Publications 2019

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727 publications

PubMed DOI Crossref
Novel Viruses Found in Antricola Ticks Collected in Bat Caves in the Western Amazonia of Brazil.
Blomström AL, Luz HR, Öhlund P, ..., Labruna MB, Berg M
Viruses 12 (1) - [2019-12-31; online 2019-12-31]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Comprehensive Sequencing-Based Analysis of Allelic Methylation Patterns in Hemostatic Genes in Human Liver
Olsson Lindvall M, Davila Lopez M, Klasson S, ..., Stanne TM, Jern C
Thromb. Haemost. 120 (02) 229-242 [2019-12-30; online 2019-12-30]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Systems Biology [Collaborative]
PubMed DOI Crossref
Transcriptional study of appetite regulating genes in the brain of zebrafish (Danio rerio) with impaired leptin signalling.
Ahi EP, Brunel M, Tsakoumis E, Schmitz M
Sci Rep 9 (1) 20166 [2019-12-27; online 2019-12-27]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Structural and biochemical studies of the glucuronoyl esterase OtCE15A illuminate its interaction with lignocellulosic components.
Mazurkewich S, Poulsen JN, Lo Leggio L, Larsbrink J
J. Biol. Chem. 294 (52) 19978-19987 [2019-12-27; online 2019-11-18]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Identification of a C2-symmetric diol based human immunodeficiency virus protease inhibitor targeting Zika virus NS2B-NS3 protease.
Akaberi D, Chinthakindi PK, Båhlström A, ..., Lundkvist Å, Lennerstrand J
J. Biomol. Struct. Dyn. 38 (18) 1-11 [2019-12-27; online 2019-12-27]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Dynamic Chirality in the Mechanism of Action of Allosteric CD36 Modulators of Macrophage-Driven Inflammation.
Danelius E, Ohm RG, Mulumba M, ..., Erdelyi M, Lubell WD
J. Med. Chem. 62 (24) 11071-11079 [2019-12-26; online 2019-12-13]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Gene transfer across species boundaries in bryophytes: evidence from major life cycle stages in Homalothecium lutescens and H. sericeum.
Sawangproh W, Hedenäs L, Lang AS, Hansson B, Cronberg N
Ann. Bot. - (-) - [2019-12-24; online 2019-12-24]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Inoculum Source Determines Acetate and Lactate Production during Anaerobic Digestion of Sewage Sludge and Food Waste.
Moestedt J, Westerholm M, Isaksson S, Schnürer A
Bioengineering 7 (1) 3 [2019-12-23; online 2019-12-23]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Consequences of past climate change and recent human persecution on mitogenomic diversity in the arctic fox.
Larsson P, von Seth J, Hagen IJ, ..., Stanton DWG, Dalén L
Philos. Trans. R. Soc. Lond., B, Biol. Sci. 374 (1788) 20190212 [2019-12-23; online 2019-11-04]
Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Gene Expression Alterations during Development of Castration-Resistant Prostate Cancer Are Detected in Circulating Tumor Cells.
Josefsson A, Larsson K, Freyhult E, Damber J, Welén K
Cancers (Basel) 12 (1) - [2019-12-21; online 2019-12-21]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Sequencing detects human papillomavirus in some apparently HPV-negative invasive cervical cancers.
Arroyo Mühr LS, Lagheden C, Eklund C, ..., Sundström K, Dillner J
J. Gen. Virol. - (-) - [2019-12-20; online 2019-12-20]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic Screening of Plasticity Regulating Nogo-Type Signaling Genes in Migraine.
Smedfors G, Liesecke F, Ran C, ..., Karlsson TE, Carmine Belin A
Brain Sci 10 (1) - [2019-12-20; online 2019-12-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A genome-wide transcriptomic analysis of protein-coding genes in human blood cells.
Uhlen M, Karlsson MJ, Zhong W, ..., Fagerberg L, Brodin P
Science 366 (6472) - [2019-12-20; online 2019-12-21]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Tissue-specific transposon-associated small RNAs in the gymnosperm tree, Norway spruce.
Nakamura M, Köhler C, Hennig L
BMC Genomics 20 (1) 997 [2019-12-19; online 2019-12-19]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Longitudinal DNA methylation changes at MET may alter HGF/c-MET signalling in adolescents at risk for depression.
Ciuculete DM, Voisin S, Kular L, ..., Mwinyi J, Schiöth HB
Epigenetics 15 (6-7) 646-663 [2019-12-19; online 2019-12-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Lipid Droplet-Associated Kinase STK25 Regulates Peroxisomal Activity and Metabolic Stress Response in Steatotic Liver.
Nerstedt A, Kurhe Y, Cansby E, ..., Hoy AJ, Mahlapuu M
J. Lipid Res. - (-) - [2019-12-19; online 2019-12-19]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Levels of caspase-3 and histidine-rich glycoprotein in the embryo secretome as biomarkers of good-quality day-2 embryos and high-quality blastocysts
Kaihola H, Yaldir FG, Bohlin T, ..., Hreinsson J, Åkerud H
PLoS ONE 14 (12) e0226419 [2019-12-19; online 2019-12-19]
Affinity Proteomics Uppsala [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Apolipoprotein B48 metabolism in chylomicrons and very low-density lipoproteins and its role in triglyceride transport in normo- and hypertriglyceridemic human subjects.
Björnson E, Packard CJ, Adiels M, ..., Taskinen MR, Borén J
J. Intern. Med. - (-) - [2019-12-17; online 2019-12-17]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
A transposable element insertion is associated with an alternative life history strategy.
Woronik A, Tunström K, Perry MW, ..., Käkelä R, Wheat CW
Nat Commun 10 (1) 5757 [2019-12-17; online 2019-12-17]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Protein profiling and network enrichment analysis in individuals before and after the onset of rheumatoid arthritis.
Brink M, Lundquist A, Alexeyenko A, Lejon K, Rantapää-Dahlqvist S
Arthritis Res. Ther. 21 (1) 288 [2019-12-16; online 2019-12-16]
Affinity Proteomics Stockholm [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Autoregulation of RCO by Low-Affinity Binding Modulates Cytokinin Action and Shapes Leaf Diversity.
Hajheidari M, Wang Y, Bhatia N, ..., Gan X, Tsiantis M
Curr. Biol. 29 (24) 4183-4192.e6 [2019-12-16; online 2019-11-21]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
NGS targeted screening of 100 Scandinavian patients with coronal synostosis.
Topa A, Rohlin A, Andersson MK, ..., Stenman G, Kölby L
Am. J. Med. Genet. A - (-) - [2019-12-14; online 2019-12-14]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
BEN-solo factors partition active chromatin to ensure proper gene activation in Drosophila.
Ueberschär M, Wang H, Zhang C, ..., Wen J, Dai Q
Nat Commun 10 (1) 5700 [2019-12-13; online 2019-12-13]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Spatiotemporal Organ-Wide Gene Expression and Cell Atlas of the Developing Human Heart.
Asp M, Giacomello S, Larsson L, ..., Sylvén C, Lundeberg J
Cell 179 (7) 1647-1660.e19 [2019-12-12; online 2019-12-14]
Advanced FISH Technologies Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Eukaryotic Single Cell Genomics (ESCG) [Service] In Situ Sequencing (ISS) [Technology development] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Morphological analysis of Apolipoprotein E binding to Aβ Amyloid using a combination of Surface Plasmon Resonance, Immunogold Labeling and Scanning Electron Microscopy.
Islam T, Gharibyan AL, Lee CC, Olofsson A
BMC Biotechnol. 19 (1) 97 [2019-12-11; online 2019-12-11]
Cryo-EM [Technology development] Integrated Microscopy Technologies Umeå [Collaborative]
PubMed DOI Crossref
HISTONE DEACETYLASE 9 stimulates auxin-dependent thermomorphogenesis in Arabidopsis thaliana by mediating H2A.Z depletion.
van der Woude LC, Perrella G, Snoek BL, ..., Kaiserli E, van Zanten M
Proc. Natl. Acad. Sci. U.S.A. 116 (50) 25343-25354 [2019-12-10; online 2019-11-25]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
The Hidden Story of Heterogeneous B-raf V600E Mutation Quantitative Protein Expression in Metastatic Melanoma-Association with Clinical Outcome and Tumor Phenotypes.
Betancourt LH, Szasz AM, Kuras M, ..., Sanchez A, Marko-Varga G
Cancers (Basel) 11 (12) - [2019-12-09; online 2019-12-09]
Structural Proteomics [Service]
PubMed DOI Crossref
Comprehensive longitudinal study of epigenetic mutations in aging.
Wang Y, Karlsson R, Jylhävä J, ..., Almgren M, Hägg S
Clin Epigenetics 11 (1) 187 [2019-12-09; online 2019-12-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Gene-Environment Interaction Between Smoking and Gene polymorphisms Provides a High Risk of Two Subgroups of Sarcoidosis.
Rivera NV, Patasova K, Kullberg S, ..., Grunewald J, Padyukov L
Sci Rep 9 (1) 18633 [2019-12-09; online 2019-12-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mining the Proteome Associated with Rheumatic and Autoimmune Diseases.
Ruiz-Romero C, Lam MPY, Nilsson P, ..., Watt FE, Blanco FJ
J. Proteome Res. 18 (12) 4231-4239 [2019-12-06; online 2019-10-23]
Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
Mass Spectrometry-Based Plasma Proteomics: Considerations from Sample Collection to Achieving Translational Data.
Ignjatovic V, Geyer PE, Palaniappan KK, ..., Deutsch EW, Schwenk JM
J. Proteome Res. 18 (12) 4085-4097 [2019-12-06; online 2019-10-11]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Epigenome-wide meta-analysis of blood DNA methylation and its association with subcortical volumes: findings from the ENIGMA Epigenetics Working Group.
Jia T, Chu C, Liu Y, ..., Schumann G, Desrivières S
Mol. Psychiatry - (-) - [2019-12-06; online 2019-12-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Depression, GABA, and Age Correlate with Plasma Levels of Inflammatory Markers.
Bhandage AK, Cunningham JL, Jin Z, ..., Ekselius L, Birnir B
Int J Mol Sci 20 (24) 6172 [2019-12-06; online 2019-12-06]
Affinity Proteomics Uppsala [Service] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
Cell Type-Specific Expression of Testis Elevated Genes Based on Transcriptomics and Antibody-Based Proteomics.
Pineau C, Hikmet F, Zhang C, ..., Uhlén M, Lindskog C
J. Proteome Res. 18 (12) 4215-4230 [2019-12-06; online 2019-08-29]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Humanized Stem Cell Models of Pediatric Medulloblastoma Reveal an Oct4/mTOR Axis that Promotes Malignancy.
Čančer M, Hutter S, Holmberg KO, ..., Weishaupt H, Swartling FJ
Cell Stem Cell 25 (6) 855-870.e11 [2019-12-05; online 2019-11-27]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
GLUL Ablation Can Confer Drug Resistance to Cancer Cells via a Malate-Aspartate Shuttle-Mediated Mechanism.
Muthu M, Kumar R, Syed Khaja AS, ..., Persson JL, Nordström A
Cancers (Basel) 11 (12) 1945 [2019-12-05; online 2019-12-05]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Dinucleotide Degradation by REXO2 Maintains Promoter Specificity in Mammalian Mitochondria.
Nicholls TJ, Spåhr H, Jiang S, ..., Larsson NG, Gustafsson CM
Mol. Cell 76 (5) 784-796.e6 [2019-12-05; online 2019-10-03]
Bioinformatics Support for Computational Resources [Service] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Specialized sledge dogs accompanied Inuit dispersal across the North American Arctic.
Ameen C, Feuerborn TR, Brown SK, ..., Darwent CM, Evin A
Proc. Biol. Sci. 286 (1916) 20191929 [2019-12-04; online 2019-11-27]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Replicating associations between DNA methylation and body mass index in a longitudinal sample of older twins.
Karlsson IK, Ericsson M, Wang Y, ..., Reynolds CA, Dahl Aslan AK
Int J Obes (Lond) - (-) - [2019-12-04; online 2019-12-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The MADS-box transcription factor PHERES1 controls imprinting in the endosperm by binding to domesticated transposons.
Batista RA, Moreno-Romero J, Qiu Y, ..., Figueiredo DD, Köhler C
Elife 8 (-) - [2019-12-02; online 2019-12-02]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Population history and genetic adaptation of the Fulani nomads: inferences from genome-wide data and the lactase persistence trait.
Vicente M, Priehodová E, Diallo I, ..., Černý V, Schlebusch CM
BMC Genomics 20 (1) 915 [2019-12-02; online 2019-12-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Impact of Q-Griffithsin anti-HIV microbicide gel in non-human primates: In situ analyses of epithelial and immune cell markers in rectal mucosa.
Günaydın G, Edfeldt G, Garber DA, ..., Tjernlund A, Broliden K
Sci Rep 9 (1) 18120 [2019-12-02; online 2019-12-02]
BioImage Informatics [Service]
PubMed DOI Crossref
High throughput barcoding method for genome-scale phasing.
Redin D, Frick T, Aghelpasand H, ..., Olsen RA, Ahmadian A
Sci Rep 9 (1) 18116 [2019-12-02; online 2019-12-02]
NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
DNA methylation profiles in chronic lymphocytic leukemia patients treated with chemoimmunotherapy.
Tsagiopoulou M, Papakonstantinou N, Moysiadis T, ..., Rosenquist R, Stamatopoulos K
Clin Epigenetics 11 (1) 177 [2019-12-02; online 2019-12-02]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mitochondrial protein enriched extracellular vesicles discovered in human melanoma tissues can be detected in patient plasma
Jang SC, Crescitelli R, Cvjetkovic A, ..., Kalluri R, Lötvall J
J Extracell Vesicles 8 (1) 1635420 [2019-12-01; online 2019-08-27]
Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Endosomal signalling via exosome surface TGFβ-1
Shelke GV, Yin Y, Jang SC, ..., Nilsson JA, Lötvall J
J Extracell Vesicles 8 (1) 1650458 [2019-12-01; online 2019-09-20]
Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service] Integrated Microscopy Technologies Stockholm
PubMed DOI Crossref
Arteria: An automation system for a sequencing core facility.
Dahlberg J, Hermansson J, Sturlaugsson S, ..., Hofmann O, Larsson P
Gigascience 8 (12) - [2019-12-01; online 2019-12-12]
Clinical Genomics Uppsala [Technology development] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
iFISH is a publically available resource enabling versatile DNA FISH to study genome architecture
Gelali E, Girelli G, Matsumoto M, ..., Crosetto N, Bienko M
Nat Commun 10 (1) - [2019-12-00; online 2019-04-09]
Advanced FISH Technologies [Technology development] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Zebrafish embryo as a replacement model for initial biocompatibility studies of biomaterials and drug delivery systems.
Rothenbücher TSP, Ledin J, Gibbs D, ..., Persson C, Hulsart-Billström G
Acta Biomater 100 (-) 235-243 [2019-12-00; online 2019-10-01]
Genome Engineering Zebrafish
PubMed DOI Crossref
Whole genome DNA sequencing provides an atlas of somatic mutagenesis in healthy human cells and identifies a tumor-prone cell type
Franco I, Helgadottir HT, Moggio A, ..., Supek F, Eriksson M
Genome Biol. 20 (1) - [2019-12-00; online 2019-12-18]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Voluntary exercise normalizes the proteomic landscape in muscle and brain and improves the phenotype of progeroid mice.
Ross JM, Coppotelli G, Branca RM, ..., Sinclair DA, Olson L
Aging Cell 18 (6) e13029 [2019-12-00; online 2019-09-06]
Global Proteomics and Proteogenomics [Collaborative]
PubMed DOI Crossref
Undifferentiated pleomorphic sarcomas with PRDM10 fusions have a distinct gene expression profile.
Hofvander J, Puls F, Pillay N, ..., Nilsson J, Mertens F
J. Pathol. 249 (4) 425-434 [2019-12-00; online 2019-08-27]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Transmission dynamics study of tuberculosis isolates with whole genome sequencing in southern Sweden
Alaridah N, Hallbäck ET, Tångrot J, ..., Kaijser B, Godaly G
Sci Rep 9 (1) - [2019-12-00; online 2019-03-20]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transcriptomes of Dravet syndrome iPSC derived GABAergic cells reveal dysregulated pathways for chromatin remodeling and neurodevelopment.
Schuster J, Laan L, Klar J, ..., Birnir B, Dahl N
Neurobiol. Dis. 132 (-) 104583 [2019-12-00; online 2019-08-21]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Towards a standardized bioinformatics infrastructure for N- and O-glycomics
Rojas-Macias MA, Mariethoz J, Andersson P, ..., Lisacek F, Karlsson NG
Nat Commun 10 (1) - [2019-12-00; online 2019-07-22]
Bioinformatics Support and Infrastructure [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Glycoproteomics and MS Proteomics [Technology development]
DOI Crossref
The potential of magnetisation transfer NMR to monitor the dissolution process of cellulose in cold alkali
Gunnarsson M, Hasani M, Bernin D
Cellulose 26 (18) 9403-9412 [2019-12-00; online 2019-09-12]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
The genomic footprint of sexual conflict.
Sayadi A, Martinez Barrio A, Immonen E, ..., Nystedt B, Arnqvist G
Nat Ecol Evol 3 (12) 1725-1730 [2019-12-00; online 2019-11-18]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
The bio.tools registry of software tools and data resources for the life sciences
Ison J, Ienasescu H, Chmura P, ..., Løngreen P, Brunak S
Genome Biol. 20 (1) 164 [2019-12-00; online 2019-08-12]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
The MTH1 inhibitor TH588 is a microtubule-modulating agent that eliminates cancer cells by activating the mitotic surveillance pathway
Gul N, Karlsson J, Tängemo C, ..., Bergö MO, Lindahl P
Sci Rep 9 (1) 14667 [2019-12-00; online 2019-10-11]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Targeted Multiple Reaction Monitoring Analysis of CSF Identifies UCHL1 and GPNMB as Candidate Biomarkers for ALS.
Zhu S, Wuolikainen A, Wu J, ..., Forsgren L, Trupp M
J. Mol. Neurosci. 69 (4) 643-657 [2019-12-00; online 2019-11-12]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Studies of liver tissue identify functional gene regulatory elements associated to gene expression, type 2 diabetes, and other metabolic diseases
Cavalli M, Baltzer N, Pan G, ..., Komorowski J, Wadelius C
Hum Genomics 13 (1) 20 [2019-12-00; online 2019-04-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structural weakening of the colonic mucus barrier is an early event in ulcerative colitis pathogenesis.
van der Post S, Jabbar KS, Birchenough G, ..., Johansson MEV, Hansson GC
Gut 68 (12) 2142-2151 [2019-12-00; online 2019-03-26]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Single-cell study of neural stem cells derived from human iPSCs reveals distinct progenitor populations with neurogenic and gliogenic potential.
Lam M, Sanosaka T, Lundin A, ..., Okano H, Falk A
Genes Cells 24 (12) 836-847 [2019-12-00; online 2019-11-17]
Eukaryotic Single Cell Genomics (ESCG) [Service]
PubMed DOI Crossref
Sewage effluent from an Indian hospital harbors novel carbapenemases and integron-borne antibiotic resistance genes
Marathe NP, Berglund F, Razavi M, ..., Kristiansson E, Larsson DGJ
Microbiome 7 (1) - [2019-12-00; online 2019-06-27]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
ProTargetMiner as a proteome signature library of anticancer molecules for functional discovery
Saei AA, Beusch CM, Chernobrovkin A, ..., Végvári Á, Zubarev RA
Nat Commun 10 (1) 5715 [2019-12-00; online 2019-12-16]
Chemical Proteomics [Technology development]
PubMed DOI Crossref
Physiology, Metabolism, and Fossilization of Hot-Spring Filamentous Microbial Mats.
Dong Y, Sanford RA, Inskeep WP, ..., Fried GA, Fouke BW
Astrobiology 19 (12) 1442-1458 [2019-12-00; online 2019-04-30]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
PECTIN ACETYLESTERASE9 Affects the Transcriptome and Metabolome and Delays Aphid Feeding.
