Publications 2022

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774 publications

PubMed DOI Crossref
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 - (-) - [2022-12-30; online 2022-12-30]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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 Lund [Service]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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
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
UROSCAN and UROSCANSEQ: a large-scale multicenter effort towards translation of molecular bladder cancer subtypes into clinical practice - from biobank to RNA-sequencing in real time.
Liedberg F, Abrahamsson J, Bernardo C, ..., Sjödahl G, Eriksson P
Scand J Urol - (-) 1-8 [2022-12-20; online 2022-12-20]
Clinical Genomics Lund [Service]
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 Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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] Drug Discovery and Development (DDD) [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 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 [Service]
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]
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 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]
PubMed DOI Crossref
Autoantigenic properties of the aminoacyl tRNA synthetase family in idiopathic inflammatory myopathies.
Preger C, Notarnicola A, Hellström C, ..., Gräslund S, Jakobsson PJ
J. Autoimmun. 134 (-) 102951 [2022-12-02; online 2022-12-02]
Autoimmunity and Serology Profiling [Service] Drug Discovery and Development (DDD) [Service]
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
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]
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 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
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 Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
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
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 Compute and Storage [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 Gothenburg [Service]
PubMed DOI Crossref
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 Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
<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 [Service]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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 Compute and Storage [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 Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
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 - (-) - [2022-11-25; online 2022-11-25]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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 [Service]
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 [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]
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
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
Enantioselective CE-MS analysis of ketamine metabolites in urine.
Sandbaumhüter FA, Aerts JT, Theurillat R, ..., Thormann W, Jansson ET
Electrophoresis - (-) - [2022-11-18; online 2022-11-18]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
A comprehensive characterisation of patients diagnosed with post-COVID-19 condition in Sweden 16 months after the introduction of the ICD-10 diagnosis code (U09.9): a population-based cohort study.
Bygdell M, Leach S, Lundberg L, ..., Gisslén M, Nyberg F
Int J Infect Dis - (-) - [2022-11-18; online 2022-11-18]
Clinical Genomics Gothenburg [Collaborative]
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 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 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]
DOI Crossref
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 - (-) - [2022-11-16; online 2022-11-16]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
The complement receptor C3AR constitutes a novel therapeutic target in NPM1-mutated AML.
von Palffy S, Thorsson H, Peña-Martínez P, ..., Lilljebjörn H, Fioretos T
Blood Adv - (-) - [2022-11-16; online 2022-11-16]
Clinical Genomics Lund [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]
Bioinformatics Compute and Storage [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
Structure of the reduced microsporidian proteasome bound by PI31-like peptides in dormant spores.
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
Meta-analysis of genome-wide association studies of hoarding symptoms in 27,537 individuals.
Strom NI, Smit DJA, Silzer T, ..., Mataix-Cols D, Cath D
Transl Psychiatry 12 (1) 479 [2022-11-15; online 2022-11-15]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
MS2Tox Machine Learning Tool for Predicting the Ecotoxicity of Unidentified Chemicals in Water by Nontarget LC-HRMS.
Peets P, Wang WC, MacLeod M, ..., Martin JW, Kruve A
Environ. Sci. Technol. 56 (22) 15508-15517 [2022-11-15; online 2022-10-21]
Exposomics [Technology development]
PubMed DOI Crossref
Genomic Consequences of Fragmentation in the Endangered Fennoscandian Arctic Fox (Vulpes lagopus).
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]
PubMed DOI Crossref
Dominantly inherited myosin IIa myopathy caused by aberrant splicing of MYH2.
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 Gothenburg [Service]
PubMed DOI Crossref
A novel cis-regulatory element drives early expression of Nkx3.2 in the gnathostome primary jaw joint.
Leyhr J, Waldmann L, Filipek-Górniok B, ..., Allalou A, Haitina T
Elife 11 (-) - [2022-11-15; online 2022-11-15]
BioImage Informatics [Service]
DOI Crossref
Proteomic Analysis of Pleural Effusions from COVID-19 Deceased Patients: Enhanced Inflammatory Markers
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]
PubMed DOI Crossref
Early changes in gene expression profiles in AML patients during induction chemotherapy.
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]
PubMed DOI Crossref
A multivesicular body-like organelle mediates stimulus-regulated trafficking of olfactory ciliary transduction proteins.
Maurya DK, Berghard A, Bohm S
Nat Commun 13 (1) 6889 [2022-11-12; online 2022-11-12]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Plasma concentrations of gut hormones acyl ghrelin and Peptide YY and subsequent risk of colorectal cancer and molecular tumor subtypes.
Bodén S, Harbs J, Sundkvist A, ..., Harlid S, Van Guelpen B
Cancer Prev Res (Phila) - (-) - [2022-11-11; online 2022-11-11]
Clinical Genomics Umeå [Service]
PubMed DOI Crossref
Genetic regulation of serum IgA levels and susceptibility to common immune, infectious, kidney, and cardio-metabolic traits.
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]
PubMed DOI Crossref
Dietary restriction and medical therapy drive PPARα-regulated improvements in early diabetic kidney disease in male rats.
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 Gothenburg [Collaborative] Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Genomic trajectories of a near-extinction event in the Chatham Island black robin.
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]
PubMed DOI Crossref
Fungal Communities in Leaves and Roots of Healthy-Looking and Diseased Ulmusglabra.
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]
PubMed DOI Crossref
A new cut&run low volume-urea (LoV-U) protocol optimized for transcriptional co-factors uncovers Wnt/b-catenin tissue-specific genomic targets.
Zambanini G, Nordin A, Jonasson M, Pagella P, Cantù C
Development - (-) - [2022-11-10; online 2022-11-10]
Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Mapping the Landscape of Care Providers' Quality Assurance Approaches for AI in Diagnostic Imaging.
Lundström C, Lindvall M
J Digit Imaging - (-) - [2022-11-09; online 2022-11-09]
AIDA Data Hub [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 - (-) - [2022-11-08; online 2022-11-08]
Clinical Genomics Örebro [Collaborative]
DOI Crossref
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 Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Stabilizing Mechanisms of β-Lactoglobulin in Amorphous Solid Dispersions of Indomethacin.
Kabedev A, Zhuo X, Leng D, ..., Bergström CAS, Löbmann K
Mol. Pharm. 19 (11) 3922-3933 [2022-11-07; online 2022-09-22]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Case report: Two sisters with a germline CHEK2 variant and distinct endocrine neoplasias.
Vallera RD, Ding Y, Hatanpaa KJ, ..., Dahia PLM, Ghayee HK
Front Endocrinol (Lausanne) 13 (-) 1024108 [2022-11-07; online 2022-11-07]
Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Insights into the evolution of enzymatic specificity and catalysis: From Asgard archaea to human adenylate kinases.
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]
PubMed DOI Crossref
Genome Evolution of a Symbiont Population for Pathogen Defense in Honeybees.
Dyrhage K, Garcia-Montaner A, Tamarit D, ..., Webster MT, Andersson SGE
Genome Biol Evol 14 (11) - [2022-11-04; online 2022-10-21]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A genomic snapshot of demographic and cultural dynamism in Upper Mesopotamia during the Neolithic Transition.
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]
PubMed DOI Crossref
The ESSENCE-Questionnaire in Medical Records Screening for Neurodevelopmental Symptoms/Problems: Utility and Clinical Validity.
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 Gothenburg [Service]
PubMed DOI Crossref
The Dynamics of Adaptation to Stress from Standing Genetic Variation and de novo Mutations.
Ament-Velásquez SL, Gilchrist C, Rêgo A, ..., Rafati N, Stelkens R
Mol. Biol. Evol. 39 (11) - [2022-11-03; online 2022-11-06]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Population dynamics and demographic history of Eurasian collared lemmings.
Lord E, Marangoni A, Baca M, ..., Fedorov VB, Dalén L
BMC Ecol Evol 22 (1) 126 [2022-11-03; online 2022-11-03]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mountain- and brown hare genetic polymorphisms to survey local adaptations and conservation status of the heath hare (Lepus timidus sylvaticus, Nilsson 1831).
Michell CT, Pohjoismäki JLO, Spong G, Thulin C
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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Domain-specific insight into the recognition of BH3-death motifs by the pro-survival Bcl-2 protein.
Mushtaq AU, Ådén J, Ali K, Gröbner G
Biophysical Journal - (-) - [2022-11-02; online 2022-11-02]
Swedish NMR Centre (SNC) [Collaborative]
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DAR 16-II Primes Endothelial Cells for Angiogenesis Improving Bone Ingrowth in 3D-Printed BCP Scaffolds and Regeneration of Critically Sized Bone Defects
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
Anal. Chem. 94 (43) 15048-15056 [2022-11-01; online 2022-10-17]
Chemical Proteomics [Technology development]
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Novel TPR::ROS1 Fusion Gene Activates MAPK, PI3K and JAK/STAT Signaling in an Infant-type Pediatric Glioma.
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 Gothenburg [Service]
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Ydj1 interaction at nucleotide-binding-domain of yeast Ssa1 impacts Hsp90 collaboration and client maturation.
Gaur D, Kumar N, Ghosh A, ..., Nystrom T, Sharma D
PLoS Genet. 18 (11) e1010442 [2022-11-00; online 2022-11-09]
Glycoproteomics [Service]
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Whole genome analyses based on single, field collected spores of the arbuscular mycorrhizal fungus Funneliformis geosporum.
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 Compute and Storage [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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Using reporters of different misfolded proteins reveals differential strategies in processing protein aggregates.
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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Translatome profiling in fatal familial insomnia implicates TOR signaling in somatostatin neurons.
Bauer S, Dittrich L, Kaczmarczyk L, ..., Benfeitas R, Jackson WS
Life Sci. Alliance 5 (11) - [2022-11-00; online 2022-10-03]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Strong Association of Combined Genetic Deficiencies in the Classical Complement Pathway With Risk of Systemic Lupus Erythematosus and Primary Sjögren's Syndrome.
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 Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Stroke genetics informs drug discovery and risk prediction across ancestries.
Mishra A, Malik R, Hachiya T, ..., Dichgans M, Debette S
Nature 611 (7934) 115-123 [2022-11-00; online 2022-09-30]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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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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Organic Base-Mediated Carboxylation of (Hetero)aromatic Compounds Using Supercritical Carbon Dioxide (scCO2)
Govender T, Chetty LC, Kruger HG, Arvidsson PI, Naicker T
Synthesis 54 (21) 4827-4833 [2022-11-00; online 2022-08-16]
Drug Discovery and Development (DDD) [Collaborative]
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Multi-transcriptome analysis following an acute skeletal muscle growth stimulus yields tools for discerning global and MYC regulatory networks.
Murach KA, Liu Z, Jude B, ..., Vechetti IJ, von Walden F
J. Biol. Chem. 298 (11) 102515 [2022-11-00; online 2022-09-21]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Metabolite Pattern Derived from Lactiplantibacillus plantarum-Fermented Rye Foods and In Vitro Gut Fermentation Synergistically Inhibits Bacterial Growth.
Koistinen VM, Hedberg M, Shi L, ..., Hanhineva K, Landberg R
Mol Nutr Food Res 66 (21) e2101096 [2022-11-00; online 2022-08-19]
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]
Bioinformatics Compute and Storage [Service] NGI SNP genotyping [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Linkage mapping and genome annotation give novel insights into gene family expansions and regional recombination rate variation in the painted lady (Vanessa cardui) butterfly.
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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Genome sequencing is a sensitive first-line test to diagnose individuals with intellectual disability.
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 Stockholm [Service]
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Genetic and immunologic evaluation of children with inborn errors of immunity and severe or critical COVID-19.
Abolhassani H, Delavari S, Landegren N, ..., Hammarström L, Pan-Hammarström Q
J. Allergy Clin. Immunol. 150 (5) 1059-1073 [2022-11-00; online 2022-09-13]
Autoimmunity and Serology Profiling [Service]
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Exome-wide association study to identify rare variants influencing COVID-19 outcomes: Results from the Host Genetics Initiative.
