primary familial melanomas with specific CDKN2A germline alterations.
Jovanovic B, Egyhazi S, Eskandarpour M, ..., Hayward NK, Hansson J
J. Invest. Dermatol. 130 (2) 618-620 [2010-02-00; online 2009-09-18]
NGI Short read [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic and biochemical studies of SNPs of the mitochondrial A beta-degrading protease, hPreP.
Pinho CM, Björk BF, Alikhani N, ..., Glaser E, Graff C
Neurosci. Lett. 469 (2) 204-208 [2010-01-22; online 2009-12-08]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Differential genome-wide array-based methylation profiles in prognostic subsets of chronic lymphocytic leukemia.
Kanduri M, Cahill N, Göransson H, ..., Isaksson A, Rosenquist R
Blood 115 (2) 296-305 [2010-01-14; online 2009-11-10]
Array and Analysis Facility NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Association study of PDE4B gene variants in Scandinavian schizophrenia and bipolar disorder multicenter case-control samples.
Kähler AK, Otnaess MK, Wirgenes KV, ..., Andreassen OA, Djurovic S
Am. J. Med. Genet. B Neuropsychiatr. Genet. 153B (1) 86-96 [2010-01-05; online 2009-04-08]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
A computational screen for site selective A-to-I editing detects novel sites in neuron specific Hu proteins.
Ensterö M, Akerborg O, Lundin D, ..., Ohman M, Lagergren J
BMC Bioinformatics 11 (-) 6 [2010-01-04; online 2010-01-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The 2009 Nobel conference on the role of genetics in promoting suicide prevention and the mental health of the population.
Wasserman D, Terenius L, Wasserman J, Sokolowski M
Mol. Psychiatry 15 (1) 12-17 [2010-01-00; online 2009-12-24]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Large but not small copy-number alterations correlate to high-risk genomic aberrations and survival in chronic lymphocytic leukemia: a high-resolution genomic screening of newly diagnosed patients.
Gunnarsson R, Isaksson A, Mansouri M, ..., Juliusson G, Rosenquist R
Leukemia 24 (1) 211-215 [2010-01-00; online 2009-09-11]
Array and Analysis Facility
PubMed DOI Crossref
Characterization of the cytotoxic properties of the benzimidazole fungicides, benomyl and carbendazim, in human tumour cell lines and primary cultures of patient tumour cells.
Laryea D, Gullbo J, Isaksson A, Larsson R, Nygren P
Anticancer Drugs 21 (1) 33-42 [2010-01-00; online 2009-09-30]
Array and Analysis Facility
PubMed DOI Crossref
Association of polymorphisms in the SLIT2 axonal guidance gene with anger in suicide attempters.
Sokolowski M, Wasserman J, Wasserman D
Mol. Psychiatry 15 (1) 10-11 [2010-01-00; online 2009-12-24]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
DOI Crossref
Tissue-Specific Protein Expression in Human Cells, Tissues and Organs
Marcus G, Oksvold P, Pontén F, Uhlén M
JPB 03 (10) - [2010-00-00; online 2010-00-00]
Tissue Profiling
PubMed DOI Crossref
So what's a little free fluid?
Marx JA
Acad Emerg Med 7 (4) 383-384 [2000-04-00; online 2000-05-11]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Kinetics of c-phycocyanin reaction with hypochlorite.
Romay C, Gonzalez R, Pizarro M, Lissi E
J Protein Chem 19 (2) 151-155 [2000-02-00; online 2000-08-17]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Relationship between antibiotic feeding in animals and emergence of bacterial resistance in man.
Pohl P
J. Antimicrob. Chemother. 3 Suppl C (-) 67-72 [1977-11-00; online 1977-11-01]
Glycoproteomics and MS Proteomics [Service]
PubMed
The oxylog [proceedings].
Humphrey SJ, Wolff HS
J Physiol 267 (1) 12P [1977-05-00; online 1977-05-01]
Glycoproteomics and MS Proteomics [Service]
SciLifeLab Data Centre
Publications 9.5.1