Kloth KJ, Abreu IN, Delhomme N, ..., Moritz T, Albrectsen BR
Plant Physiol. 181 (4) 1704-1720 [2019-12-00; online 2019-09-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Modelling of zero-inflation improves inference of metagenomic gene count data.
Jonsson V, Österlund T, Nerman O, Kristiansson E
Stat Methods Med Res 28 (12) 3712-3728 [2019-12-00; online 2018-11-25]
Bioinformatics Support, Infrastructure and Training [Technology development] Systems Biology [Technology development]
PubMed DOI Crossref
Metabolic phenotype of breast-fed infants, and infants fed standard formula or bovine MFGM supplemented formula: a randomized controlled trial
He X, Parenti M, Grip T, ..., Timby N, Slupsky CM
Sci Rep 9 (1) 339 [2019-12-00; online 2019-01-23]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Meckel syndrome: Clinical and mutation profile in six fetuses.
Radhakrishnan P, Nayak SS, Shukla A, Lindstrand A, Girisha KM
Clin. Genet. 96 (6) 560-565 [2019-12-00; online 2019-08-21]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Intra- and inter-individual metabolic profiling highlights carnitine and lysophosphatidylcholine pathways as key molecular defects in type 2 diabetes
Diamanti K, Cavalli M, Pan G, ..., Komorowski J, Wadelius C
Sci Rep 9 (1) 9653 [2019-12-00; online 2019-07-04]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Insight into the biology of Mycobacterium mucogenicum and Mycobacterium neoaurum clade members
Behra PRK, Pettersson BMF, Ramesh M, Dasgupta S, Kirsebom LA
Sci Rep 9 (1) 19259 [2019-12-00; online 2019-12-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Influence of urea on methyl β-D-glucopyranoside in alkali at different temperatures
Gunnarsson M, Hasani M, Bernin D
Cellulose 26 (18) 9413-9422 [2019-12-00; online 2019-09-14]
Swedish NMR Centre (SNC) [Collaborative]
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Improved power and precision with whole genome sequencing data in genome-wide association studies of inflammatory biomarkers
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Sci Rep 9 (1) - [2019-12-00; online 2019-11-14]
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Heterologous phosphoketolase expression redirects flux towards acetate, perturbs sugar phosphate pools and increases respiratory demand in Saccharomyces cerevisiae
Bergman A, Hellgren J, Moritz T, ..., Nielsen J, Chen Y
Microb. Cell Fact. 18 (1) 25 [2019-12-00; online 2019-02-01]
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Ferro L, Gojkovic Z, Muñoz R, Funk C
Algal Research 44 (-) 101690 [2019-12-00; online 2019-12-00]
Integrated Microscopy Technologies Umeå [Service]
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Morales HE, Faria R, Johannesson K, ..., Westram AM, Butlin RK
Sci Adv 5 (12) eaav9963 [2019-12-00; online 2019-12-04]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genome expansion of an obligate parthenogenesis-associated Wolbachia poses an exception to the symbiont reduction model
Kampfraath AA, Klasson L, Anvar SY, ..., Kraaijeveld K, Ellers J
BMC Genomics 20 (1) 106 [2019-12-00; online 2019-02-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Genetic Prediction of Serum 25-Hydroxyvitamin D, Calcium, and Parathyroid Hormone Levels in Relation to Development of Type 2 Diabetes: A Mendelian Randomization Study.
Yuan S, Jiang X, Michaëlsson K, Larsson SC
Diabetes Care 42 (12) 2197-2203 [2019-12-00; online 2019-09-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Epigenetic signatures associated with imprinted paternally expressed genes in the Arabidopsis endosperm
Moreno-Romero J, Del Toro-De León G, Yadav VK, Santos-González J, Köhler C
Genome Biol. 20 (1) - [2019-12-00; online 2019-02-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Coro2b, a podocyte protein downregulated in human diabetic nephropathy, is involved in the development of protamine sulphate-induced foot process effacement
Schwarz A, Möller-Hackbarth K, Ebarasi L, ..., Lal M, Patrakka J
Sci Rep 9 (1) 8888 [2019-12-00; online 2019-06-20]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Conbase: a software for unsupervised discovery of clonal somatic mutations in single cells through read phasing
Hård J, Al Hakim E, Kindblom M, ..., Mold JE, Frisén J
Genome Biol. 20 (1) - [2019-12-00; online 2019-04-01]
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Chromatin-sensitive cryptic promoters putatively drive expression of alternative protein isoforms in yeast.
Wei W, Hennig BP, Wang J, ..., Steinmetz LM, Pelechano V
Genome Res. 29 (12) 1974-1984 [2019-12-00; online 2019-11-18]
Bioinformatics Support for Computational Resources [Service]
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Angioimmunoblastic T-cell lymphoma and myelodysplastic syndrome with mutations in TET2, DNMT3 and CUX1 - azacitidine induces only lymphoma remission.
Tobiasson M, Pandzic T, Cavelier L, Sander B, Wahlin BE
Leuk. Lymphoma 60 (13) 3316-3319 [2019-12-00; online 2019-06-17]
Clinical Genomics Uppsala [Collaborative]
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An AP2/ERF transcription factor ERF139 coordinates xylem cell expansion and secondary cell wall deposition.
Wessels B, Seyfferth C, Escamez S, ..., Felten J, Tuominen H
New Phytol. 224 (4) 1585-1599 [2019-12-00; online 2019-07-02]
Integrated Microscopy Technologies Umeå [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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ATAC-seq reveals alterations in open chromatin in pancreatic islets from subjects with type 2 diabetes
Bysani M, Agren R, Davegårdh C, ..., Bacos K, Ling C
Sci Rep 9 (1) - [2019-12-00; online 2019-05-23]
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A cell fitness selection model for neuronal survival during development
Wang Y, Wu H, Fontanet P, ..., Hadjab S, Lallemend F
Nat Commun 10 (1) - [2019-12-00; online 2019-09-12]
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A Spatiomolecular Map of the Striatum
Märtin A, Calvigioni D, Tzortzi O, ..., Wärnberg E, Meletis K
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A Mitochondrial LYR Protein Is Required for Complex I Assembly.
Ivanova A, Gill-Hille M, Huang S, ..., Whelan J, Murcha MW
Plant Physiol. 181 (4) 1632-1650 [2019-12-00; online 2019-10-10]
Global Proteomics and Proteogenomics [Collaborative]
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Programmed DNA elimination of germline development genes in songbirds.
Kinsella CM, Ruiz-Ruano FJ, Dion-Côté AM, ..., Forstmeier W, Suh A
Nat Commun 10 (1) 5468 [2019-11-29; online 2019-11-29]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mucosal Metabolomic Profiling and Pathway Analysis Reveal the Metabolic Signature of Ulcerative Colitis.
Diab J, Hansen T, Goll R, ..., Florholmen J, Forsdahl G
Metabolites 9 (12) S035-S035 [2019-11-27; online 2019-11-27]
Swedish Metabolomics Centre (SMC) [Collaborative]
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Uhlén M, Karlsson MJ, Hober A, ..., Fagerberg L, Sivertsson Å
Sci. Signal. 12 (609) eaaz0274 [2019-11-26; online 2019-11-26]
Affinity Proteomics Stockholm [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Spatial Proteomics [Collaborative]
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The Mastery Rubric for Bioinformatics: A tool to support design and evaluation of career-spanning education and training.
Tractenberg RE, Lindvall JM, Attwood TK, Via A
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Joshi RN, Stadler C, Lehmann R, ..., Schmidt A, Vesterlund M
Front Immunol 10 (-) 2708 [2019-11-26; online 2019-11-26]
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Raethong N, Wang H, Nielsen J, Vongsangnak W
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Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
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Uncovering microbial inter-domain interactions in complex communities.
Florenza J, Tamminen M, Bertilsson S
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Microbial Single Cell Genomics [Technology development]
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MYCN-enhanced Oxidative and Glycolytic Metabolism Reveals Vulnerabilities for Targeting Neuroblastoma.
Oliynyk G, Ruiz-Pérez MV, Sainero-Alcolado L, ..., Lehtiö J, Arsenian-Henriksson M
iScience 21 (-) 188-204 [2019-11-22; online 2019-10-11]
Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Collaborative]
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Zagai U, Lichtenstein P, Pedersen NL, Magnusson PKE
Twin Res Hum Genet - (-) 1-9 [2019-11-21; online 2019-11-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Evidence that genes involved in hedgehog signaling are associated with both bipolar disorder and high BMI.
Pisanu C, Williams MJ, Ciuculete DM, ..., Squassina A, Schiöth HB
Transl Psychiatry 9 (1) 315 [2019-11-21; online 2019-11-21]
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BET and Aurora Kinase A inhibitors synergize against MYCN-positive human glioblastoma cells.
Čančer M, Drews LF, Bengtsson J, ..., Weishaupt H, Swartling FJ
Cell Death Dis 10 (12) 881 [2019-11-21; online 2019-11-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Interaction between Copper Chaperone Atox1 and Parkinson's Disease Protein α-Synuclein Includes Metal-Binding Sites and Occurs in Living Cells.
Horvath I, Blockhuys S, Šulskis D, ..., Burmann BM, Wittung-Stafshede P
ACS Chem Neurosci 10 (11) 4659-4668 [2019-11-20; online 2019-10-24]
Swedish NMR Centre (SNC) [Service]
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Mogodiniyai Kasmaei K, Sundh J
Front Microbiol 10 (-) 2673 [2019-11-20; online 2019-11-20]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Fast and Efficient Fc-Specific Photoaffinity Labeling To Produce Antibody-DNA Conjugates.
Stiller C, Aghelpasand H, Frick T, ..., Ahmadian A, Karlström AE
Bioconjug. Chem. 30 (11) 2790-2798 [2019-11-20; online 2019-10-25]
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Structural Changes of Mercaptohexanol Self-Assembled Monolayers on Gold and Their Influence on Impedimetric Aptamer Sensors.
Xu X, Makaraviciute A, Kumar S, ..., Nyholm L, Zhang Z
Anal. Chem. 91 (22) 14697-14704 [2019-11-19; online 2019-11-07]
Drug Discovery and Development (DDD) [Technology development]
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Apuli RP, Bernhardsson C, Schiffthaler B, ..., Street NR, Ingvarsson PK
G3 (Bethesda) - (-) - [2019-11-19; online 2019-11-19]
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Human induced pluripotent stem cells from two azoospermic patients with Klinefelter syndrome show similar X chromosome inactivation behavior to female pluripotent stem cells.
Panula S, Kurek M, Kumar P, ..., Lanner F, Stukenborg JB
Hum. Reprod. - (-) - [2019-11-19; online 2019-11-19]
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Genotype-dependent epigenetic regulation of DLGAP2 in alcohol use and dependence.
Meng W, Sjöholm LK, Kononenko O, ..., Rüegg J, Liu Y
Mol. Psychiatry - (-) - [2019-11-19; online 2019-11-19]
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Boldness in Male and Female Zebrafish ( Danio rerio) Is Dependent on Strain and Test.
Mustafa A, Roman E, Winberg S
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Genome Engineering Zebrafish [Service]
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The associations of self-rated health with cardiovascular risk proteins: a proteomics approach.
Bao X, Borné Y, Yin S, ..., Melander O, Engström G
Clin Proteomics 16 (1) 40 [2019-11-18; online 2019-11-18]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Synthesis of Indomorphan Pseudo-Natural Product Inhibitors of Glucose Transporters GLUT-1 and -3.
Ceballos J, Schwalfenberg M, Karageorgis G, ..., Ziegler S, Waldmann H
Angew. Chem. Int. Ed. Engl. 58 (47) 17016-17025 [2019-11-18; online 2019-10-07]
Swedish Metabolomics Centre (SMC) [Service]
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Structure of a mitochondrial ATP synthase with bound native cardiolipin.
Mühleip A, McComas SE, Amunts A
Elife 8 (-) - [2019-11-18; online 2019-11-18]
Cryo-EM [Service] Global Proteomics and Proteogenomics [Service]
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A Chemical Biology Approach to Understanding Molecular Recognition of Lipid II by Nisin(1-12): Synthesis and NMR Ensemble Analysis of Nisin(1-12) and Analogues.
Dickman R, Danelius E, Mitchell SA, ..., Erdélyi M, Tabor AB
Chemistry 25 (64) 14572-14582 [2019-11-18; online 2019-10-10]
Swedish NMR Centre (SNC) [Collaborative]
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Lithium treatment reverses irradiation-induced changes in rodent neural progenitors and rescues cognition.
Zanni G, Goto S, Fragopoulou AF, ..., Hermanson O, Blomgren K
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Effects of the Antimicrobial Peptide LL-37 and Innate Effector Mechanisms in Colistin-Resistant Klebsiella pneumoniae With mgrB Insertions.
Al-Farsi HM, Al-Adwani S, Ahmed S, ..., Giske CG, Bergman P
Front Microbiol 10 (-) 2632 [2019-11-14; online 2019-11-14]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Daytime melatonin levels in saliva are associated with inflammatory markers and anxiety disorders.
Sundberg I, Rasmusson AJ, Ramklint M, ..., Ekselius L, Cunningham JL
Psychoneuroendocrinology 112 (-) 104514 [2019-11-14; online 2019-11-14]
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The ALK-1/SMAD/ATOH8 axis attenuates hypoxic responses and protects against the development of pulmonary arterial hypertension.
Morikawa M, Mitani Y, Holmborn K, ..., Heldin CH, Miyazono K
Sci Signal 12 (607) eaay4430 [2019-11-12; online 2019-11-12]
Genome Engineering Zebrafish [Collaborative]
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A MYC2/MYC3/MYC4-dependent transcription factor network regulates water spray-responsive gene expression and jasmonate levels.
Van Moerkercke A, Duncan O, Zander M, ..., Millar AH, Van Aken O
Proc. Natl. Acad. Sci. U.S.A. 116 (46) 23345-23356 [2019-11-12; online 2019-10-29]
Swedish Metabolomics Centre (SMC) [Service]
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On-demand virtual research environments using microservices.
Capuccini M, Larsson A, Carone M, ..., Toor S, Spjuth O
PeerJ Comput Sci 5 (-) e232 [2019-11-11; online 2019-11-11]
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PubMed DOI Crossref
Long-read metabarcoding of the eukaryotic rDNA operon to phylogenetically and taxonomically resolve environmental diversity
Jamy M, Foster R, Barbera P, ..., Bass D, Burki F
Mol Ecol Resour - (-) - [2019-11-09; online 2019-11-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Carnivores, competition and genetic connectivity in the Anthropocene.
Creel S, Spong G, Becker M, ..., Schiffthaler B, Chifunte C
Sci Rep 9 (1) 16339 [2019-11-08; online 2019-11-08]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Calcium-activated chloride channel regulator 1 (CLCA1) forms non-covalent oligomers in colonic mucus and has mucin 2-processing properties.
Nyström EEL, Arike L, Ehrencrona E, Hansson GC, Johansson MEV
J. Biol. Chem. 294 (45) 17075-17089 [2019-11-08; online 2019-09-29]
Integrated Microscopy Technologies Gothenburg [Service]
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Two-step derivatization for determination of sugar phosphates in plants by combined reversed phase chromatography/tandem mass spectrometry.
Rende U, Niittylä T, Moritz T
Plant Methods 15 (1) 127 [2019-11-07; online 2019-11-07]
Swedish Metabolomics Centre (SMC) [Service]
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From cytogenetics to cytogenomics: whole-genome sequencing as a first-line test comprehensively captures the diverse spectrum of disease-causing genetic variation underlying intellectual disability.
Lindstrand A, Eisfeldt J, Pettersson M, ..., Lundin J, Nilsson D
Genome Med 11 (1) 68 [2019-11-07; online 2019-11-07]
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Distinct Coastal Microbiome Populations Associated With Autochthonous- and Allochthonous-Like Dissolved Organic Matter.
Broman E, Asmala E, Carstensen J, Pinhassi J, Dopson M
Front Microbiol 10 (-) 2579 [2019-11-07; online 2019-11-07]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Comparative distribution of extended-spectrum beta-lactamase-producing Escherichia coli from urine infections and environmental waters.
Fagerström A, Mölling P, Khan FA, ..., Jass J, Söderquist B
PLoS ONE 14 (11) e0224861 [2019-11-07; online 2019-11-07]
Clinical Genomics Örebro [Collaborative]
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A Cell-Free Approach Based on Phospholipid Characterization for Determination of the Cell Specific Unbound Drug Fraction (f u,cell).
Treyer A, Walday S, Boriss H, Matsson P, Artursson P
Pharm. Res. 36 (12) 178 [2019-11-07; online 2019-11-07]
Drug Discovery and Development (DDD) [Technology development]
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Linkage and exome analysis implicate multiple genes in non-syndromic intellectual disability in a large Swedish family.
Lindholm Carlström E, Halvardson J, Etemadikhah M, ..., Gustavson KH, Feuk L
BMC Med Genomics 12 (1) 156 [2019-11-06; online 2019-11-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Viromics Reveal a Number of Novel RNA Viruses in Swedish Mosquitoes.
Öhlund P, Hayer J, Lundén H, Hesson JC, Blomström AL
Viruses 11 (11) - [2019-11-05; online 2019-11-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Myc-dependent endothelial proliferation is controlled by phosphotyrosine 1212 in VEGF receptor-2.
Testini C, Smith RO, Jin Y, ..., Hellström M, Claesson-Welsh L
EMBO Rep. 20 (11) e47845 [2019-11-05; online 2019-09-23]
Global Proteomics and Proteogenomics [Service]
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The Nlrp6 inflammasome is not required for baseline colonic inner mucus layer formation or function.
Volk JK, Nyström EEL, van der Post S, ..., Hansson GC, Birchenough GMH
J. Exp. Med. 216 (11) 2602-2618 [2019-11-04; online 2019-08-16]
Integrated Microscopy Technologies Gothenburg [Service]
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Genetic regulation of gene expression and splicing during a 10-year period of human aging.
Balliu B, Durrant M, Goede O, ..., Ingelsson E, Montgomery SB
Genome Biol. 20 (1) 230 [2019-11-04; online 2019-11-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Amyloid fibrils prepared using an acetylated and methyl amidated peptide model of the α-Synuclein NAC 71-82 amino acid stretch contain an additional cross-β structure also found in prion proteins.
Näsström T, Andersson PO, Lejon C, Karlsson BCG
Sci Rep 9 (1) 15949 [2019-11-04; online 2019-11-04]
Cryo-EM [Service]
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A bacterial assay for rapid screening of IAA catabolic enzymes.
Brunoni F, Collani S, Šimura J, ..., Bellini C, Ljung K
Plant Methods 15 (1) 126 [2019-11-04; online 2019-11-04]
Swedish Metabolomics Centre (SMC) [Service]
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Sulfide level in municipal sludge digesters affects microbial community response to long-chain fatty acid loads.
Shakeri Yekta S, Liu T, Axelsson Bjerg M, ..., Björn A, Schnürer A
Biotechnol Biofuels 12 (1) 259 [2019-11-02; online 2019-11-02]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Yeast Volatomes Differentially Affect Larval Feeding in an Insect Herbivore.
Ljunggren J, Borrero-Echeverry F, Chakraborty A, ..., Witzgall P, Bengtsson M
Appl. Environ. Microbiol. 85 (21) - [2019-11-01; online 2019-10-16]
Swedish Metabolomics Centre (SMC) [Service]
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Serum Parathyroid Hormone and Risk of Coronary Artery Disease: Exploring Causality Using Mendelian Randomization.
Melhus H, Michaëlsson K, Larsson SC
J. Clin. Endocrinol. Metab. 104 (11) 5595-5600 [2019-11-01; online 2019-07-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Proteome Integral Solubility Alteration: A High-Throughput Proteomics Assay for Target Deconvolution.
Gaetani M, Sabatier P, Saei AA, ..., Lundström SL, Zubarev RA
J. Proteome Res. 18 (11) 4027-4037 [2019-11-01; online 2019-10-14]
Chemical Proteomics [Technology development]
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Methyl sulfonamide substituents improve the pharmacokinetic properties of bicyclic 2-pyridone based Chlamydia trachomatis inhibitors.