Butler-Laporte G, Povysil G, Kosmicki JA, ..., Ferreira MAR, Richards JB
PLoS Genet. 18 (11) e1010367 [2022-11-00; online 2022-11-03]
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
iScience - (-) 105654 [2022-11-00; online 2022-11-00]
Integrated Microscopy Technologies Umeå [Collaborative]
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Circum‐Arctic distribution of chemical anti‐herbivore compounds suggests biome‐wide trade‐off in defence strategies in Arctic shrubs
Lindén E, te Beest M, Abreu IN, ..., Zimmermann H, Olofsson J
Ecography 2022 (11) - [2022-11-00; online 2022-08-30]
Swedish Metabolomics Centre (SMC) [Service]
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Chloride binding in Portland composite cements containing metakaolin and silica fume
Babaahmadi A, Machner A, Kunther W, ..., Hemstad P, De Weerdt K
Cement and Concrete Research 161 (-) 106924 [2022-11-00; online 2022-11-00]
Swedish NMR Centre (SNC) [Collaborative]
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Chemical traits of cerebral amyloid angiopathy in familial British‐, Danish‐, and <scp>non‐Alzheimer</scp> ʼs dementias
Michno W, Koutarapu S, Camacho R, ..., Lashley T, Hanrieder J
J. Neurochem. 163 (3) 233-246 [2022-11-00; online 2022-09-25]
Integrated Microscopy Technologies Gothenburg [Collaborative]
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Characterizing single extracellular vesicles by droplet barcode sequencing for protein analysis.
Banijamali M, Höjer P, Nagy A, ..., Viktorsson K, Ahmadian A
J Extracell Vesicles 11 (11) e12277 [2022-11-00; online 2022-11-05]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Altered expression of the IGF2‑H19 locus and mitochondrial respiratory complexes in adrenocortical carcinoma.
Scicluna P, Caramuta S, Kjellin H, ..., Lui WO, Larsson C
Int. J. Oncol. 61 (5) - [2022-11-00; online 2022-09-28]
Global Proteomics and Proteogenomics [Service]
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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 - (-) 105652 [2022-11-00; online 2022-11-00]
Affinity Proteomics Stockholm [Service]
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A Complex Connection Between the Diversity of Human Gastric Mucin O-Glycans, Helicobacter pylori Binding, Helicobacter Infection and Fucosylation.
Chahal G, Padra M, Erhardsson M, ..., Karlsson NG, Lindén SK
Mol. Cell Proteomics 21 (11) 100421 [2022-11-00; online 2022-09-29]
Glycoproteomics [Service]
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Structural Consequences of Deproteinating the 50S Ribosome.
Larsson DSD, Kanchugal P S, Selmer M
Biomolecules 12 (11) - [2022-10-31; online 2022-10-31]
Cryo-EM [Service]
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GyrB in silico mining in 27 151 global gonococcal genomes from 1928-2021 combined with zoliflodacin in vitro testing of 71 international gonococcal isolates with different GyrB, ParC and ParE substitutions confirms high susceptibility.
Golparian D, Jacobsson S, Sánchez-Busó L, ..., Ohnishi M, Unemo M
J. Antimicrob. Chemother. - (-) - [2022-10-29; online 2022-10-29]
Clinical Genomics Örebro [Collaborative]
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Clinically relevant treatment of PDX models reveals patterns of neuroblastoma chemoresistance.
Mañas A, Aaltonen K, Andersson N, ..., Gisselsson D, Bexell D
Sci Adv 8 (43) eabq4617 [2022-10-28; online 2022-10-28]
Clinical Genomics Lund [Service]
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Structural Insights into Common and Host-Specific Receptor-Binding Mechanisms in Algal Picorna-like Viruses.
Wang H, Munke A, Li S, Tomaru Y, Okamoto K
Viruses 14 (11) - [2022-10-27; online 2022-10-27]
Cryo-EM [Service]
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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
Povilaitienė A, Gedminas A, Varnagirytė-Kabašinskienė I, ..., Mishcherikova V, Menkis A
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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Next-Generation Sequencing Analysis of CpG Methylation of a Tumor Suppressor Gene SHP-1 Promoter in Stable Cell Lines and HCV-Positive Patients.
Devi P, Engdahl K, Punga T, Bergqvist A
Viruses 14 (11) - [2022-10-26; online 2022-10-26]
Clinical Genomics Uppsala [Service]
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Going Viral: An Investigation into the Chameleonic Behavior or Antiviral Compounds.
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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Rare predicted loss-of-function variants of type I IFN immunity genes are associated with life-threatening COVID-19.
Matuozzo D, Talouarn E, Marchal A, ..., Abel L, Cobat A
medRxiv - (-) - [2022-10-25; online 2022-10-25]
Clinical Genomics Stockholm [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]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] 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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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 Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] 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
Commun Biol 5 (1) 1121 [2022-10-22; online 2022-10-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Principal Drivers of Fungal Communities Associated with Needles, Shoots, Roots and Adjacent Soil of Pinus sylvestris.
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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Do ectomycorrhizal exploration types reflect mycelial foraging strategies?
Jörgensen K, Clemmensen KE, Wallander H, Lindahl BD
New Phytol. - (-) - [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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Architecture of the chikungunya virus replication organelle.
Laurent T, Kumar P, Liese S, ..., Carlson A, Carlson LA
Elife 11 (-) - [2022-10-19; online 2022-10-19]
Cryo-EM [Service]
PubMed DOI Crossref
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 Compute and Storage [Service] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Global microRNA and protein expression in human term placenta.
Östling H, Lodefalk M, Backman H, Kruse R
Front Med (Lausanne) 9 (-) 952827 [2022-10-18; online 2022-10-18]
Glycoproteomics [Service]
PubMed DOI Crossref
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 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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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 [2022-10-17; online 2022-10-17]
Clinical Genomics Stockholm [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 - (-) - [2022-10-17; online 2022-10-17]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [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 [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]
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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 Compute and Storage [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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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]
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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]
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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 Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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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 Compute and Storage [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 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 Compute and Storage [Service] NGI Single cell [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A Multiparametric and High-Throughput Platform for Host-Virus Binding Screens
Schlegel J, Porebski B, Andronico L, ..., Fernandez-Capetillo O, Sezgin E
- - (-) - [2022-10-11; online 2022-10-11]
Integrated Microscopy Technologies Stockholm [Service]
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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]
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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 [Collaborative]
DOI Crossref
Drug repurposing screens identifies compounds that inhibit α-synuclein oligomers’ membrane disruption and block antibody interactions
Somavarapu AK, Kleijwegt G, Nagaraj M, ..., Nielsen J, Otzen D
- - (-) - [2022-10-07; online 2022-10-07]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
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 - (-) - [2022-10-07; online 2022-10-07]
Integrated Microscopy Technologies Gothenburg [Service]
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 Compute and Storage [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 Compute and Storage [Service]
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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]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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 Linköping [Service]
PubMed DOI Crossref
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 Compute and Storage [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]
PubMed DOI Crossref
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]
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]
PubMed DOI Crossref
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 [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 Compute and Storage [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 Compute and Storage [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 Compute and Storage [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 Compute and Storage [Service]
DOI Crossref
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 Compute and Storage [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 Umeå [Service]
PubMed DOI Crossref
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 Compute and Storage [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 Gothenburg [Collaborative] Clinical Genomics Linköping [Service] 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 Compute and Storage [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 Compute and Storage [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]
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 Compute and Storage [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 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 [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 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]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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]
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]
PubMed DOI Crossref
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 Compute and Storage [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 Compute and Storage [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 Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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 Compute and Storage [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 [Service]
DOI Crossref
Accurate genotype-based demultiplexing of single cell RNA sequencing samples from non-human animals
Cardiello JF, Araus AJ, Giatrellis S, Simon A, Leigh ND
- - (-) - [2022-09-23; online 2022-09-23]
Eukaryotic Single Cell Genomics (ESCG) [Service]
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]
PubMed DOI Crossref
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 [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 Umeå [Service]
DOI Crossref
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 Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
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]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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]
Integrated Microscopy Technologies Gothenburg [Service]
DOI Crossref
The genomic basis of hybrid male sterility in <i>Ficedula</i> flycatchers
Segami JC, Mugal CF, Cunha C, ..., Semon M, Qvarnström A
- - (-) - [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 Compute and Storage [Service] Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Spatio-temporal analysis of prostate tumors in situ suggests pre-existence of treatment-resistant clones.
Marklund M, Schultz N, Friedrich S, ..., Sonnhammer E, Lundeberg J
Nat Commun 13 (1) 5475 [2022-09-17; online 2022-09-17]
NGI Short read [Service] NGI Spatial omics [Collaborative] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Congenital tremor and splay leg in piglets - insights into the virome, local cytokine response, and histology.
Stenberg H, Hellman S, Lindström L, ..., Hayer J, Malmberg M
BMC Vet Res 18 (1) 348 [2022-09-16; online 2022-09-16]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Treatment of periprosthetic joint infections guided by minimum biofilm eradication concentration (MBEC) in addition to minimum inhibitory concentration (MIC): protocol for a prospective randomised clinical trial.
Tillander JAN, Rilby K, Svensson Malchau K, ..., Rolfson O, Trobos M
BMJ Open 12 (9) e058168 [2022-09-15; online 2022-09-15]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Modification of xylan via an oxidation-reduction reaction.
Palasingh C, Nakayama K, Abik F, ..., Ström A, Nypelö T
Carbohydr Polym 292 (-) 119660 [2022-09-15; online 2022-05-27]
Swedish NMR Centre (SNC)
PubMed DOI Crossref
Complete Reference Genome Sequence of the Extensively Drug-Resistant Strain Neisseria gonorrhoeae AT159, with Ceftriaxone Resistance and High-Level Azithromycin Resistance, Using Nanopore Q20+ Chemistry and Illumina Sequencing.
Golparian D, Pleininger S, Jacobsson S, Indra A, Unemo M
Microbiol Resour Announc 11 (9) e0074422 [2022-09-15; online 2022-08-25]
Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Anosmia, mild cognitive impairment, and biomarkers of brain aging in older adults.
Dong Y, Li Y, Liu K, ..., Du Y, Qiu C
Alzheimers Dement - (-) - [2022-09-15; online 2022-09-15]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Distinct subcellular autophagy impairments in induced neurons from patients with Huntington's disease.
Pircs K, Drouin-Ouellet J, Horváth V, ..., Barker RA, Jakobsson J
Brain 145 (9) 3035-3057 [2022-09-14; online 2021-12-23]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
Linked-read whole-genome sequencing resolves common and private structural variants in multiple myeloma.
Peña-Pérez L, Frengen N, Hauenstein J, ..., Lindstrand A, Månsson R
Blood Adv 6 (17) 5009-5023 [2022-09-13; online 2022-06-09]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Immunodeficiency syndromes differentially impact the functional profile of SARS-CoV-2-specific T cells elicited by mRNA vaccination.
Gao Y, Cai C, Wullimann D, ..., Aleman S, Buggert M
Immunity 55 (9) 1732-1746.e5 [2022-09-13; online 2022-07-19]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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
J. Autoimmun. 133 (-) 102903 [2022-09-13; online 2022-09-13]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
How broad is the selfing syndrome? Insights from convergent evolution of gene expression across species and tissues in the Capsella genus.
Zhang Z, Kryvokhyzha D, Orsucci M, ..., Milesi P, Lascoux M
New Phytol. - (-) - [2022-09-12; online 2022-09-12]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Expansion of nickel binding- and histidine-rich proteins during gastric adaptation of Helicobacter species.
Fischer F, Vorontsov E, Turlin E, ..., Vinella D, De Reuse H
Metallomics 14 (9) - [2022-09-12; online 2022-08-25]
Glycoproteomics [Service]
PubMed DOI Crossref
Sialic Acid and Fucose Residues on the SARS-CoV-2 Receptor-Binding Domain Modulate IgG Antibody Reactivity.