Kulén M, Núñez-Otero C, Cairns AG, ..., Gylfe Å, Almqvist F
Med. Chem. Commun. 10 (11) 1966-1987 [2019-11-01; online 2019-10-17]
Drug Discovery and Development (DDD) [Service]
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A genomic inference of the White Plymouth Rock genealogy.
Guo Y, Lillie M, Zan Y, ..., Siegel PB, Carlborg Ö
Poult. Sci. 98 (11) 5272-5280 [2019-11-01; online 2019-07-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Tuning drug release from polyoxazoline-drug conjugates
Harris JM, Bentley MD, Moreadith RW, ..., Dizman B, Nordstierna L
European Polymer Journal 120 (-) 109241 [2019-11-00; online 2019-11-00]
Swedish NMR Centre (SNC) [Service]
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Structural characterization and biological function of bivalent binding of CD2AP to intrinsically disordered domain of chikungunya virus nsP3 protein
Agback P, Dominguez F, Pustovalova Y, ..., Agback T, Frolova EI
Virology 537 (-) 130-142 [2019-11-00; online 2019-11-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Single-Cell Transcriptomics Uncovers Zonation of Function in the Mesenchyme during Liver Fibrosis
Dobie R, Wilson-Kanamori JR, Henderson BEP, ..., Marioni JC, Henderson NC
Cell Rep 29 (7) 1832-1847.e8 [2019-11-00; online 2019-11-00]
Eukaryotic Single Cell Genomics (ESCG) [Collaborative]
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Protein Paucimannosylation Is an Enriched N-Glycosylation Signature of Human Cancers.
Chatterjee S, Lee LY, Kawahara R, ..., Palmisano G, Thaysen-Andersen M
Proteomics 19 (21-22) e1900010 [2019-11-00; online 2019-10-16]
Glycoproteomics and MS Proteomics [Collaborative]
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Physical activity is associated with a large number of cardiovascular-specific proteins: Cross-sectional analyses in two independent cohorts.
Stattin K, Lind L, Elmståhl S, ..., Michaëlsson K, Byberg L
Eur J Prev Cardiol 26 (17) 1865-1873 [2019-11-00; online 2019-08-14]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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PIN-driven auxin transport emerged early in streptophyte evolution.
Skokan R, Medvecká E, Viaene T, ..., Petrášek J, Friml J
NPLANTS 5 (11) 1114-1119 [2019-11-00; online 2019-11-11]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Novel BEST1 gene mutations associated with two different forms of macular dystrophy in Tunisian families.
Chibani Z, Abid IZ, Molbaek A, ..., Feki J, Hmani-Aifa M
Clin Exp Ophthalmol 47 (8) 1063-1073 [2019-11-00; online 2019-07-24]
Clinical Genomics Linköping [Service]
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Molecular pathology of the luminal class of urothelial tumors.
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Clinical Genomics Lund [Service]
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Molecular imaging identifies age-related attenuation of acetylcholine in retrosplenial cortex in response to acetylcholinesterase inhibition.
Vallianatou T, Shariatgorji M, Nilsson A, ..., Svenningsson P, Andrén PE
Neuropsychopharmacology 44 (12) 2091-2098 [2019-11-00; online 2019-04-22]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Mice exposed to maternal androgen excess and diet-induced obesity have altered phosphorylation of catechol-O-methyltransferase in the placenta and fetal liver.
Fornes R, Manti M, Qi X, ..., Benrick A, Stener-Victorin E
Int J Obes (Lond) 43 (11) 2176-2188 [2019-11-00; online 2019-01-22]
Glycoproteomics and MS Proteomics [Collaborative]
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Mesenchymal transition and increased therapy resistance of glioblastoma cells is related to astrocyte reactivity.
Niklasson M, Bergström T, Jarvius M, ..., Segerman B, Segerman A
J. Pathol. 249 (3) 295-307 [2019-11-00; online 2019-08-31]
Drug Discovery and Development (DDD) [Service]
DOI Crossref
Mass transport during coagulation of cellulose-ionic liquid solutions in different non-solvents
Hedlund A, Theliander H, Köhnke T
Cellulose 26 (16) 8525-8541 [2019-11-00; online 2019-08-19]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Leveraging European infrastructures to access 1 million human genomes by 2022.
Saunders G, Baudis M, Becker R, ..., Blomberg N, Scollen S
Nat. Rev. Genet. 20 (11) 693-701 [2019-11-00; online 2019-08-27]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Influence of blue mussel (Mytilus edulis) intake on fatty acid composition in erythrocytes and plasma phospholipids and serum metabolites in women with rheumatoid arthritis.
Lindqvist HM, Gjertsson I, Andersson S, Calder PC, Bärebring L
Prostaglandins, Leukotrienes and Essential Fatty Acids (PLEFA) 150 (-) 7-15 [2019-11-00; online 2019-08-24]
Bioinformatics Support for Computational Resources [Service] Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
In search of causal pathways in diabetes: a study using proteomics and genotyping data from a cross-sectional study.
Beijer K, Nowak C, Sundström J, ..., Fall T, Lind L
Diabetologia 62 (11) 1998-2006 [2019-11-00; online 2019-08-24]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] Clinical Biomarkers [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Identification of two abundant Aerococcus urinae cell wall-anchored proteins.
Senneby E, Sunnerhagen T, Hallström B, ..., Karlsson C, Rasmussen M
Int. J. Med. Microbiol. 309 (7) 151325 [2019-11-00; online 2019-06-24]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Genomic analysis of Staphylococcus capitis isolated from blood cultures in neonates at a neonatal intensive care unit in Sweden.
Stenmark B, Hellmark B, Söderquist B
Eur. J. Clin. Microbiol. Infect. Dis. 38 (11) 2069-2075 [2019-11-00; online 2019-08-09]
Clinical Genomics Örebro [Collaborative]
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Genetic predisposition to mosaic Y chromosome loss in blood.
Thompson DJ, Genovese G, Halvardson J, ..., Forsberg LA, Perry JRB
Nature 575 (7784) 652-657 [2019-11-00; online 2019-11-20]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Genetic differentiation between and within ecotypes of pike (Esox lucius) in the Baltic Sea
Nordahl O, Koch‐Schmidt P, Sunde J, ..., Forsman A, Larsson P
Aquatic Conserv: Mar Freshw Ecosyst 29 (11) 1923-1935 [2019-11-00; online 2019-08-16]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic architecture of subcortical brain structures in 38,851 individuals.
Satizabal CL, Adams HHH, Hibar DP, ..., Seshadri S, Ikram MA
Nat. Genet. 51 (11) 1624-1636 [2019-11-00; online 2019-10-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Establishing arthropod community composition using metabarcoding: Surprising inconsistencies between soil samples and preservative ethanol and homogenate from Malaise trap catches.
Marquina D, Esparza-Salas R, Roslin T, Ronquist F
Mol Ecol Resour 19 (6) 1516-1530 [2019-11-00; online 2019-09-18]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Electrochemical Evaluation of a Napthalene Diimide Derivative for Potential Application in Aqueous Organic Redox Flow Batteries
Wiberg C, Owusu F, Wang E, Ahlberg E
Energy Technol. 7 (11) 1900843 [2019-11-00; online 2019-08-23]
Swedish NMR Centre (SNC) [Service]
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EZH2 upregulates the PI3K/AKT pathway through IGF1R and MYC in clinically aggressive chronic lymphocytic leukaemia.
Kosalai ST, Morsy MHA, Papakonstantinou N, ..., Rosenquist R, Kanduri M
Epigenetics 14 (11) 1125-1140 [2019-11-00; online 2019-06-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Diagnostic pitfalls in vitamin B6-dependent epilepsy caused by mutations in the PLPBP gene.
Jensen KV, Frid M, Stödberg T, ..., Darin N, Grønborg S
JIMD Rep 50 (1) 1-8 [2019-11-00; online 2019-09-30]
Clinical Genomics Stockholm [Service]
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Chemical Screening Pipeline for Identification of Specific Plant Autophagy Modulators.
Dauphinee AN, Cardoso C, Dalman K, ..., Bozhkov PV, Minina EA
Plant Physiol. 181 (3) 855-866 [2019-11-00; online 2019-09-05]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Characterization of Bacterial Communities in Breeding Waters of Anopheles darlingi in Manaus in the Amazon Basin Malaria-Endemic Area.
Nilsson LKJ, de Oliveira MR, Marinotti O, ..., de Souza AQL, Terenius O
Microb. Ecol. 78 (4) 781-791 [2019-11-00; online 2019-04-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Challenges in the Multivariate Analysis of Mass Cytometry Data: The Effect of Randomization.
Papoutsoglou G, Lagani V, Schmidt A, ..., Tegnér J, Tsamardinos I
Cytometry A 95 (11) 1178-1190 [2019-11-00; online 2019-11-06]
Cellular Immunomonitoring [Service]
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Assessment of genetic and non-genetic risk factors for venous thromboembolism in glioblastoma - The predictive significance of B blood group.
Heenkenda MK, Malmström A, Lysiak M, ..., Uppugunduri S, Osman A
Thromb. Res. 183 (-) 136-142 [2019-11-00; online 2019-10-22]
Clinical Genomics Linköping [Service]
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A somatic mutation in CLCN2 identified in a sporadic aldosterone-producing adenoma.
Dutta RK, Arnesen T, Heie A, ..., Söderkvist P, Gimm O
Eur. J. Endocrinol. 181 (5) K37-K41 [2019-11-00; online 2019-09-07]
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A revised solid-state NMR method to assess the crystallinity of cellulose
Sparrman T, Svenningsson L, Sahlin-Sjövold K, ..., Westman G, Bernin D
Cellulose 26 (17) 8993-9003 [2019-11-00; online 2019-09-03]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
A rapid and accurate method to quantify neurite outgrowth from cell and tissue cultures: Two image analytic approaches using adaptive thresholds or machine learning
Ossinger A, Bajic A, Pan S, ..., Hailer NP, Schizas N
Journal of Neuroscience Methods 331 (-) 108522 [2019-11-00; online 2019-11-00]
BioImage Informatics [Collaborative] Bioinformatics Support for Computational Resources [Service]
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The architecture of the Plasmodiophora brassicae nuclear and mitochondrial genomes.
Stjelja S, Fogelqvist J, Tellgren-Roth C, Dixelius C
Sci Rep 9 (1) 15753 [2019-10-31; online 2019-10-31]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Associations of autozygosity with a broad range of human phenotypes.
Clark DW, Okada Y, Moore KHS, ..., Kubo M, Wilson JF
Nat Commun 10 (1) 4957 [2019-10-31; online 2019-10-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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High-grade progression confers poor survival in pancreatic neuroendocrine tumors.
Botling J, Lamarca A, Bajic D, ..., Skogseid B, Crona J
Neuroendocrinology - (-) - [2019-10-29; online 2019-10-29]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
CRISPR-Cas9-mediated knockout of SPRY2 in human hepatocytes leads to increased glucose uptake and lipid droplet accumulation.
Cook NL, Pjanic M, Emmerich AG, ..., Castillejo-López C, Ingelsson E
BMC Endocr Disord 19 (1) 115 [2019-10-29; online 2019-10-29]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Inhibition of translation termination by small molecules targeting ribosomal release factors.
Ge X, Oliveira A, Hjort K, ..., Sanyal S, Åqvist J
Sci Rep 9 (1) 15424 [2019-10-28; online 2019-10-28]
Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Comparative analysis of obesity-related cardiometabolic and renal biomarkers in human plasma and serum.
Rajan MR, Sotak M, Barrenäs F, ..., Lange S, Börgeson E
Sci Rep 9 (1) 15385 [2019-10-28; online 2019-10-28]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Assembly and Analysis of the Genome Sequence of the Yeast Brettanomyces naardenensis CBS 7540.
Tiukova IA, Jiang H, Dainat J, ..., Gu Z, Passoth V
Microorganisms 7 (11) - [2019-10-26; online 2019-10-26]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Detection of a High-Turnover Serotonin Circuit in the Mouse Brain Using Mass Spectrometry Imaging.
Sugiyama E, Guerrini MM, Honda K, ..., Suematsu M, Sugiura Y
iScience 20 (-) 359-372 [2019-10-25; online 2019-09-27]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Detailed Functional Characterization of a Waist-Hip Ratio Locus in 7p15.2 Defines an Enhancer Controlling Adipocyte Differentiation.
Castillejo-Lopez C, Pjanic M, Pirona AC, ..., Arner E, Ingelsson E
iScience 20 (-) 42-59 [2019-10-25; online 2019-09-10]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A chromosome-level assembly of the Atlantic herring genome-detection of a supergene and other signals of selection.
Pettersson ME, Rochus CM, Han F, ..., Folkvord A, Andersson L
Genome Res. - (-) - [2019-10-24; online 2019-10-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
The SH3 domains of the protein kinases ITK and LCK compete for adjacent sites on T cell-specific adapter protein.
Andersen TCB, Kristiansen PE, Huszenicza Z, ..., Andreotti AH, Spurkland A
J. Biol. Chem. 294 (42) 15480-15494 [2019-10-18; online 2019-09-04]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Puma genomes from North and South America provide insights into the genomic consequences of inbreeding.
Saremi NF, Supple MA, Byrne A, ..., Wilmers CC, Shapiro B
Nat Commun 10 (1) 4769 [2019-10-18; online 2019-10-18]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Metal free synthesis of ethylene and propylene carbonate from alkylene halohydrin and CO2 at room temperature.
Khokarale SG, Mikkola JP
RSC Adv. 9 (58) 34023-34031 [2019-10-18; online 2019-10-22]
Swedish NMR Centre (SNC) [Service]
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Lipidomics in Ulcerative Colitis Reveal Alteration in Mucosal Lipid Composition Associated With the Disease State.
Diab J, Hansen T, Goll R, ..., Florholmen J, Forsdahl G
Inflamm Bowel Dis 25 (11) 1780-1787 [2019-10-18; online 2019-05-12]
Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
DPI Selectively Inhibits Intracellular NADPH Oxidase Activity in Human Neutrophils.
Buck A, Sanchez Klose FP, Venkatakrishnan V, ..., Christenson K, Bylund J
Immunohorizons 3 (10) 488-497 [2019-10-18; online 2019-10-18]
Glycoproteomics and MS Proteomics [Service]
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Considerations and Implications in the Purification of Extracellular Vesicles - A Cautionary Tale.
Lee YXF, Johansson H, Wood MJA, El Andaloussi S
Front. Neurosci. 13 (-) 1067 [2019-10-18; online 2019-10-18]
Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Whole-genome sequencing of synchronous thyroid carcinomas identifies aberrant DNA repair in thyroid cancer dedifferentiation
Paulsson JO, Backman S, Wang N, ..., Zedenius J, Juhlin CC
J. Pathol - (-) - [2019-10-17; online 2019-10-17]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Microbe-host interplay in atopic dermatitis and psoriasis.
Fyhrquist N, Muirhead G, Prast-Nielsen S, ..., Andersson B, Alenius H
Nat Commun 10 (1) 4703 [2019-10-16; online 2019-10-16]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Metagenomes and metatranscriptomes from boreal potential and actual acid sulfate soil materials.
Högfors-Rönnholm E, Lopez-Fernandez M, Christel S, ..., Engblom S, Dopson M
Sci Data 6 (1) 207 [2019-10-16; online 2019-10-16]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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doepipeline: a systematic approach to optimizing multi-level and multi-step data processing workflows.
Svensson D, Sjögren R, Sundell D, Sjödin A, Trygg J
BMC Bioinformatics 20 (1) 498 [2019-10-15; online 2019-10-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Monitoring of Protein Biomarkers of Inflammation in Human Traumatic Brain Injury Using Microdialysis and Proximity Extension Assay Technology in Neurointensive Care.
Dyhrfort P, Shen Q, Clausen F, ..., Lewén A, Hillered L
J. Neurotrauma 36 (20) 2872-2885 [2019-10-15; online 2019-06-17]
Affinity Proteomics Uppsala [Technology development] PLA and Single Cell Proteomics [Technology development]
DOI Crossref
Challenges for CLEM from a Light Microscopy Perspective
Anderson K, Nilsson T, Fernandez‐Rodriguez J
John Wiley & Sons Ltd 2 (-) 23-35 [2019-10-15; online 2019-09-06]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
CSF levels of apolipoprotein C1 and autotaxin found to associate with neuropathic pain and fibromyalgia.
Lind AL, Just D, Mikus M, ..., Gordh T, Månberg A
J Pain Res 12 (-) 2875-2889 [2019-10-15; online 2019-10-15]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Associations Between Attention-Deficit/Hyperactivity Disorder and Various Eating Disorders: A Swedish Nationwide Population Study Using Multiple Genetically Informative Approaches.
Yao S, Kuja-Halkola R, Martin J, ..., Bulik CM, Larsson H
Biol. Psychiatry 86 (8) 577-586 [2019-10-15; online 2019-05-15]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dynamic Nanocellulose Networks for Thermoset-like yet Recyclable Plastics with a High Melt Stiffness and Creep Resistance.
Peterson A, Östergren I, Lotsari A, ..., Boldizar A, Müller C
Biomacromolecules 20 (10) 3924-3932 [2019-10-14; online 2019-09-17]
Cryo-EM [Technology development]
PubMed DOI Crossref
A Fluorescent Kinase Inhibitor that Exhibits Diagnostic Changes in Emission upon Binding.
Fleming CL, Sandoz PA, Inghardt T, ..., Grøtli M, Andréasson J
Angew. Chem. Int. Ed. Engl. 58 (42) 15000-15004 [2019-10-14; online 2019-09-05]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Novel functional proteins coded by the human genome discovered in metastases of melanoma patients.
Sanchez A, Kuras M, Murillo JR, ..., Betancourt LH, Marko-Varga G
Cell Biol. Toxicol. - (-) - [2019-10-10; online 2019-10-10]
Structural Proteomics [Service]
PubMed DOI Crossref
N-Trifluoromethylthiolated Sulfonimidamides and Sulfoximines: Anti-microbial, Anti-mycobacterial, and Cytotoxic Activity.
Thota N, Makam P, Rajbongshi KK, ..., Naicker T, Arvidsson PI
ACS Med Chem Lett 10 (10) 1457-1461 [2019-10-10; online 2019-09-11]
Drug Discovery and Development (DDD) [Technology development]
PubMed DOI Crossref
Correction: APR-246 reactivates mutant p53 by targeting cysteines 124 and 277.
Zhang Q, Bykov VJN, Wiman KG, Zawacka-Pankau J
Cell Death Dis 10 (10) 769 [2019-10-10; online 2019-10-10]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Chromosomal Abnormalities and Prognosis in NPM1-Mutated Acute Myeloid Leukemia: A Pooled Analysis of Individual Patient Data From Nine International Cohorts.
Angenendt L, Röllig C, Montesinos P, ..., Krug U, Schliemann C
J Clin Oncol 37 (29) 2632-2642 [2019-10-10; online 2019-08-20]
Bioinformatics Support for Computational Resources [Service]
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The genomic ancestry of the Scandinavian Battle Axe Culture people and their relation to the broader Corded Ware horizon.
Malmström H, Günther T, Svensson EM, ..., Storå J, Jakobsson M
Proc. Biol. Sci. 286 (1912) 20191528 [2019-10-09; online 2019-10-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SynQuant: an automatic tool to quantify synapses from microscopy images
Wang Y, Wang C, Ranefall P, ..., Tian L, Yu G
Bioinformatics 36 (5) 1599-1606 [2019-10-09; online 2019-10-09]
BioImage Informatics [Collaborative]
PubMed DOI Crossref
Molecular dynamics involving proton exchange of a protic ionic liquid-water mixture studied by NMR spectroscopy.
Hasani M, Nordstierna L, Martinelli A
Phys Chem Chem Phys 21 (39) 22014-22021 [2019-10-09; online 2019-09-27]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Intracrystalline Transport Barriers Affecting the Self-Diffusion of CH4 in Zeolites |Na12|-A and |Na12–K|-A
Hedin N, Rzepka P, Jasso-Salcedo AB, Church TL, Bernin D
Langmuir 35 (40) 12971-12978 [2019-10-08; online 2019-09-11]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Along the Indian Ocean coast: genomic variation in Mozambique provides new insights into the Bantu expansion.
Semo A, Gayà-Vidal M, Fortes-Lima C, ..., Schlebusch C, Rocha J
Mol. Biol. Evol. - (-) - [2019-10-08; online 2019-10-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Reduced sialyl-Lewisx on salivary MUC7 from patients with burning mouth syndrome.
Acharya S, Jin C, Bylund J, ..., Carlén A, Karlsson NG
Mol Omics 15 (5) 331-339 [2019-10-07; online 2019-08-16]
Affinity Proteomics Uppsala [Collaborative] Glycoproteomics and MS Proteomics [Collaborative] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
Above-below surface interactions mediate effects of seagrass disturbance on meiobenthic diversity, nematode and polychaete trophic structure.
Nascimento FJA, Dahl M, Deyanova D, ..., Creer S, Gullström M
Commun Biol 2 (-) 362 [2019-10-04; online 2019-10-04]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Target genes, variants, tissues and transcriptional pathways influencing human serum urate levels.
Tin A, Marten J, Halperin Kuhns VL, ..., Vitart V, Köttgen A
Nat. Genet. - (-) - [2019-10-02; online 2019-10-02]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Proteomic Analysis of Longitudinal Changes in Blood Pressure.
Lin YT, Fall T, Hammar U, ..., Engström G, Sundström J
J Clin Med 8 (10) 1585 [2019-10-02; online 2019-10-02]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Skeletal Mineralization in Association with Type X Collagen Expression Is an Ancestral Feature for Jawed Vertebrates.
Debiais-Thibaud M, Simion P, Ventéo S, ..., Mazan S, Haitina T
Mol. Biol. Evol. 36 (10) 2265-2276 [2019-10-01; online 2019-07-05]
Bioinformatics Support for Computational Resources [Service] Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Molecular characterization of particulate organic matter in full scale anaerobic digesters: An NMR spectroscopy study.
Shakeri Yekta S, Hedenström M, Svensson BH, ..., Hertkorn N, Björn A
Sci. Total Environ. 685 (-) 1107-1115 [2019-10-01; online 2019-06-18]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Interoperable and scalable data analysis with microservices: applications in metabolomics.
Emami Khoonsari P, Moreno P, Bergmann S, ..., Kultima K, Spjuth O
Bioinformatics 35 (19) 3752-3760 [2019-10-01; online 2019-03-10]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Industrial wastewater treatment plant enriches antibiotic resistance genes and alters the structure of microbial communities.
Bengtsson-Palme J, Milakovic M, Švecová H, ..., Grabic R, Udikovic-Kolic N
Water Res. 162 (-) 437-445 [2019-10-01; online 2019-07-04]
Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
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Extreme Differences in Recombination Rate between the Genomes of a Solitary and a Social Bee.
Jones JC, Wallberg A, Christmas MJ, Kapheim KM, Webster MT
Mol. Biol. Evol. 36 (10) 2277-2291 [2019-10-01; online 2019-05-31]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dissecting the Effects of Selection and Mutation on Genetic Diversity in Three Wood White (Leptidea) Butterfly Species.
Talla V, Soler L, Kawakami T, ..., Wiklund C, Backström N
Genome Biol Evol 11 (10) 2875-2886 [2019-10-01; online 2019-10-04]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cellular uptake of self-assembled phytantriol-based hexosomes is independent of major endocytic machineries.
Rodrigues L, Schneider F, Zhang X, ..., Lundmark R, Hubert M
Journal of Colloid and Interface Science 553 (-) 820-833 [2019-10-01; online 2019-06-19]
Integrated Microscopy Technologies Umeå [Collaborative]
PubMed DOI Crossref
Upregulation of PBP1B and LpoB in cysB Mutants Confers Mecillinam (Amdinocillin) Resistance in Escherichia coli.
Thulin E, Andersson DI
Antimicrob. Agents Chemother. 63 (10) - [2019-10-00; online 2019-09-23]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Transcriptome and Proteome Profiling of Neural Induced Pluripotent Stem Cells from Individuals with Down Syndrome Disclose Dynamic Dysregulations of Key Pathways and Cellular Functions.
Sobol M, Klar J, Laan L, ..., Falk A, Dahl N
Mol Neurobiol 56 (10) 7113-7127 [2019-10-00; online 2019-04-13]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Real time MRI to elucidate the functionality of coating films intended for modified release.
Bernin D, Marucci M, Boissier C, ..., Olsson U, Abrahmsén-Alami S
Journal of Controlled Release 311-312 (-) 117-124 [2019-10-00; online 2019-08-24]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Molecular subtypes applied to a population-based modern cystectomy series do not predict cancer-specific survival.
Kollberg P, Chebil G, Eriksson P, Sjödahl G, Liedberg F
Urol Oncol 37 (10) 791-799 [2019-10-00; online 2019-05-02]
Clinical Genomics Lund [Service]
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Implantable Organic Electronic Ion Pump Enables ABA Hormone Delivery for Control of Stomata in an Intact Tobacco Plant.
Bernacka-Wojcik I, Huerta M, Tybrandt K, ..., Berggren M, Stavrinidou E
Small 15 (43) e1902189 [2019-10-00; online 2019-09-12]
Swedish Metabolomics Centre (SMC) [Service]
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Genetic variations in A20 DUB domain provide a genetic link to citrullination and neutrophil extracellular traps in systemic lupus erythematosus.
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NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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New Phytol. 224 (1) 505-517 [2019-10-00; online 2019-08-01]
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Generation of in situ sequencing based OncoMaps to spatially resolve gene expression profiles of diagnostic and prognostic markers in breast cancer.
Svedlund J, Strell C, Qian X, ..., Sieuwerts AM, Nilsson M
EBioMedicine 48 (-) 212-223 [2019-10-00; online 2019-09-13]
In Situ Sequencing (ISS) [Technology development]
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Exploring a Pool-seq-only approach for gaining population genomic insights in nonmodel species.
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Ecol Evol 9 (19) 11448-11463 [2019-10-00; online 2019-09-26]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Endocytic pathway of vascular cell adhesion molecule 1 in human umbilical vein endothelial cell identified in vitro by using functionalized nontoxic fluorescent quantum dots
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Sensors and Actuators B: Chemical 297 (-) 126702 [2019-10-00; online 2019-10-00]
Integrated Microscopy Technologies Stockholm [Service]
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Elevated IL-27 in patients with acute coronary syndrome is associated with adverse ventricular remodeling and increased risk of recurrent myocardial infarction and cardiovascular death.
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Cytokine 122 (-) 154208 [2019-10-00; online 2018-02-07]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Early Pleistocene enamel proteome from Dmanisi resolves Stephanorhinus phylogeny.
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Nature 574 (7776) 103-107 [2019-10-00; online 2019-09-11]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Distribution of bacteria between different milk fractions, investigated using culture-dependent methods and molecular-based and fluorescent microscopy approaches.
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J Appl Microbiol 127 (4) 1028-1037 [2019-10-00; online 2019-07-22]
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Discovery and development of substituted thiadiazoles as inhibitors of Staphylococcus aureus Sortase A
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Bioorganic & Medicinal Chemistry 27 (19) 115043 [2019-10-00; online 2019-10-00]
Chemical Biology Consortium Sweden (CBCS) [Service] Glycoproteomics and MS Proteomics [Service] Swedish NMR Centre (SNC) [Service]
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Comprehensive mapping of neurotransmitter networks by MALDI-MS imaging.
Shariatgorji M, Nilsson A, Fridjonsdottir E, ..., Odell LR, Andrén PE
Nat. Methods 16 (10) 1021-1028 [2019-10-00; online 2019-09-23]
Spatial Mass Spectrometry [Technology development]
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Cell generation dynamics underlying naive T-cell homeostasis in adult humans.
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A clonal expression biomarker associates with lung cancer mortality.
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Nat. Med. 25 (10) 1540-1548 [2019-10-00; online 2019-10-07]
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Significant Changes in Metabolic Profiles after Intervention with Selenium and Coenzyme Q10 in an Elderly Population.
Alehagen U, Johansson P, Aaseth J, ..., Lundstedt-Enkel K, Lundstedt T
Biomolecules 9 (10) - [2019-09-30; online 2019-09-30]
Swedish Metabolomics Centre (SMC) [Service]
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Prognostic Impact of BRAF and KRAS Mutation in Patients with Colorectal and Appendiceal Peritoneal Metastases Scheduled for CRS and HIPEC.
Graf W, Cashin PH, Ghanipour L, ..., Terman A, Birgisson H
Ann. Surg. Oncol. - (-) - [2019-09-30; online 2019-09-30]
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Interaction between VPS35 and RABG3f is necessary as a checkpoint to control fusion of late compartments with the vacuole.
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Proc. Natl. Acad. Sci. U.S.A. - (-) - [2019-09-30; online 2019-09-30]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Clinical candidate and genistein analogue AXP107-11 has chemoenhancing functions in pancreatic adenocarcinoma through G protein-coupled estrogen receptor signaling.
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Cancer Med - (-) - [2019-09-30; online 2019-09-30]
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Leaf metabolic signatures induced by real and simulated herbivory in black mustard (Brassica nigra).
Papazian S, Girdwood T, Wessels BA, ..., Moritz T, Albrectsen BR
Metabolomics 15 (10) 130 [2019-09-28; online 2019-09-28]
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Complete genomes of two extinct New Zealand passerines show responses to climate fluctuations but no evidence for genomic erosion prior to extinction.
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Cold Atmospheric Plasma Disarms M1 Protein, an Important Streptococcal Virulence Factor.
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Ethylene Signaling Is Required for Fully Functional Tension Wood in Hybrid Aspen.
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Elife 8 (-) - [2019-09-25; online 2019-09-25]
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Predisposition to childhood acute lymphoblastic leukemia caused by a constitutional translocation disrupting ETV6.
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Novel Y-Chromosome Long Non-Coding RNAs Expressed in Human Male CNS During Early Development.
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Ataxia in Patients With Bi-Allelic NFASC Mutations and Absence of Full-Length NF186.
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IGEMS: The Consortium on Interplay of Genes and Environment Across Multiple Studies - An Update.
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Microwave Synthesis of Alkali‐Free Hexaniobate, Decaniobate, and Hexatantalate Polyoxometalate Ions
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Hypermethylation-associated downregulation of microRNA-4456 in hypersexual disorder with putative influence on oxytocin signalling: A DNA methylation analysis of miRNA genes.
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The TGFB2-AS1 lncRNA Regulates TGF-β Signaling by Modulating Corepressor Activity.
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Phylogenetic microbiota profiling in fecal samples depends on combination of sequencing depth and choice of NGS analysis method.
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Model System for the Formation of Tick-Borne Encephalitis Virus Replication Compartments without Viral RNA Replication.
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Genomic and Seasonal Variations among Aquatic Phages Infecting the Baltic Sea Gammaproteobacterium Rheinheimera sp. Strain BAL341.
Nilsson E, Li K, Fridlund J, ..., Pinhassi J, Holmfeldt K
Appl. Environ. Microbiol. 85 (18) - [2019-09-15; online 2019-08-29]
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Nestin Regulates Neurogenesis in Mice Through Notch Signaling From Astrocytes to Neural Stem Cells.
Wilhelmsson U, Lebkuechner I, Leke R, ..., Pekna M, Pekny M
Cereb. Cortex 29 (10) 4050-4066 [2019-09-13; online 2019-01-04]
Integrated Microscopy Technologies Gothenburg [Service]
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Electron cryo-microscopy of bacteriophage PR772 reveals the elusive vertex complex and the capsid architecture.
Reddy HK, Carroni M, Hajdu J, Svenda M
Elife 8 (-) - [2019-09-12; online 2019-09-12]
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A Single-Stranded Oligonucleotide Inhibits Toll-Like Receptor 3 Activation and Reduces Influenza A (H1N1) Infection.
Poux C, Dondalska A, Bergenstråhle J, ..., Tregoning JS, Spetz AL
Front Immunol 10 (-) 2161 [2019-09-12; online 2019-09-12]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genome-wide association meta-analyses and fine-mapping elucidate pathways influencing albuminuria.
Teumer A, Li Y, Ghasemi S, ..., Pattaro C, Köttgen A
Nat Commun 10 (1) 4130 [2019-09-11; online 2019-09-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Correlative STED super-resolution light and electron microscopy on resin sections
Wurm CA, Schwarz H, Jans DC, ..., Humbel BM, Jakobs S
J. Phys. D: Appl. Phys. 52 (37) 374003 [2019-09-11; online 2019-07-16]
Integrated Microscopy Technologies Stockholm [Technology development]
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Recurrent convergent evolution at amino acid residue 261 in fish rhodopsin.
Hill J, Enbody ED, Pettersson ME, ..., Scheerer P, Andersson L
Proc. Natl. Acad. Sci. U.S.A. 116 (37) 18473-18478 [2019-09-10; online 2019-08-26]
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Metagenomes from Coastal Marine Sediments Give Insights into the Ecological Role and Cellular Features of Loki- and Thorarchaeota.
Manoharan L, Kozlowski JA, Murdoch RW, ..., Sousa FL, Schleper C
MBio 10 (5) - [2019-09-10; online 2019-09-10]
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Evaluation of the Genetic Association Between Adult Obesity and Neuropsychiatric Disease.
Stahel P, Nahmias A, Sud SK, ..., Batterham RL, Dash S
Diabetes - (-) - [2019-09-10; online 2019-09-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Combining ERBB family and MET inhibitors is an effective therapeutic strategy in cutaneous malignant melanoma independent of BRAF/NRAS mutation status.
Das I, Wilhelm M, Höiom V, ..., Tuominen R, Egyhàzi Brage S
Cell Death Dis 10 (9) 663 [2019-09-10; online 2019-09-10]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
μLAS technology for DNA isolation coupled to Cas9-assisted targeting for sequencing and assembly of a 30 kb region in plant genome.
Milon N, Chantry-Darmon C, Satge C, ..., Bergès H, Bancaud A
Nucleic Acids Res. 47 (15) 8050-8060 [2019-09-05; online 2019-09-11]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Differential gene expression in bovine endometrial epithelial cells after challenge with LPS; specific implications for genes involved in embryo maternal interactions.
Guo Y, van Schaik T, Jhamat N, ..., Andersson G, Humblot P
PLoS ONE 14 (9) e0222081 [2019-09-05; online 2019-09-05]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Protein prenylation restrains innate immunity by inhibiting Rac1 effector interactions.
Akula MK, Ibrahim MX, Ivarsson EG, ..., Sayin VI, Bergo MO
Nat Commun 10 (1) 3975 [2019-09-04; online 2019-09-04]
Glycoproteomics and MS Proteomics [Service]
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Genome Sequencing of Pleurozium schreberi: The Assembled and Annotated Draft Genome of a Pleurocarpous Feather Moss.
Pederson ERA, Warshan D, Rasmussen U
G3 (Bethesda) 9 (9) 2791-2797 [2019-09-04; online 2019-09-04]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Associations of Smoking and Alcohol and Coffee Intake with Fracture and Bone Mineral Density: A Mendelian Randomization Study.
Yuan S, Michaëlsson K, Wan Z, Larsson SC
Calcif. Tissue Int. - (-) - [2019-09-04; online 2019-09-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genetic variance of metabolomic features and their relationship with body weight and body weight gain in Holstein cattle1
Aliakbari A, Ehsani A, Vaez Torshizi R, ..., Jensen J, Sarup P
J. Anim. Sci. 97 (9) 3832-3844 [2019-09-03; online 2019-07-05]
Swedish NMR Centre (SNC) [Service]
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A novel tumor spheroid model identifies selective enhancement of radiation by an inhibitor of oxidative phosphorylation.
Karlsson H, Senkowski W, Fryknäs M, ..., Larsson R, Nygren P
Oncotarget 10 (51) 5372-5382 [2019-09-03; online 2019-09-03]
Drug Discovery and Development (DDD) [Service]
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Vimentin Phosphorylation Is Required for Normal Cell Division of Immature Astrocytes.
de Pablo Y, Marasek P, Pozo-Rodrigálvarez A, ..., Pekna M, Pekny M
Cells 8 (9) 1016 [2019-09-01; online 2019-09-01]
Integrated Microscopy Technologies Gothenburg [Service]
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The autoantibody response to cyclic citrullinated collagen type II peptides in rheumatoid arthritis.
Liang B, Ge C, Lönnblom E, ..., Zhao M, Holmdahl R
Rheumatology (Oxford) 58 (9) 1623-1633 [2019-09-01; online 2019-03-21]
Autoimmunity and Serology Profiling [Service]
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Perturbed ovarian and uterine glucocorticoid receptor signaling accompanies the balanced regulation of mitochondrial function and NFκB-mediated inflammation under conditions of hyperandrogenism and insulin resistance.
Hu M, Zhang Y, Guo X, ..., Shao LR, Billig H
Life Sciences 232 (-) 116681 [2019-09-01; online 2019-07-23]
Integrated Microscopy Technologies Gothenburg [Service]
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Multilayered Tuning of Dosage Compensation and Z-Chromosome Masculinization in the Wood White (Leptidea sinapis) Butterfly.
Höök L, Leal L, Talla V, Backström N
Genome Biol Evol 11 (9) 2633-2652 [2019-09-01; online 2019-08-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic Affinities among Southern Africa Hunter-Gatherers and the Impact of Admixing Farmer and Herder Populations.
Vicente M, Jakobsson M, Ebbesen P, Schlebusch CM
Mol. Biol. Evol. 36 (9) 1849-1861 [2019-09-01; online 2019-07-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Effects of allochthonous dissolved organic matter input on microbial composition and nitrogen-cycling genes at two contrasting estuarine sites.
Happel EM, Markussen T, Teikari JE, ..., Kisand V, Riemann L
FEMS Microbiol. Ecol. 95 (9) - [2019-09-01; online 2019-08-10]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Ancestral Admixture Is the Main Determinant of Global Biodiversity in Fission Yeast.
Tusso S, Nieuwenhuis BPS, Sedlazeck FJ, ..., Jeffares DC, Wolf JBW
Mol. Biol. Evol. 36 (9) 1975-1989 [2019-09-01; online 2019-06-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Whole exome sequencing identifies novel variant underlying hereditary spastic paraplegia in consanguineous Pakistani families.
Zulfiqar S, Tariq M, Ali Z, ..., Dahl N, Baig SM
J Clin Neurosci 67 (-) 19-23 [2019-09-00; online 2019-07-04]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Targeted ultra-deep sequencing of a South African Bantu-speaking cohort to comprehensively map and characterize common and novel variants in 65 pharmacologically-related genes.
Tshabalala S, Choudhury A, Beeton-Kempen N, ..., Ramsay M, Mancama D
Pharmacogenet. Genomics 29 (7) 167-178 [2019-09-00; online 2019-06-05]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Protein kinase MST3 modulates lipid homeostasis in hepatocytes and correlates with nonalcoholic steatohepatitis in humans.
Cansby E, Kulkarni NM, Magnusson E, ..., Blüher M, Mahlapuu M
FASEB J. 33 (9) 9974-9989 [2019-09-00; online 2019-06-07]
Glycoproteomics and MS Proteomics [Collaborative]
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Orthologous nuclear markers and new transcriptomes that broadly cover the phylogenetic diversity of Acanthaceae.
Morais EB, Schönenberger J, Conti E, Antonelli A, Szövényi P
Appl Plant Sci 7 (9) e11290 [2019-09-00; online 2019-09-25]
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Multiplexed analysis of the secretin-like GPCR-RAMP interactome.
Lorenzen E, Dodig-Crnković T, Kotliar IB, ..., Schwenk JM, Sakmar TP
Sci Adv 5 (9) eaaw2778 [2019-09-00; online 2019-09-18]
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Impact of demography on linked selection in two outcrossing Brassicaceae species.
Mattila TM, Laenen B, Horvath R, ..., Savolainen O, Slotte T
Ecol Evol 9 (17) 9532-9545 [2019-09-00; online 2019-08-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Global extracellular vesicle proteomic signature defines U87-MG glioma cell hypoxic status with potential implications for non-invasive diagnostics.
Indira Chandran V, Welinder C, Gonçalves de Oliveira K, ..., Marko-Varga G, Belting M
J. Neurooncol. 144 (3) 477-488 [2019-09-00; online 2019-08-14]
Structural Proteomics [Service]
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FLT3N676K drives acute myeloid leukemia in a xenograft model of KMT2A-MLLT3 leukemogenesis.