Samuelsson E, Mirgorodskaya E, Nyström K, ..., Liljeqvist JÅ, Nordén R
ACS Infect Dis 8 (9) 1883-1893 [2022-09-09; online 2022-08-18]
Glycoproteomics [Collaborative]
PubMed DOI Crossref
Target capture data resolve recalcitrant relationships in the coffee family (Rubioideae, Rubiaceae).
Thureborn O, Razafimandimbison SG, Wikström N, Rydin C
Front Plant Sci 13 (-) 967456 [2022-09-08; online 2022-09-08]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Colitis Induces Sex-Specific Intestinal Transcriptomic Responses in Mice.
Hases L, Birgersson M, Indukuri R, Archer A, Williams C
Int J Mol Sci 23 (18) - [2022-09-08; online 2022-09-08]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
ATP6V0C variants impair vacuolar V-ATPase causing a neurodevelopmental disorder often associated with epilepsy.
Mattison KA, Tossing G, Mulroe F, ..., Campeau PM, Escayg A
Brain - (-) - [2022-09-08; online 2022-09-08]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
AI-based prostate analysis system trained without human supervision to predict patient outcome from tissue samples.
Walhagen P, Bengtsson E, Lennartz M, Sauter G, Busch C
J Pathol Inform 13 (-) 100137 [2022-09-08; online 2022-09-08]
AIDA Data Hub [Service]
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 - (-) - [2022-09-05; online 2022-09-05]
CRISPR Functional Genomics [Service] Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Human CD38 regulates B cell antigen receptor dynamic organization in normal and malignant B cells.
Camponeschi A, Kläsener K, Sundell T, ..., Reth M, Mårtensson IL
J. Exp. Med. 219 (9) - [2022-09-05; online 2022-07-12]
Glycoproteomics [Service]
PubMed DOI Crossref
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 - (-) - [2022-09-02; online 2022-09-02]
Cellular Immunomonitoring [Collaborative] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Distinct metabolic hallmarks of WHO classified adult glioma subtypes.
Björkblom B, Wibom C, Eriksson M, ..., Sandström M, Melin B
Neuro-oncology 24 (9) 1454-1468 [2022-09-01; online 2022-02-15]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
An induced pluripotent stem cell t(7;12)(q36;p13) acute myeloid leukemia model shows high expression of MNX1 and a block in differentiation of the erythroid and megakaryocytic lineages.
Nilsson T, Waraky A, Östlund A, ..., Abrahamsson J, Palmqvist L
Int. J. Cancer 151 (5) 770-782 [2022-09-01; online 2022-06-03]
Bioinformatics Compute and Storage [Service] Clinical Genomics Gothenburg [Technology development]
PubMed DOI Crossref
A small molecule screen for paqr-2 suppressors identifies Tyloxapol as a membrane fluidizer for C. elegans and mammalian cells.
Ruiz M, Svensk E, Einarsson E, Grahn EP, Pilon M
Biochimica et Biophysica Acta (BBA) - Biomembranes 1864 (9) 183959 [2022-09-01; online 2022-05-17]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Valorization of hydrolysis lignin from a spruce-based biorefinery by applying γ-valerolactone treatment.
Momayez F, Hedenström M, Stagge S, Jönsson LJ, Martín C
Bioresour. Technol. 359 (-) 127466 [2022-09-00; online 2022-06-13]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
The role of Gdf5 in the development of the zebrafish fin endoskeleton.
Waldmann L, Leyhr J, Zhang H, ..., Öhman-Mägi C, Haitina T
Dev. Dyn. 251 (9) 1535-1549 [2022-09-00; online 2021-07-29]
BioImage Informatics [Collaborative] Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Temporal brain transcriptome analysis reveals key pathological events after germinal matrix hemorrhage in neonatal rats.
Song J, Nilsson G, Xu Y, ..., Zhu C, Wang X
J. Cereb. Blood Flow Metab. 42 (9) 1632-1649 [2022-09-00; online 2022-05-01]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Spatial profiling of chromatin accessibility in mouse and human tissues.
Deng Y, Bartosovic M, Ma S, ..., Castelo-Branco G, Fan R
Nature 609 (7926) 375-383 [2022-09-00; online 2022-08-17]
NGI Short read [Service] NGI Spatial omics [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Sir2 and Reb1 antagonistically regulate nucleosome occupancy in subtelomeric X-elements and repress TERRAs by distinct mechanisms.
Bauer SL, Grochalski TNT, Smialowska A, Åström SU
PLoS Genet. 18 (9) e1010419 [2022-09-00; online 2022-09-22]
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Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
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Portugal AM, Taylor MJ, Viktorsson C, ..., Ronald A, Falck-Ytter T
J Child Psychol Psychiatry 63 (9) 1068-1077 [2022-09-00; online 2021-12-23]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
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Siino V, Ali A, Accardi G, ..., Levander F, Vasto S
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Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Journal of Analytical and Applied Pyrolysis 166 (-) 105623 [2022-09-00; online 2022-09-00]
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JIMD Rep 63 (5) 462-467 [2022-09-00; online 2022-06-28]
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PubMed DOI Crossref
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EBioMedicine 83 (-) 104236 [2022-09-00; online 2022-08-26]
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Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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- - (-) - [2022-08-24; online 2022-08-24]
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- - (-) - [2022-08-11; online 2022-08-11]
Eukaryotic Single Cell Genomics (ESCG) [Service]
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Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Single cell [Service] National Genomics Infrastructure [Service]
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Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service]
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Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] National Genomics Infrastructure [Service]
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Swedish Metabolomics Centre (SMC) [Service]
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NGI Long read [Technology development] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
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Bioinformatics Compute and Storage [Service] 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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Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
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NGI Long read [Technology development] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
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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]
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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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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Identification and functional characterization of a novel susceptibility locus for small vessel vasculitis with MPO-ANCA.
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Rheumatology (Oxford) 61 (8) 3461-3470 [2022-08-03; online 2021-12-11]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] 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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A Genome for Edith's Checkerspot Butterfly: An Insect with Complex Host-Adaptive Suites and Rapid Evolutionary Responses to Environmental Changes.
Tunstrom K, Wheat CW, Parmesan C, Singer MC, Mikheyev AS
Genome Biol Evol 14 (8) - [2022-08-03; online 2022-07-26]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Recessive inborn errors of type I IFN immunity in children with COVID-19 pneumonia.
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J. Exp. Med. 219 (8) - [2022-08-01; online 2022-06-16]
Clinical Genomics Stockholm [Service]
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Metabolic control of arginine and ornithine levels paces the progression of leaf senescence.
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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A relationship between phages and organic carbon in wastewater treatment plant effluents.
Modin O, Fuad N, Abadikhah M, ..., Persson F, Wilén BM
Water Res X 16 (-) 100146 [2022-08-01; online 2022-06-16]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The discovAIR project: a roadmap towards the Human Lung Cell Atlas.
Luecken MD, Zaragosi LE, Madissoon E, ..., Meyer KB, Nawijn MC
Eur. Respir. J. 60 (2) - [2022-08-00; online 2022-08-18]
In Situ Sequencing (ISS) [Collaborative]
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TCF4 trinucleotide repeat expansion in Swedish cases with Fuchs' endothelial corneal dystrophy.
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Acta Ophthalmol 100 (5) 541-548 [2022-08-00; online 2021-10-13]
Clinical Genomics Umeå [Service]
PubMed DOI Crossref
Sulfated glycan recognition by carbohydrate sulfatases of the human gut microbiota.
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Glycoproteomics [Collaborative]
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SubCellBarCode: integrated workflow for robust spatial proteomics by mass spectrometry.
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
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NGI Short read [Service] NGI Spatial omics [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Glycoproteomics [Collaborative]
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Simple and rapid quantification of cetirizine, venlafaxine, and O-desmethylvenlafaxine in human breast milk, and metformin in human milk and plasma with UHPLC-MS/MS
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Journal of Chromatography B 1205 (-) 123340 [2022-08-00; online 2022-08-00]
Drug Discovery and Development (DDD) [Collaborative]
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Gupta A, Sabirsh A, Wahlby C, Sintorn I
IEEE J Biomed Health Inform 26 (8) 4079-4089 [2022-08-00; online 2022-08-11]
BioImage Informatics [Technology development]
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Short- and long-read metabarcoding of the eukaryotic rRNA operon: Evaluation of primers and comparison to shotgun metagenomics sequencing.
Latz MAC, Grujcic V, Brugel S, ..., Andersson A, Andersson AF
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Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Can. J. Fish. Aquat. Sci. 79 (8) 1291-1301 [2022-08-00; online 2022-08-00]
Swedish Metabolomics Centre (SMC) [Service]
DOI Crossref
Reactive melt crosslinking of cellulose nanocrystals/poly(ε-caprolactone) for heat-shrinkable network
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]
PubMed DOI Crossref
Probing the folding pathways of four-stranded intercalated cytosine-rich motifs at single base-pair resolution.
Jamroskovic J, Deiana M, Sabouri N
Biochimie 199 (-) 81-91 [2022-08-00; online 2022-04-20]
Swedish NMR Centre (SNC) [Service]
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Mosaic Deletions of Known Genes Explain Skeletal Dysplasias With High and Low Bone Mass.
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]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] 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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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]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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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 Compute and Storage [Service] Clinical Genomics Uppsala [Collaborative]
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Anugwom I, Lahtela V, Hedenström M, ..., Kärki T, Kallioinen-Mänttäri M
Glob Chall 6 (8) 2100137 [2022-08-00; online 2022-06-11]
Swedish NMR Centre (SNC) [Collaborative]
DOI Crossref
Ericaceous dwarf shrubs contribute a significant but drought‐sensitive fraction of soil respiration in a boreal pine forest
Mielke LA, Ekblad A, Finlay RD, ..., Lindahl BD, Clemmensen KE
J Ecol 110 (8) 1928-1941 [2022-08-00; online 2022-06-15]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Deep Visual Proteomics defines single-cell identity and heterogeneity.
Mund A, Coscia F, Kriston A, ..., Horvath P, Mann M
Nat. Biotechnol. 40 (8) 1231-1240 [2022-08-00; online 2022-05-19]
Spatial Proteomics [Service]
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De novo spatiotemporal modelling of cell-type signatures in the developmental human heart using graph convolutional neural networks.
Marco Salas S, Yuan X, Sylven C, ..., Wählby C, Partel G
PLoS Comput. Biol. 18 (8) e1010366 [2022-08-00; online 2022-08-12]
BioImage Informatics [Technology development] In Situ Sequencing (ISS) [Collaborative]
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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]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Lundgren E, Romero-Severson E, Albert J, Leitner T
PLoS Comput. Biol. 18 (8) e1009741 [2022-08-00; online 2022-08-26]
Bioinformatics Compute and Storage [Service] Clinical Genomics Stockholm [Service]
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Gramlich S, Liu X, Favre A, Buerkle CA, Karrenberg S
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Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Poorinmohammad N, Fu J, Wabeke B, Kerkhoven EJ
Int J Mol Sci 23 (15) - [2022-07-31; online 2022-07-31]
Glycoproteomics [Service]
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Golparian D, Kittiyaowamarn R, Paopang P, ..., Wi T, Unemo M
J. Antimicrob. Chemother. 77 (8) 2171-2182 [2022-07-28; online 2022-05-12]
Clinical Genomics Örebro [Collaborative]
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Cholleti H, de Jong J, Blomström AL, Berg M
Viruses 14 (8) - [2022-07-28; online 2022-07-28]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Li P, Hendricks AL, Wang Y, ..., Wang K, Gourdon P
Nat Commun 13 (1) 4339 [2022-07-27; online 2022-07-27]
Cryo-EM
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Proc. Biol. Sci. 289 (1979) 20220968 [2022-07-27; online 2022-07-20]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Petkov S, Herrera C, Else L, ..., Fox J, Chiodi F
Front Immunol 13 (-) 965214 [2022-07-27; online 2022-07-27]
Affinity Proteomics Stockholm [Service]
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Rodríguez J, Andersson A, Björn E, ..., Skrobonja A, Rowe O
Front Microbiol 13 (-) 809166 [2022-07-27; online 2022-07-27]
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Cancers (Basel) 14 (15) - [2022-07-22; online 2022-07-22]
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Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Pol T, Hijazi Z, Lindbäck J, ..., Siegbahn A, Wallentin L
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Affinity Proteomics Uppsala [Service]
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Sci Rep 12 (1) 12420 [2022-07-20; online 2022-07-20]
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Slazak B, Jędrzejska A, Badyra B, ..., Andrén PE, Göransson U
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Spatial Mass Spectrometry [Collaborative]
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Al-Amin RA, Muthelo PM, Abdurakhmanov E, ..., Danielson UH, Landegren U
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Drug Discovery and Development (DDD) [Collaborative]
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Schaal W, Ameur A, Olsson-Strömberg U, ..., Cavelier L, Spjuth O
Cancer Inform 21 (-) 11769351221110872 [2022-07-15; online 2022-07-15]
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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Kim SY, Rasmussen U, Rydberg S
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Galectin-9 and Interferon-Gamma Are Released by Natural Killer Cells upon Activation with Interferon-Alpha and Orchestrate the Suppression of Hepatitis C Virus Infection.