Hyrenius-Wittsten A, Pilheden M, Falqués-Costa A, ..., Järås M, Hagström-Andersson AK
Leukemia 33 (9) 2310-2314 [2019-09-00; online 2019-04-05]
Clinical Genomics Lund [Service]
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Exploration of potential biochemical markers for persistence of patent ductus arteriosus in preterm infants at 22-27 weeks' gestation.
Olsson KW, Larsson A, Jonzon A, Sindelar R
Pediatr. Res. 86 (3) 333-338 [2019-09-00; online 2018-09-18]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Direct effects of organic pollutants on the growth and gene expression of the Baltic Sea model bacterium Rheinheimera sp. BAL341.
Karlsson CMG, Cerro-Gálvez E, Lundin D, ..., Vila-Costa M, Pinhassi J
Microb Biotechnol 12 (5) 892-906 [2019-09-00; online 2019-07-04]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Dimerization of 9,10-anthraquinone-2,7-Disulfonic acid (AQDS)
Wiberg C, Carney TJ, Brushett F, Ahlberg E, Wang E
Electrochimica Acta 317 (-) 478-485 [2019-09-00; online 2019-09-00]
Swedish NMR Centre (SNC) [Service]
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Copy number variation and neuropsychiatric problems in females and males in the general population.
Martin J, Tammimies K, Karlsson R, ..., Lichtenstein P, Magnusson PKE
Am. J. Med. Genet. B Neuropsychiatr. Genet. 180 (6) 341-350 [2019-09-00; online 2018-10-11]
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Combining microdialysis with metabolomics to characterize the in situ composition of dissolved organic compounds in boreal forest soil
Randewig D, Marshall JD, Näsholm T, Jämtgård S
Soil Biology and Biochemistry 136 (-) 107530 [2019-09-00; online 2019-09-00]
Swedish Metabolomics Centre (SMC) [Service]
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A simultaneous assessment of organic matter and trace elements bio-accessibility in substrate and digestate from an anaerobic digestion plant.
Laera A, Shakeri Yekta S, Hedenström M, ..., Esposito G, van Hullebusch ED
Bioresour. Technol. 288 (-) 121587 [2019-09-00; online 2019-05-31]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
MiDRM pol: A High-Throughput Multiplexed Amplicon Sequencing Workflow to Quantify HIV-1 Drug Resistance Mutations against Protease, Reverse Transcriptase, and Integrase Inhibitors.
Aralaguppe SG, Ambikan AT, Ashokkumar M, ..., Sönnerborg A, Neogi U
Viruses 11 (9) - [2019-08-30; online 2019-08-30]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Large-scale GWAS reveals insights into the genetic architecture of same-sex sexual behavior.
Ganna A, Verweij KJH, Nivard MG, ..., Neale BM, Zietsch BP
Science 365 (6456) - [2019-08-30; online 2019-08-31]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Neuroticism as a predictor of frailty in old age: a genetically informative approach.
Danielsdottir HB, Jylhävä J, Hägg S, ..., Mosing MA, Lehto K
Psychosom Med - (-) - [2019-08-28; online 2019-08-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
DNA analysis of low- and high-density fractions defines heterogeneous subpopulations of small extracellular vesicles based on their DNA cargo and topology.
Lázaro-Ibáñez E, Lässer C, Shelke GV, ..., García-Rodríguez A, Lötvall J
J Extracell Vesicles 8 (1) 1656993 [2019-08-27; online 2019-08-27]
Integrated Microscopy Technologies Gothenburg [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Unique transcriptional and protein-expression signature in human lung tissue-resident NK cells.
Marquardt N, Kekäläinen E, Chen P, ..., Ljunggren HG, Michaëlsson J
Nat Commun 10 (1) 3841 [2019-08-26; online 2019-08-26]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Profiling surface proteins on individual exosomes using a proximity barcoding assay.
Wu D, Yan J, Shen X, ..., Landegren U, Kamali-Moghaddam M
Nat Commun 10 (1) 3854 [2019-08-26; online 2019-08-26]
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Array-Based Profiling of Proteins and Autoantibody Repertoires in CSF.
Pin E, Sjöberg R, Andersson E, ..., Nilsson P, Månberg A
Methods Mol. Biol. 2044 (-) 303-318 [2019-08-23; online 2019-08-23]
Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
The human transmembrane mucin MUC17 responds to TNFα by increased presentation at the plasma membrane.
Schneider H, Berger E, Dolan B, ..., Pelaseyed T, Hansson GC
Biochem. J. 476 (16) 2281-2295 [2019-08-22; online 2019-08-22]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Publisher Correction: Metabolic phenotype of breast-fed infants, and infants fed standard formula or bovine MFGM supplemented formula: a randomized controlled trial.
He X, Parenti M, Grip T, ..., Timby N, Slupsky CM
Sci Rep 9 (1) 12382 [2019-08-22; online 2019-08-22]
Swedish Metabolomics Centre (SMC) [Service]
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Syntaxin 5 Is Required for the Formation and Clearance of Protein Inclusions during Proteostatic Stress.
Babazadeh R, Ahmadpour D, Jia S, ..., Liu B, Nystrom T
Cell Rep 28 (8) 2096-2110.e8 [2019-08-20; online 2019-08-23]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Separation of Isomeric O-Glycans by Ion Mobility and Liquid Chromatography-Mass Spectrometry.
Jin C, Harvey DJ, Struwe WB, Karlsson NG
Anal. Chem. 91 (16) 10604-10613 [2019-08-20; online 2019-08-01]
Glycoproteomics and MS Proteomics [Technology development]
PubMed DOI Crossref
Molecular mimicry between Anoctamin 2 and Epstein-Barr virus nuclear antigen 1 associates with multiple sclerosis risk.
Tengvall K, Huang J, Hellström C, ..., Olsson T, Kockum I
Proc. Natl. Acad. Sci. U.S.A. 116 (34) 16955-16960 [2019-08-20; online 2019-08-02]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Molecular Basis and Ecological Relevance of Caulobacter Cell Filamentation in Freshwater Habitats.
Heinrich K, Leslie DJ, Morlock M, Bertilsson S, Jonas K
MBio 10 (4) - [2019-08-20; online 2019-08-20]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Non-parametric combination analysis of multiple data types enables detection of novel regulatory mechanisms in T cells of multiple sclerosis patients.
Fernandes SJ, Morikawa H, Ewing E, ..., Tegnér J, Gomez-Cabrero D
Sci Rep 9 (1) 11996 [2019-08-19; online 2019-08-19]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide systematic identification of methyltransferase recognition and modification patterns.
Jensen TØ, Tellgren-Roth C, Redl S, ..., Pedersen LE, Nielsen AT
Nat Commun 10 (1) 3311 [2019-08-19; online 2019-08-19]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Matrisome Properties of Scaffolds Direct Fibroblasts in Idiopathic Pulmonary Fibrosis.
Elowsson Rendin L, Löfdahl A, Åhrman E, ..., Malmström J, Westergren-Thorsson G
Int J Mol Sci 20 (16) - [2019-08-17; online 2019-08-17]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Toxic Activation of an AAA+ Protease by the Antibacterial Drug Cyclomarin A.
Maurer M, Linder D, Franke KB, ..., Bukau B, Mogk A
Cell Chem Biol 26 (8) 1169-1179.e4 [2019-08-15; online 2019-06-13]
Cryo-EM [Service]
PubMed DOI Crossref
Joint and unique multiblock analysis of biological data - multiomics malaria study.
Surowiec I, Skotare T, Sjögren R, ..., Normark J, Trygg J
Faraday Discuss. 218 (0) 268-283 [2019-08-15; online 2019-05-24]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Complete Genome Sequence of Hydrocarbon-Degrading Halotolerant Acinetobacter radioresistens DD78, Isolated from the Aconcagua River Mouth in Central Chile.
Macaya CC, Méndez V, Durán RE, ..., Moore ERB, Seeger M
Microbiol Resour Announc 8 (33) - [2019-08-15; online 2019-08-15]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genotyping by low-coverage whole-genome sequencing in intercross pedigrees from outbred founders: a cost-efficient approach.
Zan Y, Payen T, Lillie M, ..., Siegel PB, Carlborg Ö
Genet. Sel. Evol. 51 (1) 44 [2019-08-14; online 2019-08-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Statistical Analysis of Community RNA Transcripts between Organic Carbon and Geogas-Fed Continental Deep Biosphere Groundwaters.
Lopez-Fernandez M, Broman E, Simone D, Bertilsson S, Dopson M
MBio 10 (4) - [2019-08-13; online 2019-08-13]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Nucleation of an Activating Conformational Change by a Cation-π Interaction.
Rogne P, Andersson D, Grundström C, ..., Linusson A, Wolf-Watz M
Biochemistry 58 (32) 3408-3412 [2019-08-13; online 2019-07-29]
Swedish NMR Centre (SNC) [Service]
DOI Crossref
Functional Identification of Target by Expression Proteomics (FITExP)
Gaetani M, Zubarev RA
- - (-) 257-266 [2019-08-13; online 2019-07-26]
Chemical Proteomics [Technology development]
PubMed DOI Crossref
Glycosylation influences activity, stability and immobilization of the feruloyl esterase 1a from Myceliophthora thermophila.
Bonzom C, Hüttner S, Mirgorodskaya E, ..., Verhaert RMD, Olsson L
AMB Express 9 (1) 126 [2019-08-12; online 2019-08-12]
Glycoproteomics and MS Proteomics [Collaborative]
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PAK4 suppresses RELB to prevent senescence-like growth arrest in breast cancer.
Costa TDF, Zhuang T, Lorent J, ..., Defilippi P, Strömblad S
Nat Commun 10 (1) 3589 [2019-08-09; online 2019-08-09]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Lack of gene flow: Narrow and dispersed differentiation islands in a triplet of Leptidea butterfly species
Talla V, Johansson A, Dincă V, ..., Wiklund C, Backström N
Mol Ecol 28 (6) 3756-3770 [2019-08-08; online 2019-08-08]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Selective Enrichment of Phosphorylated Peptides by Monolithic Polymers Surface Imprinted with bis-Imidazolium Moieties by UV-Initiated Cryopolymerization.
Liu M, Torsetnes SB, Wierzbicka C, ..., Sellergren B, Irgum K
Anal. Chem. 91 (15) 10188-10196 [2019-08-06; online 2019-07-08]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Deciphering Isomers with a Multiple Reaction Monitoring Method for the Complete Detectable O-Glycan Repertoire of the Candidate Therapeutic, Lubricin.
Flowers SA, Lane CS, Karlsson NG
Anal. Chem. 91 (15) 9819-9827 [2019-08-06; online 2019-07-11]
Glycoproteomics and MS Proteomics [Technology development]
PubMed DOI Crossref
Classical Human Leukocyte Antigen Alleles and C4 Haplotypes Are Not Significantly Associated With Depression.
Glanville KP, Coleman JRI, Hanscombe KB, ..., O'Reilly PF, Lewis CM
Biol. Psychiatry - (-) - [2019-08-05; online 2019-08-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The Critical Role of Dysregulated RhoB Signaling Pathway in Radioresistance of Colorectal Cancer.
Liu N, Cui W, Jiang X, ..., Wang X, Sun XF
Int. J. Radiat. Oncol. Biol. Phys. 104 (5) 1153-1164 [2019-08-01; online 2019-04-27]
Cellular Immunomonitoring [Service]
PubMed DOI Crossref
Mesenchymal stromal cell-derived nanovesicles ameliorate bacterial outer membrane vesicle-induced sepsis via IL-10.
Park KS, Svennerholm K, Shelke GV, ..., Gribonika I, Lötvall J
Stem Cell Res Ther 10 (1) 231 [2019-08-01; online 2019-08-01]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Individual Physiological Adaptations Enable Selected Bacterial Taxa To Prevail during Long-Term Incubations.
Herlemann DPR, Markert S, Meeske C, ..., Jürgens K, Schweder T
Appl. Environ. Microbiol. 85 (15) - [2019-08-01; online 2019-07-18]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Gene Flow in the Müllerian Mimicry Ring of a Poisonous Papuan Songbird Clade (Pitohui; Aves).
Garg KM, Sam K, Chattopadhyay B, ..., Ericson PGP, Rheindt FE
Genome Biol Evol 11 (8) 2332-2343 [2019-08-01; online 2019-08-17]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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sTRAIL-R2 (Soluble TNF [Tumor Necrosis Factor]-Related Apoptosis-Inducing Ligand Receptor 2) a Marker of Plaque Cell Apoptosis and Cardiovascular Events.
Gonçalves I, Singh P, Tengryd C, ..., Nilsson J, Edsfeldt A
Stroke 50 (8) 1989-1996 [2019-08-00; online 2019-07-05]
Affinity Proteomics Stockholm [Service] Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service]
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Viral mimetic priming enhances α-synuclein-induced degeneration: Implications for Parkinson's disease.
Olsen LK, Cairns AG, Ådén J, ..., Dowd E, McKernan DP
Brain, Behavior, and Immunity 80 (-) 525-535 [2019-08-00; online 2019-04-25]
Swedish NMR Centre (SNC) [Service]
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Tobacco smoking induces changes in true DNA methylation, hydroxymethylation and gene expression in bronchoalveolar lavage cells.
Ringh MV, Hagemann-Jensen M, Needhamsen M, ..., Öckinger J, Ekström TJ
EBioMedicine 46 (-) 290-304 [2019-08-00; online 2019-07-12]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Systematic Development of Sandwich Immunoassays for the Plasma Secretome.
Häussler RS, Bendes A, Iglesias M, ..., Qundos U, Schwenk JM
Proteomics 19 (15) e1900008 [2019-08-00; online 2019-07-22]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Substantial Heritable Variation in Recombination Rate on Multiple Scales in Honeybees and Bumblebees.
Kawakami T, Wallberg A, Olsson A, ..., Rundlöf M, Webster MT
Genetics 212 (4) 1101-1119 [2019-08-00; online 2019-05-31]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Salinity drives meiofaunal community structure dynamics across the Baltic ecosystem.
Broman E, Raymond C, Sommer C, ..., Creer S, Nascimento FJA
Mol. Ecol. 28 (16) 3813-3829 [2019-08-00; online 2019-09-05]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Role of apolipoprotein C-III overproduction in diabetic dyslipidaemia.
Adiels M, Taskinen MR, Björnson E, ..., Packard C, Borén J
Diabetes Obes Metab 21 (8) 1861-1870 [2019-08-00; online 2019-05-08]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Reply to "CRISPR screens are feasible in TP53 wild-type cells".
Haapaniemi E, Botla S, Persson J, Schmierer B, Taipale J
Mol. Syst. Biol. 15 (8) e9059 [2019-08-00; online 2019-08-30]
CRISPR Functional Genomics [Collaborative]
PubMed DOI Crossref
Post-metaphase correction of aberrant kinetochore-microtubule attachments in mammalian eggs.
Kouznetsova A, Kitajima TS, Brismar H, Höög C
EMBO Rep. 20 (8) e47905 [2019-08-00; online 2019-07-10]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Molecular insights into hypomineralized enamel.
Malmberg P, Norén JG, Bernin D
Eur. J. Oral Sci. 127 (4) 340-346 [2019-08-00; online 2019-04-29]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Mixture toxicity effects and uptake of titanium dioxide (TiO 2) nanoparticles and 3,3',4,4'-tetrachlorobiphenyl (PCB77) in juvenile brown trout following co-exposure via the diet.
Lammel T, Wassmur B, Mackevica A, Chen CL, Sturve J
Aquat. Toxicol. 213 (-) 105195 [2019-08-00; online 2019-05-30]
Integrated Microscopy Technologies Gothenburg [Service]
DOI Crossref
Microbial utilization of simple carbon substrates in boreal peat soils at low temperatures
Segura JH, Nilsson MB, Schleucher J, ..., Bertilsson S, Öquist MG
Soil Biology and Biochemistry 135 (-) 438-448 [2019-08-00; online 2019-08-00]
Bioinformatics Support for Computational Resources [Service] Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Maintenance of High Genome Integrity over Vegetative Growth in the Fairy-Ring Mushroom Marasmius oreades
Hiltunen M, Grudzinska-Sterno M, Wallerman O, Ryberg M, Johannesson H
Current Biology 29 (16) 2758-2765.e6 [2019-08-00; online 2019-08-00]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Linkage analysis revealed risk loci on 6p21 and 18p11.2-q11.2 in familial colon and rectal cancer, respectively.
von Holst S, Jiao X, Liu W, ..., Bryant P, Lindblom A
Eur. J. Hum. Genet. 27 (8) 1286-1295 [2019-08-00; online 2019-04-05]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Layer formation mechanism of K-feldspar in bubbling fluidized bed combustion of phosphorus-lean and phosphorus-rich residual biomass
Wagner K, Häggström G, Skoglund N, ..., Öhman M, Hofbauer H
Applied Energy 248 (-) 545-554 [2019-08-00; online 2019-08-00]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Joint Image Deconvolution and Separation Using Mixed Dictionaries.
Siadat M, Aghazadeh N, Akbarifard F, Brismar H, Oktem O
IEEE Trans. on Image Process. 28 (8) 3936-3945 [2019-08-00; online 2019-03-06]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
Interaction of Sox2 with RNA binding proteins in mouse embryonic stem cells
Samudyata , Amaral PP, Engström PG, ..., Kouzarides T, Castelo-Branco G
Experimental Cell Research 381 (1) 129-138 [2019-08-00; online 2019-08-00]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
In-hospital metabolite changes in infective endocarditis-a longitudinal 1H NMR-based study.
Klein CF, Holle SLK, Andersen MH, ..., Iversen KK, Malmendal A
Eur. J. Clin. Microbiol. Infect. Dis. 38 (8) 1553-1560 [2019-08-00; online 2019-05-22]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Goodbye reference, hello genome graphs.
Ameur A
Nat. Biotechnol. 37 (8) 866-868 [2019-08-00; online 2019-08-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Gas-Phase Collisions with Trimethylamine-N-Oxide Enable Activation-Controlled Protein Ion Charge Reduction.
Kaldmäe M, Österlund N, Lianoudaki D, ..., Marklund EG, Landreh M
J. Am. Soc. Mass Spectrom. 30 (8) 1385-1388 [2019-08-00; online 2019-07-08]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Early activating somatic PIK3CA mutations promote ectopic muscle development and upper limb overgrowth.
Frisk S, Taylan F, Blaszczyk I, ..., Laurell T, Nordgren A
Clin. Genet. 96 (2) 118-125 [2019-08-00; online 2019-05-09]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Complete subspecies-level phylogeny of the Oriolidae (Aves: Passeriformes): Out of Australasia and return.
Jønsson KA, Blom MPK, Marki PZ, ..., Ericson PGP, Irestedt M
Mol. Phylogenet. Evol. 137 (-) 200-209 [2019-08-00; online 2019-03-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Clinical protein science in translational medicine targeting malignant melanoma.
Gil J, Betancourt LH, Pla I, ..., Malm J, Marko-Varga G
Cell Biol. Toxicol. 35 (4) 293-332 [2019-08-00; online 2019-03-21]
Structural Proteomics [Service]
PubMed DOI Crossref
Circulating HER2/ErbB2 Levels Are Associated With Increased Incidence of Diabetes: A Population-Based Cohort Study.
Muhammad IF, Borné Y, Bao X, ..., Nilsson J, Engström G
Diabetes Care 42 (8) 1582-1588 [2019-08-00; online 2019-06-14]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
DOI Crossref
Boreal tree species affect soil organic matter composition and saprotrophic mineralization rates
Segura JH, Nilsson MB, Sparrman T, ..., Tolu J, Öquist MG
Plant Soil 441 (1-2) 173-190 [2019-08-00; online 2019-05-24]
Bioinformatics Support for Computational Resources [Service] Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Anti-tumor effects of PIM/PI3K/mTOR triple kinase inhibitor IBL-302 in neuroblastoma.
Mohlin S, Hansson K, Radke K, ..., von Stedingk K, Bexell D
EMBO Mol Med 11 (8) e10058 [2019-08-00; online 2019-07-16]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service] Structural Proteomics [Service]
PubMed DOI Crossref
A role for the auxin precursor anthranilic acid in root gravitropism via regulation of PIN-FORMED protein polarity and relocalisation in Arabidopsis.
Doyle SM, Rigal A, Grones P, ..., Novák O, Robert S
New Phytol. 223 (3) 1420-1432 [2019-08-00; online 2019-06-07]
Chemical Biology Consortium Sweden (CBCS) [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
31° South: The physiology of adaptation to arid conditions in a passerine bird.
Ribeiro ÂM, Puetz L, Pattinson NB, ..., Smit B, Gilbert MTP
Mol. Ecol. 28 (16) 3709-3721 [2019-08-00; online 2019-08-06]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Computational and Experimental Druggability Assessment of Human DNA Glycosylases.
Michel M, Visnes T, Homan EJ, ..., Warpman Berglund U, Helleday T
ACS Omega 4 (7) 11642-11656 [2019-07-31; online 2019-07-05]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Shared and Unique Patterns of DNA Methylation in Systemic Lupus Erythematosus and Primary Sjögren's Syndrome.
Imgenberg-Kreuz J, Almlöf JC, Leonard D, ..., Sandling JK, Nordmark G
Front Immunol 10 (-) 1686 [2019-07-30; online 2019-07-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Multiplex plasma protein profiling identifies novel markers to discriminate patients with adenocarcinoma of the lung.
Djureinovic D, Pontén V, Landelius P, ..., Micke P, Ståhle E
BMC Cancer 19 (1) 741 [2019-07-29; online 2019-07-29]
Affinity Proteomics Uppsala [Collaborative] Bioinformatics Support for Computational Resources [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Collaborative]
PubMed DOI Crossref
Impact of vitamin D and vitamin D receptor TaqI polymorphism in primary human myoblasts.
Saini A, Björkhem-Bergman L, Boström J, ..., Rullman E, Gustafsson T
Endocr Connect 8 (7) 1070-1081 [2019-07-29; online 2019-07-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
E3 ubiquitin-protein ligase TRIM21-mediated lysine capture by UBE2E1 reveals substrate-targeting mode of a ubiquitin-conjugating E2.
Anandapadamanaban M, Kyriakidis NC, Csizmók V, ..., Wahren-Herlenius M, Sunnerhagen M
J. Biol. Chem. 294 (30) 11404-11419 [2019-07-26; online 2019-06-03]
Protein Science Facility (PSF) [Collaborative]
PubMed DOI Crossref
Combinations of Spok genes create multiple meiotic drivers in Podospora.
Vogan AA, Ament-Velásquez SL, Granger-Farbos A, ..., Saupe SJ, Johannesson H
Elife 8 (-) - [2019-07-26; online 2019-07-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
TAF1, associated with intellectual disability in humans, is essential for embryogenesis and regulates neurodevelopmental processes in zebrafish.
Gudmundsson S, Wilbe M, Filipek-Górniok B, ..., Annerén G, Bondeson M
Sci Rep 9 (1) 10730 [2019-07-24; online 2019-07-24]
BioImage Informatics [Collaborative] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] Clinical Genomics Uppsala [Collaborative] Genome Engineering Zebrafish [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genomic differentiation tracks earth-historic isolation in an Indo-Australasian archipelagic pitta (Pittidae; Aves) complex.
Ericson PGP, Qu Y, Rasmussen PC, ..., Rheindt FE, Irestedt M
BMC Evol. Biol. 19 (1) 151 [2019-07-24; online 2019-07-24]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
α-synuclein-lipoprotein interactions and elevated ApoE level in cerebrospinal fluid from Parkinson's disease patients.
Paslawski W, Zareba-Paslawska J, Zhang X, ..., Andrén PE, Svenningsson P
Proc. Natl. Acad. Sci. U.S.A. 116 (30) 15226-15235 [2019-07-23; online 2019-07-03]
Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
Genetic analyses supporting colorectal, gastric, and prostate cancer syndromes.
Wallander K, Liu W, von Holst S, ..., Lindblom A, Lagerstedt-Robinson K
Genes Chromosomes Cancer - (-) - [2019-07-23; online 2019-07-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Annotations, Ontologies, and Whole Slide Images - Development of an Annotated Ontology-Driven Whole Slide Image Library of Normal and Abnormal Human Tissue.
Lindman K, Rose JF, Lindvall M, Lundström C, Treanor D
J Pathol Inform 10 (-) 22 [2019-07-23; online 2019-07-23]
AIDA Data Hub [Collaborative]
PubMed DOI Crossref
Vitamin D and Phenylbutyrate Supplementation Does Not Modulate Gut Derived Immune Activation in HIV-1.
Missailidis C, Sørensen N, Ashenafi S, ..., Brighenti S, Bergman P
Nutrients 11 (7) 1675 [2019-07-21; online 2019-07-21]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Genome and plasmid diversity of Extended-Spectrum β-Lactamase-producing Escherichia coli ST131 - tracking phylogenetic trajectories with Bayesian inference.
Ny S, Sandegren L, Salemi M, Giske CG
Sci Rep 9 (1) 10291 [2019-07-16; online 2019-07-16]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
TGF-β family ligands exhibit distinct signalling dynamics that are driven by receptor localisation.
Miller DSJ, Schmierer B, Hill CS
J. Cell. Sci. 132 (14) - [2019-07-15; online 2019-07-15]
CRISPR Functional Genomics [Collaborative]
PubMed DOI Crossref
Structure-based mechanism for activation of the AAA+ GTPase McrB by the endonuclease McrC.
Nirwan N, Itoh Y, Singh P, ..., Amunts A, Saikrishnan K
Nat Commun 10 (1) 3058 [2019-07-11; online 2019-07-11]
Cryo-EM [Service]
PubMed DOI Crossref
Development, Optimization, and Validation of a High Throughput Screening Assay for Identification of Tat and Type II Secretion Inhibitors of Pseudomonas aeruginosa.
Massai F, Saleeb M, Doruk T, Elofsson M, Forsberg Å
Front. Cell. Infect. Microbiol. 9 (-) 250 [2019-07-10; online 2019-07-10]
Chemical Biology Consortium Sweden (CBCS) [Service]
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Optical DNA Mapping Combined with Cas9-Targeted Resistance Gene Identification for Rapid Tracking of Resistance Plasmids in a Neonatal Intensive Care Unit Outbreak.
Bikkarolla SK, Nordberg V, Rajer F, ..., Sandegren L, Westerlund F
MBio 10 (4) - [2019-07-09; online 2019-07-09]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Systems-level immunomonitoring using self-sampled capillary blood
Josyula VS, Lakshmikanth T, Mikes J, Chen Y, Brodin P
- - (-) - [2019-07-08; online 2019-07-08]
Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Association between Copy Number Variation and Response to Social Skills Training in Autism Spectrum Disorder.
Tammimies K, Li D, Rabkina I, ..., Choque-Olsson N, Bölte S
Sci Rep 9 (1) 9810 [2019-07-08; online 2019-07-08]
Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
DOI Crossref
GUESSmyLT: Software to guess the RNA-Seq library type of paired and single end read files
Wik E, Olin H, Haughey C, Klasson L, Dainat J
JOSS 4 (39) 1344 [2019-07-07; online 2019-07-07]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Screening a Resource of Recombinant Protein Fragments for Targeted Proteomics.
Edfors F, Forsström B, Vunk H, ..., Schwenk JM, Uhlen M
J. Proteome Res. 18 (7) 2706-2718 [2019-07-05; online 2019-06-07]
Affinity Proteomics Stockholm [Technology development]
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Global gene expression analysis in etiolated and de-etiolated seedlings in conifers.
Ranade SS, Delhomme N, García-Gil MR
PLoS ONE 14 (7) e0219272 [2019-07-05; online 2019-07-05]
Bioinformatics Support for Computational Resources [Service] Cryo-EM [Service] Integrated Microscopy Technologies Umeå [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Cryo-EM structure of the activated RET signaling complex reveals the importance of its cysteine-rich domain
Bigalke JM, Aibara S, Roth R, ..., Amunts A, Sandmark J
Sci Adv 5 (7) eaau4202 [2019-07-05; online 2019-07-05]
Cryo-EM [Service]
PubMed DOI Crossref
Comparison of boreal acid sulfate soil microbial communities in oxidative and reductive environments.
Christel S, Yu C, Wu X, ..., Åström ME, Dopson M
Res. Microbiol. 170 (6-7) 288-295 [2019-07-03; online 2019-07-03]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Streptococcus pyogenes evades adaptive immunity through specific IgG glycan hydrolysis.
Naegeli A, Bratanis E, Karlsson C, ..., Malmström J, Collin M
J. Exp. Med. 216 (7) 1615-1629 [2019-07-01; online 2019-05-15]
Structural Proteomics [Collaborative]
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Serum metabolite profiles of habitual diet: evaluation by 1H-nuclear magnetic resonance analysis.
Lindqvist HM, Rådjursöga M, Malmodin D, Winkvist A, Ellegård L
Am. J. Clin. Nutr. 110 (1) 53-62 [2019-07-01; online 2019-05-28]
Swedish NMR Centre (SNC) [Collaborative]
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Efficient RNA silencing suppression activity of Potato Mop-Top Virus 8K protein is driven by variability and positive selection.
Kalyandurg PB, Tahmasebi A, Vetukuri RR, ..., Grenville-Briggs LJ, Savenkov EI
Virology 535 (-) 111-121 [2019-07-01; online 2019-07-01]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Androgen Receptor Burden and Poor Response to Abiraterone or Enzalutamide in TP53 Wild-Type Metastatic Castration-Resistant Prostate Cancer.
De Laere B, Rajan P, Grönberg H, ..., Lindberg J, CORE-ARV-CTC and ProBIO Investigators
JAMA Oncol 5 (7) 1060-1062 [2019-07-01; online 2019-05-03]
Clinical Genomics Stockholm [Service]
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Transcriptome analysis of shade avoidance and shade tolerance in conifers.
Ranade SS, Delhomme N, García-Gil MR
Planta 250 (1) 299-318 [2019-07-00; online 2019-04-26]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transcriptional and metabolic rewiring of colorectal cancer cells expressing the oncogenic KRASG13D mutation.
Charitou T, Srihari S, Lynn MA, ..., Kolch W, Lynn DJ
Br. J. Cancer 121 (1) 37-50 [2019-07-00; online 2019-05-28]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The molecular pathogenesis of superoxide dismutase 1-linked ALS is promoted by low oxygen tension.
Keskin I, Forsgren E, Lehmann M, ..., Marklund SL, Gilthorpe JD
Acta Neuropathol. 138 (1) 85-101 [2019-07-00; online 2019-03-12]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
The cholesterol transfer protein GRAMD1A regulates autophagosome biogenesis.
Laraia L, Friese A, Corkery DP, ..., Wu YW, Waldmann H
Nat. Chem. Biol. 15 (7) 710-720 [2019-07-00; online 2019-06-20]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
The autoimmune targets in IPEX are dominated by gut epithelial proteins
Eriksson D, Bacchetta R, Gunnarsson HI, ..., Kämpe O, Landegren N
Journal of Allergy and Clinical Immunology 144 (1) 327-330.e8 [2019-07-00; online 2019-07-00]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
TRAF6 function as a novel co-regulator of Wnt3a target genes in prostate cancer
Aripaka K, Gudey SK, Zang G, ..., von Hofsten J, Landström M
EBioMedicine 45 (-) 192-207 [2019-07-00; online 2019-07-00]
Affinity Proteomics Uppsala [Service] PLA and Single Cell Proteomics [Service]
DOI Crossref
Surface activated polyethylene separator promoting Li+ ion transport in gel polymer electrolytes and cycling stability of Li-metal anode
Qiu Z, Shi L, Wang Z, ..., Zhao Y, Yuan S
Chemical Engineering Journal 368 (-) 321-330 [2019-07-00; online 2019-07-00]
Bioinformatics Support for Computational Resources [Service] Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Structural basis of inhibition of the human serine hydroxymethyltransferase SHMT2 by antifolate drugs.
Scaletti E, Jemth AS, Helleday T, Stenmark P
FEBS Lett. 593 (14) 1863-1873 [2019-07-00; online 2019-06-10]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Specific amino acid substitutions in β strand S2 of FtsZ cause spiraling septation and impair assembly cooperativity in Streptomyces spp.
Sen BC, Wasserstrom S, Findlay K, ..., von Wachenfeldt C, Flärdh K
Mol. Microbiol. 112 (1) 184-198 [2019-07-00; online 2019-05-17]
Cryo-EM [Collaborative] Integrated Microscopy Technologies Umeå
PubMed DOI Crossref
Single cell analysis of autism patient with bi-allelic NRXN1-alpha deletion reveals skewed fate choice in neural progenitors and impaired neuronal functionality
Lam M, Moslem M, Bryois J, ..., Sullivan PF, Falk A
Experimental Cell Research 383 (1) 111469 [2019-07-00; online 2019-07-00]
Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
OPENER Is a Nuclear Envelope and Mitochondria Localized Protein Required for Cell Cycle Progression in Arabidopsis.
Wang W, Zhang X, Niittylä T
Plant Cell 31 (7) 1446-1465 [2019-07-00; online 2019-04-25]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Mutation dynamics of CpG dinucleotides during a recent event of vertebrate diversification.
Pértille F, Da Silva VH, Johansson AM, ..., Jensen P, Guerrero-Bosagna C
Epigenetics 14 (7) 685-707 [2019-07-00; online 2019-05-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Image Analysis in Digital Pathology: Combining Automated Assessment of Ki67 Staining Quality with Calculation of Ki67 Cell Proliferation Index.
Bengtsson E, Ranefall P
Cytometry A 95 (7) 714-716 [2019-07-00; online 2018-12-03]
BioImage Informatics [Technology development]
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Hemostatic Genes Exhibit a High Degree of Allele-Specific Regulation in Liver.
Olsson Lindvall M, Hansson L, Klasson S, ..., Jern C, Stanne TM
Thromb. Haemost. 119 (7) 1072-1083 [2019-07-00; online 2019-04-29]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Systems Biology [Collaborative]
PubMed DOI Crossref
Expanding the phenotypic spectrum of osteogenesis imperfecta type V including heterotopic ossification of muscle origins and attachments.
Clewemar P, Hailer NP, Hailer Y, ..., Ljunggren Ö, Stattin EL
Mol Genet Genomic Med 7 (7) e00723 [2019-07-00; online 2019-05-16]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Uppsala [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Epigenome-wide association study of lung function level and its change.
Imboden M, Wielscher M, Rezwan FI, ..., Jarvis D, Probst-Hensch NM
Eur. Respir. J. 54 (1) - [2019-07-00; online 2019-07-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Development of parallel reaction monitoring assays for cerebrospinal fluid proteins associated with Alzheimer's disease.
Andersson A, Remnestål J, Nellgård B, ..., Nilsson P, Fredolini C
Clin. Chim. Acta 494 (-) 79-93 [2019-07-00; online 2019-03-09]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Confident phylogenetic identification of uncultured prokaryotes through long read amplicon sequencing of the 16S-ITS-23S rRNA operon.
Martijn J, Lind AE, Schön ME, ..., Pettersson OV, Ettema TJG
Environ. Microbiol. 21 (7) 2485-2498 [2019-07-00; online 2019-05-07]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Choroid plexus transcriptome and ultrastructure analysis reveals a TLR2-specific chemotaxis signature and cytoskeleton remodeling in leukocyte trafficking.
Mottahedin A, Joakim Ek C, Truvé K, Hagberg H, Mallard C
Brain, Behavior, and Immunity 79 (-) 216-227 [2019-07-00; online 2019-02-26]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
BACH1 Stabilization by Antioxidants Stimulates Lung Cancer Metastasis
Wiel C, Le Gal K, Ibrahim MX, ..., Sayin VI, Bergo MO
Cell 178 (2) 330-345.e22 [2019-07-00; online 2019-07-00]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Analyzing DNA methylation patterns in subjects diagnosed with schizophrenia using machine learning methods.
Torabi Moghadam B, Etemadikhah M, Rajkowska G, ..., Feuk L, Carlström EL
J Psychiatr Res 114 (-) 41-47 [2019-07-00; online 2019-04-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
1H NMR profiling of the 6-OHDA parkinsonian rat brain reveals metabolic alterations and signs of recovery after N-acetylcysteine treatment.
Virel A, Dudka I, Laterveer R, Af Bjerkén S
Molecular and Cellular Neuroscience 98 (-) 131-139 [2019-07-00; online 2019-06-12]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Insights into the Exfoliation Process of V2O5·nH2O Nanosheet Formation Using Real-Time 51V NMR.
Etman AS, Pell AJ, Svedlindh P, ..., Sun J, Bernin D
ACS Omega 4 (6) 10899-10905 [2019-06-30; online 2019-06-24]
Swedish NMR Centre (SNC) [Service]
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Influence of ABO Locus on PFA-100 Collagen-ADP Closure Time Is Not Totally Dependent on the Von Willebrand Factor. Results of a GWAS on GAIT-2 Project Phenotypes.
Pujol-Moix N, Martinez-Perez A, Sabater-Lleal M, ..., Souto JC, Soria JM
Int J Mol Sci 20 (13) - [2019-06-30; online 2019-06-30]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Allelic Variation in Taste Genes Is Associated with Taste and Diet Preferences and Dental Caries.
Eriksson L, Esberg A, Haworth S, Holgerson PL, Johansson I
Nutrients 11 (7) - [2019-06-29; online 2019-06-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exploring Molecular Signs of Sex in the Marine Diatom Skeletonema marinoi.
Ferrante MI, Entrambasaguas L, Johansson M, ..., Montresor M, Godhe A
Genes 10 (7) - [2019-06-28; online 2019-06-28]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Comment on 'AIRE-deficient patients harbor unique high-affinity disease-ameliorating autoantibodies'.
Landegren N, Rosen LB, Freyhult E, ..., Anderson M, Kämpe O
Elife 8 (-) - [2019-06-27; online 2019-06-27]
Autoimmunity and Serology Profiling [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Pharmacogenomics of statin-related myopathy: Meta-analysis of rare variants from whole-exome sequencing.
Floyd JS, Bloch KM, Brody JA, ..., Alfirevic A, PREDICTION-ADR Consortium and EUDRAGENE
PLoS ONE 14 (6) e0218115 [2019-06-26; online 2019-06-26]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genomic Characterization of the Emerging Pathogen Streptococcus pseudopneumoniae.
Garriss G, Nannapaneni P, Simões AS, ..., de Lencastre H, Henriques-Normark B
MBio 10 (3) - [2019-06-25; online 2019-06-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide analysis of dental caries and periodontitis combining clinical and self-reported data.
Shungin D, Haworth S, Divaris K, ..., Timpson NJ, Johansson I
Nat Commun 10 (1) 2773 [2019-06-24; online 2019-06-24]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of Salivary Microbiota and Its Association With Host Inflammatory Mediators in Periodontitis.
Lundmark A, Hu YOO, Huss M, ..., Andersson AF, Yucel-Lindberg T
Front. Cell. Infect. Microbiol. 9 (-) 216 [2019-06-21; online 2019-06-21]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A quantitative Streptococcus pyogenes-human protein-protein interaction map reveals localization of opsonizing antibodies.
Happonen L, Hauri S, Svensson Birkedal G, ..., Malmström L, Malmström J
Nat Commun 10 (1) 2727 [2019-06-21; online 2019-06-21]
Structural Proteomics [Technology development]
DOI Crossref
Shotgun Environmental DNA, Pollen, and Macrofossil Analysis of Lateglacial Lake Sediments From Southern Sweden
Parducci L, Alsos IG, Unneberg P, ..., Slotte T, Wohlfarth B
Front. Ecol. Evol. 7 (-) 189 [2019-06-20; online 2019-06-20]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Proteomic profiling of extracellular vesicles reveals additional diagnostic biomarkers for myocardial infarction compared to plasma alone.
Gidlöf O, Evander M, Rezeli M, ..., Laurell T, Erlinge D
Sci Rep 9 (1) 8991 [2019-06-20; online 2019-06-20]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Peptide-Loaded Cubosomes Functioning as an Antimicrobial Unit against Escherichia coli.