Carreca AP, Gaetani M, Busà R, ..., Conaldi PG, Badami E
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Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Collaborative] 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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Haase R, Fazeli E, Legland D, ..., Klemm A, Tischer C
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Selvin T, Fasterius E, Jarvius M, ..., Larsson R, Andersson CR
Sci Rep 12 (1) 11960 [2022-07-13; online 2022-07-13]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Single cell [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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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]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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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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Ultra-sensitive monitoring of leukemia patients using superRCA mutation detection assays.
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Nat Commun 13 (1) 4033 [2022-07-12; online 2022-07-12]
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]
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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]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Hoffman T, Sjödin A, Öhrman C, ..., Lundkvist Å, Olsen B
Microorganisms 10 (7) - [2022-07-11; online 2022-07-11]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Sci Adv 8 (27) eabm5982 [2022-07-08; online 2022-07-08]
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Genetically controlled mtDNA deletions prevent ROS damage by arresting oxidative phosphorylation.
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Autoimmunity and Serology Profiling [Collaborative]
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Kobialka P, Sabata H, Vilalta O, ..., Castillo SD, Graupera M
EMBO Mol Med 14 (7) e15619 [2022-07-07; online 2022-06-13]
Bioinformatics Compute and Storage [Service]
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Quantifying the ion coordination strength in polymer electrolytes.
Andersson R, Hernández G, Mindemark J
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Varg JE, Outomuro D, Kunce W, ..., Svanbäck R, Johansson F
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NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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NGI Short read [Service] NGI Single cell [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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Patient-Specific Assays Based on Whole-Genome Sequencing Data to Measure Residual Disease in Children With Acute Lymphoblastic Leukemia: A Proof of Concept Study.
Arthur C, Rezayee F, Mogensen N, ..., Tham E, Barbany G
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Bioinformatics Compute and Storage [Service] Clinical Genomics Stockholm [Service]
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Glycoproteomics [Collaborative]
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Clinical Genomics Stockholm [Service]
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High-throughput muscle fiber typing from RNA sequencing data.
Oskolkov N, Santel M, Parikh HM, ..., Pääbo S, Hansson O
Skelet Muscle 12 (1) 16 [2022-07-02; online 2022-07-02]
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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Galectin-4 levels in hospitalized versus non-hospitalized subjects with obesity: the Malmö Preventive Project.
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Affinity Proteomics Uppsala [Service]
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Hafstað V, Søkilde R, Häkkinen J, ..., Rovira C, Persson H
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Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Ellerstrand SJ, Choudhury S, Svensson K, ..., Hansson B, Runemark A
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Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Suppressors of amyloid-β toxicity improve recombinant protein production in yeast by reducing oxidative stress and tuning cellular metabolism.
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Metab. Eng. 72 (-) 311-324 [2022-07-00; online 2022-05-01]
Glycoproteomics [Service]
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Mercury–Selenium Accumulation Patterns in Muscle Tissue of Two Freshwater Fish Species, Eurasian Perch (Perca fluviatilis) and Vendace (Coregonus albula)
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Water Air Soil Pollut 233 (7) - [2022-07-00; online 2022-06-20]
Bioinformatics Support, Infrastructure and Training [Collaborative]
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Longitudinal assessment of inflammatory markers in the peripartum period by depressive symptom trajectory groups.
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Brain Behav Immun Health 22 (-) 100468 [2022-07-00; online 2022-05-02]
Affinity Proteomics Stockholm [Service]
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Inactivation of the entire Arabidopsis group II GH3s confers tolerance to salinity and water deficit.
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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 Compute and Storage [Service]
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Blom K, Marking U, Havervall S, ..., Klingström J, Thålin C
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Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
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Bergström A, Stanton DWG, Taron UH, ..., Dalén L, Skoglund P
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Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Grahn A, Eisfeldt J, Malm C, ..., Tham E, Brehmer M
BJU Int. 130 (1) 92-101 [2022-07-00; online 2021-08-29]
Bioinformatics Compute and Storage [Service] Clinical Genomics Stockholm [Service]
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Kurland S, Rafati N, Ryman N, Laikre L
Ecol Evol 12 (7) e9050 [2022-07-00; online 2022-07-03]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Clinical Genomics Uppsala [Service]
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Glycoproteomics [Service] Integrated Microscopy Technologies Gothenburg [Collaborative]
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Drug Discovery and Development (DDD) [Collaborative]
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Allorecognition genes drive reproductive isolation in Podospora anserina.
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Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Integrated Microscopy Technologies Stockholm [Collaborative]
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PubMed DOI Crossref
A high content screening assay for discovery of antimycobacterial compounds based on primary human macrophages infected with virulent Mycobacterium tuberculosis.
Kalsum S, Otrocka M, Andersson B, ..., Lundbäck T, Lerm M
Tuberculosis 135 (-) 102222 [2022-07-00; online 2022-06-16]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Evidence for further non-coding RNA genes in the fungal rDNA region
Rosenblad MA, Larsson E, Walker A, ..., Wurzbacher C, Nilsson RH
MycoKeys 90 (-) 203-213 [2022-06-30; online 2022-06-30]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Reconstruction of a catalogue of genome-scale metabolic models with enzymatic constraints using GECKO 2.0.
Domenzain I, Sánchez B, Anton M, ..., Sonnenschein N, Nielsen J
Nat Commun 13 (1) 3766 [2022-06-30; online 2022-06-30]
Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
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Niche partitioning between planktivorous fish in the pelagic Baltic Sea assessed by DNA metabarcoding, qPCR and microscopy.
Novotny A, Jan KMG, Dierking J, Winder M
Sci Rep 12 (1) 10952 [2022-06-29; online 2022-06-29]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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High prevalence of somatic PIK3CA and TP53 pathogenic variants in the normal mammary gland tissue of sporadic breast cancer patients revealed by duplex sequencing.
Kostecka A, Nowikiewicz T, Olszewski P, ..., Dumanski JP, Piotrowski A
NPJ Breast Cancer 8 (1) 76 [2022-06-29; online 2022-06-29]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Serine Protease Inhibitors Restrict Host Susceptibility to SARS-CoV-2 Infections.
Rosendal E, Mihai IS, Becker M, ..., Överby AK, Lenman A
MBio 13 (3) e0089222 [2022-06-28; online 2022-05-09]
Affinity Proteomics Uppsala [Service] Bioinformatics Compute and Storage [Service] Microbial Single Cell Genomics [Service]
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Lempart M, Nilsson MP, Scherman J, ..., Munck Af Rosenschöld P, Olsson LE
Radiat Oncol 17 (1) 114 [2022-06-28; online 2022-06-28]
AIDA Data Hub [Service]
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Molecular International Prognostic Scoring System for Myelodysplastic Syndromes
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NEJM Evidence 1 (7) - [2022-06-28; online 2022-06-28]
Clinical Genomics Uppsala [Service]
PubMed DOI Crossref
Metatranscriptomics captures dynamic shifts in mycorrhizal coordination in boreal forests.
Law SR, Serrano AR, Daguerre Y, ..., Street NR, Hurry V
Proc. Natl. Acad. Sci. U.S.A. 119 (26) e2118852119 [2022-06-28; online 2022-06-21]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] National Genomics Infrastructure [Service]
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Immunological differences between heart- and kidney-transplanted children: a cross-sectional study.
Ekman-Joelsson BM, Brandström P, Allén M, ..., Mellgren K, Ekwall O
Cardiol Young - (-) 1-6 [2022-06-24; online 2022-06-24]
Clinical Genomics Gothenburg [Service]
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Non-coding 7S RNA inhibits transcription via mitochondrial RNA polymerase dimerization.
Zhu X, Xie X, Das H, ..., Hällberg BM, Falkenberg M
Cell 185 (13) 2309-2323.e24 [2022-06-23; online 2022-06-02]
Integrated Microscopy Technologies Gothenburg [Service]
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Ultrafast and selective labeling of endogenous proteins using affinity-based benzotriazole chemistry.
Xin X, Zhang Y, Gaetani M, ..., Corkery DP, Wu Y
Chem. Sci. 13 (24) 7240-7246 [2022-06-22; online 2022-05-30]
Chemical Proteomics [Service]
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Evaluation of within-host evolution of methicillin-resistant Staphylococcus aureus (MRSA) by comparing cgMLST and SNP analysis approaches.
Lagos AC, Sundqvist M, Dyrkell F, ..., Söderquist B, Mölling P
Sci Rep 12 (1) 10541 [2022-06-22; online 2022-06-22]
Clinical Genomics Örebro [Collaborative]
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mafba and mafbb differentially regulate lymphatic endothelial cell migration in topographically distinct manners.
Arnold H, Panara V, Hußmann M, ..., Schulte-Merker S, Koltowska K
Cell Rep 39 (12) 110982 [2022-06-21; online 2022-06-23]
BioImage Informatics [Collaborative] Genome Engineering Zebrafish [Service]
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The immune cell atlas of human neuroblastoma
Verhoeven BM, Mei S, Olsen TK, ..., Johnsen JI, Baryawno N
Cell Reports Medicine 3 (6) 100657 [2022-06-21; online 2022-06-00]
Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service] Spatial Proteomics [Service]
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Screening for Biomarkers Associated with Left Ventricular Function During Follow-up After Acute Coronary Syndrome.
Christersson C, Baron T, Flachskampf F, ..., Lindahl B, Siegbahn A
J. of Cardiovasc. Trans. Res. - (-) - [2022-06-21; online 2022-06-21]
Affinity Proteomics Uppsala [Service]
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Membrane insertion mechanism of the caveola coat protein Cavin1.
Liu KC, Pace H, Larsson E, ..., Hubert M, Lundmark R
Proc. Natl. Acad. Sci. U.S.A. 119 (25) e2202295119 [2022-06-21; online 2022-06-13]
Bioinformatics Compute and Storage [Service]
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MYCN induces cell-specific tumorigenic growth in RB1-proficient human retinal organoid and chicken retina models of retinoblastoma.
Blixt MKE, Hellsand M, Konjusha D, ..., Ring H, Hallböök F
Oncogenesis 11 (1) 34 [2022-06-21; online 2022-06-21]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] 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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Immune gene expression in the mosquito vector <i>Culex quinquefasciatus</i> during an avian malaria infection
García-Longoria L, Ahrén D, Berthomieu A, ..., Rivero A, Hellgren O
- - (-) - [2022-06-16; online 2022-06-16]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Genetic loci and prioritization of genes for kidney function decline derived from a meta-analysis of 62 longitudinal genome-wide association studies.
Gorski M, Rasheed H, Teumer A, ..., Kronenberg F, Heid IM
Kidney Int. - (-) - [2022-06-16; online 2022-06-16]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Structural basis of rapid actin dynamics in the evolutionarily divergent Leishmania parasite.
Kotila T, Wioland H, Selvaraj M, ..., Romet-Lemonne G, Lappalainen P
Nat Commun 13 (1) 3442 [2022-06-15; online 2022-06-15]
Cryo-EM [Service]
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Molecular profiling of stem cell-derived retinal pigment epithelial cell differentiation established for clinical translation.
Petrus-Reurer S, Lederer AR, Baqué-Vidal L, ..., La Manno G, Lanner F
Stem Cell Reports 17 (6) 1458-1475 [2022-06-14; online 2022-06-16]
NGI Short read [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.
Konstantinidis E, Molisak A, Perrin F, ..., Berezovska O, Ingelsson M
Mol Ther Nucleic Acids 28 (-) 450-461 [2022-06-14; online 2022-03-28]
NGI Short read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Kutschera VE, Kierczak M, van der Valk T, ..., Dalén L, Díez-Del-Molino D
BMC Bioinformatics 23 (1) 228 [2022-06-13; online 2022-06-13]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
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Differential and shared genetic effects on kidney function between diabetic and non-diabetic individuals.
Winkler TW, Rasheed H, Teumer A, ..., Pattaro C, Heid IM
Commun Biol 5 (1) 580 [2022-06-13; online 2022-06-13]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Rabe P, Gehmlich M, Peters A, ..., Nordström A, Stäubert C
Discov Oncol 13 (1) 47 [2022-06-13; online 2022-06-13]
Swedish Metabolomics Centre (SMC) [Collaborative]
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Lindelöf H, Horemuzova E, Voss U, ..., Grigelioniene G, Hammarsjö A
Front Endocrinol (Lausanne) 13 (-) 862908 [2022-06-13; online 2022-06-13]
Clinical Genomics Stockholm [Service]
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Asgard archaea shed light on the evolutionary origins of the eukaryotic ubiquitin-ESCRT machinery.
Hatano T, Palani S, Papatziamou D, ..., Robinson NP, Balasubramanian M
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Bioinformatics Compute and Storage [Service]
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Seidel L, Broman E, Ståhle M, ..., Hylander S, Dopson M
Front Microbiol 13 (-) 873281 [2022-06-10; online 2022-06-10]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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FOXO1 and FOXO3 Cooperatively Regulate Innate Lymphoid Cell Development.
Luu TT, Søndergaard JN, Peña-Pérez L, ..., Månsson R, Kadri N
Front Immunol 13 (-) 854312 [2022-06-09; online 2022-06-09]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Suarez C, Sedlacek CJ, Gustavsson DJI, ..., Hermansson M, Persson F
NPJ Biofilms Microbiomes 8 (1) 47 [2022-06-08; online 2022-06-08]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Bioarchaeological evidence of one of the earliest Islamic burials in the Levant.
Srigyan M, Bolívar H, Ureña I, ..., Günther T, Valdiosera C
Commun Biol 5 (1) 554 [2022-06-07; online 2022-06-07]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Developmental landscape of human forebrain at a single-cell level identifies early waves of oligodendrogenesis.
van Bruggen D, Pohl F, Langseth CM, ..., Sundström E, Castelo-Branco G
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Bioinformatics Compute and Storage [Service] In Situ Sequencing (ISS) [Collaborative] NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Östling J, Van Geest M, Olsson HK, ..., Mirgorodskaya E, Olin AC
Clin Proteomics 19 (1) 20 [2022-06-06; online 2022-06-06]
Glycoproteomics [Collaborative]
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LymphoTrack Is Equally Sensitive as PCR GeneScan and Sanger Sequencing for Detection of Clonal Rearrangements in ALL Patients.
Paulsen K, Marincevic M, Cavelier L, Hollander P, Amini RM
Diagnostics 12 (6) - [2022-06-04; online 2022-06-04]
Clinical Genomics Uppsala [Technology development]
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Applicability of polygenic risk scores in endometriosis clinical presentation.
Svensson A, Garcia-Etxebarria K, Åkesson A, ..., D'Amato M, Ohlsson B
BMC Womens Health 22 (1) 208 [2022-06-03; online 2022-06-03]
Affinity Proteomics Uppsala [Service]
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Scand. J. Immunol. - (-) e13195 [2022-06-02; online 2022-06-02]
Affinity Proteomics Stockholm [Service]
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Secondary resistance to idelalisib is characterized by upregulation of IGF1R rather than by MAPK/ERK pathway mutations.
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Blood 139 (22) 3340-3344 [2022-06-02; online 2022-04-05]
Clinical Genomics Uppsala [Service]
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C1QTNF3 is Upregulated During Subcutaneous Adipose Tissue Remodeling and Stimulates Macrophage Chemotaxis and M1-Like Polarization.
Micallef P, Vujičić M, Wu Y, ..., Cardell SL, Wernstedt Asterholm I
Front Immunol 13 (-) 914956 [2022-06-02; online 2022-06-02]
Clinical Genomics Gothenburg [Service]
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Accelerated epigenetic aging in suicide attempters uninfluenced by high intent-to-die and choice of lethal methods.
Jokinen J, Andersson P, Chatzittofis A, ..., Åsberg M, Boström ADE
Transl Psychiatry 12 (1) 224 [2022-06-02; online 2022-06-02]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Scipion-ED: a graphical user interface for batch processing and analysis of 3D ED/MicroED data.
Bengtsson VEG, Pacoste L, de la Rosa-Trevin JM, ..., Zou X, Xu H
J Appl Crystallogr 55 (Pt 3) 638-646 [2022-06-01; online 2022-04-22]
Cryo-EM [Technology development]
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Robust derivation of transplantable dopamine neurons from human pluripotent stem cells by timed retinoic acid delivery.
Alekseenko Z, Dias JM, Adler AF, ..., Parmar M, Ericson J
Nat Commun 13 (1) 3046 [2022-06-01; online 2022-06-01]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mutation in the TACI gene and autoimmune neutropenia: A case report.
Bergman P, Broliden PA, Ratcliffe P, ..., Höglund P, Palmblad J
Am. J. Hematol. 97 (6) E207-E210 [2022-06-01; online 2022-03-26]
Clinical Genomics Stockholm [Service]
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Identification of Antibiotic Resistance Proteins via MiCId's Augmented Workflow. A Mass Spectrometry-Based Proteomics Approach.
Alves G, Ogurtsov A, Karlsson R, ..., Moore ERB, Yu Y
J. Am. Soc. Mass Spectrom. 33 (6) 917-931 [2022-06-01; online 2022-05-02]
Clinical Genomics Gothenburg [Collaborative] Glycoproteomics [Service]
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The mosaic oat genome gives insights into a uniquely healthy cereal crop.
Kamal N, Tsardakas Renhuldt N, Bentzer J, ..., Spannagl M, Sirijovski N
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Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The HDAC9-associated risk locus promotes coronary artery disease by governing TWIST1.
Ma L, Bryce NS, Turner AW, ..., Björkegren JLM, Kovacic JC
PLoS Genet. 18 (6) e1010261 [2022-06-00; online 2022-06-17]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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TGFβ selects for pro-stemness over pro-invasive phenotypes during cancer cell epithelial-mesenchymal transition.
Tsubakihara Y, Ohata Y, Okita Y, ..., Heldin CH, Moustakas A
Mol Oncol 16 (12) 2330-2354 [2022-06-00; online 2022-04-10]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Site-specific N-glycan profiles of α5 β1 integrin from rat liver.
Mirgorodskaya E, Dransart E, Shafaq-Zadah M, ..., Leffler H, Johannes L
Biol Cell 114 (6) 160-176 [2022-06-00; online 2022-03-31]
Glycoproteomics [Collaborative]
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Single base substitution and insertion/deletion mutational signatures in adult core binding factor acute myeloid leukemia.
Gunnarsson R, Yang M, Biloglav A, ..., Paulsson K, Johansson B
Leukemia 36 (6) 1681-1684 [2022-06-00; online 2022-04-01]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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PatientMatcher: A customizable Python-based open-source tool for matching undiagnosed rare disease patients via the Matchmaker Exchange network.
Rasi C, Nilsson D, Magnusson M, ..., Wirta V, Stranneheim H
Hum. Mutat. 43 (6) 708-716 [2022-06-00; online 2022-03-07]
Clinical Genomics Stockholm [Technology development]
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No association in maternal serum levels of TMAO and its precursors in pre-eclampsia and in non-complicated pregnancies.
Jääskeläinen T, Kärkkäinen O, Heinonen S, Hanhineva K, Laivuori H
Pregnancy Hypertens 28 (-) 74-80 [2022-06-00; online 2022-02-26]
Swedish Metabolomics Centre (SMC) [Service]
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Metabolomic profiles of mid-trimester amniotic fluid are not associated with subsequent spontaneous preterm delivery or gestational duration at delivery.
Hallingström M, Barman M, Savolainen O, ..., Brunius C, Jacobsson B
J Matern Fetal Neonatal Med 35 (11) 2054-2062 [2022-06-00; online 2020-06-16]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Mechanism of mitoribosomal small subunit biogenesis and preinitiation.
Itoh Y, Khawaja A, Laptev I, ..., Rorbach J, Amunts A
Nature 606 (7914) 603-608 [2022-06-00; online 2022-06-08]
Cryo-EM [Service] Global Proteomics and Proteogenomics [Service]
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Johansson J, Frykholm C, Ericson K, ..., Bondeson ML, Wilbe M
Am. J. Med. Genet. A 188 (6) 1676-1687 [2022-06-00; online 2022-02-15]
Bioinformatics Compute and Storage [Service] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Improving lithium dose prediction using population pharmacokinetics and pharmacogenomics: a cohort genome-wide association study in Sweden
Millischer V, Matheson GJ, Bergen SE, ..., Lavebratt C, Schalling M
The Lancet Psychiatry 9 (6) 447-457 [2022-06-00; online 2022-06-00]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Higher levels of Bifidobacteria and tumor necrosis factor in children with drug-resistant epilepsy are associated with anti-seizure response to the ketogenic diet.
Dahlin M, Singleton SS, David JA, ..., Mazumder R, Prast-Nielsen S
EBioMedicine 80 (-) 104061 [2022-06-00; online 2022-05-19]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genetic determinants of mannose-binding lectin activity predispose to thromboembolic complications in critical COVID-19.
Hultström M, Frithiof R, Grip J, ..., Zeberg H, Eriksson O
Nat. Immunol. 23 (6) 861-864 [2022-06-00; online 2022-05-27]
Bioinformatics Compute and Storage [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Extensively drug-resistant (XDR) Neisseria gonorrhoeae causing possible gonorrhoea treatment failure with ceftriaxone plus azithromycin in Austria, April 2022.
Pleininger S, Indra A, Golparian D, ..., Heidler S, Unemo M
Euro Surveill. 27 (24) - [2022-06-00; online 2022-06-18]
Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Do cold weather temperatures affect the efficacy of skin decontamination?
Thors L, Wästerby P, Wigenstam E, ..., Öberg L, Bucht A
J Appl Toxicol 42 (6) 961-969 [2022-06-00; online 2021-12-01]
Swedish NMR Centre (SNC) [Service]
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Dataset on seston and zooplankton fatty-acid compositions, zooplankton and phytoplankton biomass, and environmental conditions of coastal and offshore waters of the northern Baltic Sea.
Bandara T, Brugel S, Andersson A, Lau DCP
Data Brief 42 (-) 108158 [2022-06-00; online 2022-04-10]
Swedish Metabolomics Centre (SMC) [Service]
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Dataset for suppressors of amyloid-β toxicity and their functions in recombinant protein production in yeast.
Chen X, Li X, Ji B, ..., Siewers V, Engqvist MKM
Data Brief 42 (-) 108322 [2022-06-00; online 2022-05-27]
Glycoproteomics [Service]
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Comparative structural analysis provides new insights into the function of R2-like ligand-binding oxidase.
Diamanti R, Srinivas V, Johansson AI, ..., Lebrette H, Högbom M
FEBS Lett. 596 (12) 1600-1610 [2022-06-00; online 2022-03-04]
Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
Chronic Obstructive Pulmonary Disease Is Associated with Epigenome-Wide Differential Methylation in BAL Lung Cells.