Boge L, Browning KL, Nordström R, ..., Ringstad L, Andersson M
ACS Appl Mater Interfaces 11 (24) 21314-21322 [2019-06-19; online 2019-06-04]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Comparative genomics of Mycobacterium mucogenicum and Mycobacterium neoaurum clade members emphasizing tRNA and non-coding RNA.
Behra PRK, Pettersson BMF, Das S, Dasgupta S, Kirsebom LA
BMC Evol. Biol. 19 (1) 124 [2019-06-18; online 2019-06-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Ouabain-regulated phosphoproteome reveals molecular mechanisms for Na+, K+–ATPase control of cell adhesion, proliferation, and survival
Panizza E, Zhang L, Fontana JM, ..., Lehtiö J, Aperia A
The FASEB Journal - (-) fj.201900445R [2019-06-14; online 2019-06-14]
Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Technology development] Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Microbiota data from low biomass milk samples is markedly affected by laboratory and reagent contamination.
Dahlberg J, Sun L, Persson Waller K, ..., Agenäs S, Dicksved J
PLoS ONE 14 (6) e0218257 [2019-06-13; online 2019-06-13]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Improved phylogenomic sampling of free-living nematodes enhances resolution of higher-level nematode phylogeny.
Smythe AB, Holovachov O, Kocot KM
BMC Evol. Biol. 19 (1) 121 [2019-06-13; online 2019-06-13]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Modeling Motor Neuron Resilience in ALS Using Stem Cells.
Allodi I, Nijssen J, Benitez JA, ..., Kiehn O, Hedlund E
Stem Cell Reports 12 (6) 1329-1341 [2019-06-11; online 2019-05-09]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The effect of Wolbachia on gene expression in Drosophila paulistorum and its implications for symbiont-induced host speciation.
Baião GC, Schneider DI, Miller WJ, Klasson L
BMC Genomics 20 (1) 465 [2019-06-07; online 2019-06-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatiotemporal structure of cell fate decisions in murine neural crest
Soldatov R, Kaucka M, Kastriti ME, ..., Kharchenko PV, Adameyko I
Science 364 (6444) eaas9536 [2019-06-07; online 2019-06-07]
Eukaryotic Single Cell Genomics (ESCG) [Service] In Situ Sequencing (ISS) [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Systematic assessment of antibody selectivity in plasma based on a resource of enrichment profiles.
Fredolini C, Byström S, Sanchez-Rivera L, ..., Lehtiö J, Schwenk JM
Sci Rep 9 (1) 8324 [2019-06-06; online 2019-06-06]
Affinity Proteomics Stockholm [Technology development] Autoimmunity and Serology Profiling [Technology development] Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Structural Basis for YjbH Adaptor-Mediated Recognition of Transcription Factor Spx.
Awad W, Al-Eryani Y, Ekström S, Logan DT, von Wachenfeldt C
Structure 27 (6) 923-936.e6 [2019-06-04; online 2019-04-11]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Dietary Pattern Specific Protein Biomarkers for Cardiovascular Disease: A Cross-Sectional Study in 2 Independent Cohorts.
Warensjö Lemming E, Byberg L, Stattin K, ..., Wolk A, Michaëlsson K
J Am Heart Assoc 8 (11) e011860 [2019-06-04; online 2019-06-01]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Dysregulated autophagy in muscle precursor cells from humans with type 2 diabetes.
Henriksen TI, Wigge LV, Nielsen J, ..., Sandri M, Scheele C
Sci Rep 9 (1) 8169 [2019-06-03; online 2019-06-03]
Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
PubMed DOI Crossref
Recombinant dermatan sulfate is a potent activator of heparin cofactor II-dependent inhibition of thrombin.
Tykesson E, Maccarana M, Thorsson H, ..., Ellervik U, Westergren-Thorsson G
Glycobiology 29 (6) 446-451 [2019-06-01; online 2019-03-15]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Nitrogen dynamics of decomposing Scots pine needle litter depends on colonizing fungal species.
Baskaran P, Ekblad A, Soucémarianadin LN, ..., Schleucher J, Lindahl BD
FEMS Microbiol. Ecol. 95 (6) - [2019-06-01; online 2019-05-10]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Multiancestry Genome-Wide Association Study of Lipid Levels Incorporating Gene-Alcohol Interactions.
de Vries PS, Brown MR, Bentley AR, ..., Rao DC, Morrison AC
Am. J. Epidemiol. 188 (6) 1033-1054 [2019-06-01; online 2019-01-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Integrated epigenomic and transcriptomic analysis reveals TP63 as a novel player in clinically aggressive chronic lymphocytic leukemia.
Papakonstantinou N, Ntoufa S, Tsagiopoulou M, ..., Rosenquist R, Stamatopoulos K
Int. J. Cancer 144 (11) 2695-2706 [2019-06-01; online 2019-01-15]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-based epidemiology and antimicrobial resistance determinants of Neisseria gonorrhoeae isolates with decreased susceptibility and resistance to extended-spectrum cephalosporins in Argentina in 2011-16.
Gianecini RA, Golparian D, Zittermann S, ..., Galarza P, Gonococcal Antimicrobial Susceptibility Surveillance Programme-Argentina (GASSP-AR) Working Group
J. Antimicrob. Chemother. 74 (6) 1551-1559 [2019-06-01; online 2019-03-02]
Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
β-Mannosidosis caused by a novel homozygous intragenic inverted duplication in MANBA.
Blomqvist M, Smeland MF, Lindgren J, ..., Riise Stensland HMF, Asin-Cayuela J
Cold Spring Harb Mol Case Stud 5 (3) a003954 [2019-06-00; online 2019-06-03]
Clinical Genomics Gothenburg [Collaborative] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Unprecedented reorganization of holocentric chromosomes provides insights into the enigma of lepidopteran chromosome evolution.
Hill J, Rastas P, Hornett EA, ..., Nylin S, Wheat CW
Sci Adv 5 (6) eaau3648 [2019-06-00; online 2019-06-12]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transcriptomic correlates of electrophysiological and morphological diversity within and across excitatory and inhibitory neuron classes.
Bomkamp C, Tripathy SJ, Bengtsson Gonzales C, ..., Craig AM, Pavlidis P
PLoS Comput. Biol. 15 (6) e1007113 [2019-06-00; online 2019-06-18]
Eukaryotic Single Cell Genomics (ESCG) [Service]
PubMed DOI Crossref
Tracking Microscope Performance: A Workflow to Compare Point Spread Function Evaluations Over Time.
Klemm AH, Thomae AW, Wachal K, Dietzel S
Microsc Microanal 25 (3) 699-704 [2019-06-00; online 2019-02-06]
BioImage Informatics [Technology development]
PubMed DOI Crossref
The effects of male social environment on sperm phenotype and genome integrity.
Silva WTAF, Sáez-Espinosa P, Torijo-Boix S, ..., Gómez-Torres MJ, Immler S
J. Evol. Biol. 32 (6) 535-544 [2019-06-00; online 2019-03-25]
Genome Engineering Zebrafish [Service]
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Staphylococcus aureus isolates from nares of orthopaedic patients in Sweden are mupirocin susceptible.
Magnusson C, Stegger M, Hellmark B, Stenmark B, Söderquist B
Infect Dis (Lond) 51 (6) 475-478 [2019-06-00; online 2019-04-15]
Clinical Genomics Örebro [Collaborative]
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Somatic alterations detected in diagnostic prostate biopsies provide an inadequate representation of multifocal prostate cancer.
Kristiansen A, Bergström R, Delahunt B, ..., Egevad L, Lindberg J
Prostate 79 (8) 920-928 [2019-06-00; online 2019-03-25]
Clinical Genomics Stockholm [Service]
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Single-Cell RNA Sequencing of the T Helper Cell Response to House Dust Mites Defines a Distinct Gene Expression Signature in Airway Th2 Cells
Tibbitt CA, Stark JM, Martens L, ..., Saeys Y, Coquet JM
Immunity 51 (1) 169-184.e5 [2019-06-00; online 2019-06-00]
Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mutations in the mitochondrial tryptophanyl-tRNA synthetase cause growth retardation and progressive leukoencephalopathy.
Maffezzini C, Laine I, Dallabona C, ..., Wredenberg A, Wedell A
Mol Genet Genomic Med 7 (6) e654 [2019-06-00; online 2019-03-28]
Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Lipopolysaccharide-induced alteration of mitochondrial morphology induces a metabolic shift in microglia modulating the inflammatory response in vitro and in vivo.
Nair S, Sobotka KS, Joshi P, ..., Mallard C, Hagberg H
Glia 67 (6) 1047-1061 [2019-06-00; online 2019-01-13]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Identification of DNA methylation patterns predisposing for an efficient response to BCG vaccination in healthy BCG-naïve subjects.
Das J, Verma D, Gustafsson M, Lerm M
Epigenetics 14 (6) 589-601 [2019-06-00; online 2019-04-22]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic basis of amphibian larval development along a latitudinal gradient: Gene diversity, selection and links with phenotypic variation in transcription factor C/EBP-1.
Meyer-Lucht Y, Luquet E, Jóhannesdóttir F, ..., Höglund J, Laurila A
Mol. Ecol. 28 (11) 2786-2801 [2019-06-00; online 2019-06-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Gene fusion involving the insulin-like growth factor 1 receptor in an ALK-negative inflammatory myofibroblastic tumour.
Piarulli G, Puls F, Wängberg B, ..., Arbajian E, Mertens F
Histopathology 74 (7) 1098-1102 [2019-06-00; online 2019-04-24]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Further support linking the 22q11.2 microduplication to an increased risk of bladder exstrophy and highlighting LZTR1 as a candidate gene.
Lundin J, Markljung E, Baranowska Körberg I, ..., Lindstrand A, Nordenskjöld A
Mol Genet Genomic Med 7 (6) e666 [2019-06-00; online 2019-05-01]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Detecting selection signatures in three Iranian sheep breeds.
Manzari Z, Mehrabani-Yeganeh H, Nejati-Javaremi A, Moradi MH, Gholizadeh M
Anim Genet 50 (3) 298-302 [2019-06-00; online 2019-03-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
DSeg: A Dynamic Image Segmentation Program to Extract Backbone Patterns for Filamentous Bacteria and Hyphae Structures.
Zhang H, Söderholm N, Sandblad L, Wiklund K, Andersson M
Microsc Microanal 25 (3) 711-719 [2019-06-00; online 2019-03-21]
Cryo-EM [Technology development]
PubMed DOI Crossref
Crystal structure of the catalytic domain of the Weissella oryzae botulinum‐like toxin
Košenina S, Masuyer G, Zhang S, Dong M, Stenmark P
FEBS Lett 593 (12) 1403-1410 [2019-06-00; online 2019-05-31]
Bioinformatics Support for Computational Resources [Service] Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Circulating mast cell progenitors correlate with reduced lung function in allergic asthma.
Salomonsson M, Malinovschi A, Kalm-Stephens P, ..., Alving K, Hallgren J
Clin Exp Allergy 49 (6) 874-882 [2019-06-00; online 2019-03-21]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Can markers of biological age predict dependency in old age?
Jylhävä J, Jiang M, Foebel AD, Pedersen NL, Hägg S
Biogerontology 20 (3) 321-329 [2019-06-00; online 2019-01-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Bax to the future - A novel, high-yielding approach for purification and expression of full-length Bax protein for structural studies.
Dingeldein APG, Lindberg MJ, Ådén J, ..., Stoll R, Gröbner G
Protein Expression and Purification 158 (-) 20-26 [2019-06-00; online 2019-02-06]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Assembly mechanisms of the bacterial cytoskeletal protein FilP.
Javadi A, Söderholm N, Olofsson A, Flärdh K, Sandblad L
Life Sci. Alliance 2 (3) e201800290 [2019-06-00; online 2019-06-26]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Alterations in the metabolism of phospholipids, bile acids and branched-chain amino acids predicts development of type 2 diabetes in black South African women: a prospective cohort study.
Zeng Y, Mtintsilana A, Goedecke JH, ..., Olsson T, Chorell E
Metabolism 95 (-) 57-64 [2019-06-00; online 2019-04-04]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
A targeted proteomics approach reveals a serum protein signature as diagnostic biomarker for resectable gastric cancer.
Shen Q, Polom K, Williams C, ..., Roviello F, Kamali-Moghaddam M
EBioMedicine 44 (-) 322-333 [2019-06-00; online 2019-05-28]
Affinity Proteomics Uppsala [Technology development] Bioinformatics Support for Computational Resources [Service] Clinical Biomarkers [Service] Glycoproteomics and MS Proteomics [Collaborative] PLA and Single Cell Proteomics [Technology development]
PubMed DOI Crossref
A novel RAD21 p.(Gln592del) variant expands the clinical description of Cornelia de Lange syndrome type 4 - Review of the literature.
Gudmundsson S, Annerén G, Marcos-Alcalde Í, ..., Gómez-Puertas P, Bondeson ML
Eur J Med Genet 62 (6) 103526 [2019-06-00; online 2018-08-17]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
A catalog of genetic loci associated with kidney function from analyses of a million individuals.
Wuttke M, Li Y, Li M, ..., Köttgen A, Pattaro C
Nat. Genet. 51 (6) 957-972 [2019-06-00; online 2019-05-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Call for Blood—In Human Immunology
Brodin P, Duffy D, Quintana-Murci L
Immunity 50 (6) 1335-1336 [2019-06-00; online 2019-06-00]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Plasma protein profiling reveals candidate biomarkers for multiple sclerosis treatment.
Bedri SK, Nilsson OB, Fink K, ..., Grönlund H, Glaser A
PLoS ONE 14 (5) e0217208 [2019-05-29; online 2019-05-29]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
A urinary extracellular vesicle microRNA biomarker discovery pipeline; from automated extracellular vesicle enrichment by acoustic trapping to microRNA sequencing.
Ku A, Ravi N, Yang M, ..., Lilja H, Ceder Y
PLoS ONE 14 (5) e0217507 [2019-05-29; online 2019-05-29]
Clinical Genomics Lund [Service]
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Serum Metabolite Markers of Dementia Through Quantitative NMR Analysis: The Importance of Threonine-Linked Metabolic Pathways.
Figueira J, Adolfsson R, Nordin Adolfsson A, Nyberg L, Öhman A
J. Alzheimers Dis. 69 (3) 763-774 [2019-05-28; online 2019-05-28]
Bioinformatics Support for Computational Resources [Service] Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
A phototherapeutic fluorescent β-cyclodextrin branched polymer delivering nitric oxide.
Malanga M, Seggio M, Kirejev V, ..., Ericson MB, Sortino S
Biomater Sci 7 (6) 2272-2276 [2019-05-28; online 2019-04-30]
Integrated Microscopy Technologies Gothenburg [Service]
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The viral protein corona directs viral pathogenesis and amyloid aggregation.
Ezzat K, Pernemalm M, Pålsson S, ..., Spetz AL, El Andaloussi S
Nat Commun 10 (1) 2331 [2019-05-27; online 2019-05-27]
Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Barcoded Consortium Infections Resolve Cell Type-Dependent Salmonella enterica Serovar Typhimurium Entry Mechanisms.
Di Martino ML, Ek V, Hardt WD, Eriksson J, Sellin ME
MBio 10 (3) - [2019-05-21; online 2019-05-21]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Distinct glycosylation in membrane proteins within neonatal versus adult myocardial tissue.
Contessotto P, Ellis BW, Jin C, ..., Kilcoyne M, Pandit A
Matrix Biol. - (-) - [2019-05-17; online 2019-05-17]
Glycoproteomics and MS Proteomics [Service]
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Circulating Levels of Interferon Regulatory Factor-5 Associates With Subgroups of Systemic Lupus Erythematosus Patients.
Idborg H, Zandian A, Ossipova E, ..., Svenungsson E, Jakobsson PJ
Front Immunol 10 (-) 1029 [2019-05-17; online 2019-05-17]
Affinity Proteomics Stockholm [Collaborative] Drug Discovery and Development (DDD) [Collaborative] Protein Science Facility (PSF) [Service]
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Ultrasensitive Immunoprofiling of Plasma Extracellular Vesicles Identifies Syndecan-1 as a Potential Tool for Minimally Invasive Diagnosis of Glioma.
Indira Chandran V, Welinder C, Månsson AS, ..., Sundgren PC, Belting M
Clin. Cancer Res. 25 (10) 3115-3127 [2019-05-15; online 2019-01-24]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Global Proteomics and Proteogenomics [Technology development] Structural Proteomics [Service]
PubMed DOI Crossref
Biomarkers of blood cadmium and incidence of cardiovascular events in non-smokers: results from a population-based proteomics study.
Borné Y, Fagerberg B, Sallsten G, ..., Barregard L, Engström G
Clin Proteomics 16 (1) 21 [2019-05-15; online 2019-05-15]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Ancient DNA from mastics solidifies connection between material culture and genetics of mesolithic hunter-gatherers in Scandinavia.
Kashuba N, Kırdök E, Damlien H, ..., Persson P, Götherström A
Commun Biol 2 (-) 185 [2019-05-15; online 2019-05-15]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mic60 exhibits a coordinated clustered distribution along and across yeast and mammalian mitochondria.
Stoldt S, Stephan T, Jans DC, ..., Hell SW, Jakobs S
Proc. Natl. Acad. Sci. U.S.A. 116 (20) 9853-9858 [2019-05-14; online 2019-04-26]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Metabolic profiling of zebrafish embryo development from blastula period to early larval stages.
Dhillon SS, Torell F, Donten M, ..., Trygg J, Lundstedt T
PLoS ONE 14 (5) e0213661 [2019-05-14; online 2019-05-14]
Swedish Metabolomics Centre (SMC) [Service]
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Genetic variation in CADM2 as a link between psychological traits and obesity.
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Sci Rep 9 (1) 7339 [2019-05-14; online 2019-05-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Adult Neural Progenitor Cells Transplanted into Spinal Cord Injury Differentiate into Oligodendrocytes, Enhance Myelination, and Contribute to Recovery.
Sankavaram SR, Hakim R, Covacu R, ..., Svensson M, Brundin L
Stem Cell Reports 12 (5) 950-966 [2019-05-14; online 2019-04-25]
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Automated Cell Processing for Mass Cytometry Experiments.
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Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
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Cardiovascular organ damage in type 2 diabetes mellitus: the role of lipids and inflammation.
Kozakova M, Morizzo C, Goncalves I, ..., Nilsson J, Palombo C
Cardiovasc Diabetol 18 (1) 61 [2019-05-10; online 2019-05-10]
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PubMed DOI Crossref
Wnt5a is a TLR2/4-ligand that induces tolerance in human myeloid cells.
Mehmeti M, Bergenfelz C, Källberg E, ..., André I, Leandersson K
Commun Biol 2 (1) 176 [2019-05-09; online 2019-05-09]
Structural Proteomics [Service]
PubMed DOI Crossref
Protic Ionic Liquids Based on the Alkyl-Imidazolium Cation: Effect of the Alkyl Chain Length on Structure and Dynamics.
Abdurrokhman I, Elamin K, Danyliv O, ..., Swenson J, Martinelli A
J. Phys. Chem. B 123 (18) 4044-4054 [2019-05-09; online 2019-04-30]
Swedish NMR Centre (SNC) [Service]
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Periodontal Health and Oral Microbiota in Patients with Rheumatoid Arthritis.
Eriksson K, Fei G, Lundmark A, ..., Jansson L, Yucel-Lindberg T
J Clin Med 8 (5) - [2019-05-08; online 2019-05-08]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Shared Genetic Risk Factors Across Carbamazepine-Induced Hypersensitivity Reactions.
Nicoletti P, Barrett S, McEvoy L, ..., Alfirevic A, Pirmohamed M
Clin. Pharmacol. Ther. - (-) - [2019-05-07; online 2019-05-07]
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Genetical Genomics of Tonic Immobility in the Chicken.
Fogelholm J, Inkabi S, Höglund A, ..., Henriksen R, Wright D
Genes 10 (5) - [2019-05-07; online 2019-05-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mass Cytometry Identifies Distinct Subsets of Regulatory T Cells and Natural Killer Cells Associated With High Risk for Type 1 Diabetes.
Barcenilla H, Åkerman L, Pihl M, Ludvigsson J, Casas R
Front Immunol 10 (-) 982 [2019-05-03; online 2019-05-03]
Cellular Immunomonitoring [Service]
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Sensory receptor repertoire in cyprid antennules of the barnacle Balanus improvisus.