Eriksson Ström J, Kebede Merid S, Pourazar J, ..., Behndig AF, Melén E
Am J Respir Cell Mol Biol 66 (6) 638-647 [2022-06-00; online 2022-03-15]
Bioinformatics Compute and Storage [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Childhood overweight and risk of obesity-related adult cancer in men.
Célind J, Bygdell M, Martikainen J, Ohlsson C, Kindblom JM
Cancer Commun (Lond) 42 (6) 576-579 [2022-06-00; online 2022-04-08]
Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Ancient DNA from a 2700-year-old goitered gazelle (Gazella subgutturosa) supports gazelle hunting in Iron Age Central Asia.
Rodrigues Soares AE, Boroffka N, Schröder O, ..., Benecke N, Günther T
R. Soc. open sci. 9 (6) 220104 [2022-06-00; online 2022-06-15]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Accumulation dynamics of ARGONAUTE proteins during meiosis in Arabidopsis.
Oliver C, Martinez G
Plant Reprod 35 (2) 153-160 [2022-06-00; online 2021-11-23]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
A new transgenic reporter line reveals expression of protocadherin 9 at a cellular level within the zebrafish central nervous system.
Habicher J, Manuel R, Pedroni A, ..., Ampatzis K, Boije H
Gene Expr Patterns 44 (-) 119246 [2022-06-00; online 2022-04-12]
Genome Engineering Zebrafish [Collaborative]
PubMed DOI Crossref
A breathing mask attenuates acute airway responses to exercise in sub-zero environment in healthy subjects.
Stenfors N, Persson H, Tutt A, ..., Ainegren M, Hanstock HG
Eur J Appl Physiol 122 (6) 1473-1484 [2022-06-00; online 2022-04-07]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Development of gut microbiota during the first 2 years of life.
Wernroth ML, Peura S, Hedman AM, ..., Dicksved J, Fall T
Sci Rep 12 (1) 9080 [2022-05-31; online 2022-05-31]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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An empirical evaluation of genotype imputation of ancient DNA.
Ausmees K, Sanchez-Quinto F, Jakobsson M, Nettelblad C
G3 (Bethesda) 12 (6) - [2022-05-30; online 2022-04-29]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Nitrogen represses haustoria formation through abscisic acid in the parasitic plant Phtheirospermum japonicum.
Kokla A, Leso M, Zhang X, ..., Yoshida S, Melnyk CW
Nat Commun 13 (1) 2976 [2022-05-27; online 2022-05-27]
Bioinformatics Compute and Storage [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
The long noncoding RNA ADIPINT regulates human adipocyte metabolism via pyruvate carboxylase.
Kerr AG, Wang Z, Wang N, ..., Arner P, Gao H
Nat Commun 13 (1) 2958 [2022-05-26; online 2022-05-26]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Inflammation and Interferon Signatures in Peripheral B-Lymphocytes and Sera of Individuals With Fibromyalgia.
Fineschi S, Klar J, Gustafsson KA, ..., Karlsson B, Dahl N
Front Immunol 13 (-) 874490 [2022-05-26; online 2022-05-26]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [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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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 [2022-05-25; online 2022-05-25]
In Situ Sequencing (ISS) [Service]
PubMed DOI Crossref
Pregnancy outcomes with differences in grain consumption: a randomized controlled trial.
Yamada P, Paetow A, Chan M, ..., Landberg R, Young BK
J Perinat Med 50 (4) 411-418 [2022-05-25; online 2022-01-03]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
Nitrogen Removal Capacity of Microbial Communities Developing in Compost- and Woodchip-Based Multipurpose Reactive Barriers for Aquifer Recharge With Wastewater.
Hellman M, Valhondo C, Martínez-Landa L, ..., Juhanson J, Hallin S
Front Microbiol 13 (-) 877990 [2022-05-24; online 2022-05-24]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Challenges in Analyzing Functional Epigenetic Data in Perspective of Adolescent Psychiatric Health.
Manu DM, Mwinyi J, Schiöth HB
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]
PubMed DOI Crossref
Quantitative Analysis of the Transcriptome of Two Commonly Used Human Monocytic Cell Lines-THP-1 and Mono Mac 6-Reveals Their Arrest during Early Monocyte/Neutrophil Differentiation.
Akula S, Lara S, Olsson AK, Hellman L
Int J Mol Sci 23 (10) - [2022-05-22; online 2022-05-22]
NGI Short read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Ultrastructure and nuclear architecture of telomeric chromatin revealed by correlative light and electron microscopy.
Hübner B, von Otter E, Ahsan B, ..., Ludwig A, Sandin S
Nucleic Acids Res. 50 (9) 5047-5063 [2022-05-20; online 2022-05-01]
Integrated Microscopy Technologies Umeå [Technology development]
PubMed DOI Crossref
Touch signaling and thigmomorphogenesis are regulated by complementary CAMTA3- and JA-dependent pathways.
Darwish E, Ghosh R, Ontiveros-Cisneros A, ..., Khan K, Van Aken O
Sci Adv 8 (20) eabm2091 [2022-05-20; online 2022-05-20]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Environmentally induced DNA methylation is inherited across generations in an aquatic keystone species.
Feiner N, Radersma R, Vasquez L, ..., Heijmans BT, Uller T
iScience 25 (5) 104303 [2022-05-20; online 2022-04-25]
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PubMed DOI Crossref
Role of endogenous incretins in the regulation of postprandial lipoprotein metabolism.
Taskinen MR, Matikainen N, Björnson E, ..., Packard CJ, Borén J
Eur. J. Endocrinol. 187 (1) 75-84 [2022-05-19; online 2022-05-19]
Glycoproteomics [Service]
PubMed DOI Crossref
Critical role of Lama4 for hematopoiesis regeneration and acute myeloid leukemia progression.
Cai H, Kondo M, Sandhow L, ..., Ekblom M, Qian H
Blood 139 (20) 3040-3057 [2022-05-19; online 2021-12-28]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Spatial Resolution of Mycobacterium tuberculosis Bacteria and Their Surrounding Immune Environments Based on Selected Key Transcripts in Mouse Lungs.
Magoulopoulou A, Qian X, Pediatama Setiabudiawan T, ..., Nilsson M, Carow B
Front Immunol 13 (-) 876321 [2022-05-18; online 2022-05-18]
In Situ Sequencing (ISS) [Collaborative]
PubMed DOI Crossref
Generalisation effects of predictive uncertainty estimation in deep learning for digital pathology.
Pocevičiūtė M, Eilertsen G, Jarkman S, Lundström C
Sci Rep 12 (1) 8329 [2022-05-18; online 2022-05-18]
AIDA Data Hub [Service]
PubMed DOI Crossref
DGAT1 activity synchronises with mitophagy to protect cells from metabolic rewiring by iron depletion.
Long M, Sanchez-Martinez A, Longo M, ..., Whitworth AJ, McWilliams TG
EMBO J. 41 (10) e109390 [2022-05-16; online 2022-04-12]
Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
A nucleotide-sensing oligomerization mechanism that controls NrdR-dependent transcription of ribonucleotide reductases.
Rozman Grinberg I, Martínez-Carranza M, Bimai O, ..., Sjöberg BM, Stenmark P
Nat Commun 13 (1) 2700 [2022-05-16; online 2022-05-16]
Cryo-EM [Service]
DOI Crossref
A nucleotide-sensing oligomerization mechanism that controls NrdR-dependent transcription of ribonucleotide reductases
Rozman Grinberg I, Martínez-Carranza M, Bimai O, ..., Sjöberg BM, Stenmark P
Nat Commun 13 (1) - [2022-05-16; online 2022-05-16]
Cryo-EM [Service]
PubMed DOI Crossref
Early Bactericidal Activity of Meropenem plus Clavulanate (with or without Rifampin) for Tuberculosis: The COMRADE Randomized, Phase 2A Clinical Trial.
De Jager V, Gupte N, Nunes S, ..., Diacon AH, Dooley KE
Am. J. Respir. Crit. Care Med. 205 (10) 1228-1235 [2022-05-15; online 2022-03-09]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Optimized sample preparation and data analysis for TMT proteomic analysis of cerebrospinal fluid applied to the identification of Alzheimer's disease biomarkers.
Weiner S, Sauer M, Visser PJ, ..., Zetterberg H, Gobom J
Clin Proteomics 19 (1) 13 [2022-05-14; online 2022-05-14]
Glycoproteomics [Collaborative]
PubMed DOI Crossref
Direct RNA targeted in situ sequencing for transcriptomic profiling in tissue.
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 Compute and Storage [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 Compute and Storage [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 Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [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 [Service]
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 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 Compute and Storage [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 Compute and Storage [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 Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] 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 M, Johansson A, 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 Compute and Storage [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 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 Compute and Storage [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, None , SUNDMAN O, None
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 Compute and Storage [Service] 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
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 Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] 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]
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 Res 61 (-) 102752 [2022-05-00; online 2022-03-14]
Glycoproteomics [Service]
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 Compute and Storage [Service] NGI Short read [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 [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 L, Harandi AM
Mol. Immunol. 145 (-) 17-26 [2022-05-00; online 2022-03-04]
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
Prenatal exposure to phthalates and peripheral blood and buccal epithelial DNA methylation in infants: An epigenome-wide association study.
England-Mason G, Merrill SM, Gladish N, ..., Dewey D, APrON Study Team
Environ Int 163 (-) 107183 [2022-05-00; online 2022-03-21]
Exposomics [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 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 Compute and Storage [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 Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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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 Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] 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 Compute and Storage [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]
Bioinformatics Compute and Storage [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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 Stockholm [Service]
PubMed DOI Crossref
Epicardium-derived cells organize through tight junctions to replenish cardiac muscle in salamanders.
Eroglu E, Yen CYT, Tsoi Y, ..., Simon A, Chien KR
Nat Cell Biol 24 (5) 645-658 [2022-05-00; online 2022-05-12]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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 Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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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 Compute and Storage [Service]
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 Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] 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 Compute and Storage [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 Compute and Storage [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 [Service]
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]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
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]
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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]
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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]
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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]
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Moškrič A, Marinč A, Ferk P, ..., Soler L, Prešern J
Insects 13 (5) 403 [2022-04-22; online 2022-04-22]
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Gubat J, Selvaraju K, Sjöstrand L, ..., Linder S, D'Arcy P
Front Oncol 12 (-) 852980 [2022-04-22; online 2022-04-22]
Bioinformatics Compute and Storage [Service]
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Kelly JJ, Tranter D, Pardon E, ..., Huiskonen JT, Yue WW
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Structural Proteomics [Collaborative]
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Zalem D, Juhás M, Terrinoni M, ..., Connell TD, Teneberg S
Glycobiology 32 (5) 391-403 [2022-04-21; online 2022-01-02]
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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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Lautenbach MJ, Yman V, Silva CS, ..., Färnert A, Sundling C
Cell Rep 39 (3) 110709 [2022-04-19; online 2022-04-21]
Affinity Proteomics Stockholm [Service]
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Cansby E, Kumari S, Caputo M, ..., Goncalves I, Mahlapuu M
Commun Biol 5 (1) 379 [2022-04-19; online 2022-04-19]
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Vaca DJ, Thibau A, Leisegang MS, ..., Happonen L, Kempf VAJ
Microbiol Spectr - (-) e0059822 [2022-04-18; online 2022-04-18]
Structural Proteomics [Collaborative]
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Havervall S, Marking U, Greilert-Norin N, ..., Åberg M, Thålin C
Clin Transl Immunology 11 (4) e1388 [2022-04-18; online 2022-04-18]
Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
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Iversen KN, Dicksved J, Zoki C, ..., Langton M, Landberg R
Nutrients 14 (8) - [2022-04-17; online 2022-04-17]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Zenere A, Rundquist O, Gustafsson M, Altafini C
iScience 25 (4) 104048 [2022-04-15; online 2022-03-11]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Shakeri Yekta S, Elreedy A, Liu T, ..., Fujii M, Schnürer A
Sci. Total Environ. 817 (-) 152967 [2022-04-15; online 2022-01-10]
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Carlsson H, Vaivade A, Emami Khoonsari P, Burman J, Kultima K
Journal of Chromatography B 1195 (-) 123200 [2022-04-15; online 2022-02-28]
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Haj-Hosseini N, Lindblad J, Hasséus B, ..., Subramaniam N, Hirsch JM
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AIDA Data Hub [Service]
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Xu Y, Gao C, Andreasson M, ..., Andréasson J, Grøtli M
Eur J Med Chem 234 (-) 114226 [2022-04-15; online 2022-03-10]
Chemical Biology Consortium Sweden (CBCS) [Service]
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Jacobsson S, Golparian D, Oxelbark J, ..., Drusano G, Unemo M
Front Pharmacol 13 (-) 874176 [2022-04-14; online 2022-04-14]
Clinical Genomics Örebro [Collaborative]
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Boström ADE, Andersson P, Chatzittofis A, ..., Arver S, Jokinen J
Psychoneuroendocrinology 141 (-) 105765 [2022-04-14; online 2022-04-14]
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Lindgren C, Forsgren N, Hoster N, ..., Ekström F, Linusson A
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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Development and Optimization of a Silica Column-Based Extraction Protocol for Ancient DNA.
Dehasque M, Pečnerová P, Kempe Lagerholm V, ..., Vartanyan S, Dalén L
Genes 13 (4) - [2022-04-13; online 2022-04-13]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Basal ganglia neuropeptides show abnormal processing associated with L-DOPA-induced dyskinesia.
Hulme H, Fridjonsdottir E, Vallianatou T, ..., Bezard E, Andrén PE
NPJ Parkinsons Dis 8 (1) 41 [2022-04-13; online 2022-04-13]
Spatial Mass Spectrometry [Technology development]
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Conflict over the eukaryote root resides in strong outliers, mosaics and missing data sensitivity of site-specific (CAT) mixture models.
Al Jewari C, Baldauf SL
Syst. Biol. - (-) - [2022-04-12; online 2022-04-12]
Bioinformatics Compute and Storage [Service]
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Transposon activity, local duplications and propagation of structural variants across haplotypes drive the evolution of the Drosophila S2 cell line.
Lewerentz J, Johansson A, Larsson J, Stenberg P
BMC Genomics 23 (1) 276 [2022-04-07; online 2022-04-07]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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scSPLAT, a scalable plate-based protocol for single cell WGBS library preparation.
Raine A, Lundmark A, Annett A, ..., Bergin C, Nordlund J
Sci Rep 12 (1) 5772 [2022-04-06; online 2022-04-06]
Bioinformatics Compute and Storage [Service] Microbial Single Cell Genomics NGI Single cell [Technology development] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]
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Structural basis for PoxtA-mediated resistance to phenicol and oxazolidinone antibiotics.
Crowe-McAuliffe C, Murina V, Turnbull KJ, ..., Wilson DN, Hauryliuk V
Nat Commun 13 (1) 1860 [2022-04-06; online 2022-04-06]
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Epigenomic priming of immune genes implicates oligodendroglia in multiple sclerosis susceptibility.
Meijer M, Agirre E, Kabbe M, ..., Malhotra D, Castelo-Branco G
Neuron 110 (7) 1193-1210.e13 [2022-04-06; online 2022-01-31]
Bioinformatics Compute and Storage [Service] Eukaryotic Single Cell Genomics (ESCG) [Service]
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Direct measurements of mRNA translation kinetics in living cells.
Metelev M, Lundin E, Volkov IL, ..., Elf J, Johansson M
Nat Commun 13 (1) 1852 [2022-04-06; online 2022-04-06]
Bioinformatics Compute and Storage [Service]
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SLC38A10 Regulate Glutamate Homeostasis and Modulate the AKT/TSC2/mTOR Pathway in Mouse Primary Cortex Cells.
Tripathi R, Aggarwal T, Lindberg FA, Klemm AH, Fredriksson R
Front Cell Dev Biol 10 (-) 854397 [2022-04-05; online 2022-04-05]
Autoimmunity and Serology Profiling [Service] Swedish Metabolomics Centre (SMC) [Service]
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Well-Plate μFASP for Proteomic Analysis of Single Pancreatic Islets.
Sandbaumhüter FA, Nezhyva M, Eriksson O, ..., Andrén PE, Jansson ET
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Spatial Mass Spectrometry [Technology development]
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Uterine fluid microRNAs are dysregulated in women with recurrent implantation failure.
von Grothusen C, Frisendahl C, Modhukur V, ..., Boggavarapu NR, Gemzell-Danielsson K
Hum. Reprod. 37 (4) 734-746 [2022-04-01; online 2022-02-12]
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Nair S, Leverin AL, Rocha-Ferreira E, ..., Mallard C, Hagberg H
Cells 11 (7) - [2022-04-01; online 2022-04-01]
Integrated Microscopy Technologies Gothenburg [Service]
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Glycoproteomic and Phenotypic Elucidation of B4GALNT2 Expression Variants in the SID Histo-Blood Group System.
Stenfelt L, Nilsson J, Hellberg Å, ..., Larson G, Olsson ML
Int J Mol Sci 23 (7) - [2022-04-01; online 2022-04-01]
Glycoproteomics [Collaborative]
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Two structural types of dithiocarbamato-chlorido complexes of mercury(II): Preparation, supramolecular self-assembly, solid-state 13C and 15N NMR characterisation and thermal behaviour of pseudo-polymeric compounds of [Hg2(S2CNBu2)2Cl2] and [Hg4(S2CNiBu2)6][Hg2Cl6]
Loseva OV, Rodina TA, Shah FU, ..., Antzutkin ON, Ivanov AV
Inorganica Chimica Acta 533 (-) 120786 [2022-04-00; online 2022-04-00]
Swedish NMR Centre (SNC) [Service]
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Svennerstam H, Jämtgård S
New Phytol. 234 (1) 311-318 [2022-04-00; online 2022-02-02]
Swedish Metabolomics Centre (SMC) [Service]
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Target sequence capture of Barnadesioideae (Compositae) demonstrates the utility of low coverage loci in phylogenomic analyses.
Ferreira PdL, Batista R, Andermann T, ..., Bacon CD, Antonelli A
Mol. Phylogenet. Evol. 169 (-) 107432 [2022-04-00; 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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Multiomics Analysis Reveals the Impact of Microbiota on Host Metabolism in Hepatic Steatosis.
Zeybel M, Arif M, Li X, ..., Borén J, Mardinoglu A
Adv Sci (Weinh) 9 (11) e2104373 [2022-04-00; online 2022-02-07]
Affinity Proteomics Stockholm [Service]
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Multidisciplinary investigation reveals an individual of West African origin buried in a Portuguese Mesolithic shell midden four centuries ago
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Journal of Archaeological Science: Reports 42 (-) 103370 [2022-04-00; online 2022-04-00]
Bioinformatics Compute and Storage [Service]
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Metabolism is a major driver of hydrogen isotope fractionation recorded in tree-ring glucose of Pinus nigra.
Wieloch T, Grabner M, Augusti A, ..., Yu J, Schleucher J
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Swedish NMR Centre (SNC) [Collaborative]
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Laurén I, Havervall S, Ng H, ..., Thålin C, Mangsbo S
Immun Inflamm Dis 10 (4) e595 [2022-04-00; online 2022-03-30]
Autoimmunity and Serology Profiling [Collaborative]
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Long-Term Follow-Up of Newborns with 22q11 Deletion Syndrome and Low TRECs.
Framme JL, Lundqvist C, Lundell AC, ..., Oskarsdóttir S, Ekwall O
J Clin Immunol 42 (3) 618-633 [2022-04-00; online 2022-01-26]
Clinical Genomics Umeå [Service]
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Abolhassani H, Landegren N, Bastard P, ..., Hammarström L, Pan-Hammarström Q
J Clin Immunol 42 (3) 471-483 [2022-04-00; online 2022-01-28]
Autoimmunity and Serology Profiling [Service]
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Gastrointestinal mucus in dog: Physiological characteristics, composition, and structural properties.
Dubbelboer IR, Barmpatsalou V, Rodler A, ..., Häggström J, Bergström CAS
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Global Proteomics and Proteogenomics [Service] Swedish Metabolomics Centre (SMC) [Service]
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Omokanye A, Ong LC, Lebrero-Fernandez C, ..., Czarnewski P, Lycke N
Mucosal Immunol 15 (4) 717-729 [2022-04-00; online 2022-04-00]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Jin C, Teneberg S
J. Biol. Chem. 298 (4) 101732 [2022-04-00; online 2022-02-15]
Glycoproteomics [Service]
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Bovine oocyte exposure to perfluorohexane sulfonate (PFHxS) induces phenotypic, transcriptomic, and DNA methylation changes in resulting embryos in vitro.
Hallberg I, Persson S, Olovsson M, ..., Rüegg J, Sjunnesson YCB
Reprod Toxicol 109 (-) 19-30 [2022-04-00; online 2022-02-24]
BioImage Informatics [Collaborative]
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Acute sleep loss alters circulating fibroblast growth factor 21 levels in humans: A randomised crossover trial.
Mateus Brandão LE, Espes D, Westholm JO, ..., Benedict C, Cedernaes J
J Sleep Res 31 (2) e13472 [2022-04-00; online 2021-09-02]
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ADP-ribosylating adjuvant reveals plasticity in cDC1 cells that drive mucosal Th17 cell development and protection against influenza virus infection.
Arabpour M, Lebrero-Fernandez C, Schön K, ..., Agace W, Lycke N
Mucosal Immunol 15 (4) 745-761 [2022-04-00; online 2022-04-13]
Clinical Genomics Gothenburg [Collaborative]
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Front. Allergy 3 (-) - [2022-03-31; online 2022-03-31]
Autoimmunity and Serology Profiling [Collaborative]
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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.
Arimide DA, Szojka ZI, Zealiyas K, ..., Björkman P, Medstrand P
Viruses 14 (4) - [2022-03-30; online 2022-03-30]
Bioinformatics Compute and Storage [Service]
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Next Generation Plasma Proteomics Identifies High-Precision Biomarker Candidates for Ovarian Cancer.
Gyllensten U, Hedlund-Lindberg J, Svensson J, ..., Åberg M, Enroth S
Cancers (Basel) 14 (7) - [2022-03-30; online 2022-03-30]
Affinity Proteomics Uppsala [Collaborative] NGI Proteomics [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Integrative multi-omics and drug response profiling of childhood acute lymphoblastic leukemia cell lines.
Leo IR, Aswad L, Stahl M, ..., Vesterlund M, Jafari R
Nat Commun 13 (1) 1691 [2022-03-30; online 2022-03-30]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The genomic architecture of the passerine MHC region: High repeat content and contrasting evolutionary histories of single copy and tandemly duplicated MHC genes.
Westerdahl H, Mellinger S, Sigeman H, ..., Wolf JBW, Strandh M
Mol Ecol Resour - (-) - [2022-03-29; online 2022-03-29]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Subcellular mapping of the protein landscape of SARS-CoV-2 infected cells for target-centric drug repurposing
Kaimal JM, Tampere M, Le TH, ..., Östling P, Stadler C
- - (-) - [2022-03-29; online 2022-03-29]
Spatial Proteomics
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An inverse association between plasma benzoxazinoid metabolites and PSA after rye intake in men with prostate cancer revealed with a new method.
Nordin E, Steffensen SK, Laursen BB, ..., Fomsgaard IS, Landberg R
Sci Rep 12 (1) 5260 [2022-03-28; online 2022-03-28]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Genetics of age-at-onset in major depression.
Harder A, Nguyen TD, Pasman JA, ..., Hägg S, Lu Y
Transl Psychiatry 12 (1) 124 [2022-03-26; online 2022-03-26]
Bioinformatics Compute and Storage [Service]
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Multivariate mining of an alpaca immune repertoire identifies potent cross-neutralizing SARS-CoV-2 nanobodies.
Hanke L, Sheward DJ, Pankow A, ..., McInerney GM, Murrell B
Sci Adv 8 (12) eabm0220 [2022-03-25; online 2022-03-25]
Structural Proteomics [Collaborative]
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Inflammation and neutrophil extracellular traps in cerebral cavernous malformation.
Yau ACY, Globisch MA, Onyeogaziri FC, ..., Dejana E, Magnusson PU
Cell. Mol. Life Sci. 79 (4) 206 [2022-03-25; online 2022-03-25]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Temporal patterns of inflammation-related proteins measured in the cerebrospinal fluid of patients with aneurysmal subarachnoid hemorrhage using multiplex Proximity Extension Assay technology.
Vlachogiannis P, Hillered L, Enblad P, Ronne-Engström E
PLoS ONE 17 (3) e0263460 [2022-03-24; online 2022-03-24]
Affinity Proteomics Uppsala [Service]
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Berglund E, Barbany G, Orsmark-Pietras C, ..., Fioretos T, Rosenquist R
Front Med (Lausanne) 9 (-) 842507 [2022-03-24; online 2022-03-24]
Clinical Genomics Gothenburg [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
Garcia SL, Nuy JK, Mehrshad M, ..., Hawkes J, Bertilsson S
- - (-) - [2022-03-22; online 2022-03-22]
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]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Feola S, Chiaro J, Martins B, ..., Lehtiö J, Cerullo V
Elife 11 (-) - [2022-03-22; online 2022-03-22]
Global Proteomics and Proteogenomics [Technology development]
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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.
Martín-Rodríguez AJ, Higdon SM, Thorell K, ..., Krell T, Römling U
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.
Baudet A, Hultmark S, Ek F, Magnusson M
BIO-PROTOCOL 12 (6) e4353 [2022-03-20; online 2022-03-20]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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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.
Landgren V, Fernell E, Gillberg C, Landgren M, Johnson M
BMJ Open 12 (3) e054424 [2022-03-17; online 2022-03-17]
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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Salivary Microbiota and Host-Inflammatory Responses in Periodontitis Affected Individuals With and Without Rheumatoid Arthritis.
Eriksson K, Lundmark A, Delgado LF, ..., Andersson AF, Yucel-Lindberg T
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Nota K, Klaminder J, Milesi P, ..., Suyama Y, Parducci L
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Brodin ATS, Gabulya S, Wellfelt K, Karlsson TE
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A "spindle and thread" mechanism unblocks p53 translation by modulating N-terminal disorder.
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- - (-) - [2022-03-09; online 2022-03-09]
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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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Optimization of cerebrospinal fluid microbial DNA metagenomic sequencing diagnostics.
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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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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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Am J Psychiatry 179 (3) 216-225 [2022-03-00; online 2021-11-18]
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Guzzi N, Muthukumar S, Cieśla M, ..., Dimitriou M, Bellodi C
Nat Cell Biol 24 (3) 299-306 [2022-03-00; online 2022-03-15]
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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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Pest Manag Sci 78 (3) 1048-1059 [2022-03-00; online 2021-12-06]
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Martinell M, Andersson T, Mannsverk SS, ..., Lindh J, Kaden R
Viruses 14 (3) - [2022-02-28; online 2022-02-28]
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Sci Rep 12 (1) 3240 [2022-02-25; online 2022-02-25]
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Molecular Epidemiology and Transmission Dynamics of the HIV-1 Epidemic in Ethiopia: Epidemic Decline Coincided With Behavioral Interventions Before ART Scale-Up.
Arimide DA, Esquivel-Gómez LR, Kebede Y, ..., Kühnert D, Medstrand P
Front Microbiol 13 (-) 821006 [2022-02-25; online 2022-02-25]
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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
Vaccines (Basel) 10 (3) - [2022-02-24; online 2022-02-24]
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Luttens A, Gullberg H, Abdurakhmanov E, ..., Danielson UH, Carlsson J
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Bioinformatics Compute and Storage [Service] Chemical Biology Consortium Sweden (CBCS) [Service] Drug Discovery and Development (DDD) [Collaborative]
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Prasad B, Doimo M, Andréasson M, ..., Chorell E, Wanrooij S
Chem. Sci. 13 (8) 2347-2354 [2022-02-23; online 2022-02-01]
Swedish NMR Centre (SNC) [Service]
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The Role of Antibiotic Resistance Genes in the Fitness Cost of Multiresistance Plasmids.
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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TC-hunter: identification of the insertion site of a transgenic gene within the host genome.
Börjesson V, Martinez-Monleon A, Fransson S, ..., Milosevic J, López MD
BMC Genomics 23 (1) 149 [2022-02-20; online 2022-02-20]
Clinical Genomics Gothenburg [Technology development]
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Transposon- and Genome Dynamics in the Fungal Genus Neurospora: Insights from Nearly Gapless Genome Assemblies
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Fungal Genetics Reports 66 (1) - [2022-02-18; online 2022-02-18]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] 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]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Swedish NMR Centre (SNC) [Collaborative]
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Semi-supervised learning with natural language processing for right ventricle classification in echocardiography-a scalable approach.
Hagberg E, Hagerman D, Johansson R, ..., Alvén J, Hjelmgren O
Comput Biol Med 143 (-) 105282 [2022-02-15; online 2022-02-15]
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npj Genom. Med. 7 (1) 11 [2022-02-15; online 2022-02-15]
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Production of Exopolysaccharides by Cultivation of Halotolerant Bacillus atrophaeus BU4 in Glucose- and Xylose-Based Synthetic Media and in Hydrolysates of Quinoa Stalks
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 A, Brunius C
Metabolites 12 (2) - [2022-02-13; online 2022-02-13]
Bioinformatics Compute and Storage [Service] Chalmers Mass Spectrometry Infrastructure [Collaborative]
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1H, 13C and 15N resonance assignment of backbone and IVL-methyl side chain of the S135A mutant NS3pro/NS2B protein of Dengue II virus reveals unique secondary structure features in solution.
Agback P, Lesovoy DM, Han X, ..., Achour A, Orekhov VY
Biomol NMR Assign - (-) - [2022-02-12; online 2022-02-12]
Swedish NMR Centre (SNC) [Collaborative]
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Three-dimensional spatial transcriptomics uncovers cell type localizations in the human rheumatoid arthritis synovium.
Vickovic S, Schapiro D, Carlberg K, ..., Regev A, Ståhl PL
Commun Biol 5 (1) 129 [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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The spatial transcriptomic landscape of the healing mouse intestine following damage.
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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Scavenger receptor CD36 governs recruitment of myeloid cells to the blood-CSF barrier after stroke in neonatal mice.
Rayasam A, Mottahedin A, Faustino J, Mallard C, Vexler ZS
J Neuroinflammation 19 (1) 47 [2022-02-11; online 2022-02-11]
Clinical Genomics Gothenburg [Service]
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NMR Backbone Assignment of VIM-2 and Identification of the Active Enantiomer of a Potential Inhibitor
Wieske LHE, Bogaerts J, Leding AAM, ..., Bayer A, Erdélyi M
ACS Med Chem Lett 13 (2) 257-261 [2022-02-10; online 2022-01-28]
Swedish NMR Centre (SNC) [Service]
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Protein-lipid interaction at low pH induces oligomerization of the MakA cytotoxin from Vibrio cholerae.
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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Age-related long-term response in rat thyroid tissue and plasma after internal low dose exposure to 131I.
Larsson M, Rudqvist NP, Spetz J, ..., Helou K, Forssell-Aronsson E
Sci Rep 12 (1) 2107 [2022-02-08; online 2022-02-08]
Glycoproteomics [Service]
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A serum proteomic study of two case-control cohorts identifies novel biomarkers for bipolar disorder.
Göteson A, Isgren A, Sparding T, ..., Pålsson E, Landén M
Transl Psychiatry 12 (1) 55 [2022-02-08; online 2022-02-08]
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]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Bhlhe40 function in activated B and TFH cells restrains the GC reaction and prevents lymphomagenesis.
Rauschmeier R, Reinhardt A, Gustafsson C, ..., Busslinger M, Kreslavsky T
J. Exp. Med. 219 (2) - [2022-02-07; online 2021-12-17]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Partial Monosomy 21 Mirrors Gene Expression of Trisomy 21 in a Patient-Derived Neuroepithelial Stem Cell Model.
Schuy J, Eisfeldt J, Pettersson M, ..., Falk A, Lindstrand A
Front Genet 12 (-) 803683 [2022-02-04; online 2022-02-04]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mutation analysis of disease causing genes in patients with early onset or familial forms of Alzheimer's disease and frontotemporal dementia.
Pagnon de la Vega M, Näslund C, Brundin R, ..., Ingelsson M, Giedraitis V
BMC Genomics 23 (1) 99 [2022-02-04; online 2022-02-04]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Genomic basis for skin phenotype and cold adaptation in the extinct Steller's sea cow.
Le Duc D, Velluva A, Cassatt-Johnstone M, ..., Shapiro B, Schöneberg T
Sci Adv 8 (5) eabl6496 [2022-02-04; online 2022-02-04]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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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]
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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]
PubMed DOI Crossref
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 Gothenburg [Technology development]
PubMed DOI Crossref
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 Lund [Service]
PubMed DOI Crossref
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]
DOI Crossref
Deconwolf enables high-performance deconvolution of widefield fluorescence microscopy images
Wernersson E, Gelali E, Girelli G, ..., Crosetto N, Bienko M
- - (-) - [2022-02-02; online 2022-02-02]
Spatial Proteomics [Service]
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]
Bioinformatics Compute and Storage [Service] NGI Long read [Technology development] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
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)
PubMed DOI Crossref
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]
PubMed DOI Crossref
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 [Service]
PubMed DOI Crossref
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]
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]
PubMed DOI Crossref
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]
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 Gothenburg [Service] Glycoproteomics [Service] Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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]
DOI Crossref
Links between boreal forest management, soil fungal communities and below‐ground carbon sequestration
Jörgensen K, Granath G, Strengbom J, Lindahl BD
Functional Ecology 36 (2) 392-405 [2022-02-00; online 2021-12-22]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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]
PubMed DOI Crossref
Heterochiasmy and the establishment of gsdf as a novel sex determining gene in Atlantic halibut.
Edvardsen RB, Wallerman O, Furmanek T, ..., Norberg B, Rubin CJ
PLoS Genet. 18 (2) e1010011 [2022-02-00; online 2022-02-08]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 Compute and Storage [Service]
PubMed DOI Crossref
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 Gothenburg [Service]
PubMed DOI Crossref
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]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics Umeå [Service]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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 Linköping [Service]
PubMed DOI Crossref
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]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Collaborative] 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 [Collaborative]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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 [Collaborative]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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 Compute and Storage [Service] Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
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]
DOI Crossref
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 Compute and Storage [Service]
PubMed DOI Crossref
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 Gothenburg [Collaborative] Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
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]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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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]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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 Compute and Storage [Service]
PubMed DOI Crossref
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]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [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 [2022-01-21; online 2022-01-21]
Eukaryotic Single Cell Genomics (ESCG) [Service]
PubMed DOI Crossref
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 [Collaborative]
PubMed DOI Crossref
An Image-Analysis-Based Method for the Prediction of Recombinant Protein Fiber Tensile Strength.
Bäcklund FG, Schmuck B, Miranda GHB, ..., Rydén J, Rising A
Materials (Basel) 15 (3) - [2022-01-18; online 2022-01-18]
BioImage Informatics [Collaborative]
PubMed DOI Crossref
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]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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
Biology (Basel) 11 (1) - [2022-01-14; online 2022-01-14]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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]
Bioinformatics Compute and Storage [Service] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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]
PubMed DOI Crossref
Anaplerotic flux into the Calvin-Benson cycle: hydrogen isotope evidence for in vivo occurrence in C3 metabolism.
Wieloch T, Augusti A, Schleucher J
New Phytol. - (-) - [2022-01-12; online 2022-01-12]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
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]