Abramova A, Alm Rosenblad M, Blomberg A, Larsson TA
PLoS ONE 14 (5) e0216294 [2019-05-02; online 2019-05-02]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SpotLight Proteomics-A IgG-Enrichment Phenotype Profiling Approach with Clinical Implications.
Lundström SL, Heyder T, Wiklundh E, ..., Grunewald J, Zubarev RA
Int J Mol Sci 20 (9) 2157 [2019-05-01; online 2019-05-01]
Chemical Proteomics [Technology development]
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Software engineering for scientific big data analysis.
Grüning BA, Lampa S, Vaudel M, Blankenberg D
Gigascience 8 (5) - [2019-05-01; online 2019-05-24]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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SciPipe: A workflow library for agile development of complex and dynamic bioinformatics pipelines.
Lampa S, Dahlö M, Alvarsson J, Spjuth O
Gigascience 8 (5) - [2019-05-01; online 2019-04-28]
Bioinformatics Support and Infrastructure [Technology development] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Technology development]
PubMed DOI Crossref
Prompt apoptotic response to high glucose in SGLT-expressing renal cells.
Nilsson LM, Zhang L, Bondar A, ..., Scott L, Aperia A
Am. J. Physiol. Renal Physiol. 316 (5) F1078-F1089 [2019-05-01; online 2019-03-13]
Bioinformatics Support for Computational Resources [Service] Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Identification of a non-canonical chondroitin sulfate linkage region trisaccharide.
Persson A, Nilsson J, Vorontsov E, Noborn F, Larson G
Glycobiology 29 (5) 366-371 [2019-05-01; online 2019-03-03]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
How Linked Selection Shapes the Diversity Landscape in Ficedula Flycatchers
Rettelbach A, Nater A, Ellegren H
Genetics 212 (1) 277-285 [2019-05-01; online 2019-03-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Comparative analyses identify genomic features potentially involved in the evolution of birds-of-paradise.
Prost S, Armstrong EE, Nylander J, ..., Ericson PGP, Irestedt M
Gigascience 8 (5) - [2019-05-01; online 2019-01-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Chromosomal genome assembly of the ethanol production strain CBS 11270 indicates a highly dynamic genome structure in the yeast species Brettanomyces bruxellensis.
Tiukova IA, Pettersson ME, Hoeppner MP, ..., Söderberg J, Passoth V
PLoS ONE 14 (5) e0215077 [2019-05-01; online 2019-05-01]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatial proteomics: a powerful discovery tool for cell biology.
Lundberg E, Borner GHH
Nat Rev Mol Cell Biol 20 (5) 285-302 [2019-05-00; online 2019-01-20]
Spatial Proteomics [Collaborative]
PubMed DOI Crossref
Pervasive hybridizations in the history of wheat relatives.
Glémin S, Scornavacca C, Dainat J, ..., David J, Ranwez V
Sci Adv 5 (5) eaav9188 [2019-05-00; online 2019-05-01]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Parental Education and Genetics of BMI from Infancy to Old Age: A Pooled Analysis of 29 Twin Cohorts.
Silventoinen K, Jelenkovic A, Latvala A, ..., Sørensen TIA, Kaprio J
Obesity (Silver Spring) 27 (5) 855-865 [2019-05-00; online 2019-04-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
PKCζ facilitates lymphatic metastatic spread of prostate cancer cells in a mice xenograft model
Zang G, Mu Y, Gao L, Bergh A, Landström M
Oncogene 38 (22) 4215-4231 [2019-05-00; online 2019-01-31]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Molecular orientation distribution of regenerated cellulose fibers investigated with rotor synchronized solid state NMR spectroscopy
Svenningsson L, Sparrman T, Bialik E, Bernin D, Nordstierna L
Cellulose 26 (8) 4681-4692 [2019-05-00; online 2019-04-17]
Swedish NMR Centre (SNC) [Collaborative]
DOI Crossref
Mineralogical investigations of Jamaican hematite-rich and goethite-rich bauxites using XRD and solid state 27Al and 31P MAS NMR spectroscopy
Young NJ, Coley MD, Greenaway AM
Journal of Geochemical Exploration 200 (-) 54-76 [2019-05-00; online 2019-05-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Investigation of human apoB48 metabolism using a new, integrated non-steady-state model of apoB48 and apoB100 kinetics.
Björnson E, Packard CJ, Adiels M, ..., Taskinen MR, Borén J
J. Intern. Med. 285 (5) 562-577 [2019-05-00; online 2019-03-12]
Glycoproteomics and MS Proteomics [Service]
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Interferon signature in patients with STAT1 gain-of-function mutation is epigenetically determined.
Kaleviste E, Saare M, Leahy TR, ..., Peterson P, Kisand K
Eur. J. Immunol. 49 (5) 790-800 [2019-05-00; online 2019-03-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Interannual variation in seasonal diatom sedimentation reveals the importance of late winter processes and their timing for sediment signal formation
Maier DB, Diehl S, Bigler C
Limnol Oceanogr 64 (3) 1186-1199 [2019-05-00; online 2019-01-31]
Integrated Microscopy Technologies Umeå [Service]
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Helicobacter suis infection alters glycosylation and decreases the pathogen growth inhibiting effect and binding avidity of gastric mucins.
Padra M, Adamczyk B, Flahou B, ..., Karlsson NG, Lindén SK
Mucosal Immunol 12 (3) 784-794 [2019-05-00; online 2019-03-07]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Genotype-free estimation of allele frequencies reduces bias and improves demographic inference from RADSeq data.
Warmuth VM, Ellegren H
Mol Ecol Resour 19 (3) 586-596 [2019-05-00; online 2019-04-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Gene expression profile of extraocular muscles following resection strabismus surgery.
Rodríguez MA, Sandgren Hochhard K, Vicente A, Liu JX, Pedrosa Domellöf F
Exp. Eye Res. 182 (-) 182-193 [2019-05-00; online 2019-04-03]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Footprints of adaptive evolution revealed by whole Z chromosomes haplotypes in flycatchers.
Nadachowska-Brzyska K, Burri R, Ellegren H
Mol. Ecol. 28 (9) 2290-2304 [2019-05-00; online 2019-05-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
FET family fusion oncoproteins target the SWI/SNF chromatin remodeling complex.
Lindén M, Thomsen C, Grundevik P, ..., Ståhlberg A, Åman P
EMBO Rep. 20 (5) - [2019-05-00; online 2019-04-08]
Glycoproteomics and MS Proteomics [Service]
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Exome sequencing in 51 early onset non-familial CRC cases.
Thutkawkorapin J, Lindblom A, Tham E
Mol Genet Genomic Med 7 (5) e605 [2019-05-00; online 2019-02-27]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Endocytosis, intracellular fate, accumulation, and agglomeration of titanium dioxide (TiO 2) nanoparticles in the rainbow trout liver cell line RTL-W1.
Lammel T, Mackevica A, Johansson BR, Sturve J
Environ Sci Pollut Res 26 (15) 15354-15372 [2019-05-00; online 2019-03-31]
Integrated Microscopy Technologies Gothenburg [Service]
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Elevated circulating effector memory T cells but similar levels of regulatory T cells in patients with type 2 diabetes mellitus and cardiovascular disease.
Rattik S, Engelbertsen D, Wigren M, ..., Nilsson J, Björkbacka H
Diabetes and Vascular Disease Research 16 (3) 270-280 [2019-05-00; online 2018-12-21]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Dynamic pH-induced conformational changes of the PsbO protein in the fluctuating acidity of the thylakoid lumen.
Carius AB, Rogne P, Duchoslav M, ..., Samuelsson G, Shutova T
Physiol Plantarum 166 (1) 288-299 [2019-05-00; online 2019-03-18]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Dynamic evolutionary history and gene content of sex chromosomes across diverse songbirds.
Xu L, Auer G, Peona V, ..., Irestedt M, Zhou Q
Nat Ecol Evol 3 (5) 834-844 [2019-05-00; online 2019-04-01]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Comparisons of analysis of fatty acid methyl ester (FAME) of microalgae by chromatographic techniques
Niemi C, Lage S, Gentili FG
Algal Research 39 (-) 101449 [2019-05-00; online 2019-05-00]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Axonemal doublet microtubules can split into two complete singlets in human sperm flagellum tips.
Zabeo D, Croft JT, Höög JL
FEBS Lett. 593 (9) 892-902 [2019-05-00; online 2019-04-19]
Cryo-EM [Service]
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Asthma and affective traits in adults: a genetically informative study.
Lehto K, Pedersen NL, Almqvist C, Lu Y, Brew BK
Eur. Respir. J. 53 (5) 1802142 [2019-05-00; online 2019-05-30]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
An Atlas of Vagal Sensory Neurons and Their Molecular Specialization
Kupari J, Häring M, Agirre E, Castelo-Branco G, Ernfors P
Cell Rep 27 (8) 2508-2523.e4 [2019-05-00; online 2019-05-00]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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AdipoR1 and AdipoR2 maintain membrane fluidity in most human cell types and independently of adiponectin.
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J. Lipid Res. 60 (5) 995-1004 [2019-05-00; online 2019-03-19]
Integrated Microscopy Technologies Gothenburg [Service]
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Invasive cervical tumors with high and low HPV titer represent molecular subgroups with different disease etiology.
Cui T, Enroth S, Ameur A, ..., Lindquist D, Gyllensten U
Carcinogenesis 40 (2) 269-278 [2019-04-29; online 2019-01-01]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Pyroglutamation of amyloid-βx-42 (Aβx-42) followed by Aβ1-40 deposition underlies plaque polymorphism in progressing Alzheimer's disease pathology.
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Integrated Microscopy Technologies Gothenburg [Service]
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Preeclampsia is Associated with Sex-Specific Transcriptional and Proteomic Changes in Fetal Erythroid Cells.
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Glycoproteomics and MS Proteomics [Service]
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Somatic mutation that affects transcription factor binding upstream of CD55 in the temporal cortex of a late-onset Alzheimer disease patient
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Hum Mol Genet 28 (16) 2675-2685 [2019-04-24; online 2019-04-24]
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Spatial and temporal localization of immune transcripts defines hallmarks and diversity in the tuberculosis granuloma.
Carow B, Hauling T, Qian X, ..., Nilsson M, Rottenberg ME
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In Situ Sequencing (ISS) [Collaborative]
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PAD2-Mediated Citrullination Contributes to Efficient Oligodendrocyte Differentiation and Myelination.
Falcão AM, Meijer M, Scaglione A, ..., Casaccia P, Castelo-Branco G
Cell Rep 27 (4) 1090-1102.e10 [2019-04-23; online 2019-04-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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EnsembleCNV: an ensemble machine learning algorithm to identify and genotype copy number variation using SNP array data.
Zhang Z, Cheng H, Hong X, ..., Wang X, Hao K
Nucleic Acids Res. 47 (7) e39 [2019-04-23; online 2019-02-06]
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Cobalt-doped hematite thin films for electrocatalytic water oxidation in highly acidic media.
Kwong WL, Lee CC, Shchukarev A, Messinger J
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Integrated Microscopy Technologies Umeå [Collaborative]
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Mebendazole-induced M1 polarisation of THP-1 macrophages may involve DYRK1B inhibition.
Blom K, Rubin J, Berglund M, ..., Nygren P, Larsson R
BMC Res Notes 12 (1) 234 [2019-04-22; online 2019-04-22]
Drug Discovery and Development (DDD) [Service]
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The complex barnacle perfume: identification of waterborne pheromone homologues in Balanus improvisus and their differential expression during settlement
Abramova A, Lind U, Blomberg A, Rosenblad MA
Biofouling 35 (4) 416-428 [2019-04-21; online 2019-05-30]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A Genome-Wide Association Study of Bisphosphonate-Associated Atypical Femoral Fracture.
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Calcif. Tissue Int. - (-) - [2019-04-20; online 2019-04-20]
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RNA Sequencing Provides Novel Insights into the Transcriptome of Aldosterone Producing Adenomas.
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Sci Rep 9 (1) 6269 [2019-04-18; online 2019-04-18]
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Greedy de novo motif discovery to construct motif repositories for bacterial proteomes.
Khakzad H, Malmström J, Malmström L
BMC Bioinformatics 20 (Suppl 4) 141 [2019-04-18; online 2019-04-18]
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A proton <i>T</i><sub>1</sub>-nuclear magnetic resonance dispersion study of water motion in snowflakes and hexagonal ice
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Molecular Physics 117 (7-8) 960-967 [2019-04-18; online 2018-10-30]
Swedish NMR Centre (SNC) [Service]
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The Genome of Blue-Capped Cordon-Bleu Uncovers Hidden Diversity of LTR Retrotransposons in Zebra Finch.
Boman J, Frankl-Vilches C, da Silva Dos Santos M, ..., Gahr M, Suh A
Genes 10 (4) - [2019-04-13; online 2019-04-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Neutrophil extracellular traps in the central nervous system hinder bacterial clearance during pneumococcal meningitis.
Mohanty T, Fisher J, Bakochi A, ..., Bentzer P, Linder A
Nat Commun 10 (1) 1667 [2019-04-10; online 2019-04-10]
Structural Proteomics [Collaborative]
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Improved predictions of time-dependent drug-drug interactions by determination of cytosolic drug concentrations.
Filppula AM, Parvizi R, Mateus A, Baranczewski P, Artursson P
Sci Rep 9 (1) 5850 [2019-04-10; online 2019-04-10]
Drug Discovery and Development (DDD) [Technology development]
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A multi-ancestry genome-wide study incorporating gene-smoking interactions identifies multiple new loci for pulse pressure and mean arterial pressure.
Sung YJ, de Las Fuentes L, Winkler TW, ..., Rao DC, Morrison AC
Hum. Mol. Genet. - (-) - [2019-04-10; online 2019-04-10]
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SQSTM1/p62-Directed Metabolic Reprogramming Is Essential for Normal Neurodifferentiation.
Calvo-Garrido J, Maffezzini C, Schober FA, ..., Freyer C, Wredenberg A
Stem Cell Reports 12 (4) 696-711 [2019-04-09; online 2019-02-28]
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Bidirectional Selection for Body Weight on Standing Genetic Variation in a Chicken Model.
Lillie M, Honaker CF, Siegel PB, Carlborg Ö
G3 (Bethesda) 9 (4) 1165-1173 [2019-04-09; online 2019-04-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The 1H NMR serum metabolomics response to a two meal challenge: a cross-over dietary intervention study in healthy human volunteers.
Rådjursöga M, Lindqvist HM, Pedersen A, ..., Ellegård L, Winkvist A
Nutr J 18 (1) 25 [2019-04-08; online 2019-04-08]
Swedish NMR Centre (SNC) [Collaborative]
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SAMURAI (Solid-phase Assisted Mutagenesis by Uracil Restriction for Accurate Integration) for antibody affinity maturation and paratope mapping.
Hu FJ, Lundqvist M, Uhlén M, Rockberg J
Nucleic Acids Res. 47 (6) e34 [2019-04-08; online 2019-02-05]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Breast cancer quantitative proteome and proteogenomic landscape.
Johansson HJ, Socciarelli F, Vacanti NM, ..., Børresen-Dale AL, Lehtiö J
Nat Commun 10 (1) 1600 [2019-04-08; online 2019-04-08]
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A hybrid de novo genome assembly of the honeybee, Apis mellifera, with chromosome-length scaffolds.
Wallberg A, Bunikis I, Pettersson OV, ..., Robinson GE, Webster MT
BMC Genomics 20 (1) 275 [2019-04-08; online 2019-04-08]
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Spatiotemporal dynamics of molecular pathology in amyotrophic lateral sclerosis.
Maniatis S, Äijö T, Vickovic S, ..., Bonneau R, Phatnani H
Science 364 (6435) 89-93 [2019-04-05; online 2019-04-06]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Pyridine-Fused 2-Pyridones via Povarov and A 3 Reactions: Rapid Generation of Highly Functionalized Tricyclic Heterocycles Capable of Amyloid Fibril Binding.
Singh P, Adolfsson DE, Ådén J, ..., Olofsson A, Almqvist F
J. Org. Chem. 84 (7) 3887-3903 [2019-04-05; online 2019-03-20]
Cryo-EM [Service] Swedish NMR Centre (SNC) [Service]
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High-Quality Library Preparation for NGS-Based Immunoglobulin Germline Gene Inference and Repertoire Expression Analysis.
Vázquez Bernat N, Corcoran M, Hardt U, ..., Martin M, Karlsson Hedestam GB
Front Immunol 10 (-) 660 [2019-04-05; online 2019-04-05]
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Exploring the Arctic Charr Intestinal Glycome: Evidence of Increased N-Glycolylneuraminic Acid Levels and Changed Host-Pathogen Interactions in Response to Inflammation.
Venkatakrishnan V, Padra JT, Sundh H, ..., Karlsson NG, Lindén SK
J. Proteome Res. 18 (4) 1760-1773 [2019-04-05; online 2019-03-19]
Glycoproteomics and MS Proteomics [Service]
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Osteoporosis and skeletal dysplasia caused by pathogenic variants in SGMS2.
Pekkinen M, Terhal PA, Botto LD, ..., Holthuis JC, Mäkitie O
JCI Insight 4 (7) - [2019-04-04; online 2019-04-04]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Molecular Characterization and Comparative Genomics of Clinical Hybrid Shiga Toxin-Producing and Enterotoxigenic Escherichia coli (STEC/ETEC) Strains in Sweden.
Bai X, Zhang J, Ambikan A, ..., Xiong Y, Matussek A
Sci Rep 9 (1) 5619 [2019-04-04; online 2019-04-04]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Stockholm [Service]
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Genetic Architectures of Childhood- and Adult-Onset Asthma Are Partly Distinct.
Ferreira MAR, Mathur R, Vonk JM, ..., Koppelman GH, Almqvist C
Am. J. Hum. Genet. 104 (4) 665-684 [2019-04-04; online 2019-03-28]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A TetR-family transcription factor regulates fatty acid metabolism in the archaeal model organism Sulfolobus acidocaldarius.
Wang K, Sybers D, Maklad HR, ..., Lindås AC, Peeters E
Nat Commun 10 (1) 1542 [2019-04-04; online 2019-04-04]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Silica-based diffusion probes for use in FRAP and NMR-diffusometry
Pihl M, Kolman K, Lotsari A, ..., Lorén N, Bordes R
Journal of Dispersion Science and Technology 40 (4) 555-562 [2019-04-03; online 2018-10-08]
Swedish NMR Centre (SNC) [Service]
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Proteogenomics and Hi-C reveal transcriptional dysregulation in high hyperdiploid childhood acute lymphoblastic leukemia.
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Nat Commun 10 (1) 1519 [2019-04-03; online 2019-04-03]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Lund [Service] Global Proteomics and Proteogenomics [Technology development]
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Mesenchymal stem cells transplanted into spinal cord injury adopt immune cell-like characteristics.
Hakim R, Covacu R, Zachariadis V, ..., Brundin L, Svensson M
Stem Cell Res Ther 10 (1) 115 [2019-04-03; online 2019-04-03]
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A Focused DNA-Encoded Chemical Library for the Discovery of Inhibitors of NAD+-Dependent Enzymes.
Yuen LH, Dana S, Liu Y, ..., Schüler H, Franzini RM
J. Am. Chem. Soc. 141 (13) 5169-5181 [2019-04-03; online 2019-03-19]
Protein Science Facility (PSF) [Service]
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B cell profiling in malaria reveals expansion and remodelling of CD11c+ B cell subsets.
Sundling C, Rönnberg C, Yman V, ..., Persson KE, Färnert A
JCI Insight 5 (-) - [2019-04-02; online 2019-04-02]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Collaborative]
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Structural basis for adPEO-causing mutations in the mitochondrial TWINKLE helicase.
Peter B, Farge G, Pardo-Hernandez C, Tångefjord S, Falkenberg M
Hum. Mol. Genet. 28 (7) 1090-1099 [2019-04-01; online 2018-11-30]
Integrated Microscopy Technologies Gothenburg [Service]
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The biology of the cell - insights from mass cytometry.
Brodin P
FEBS J. 286 (8) 1514-1522 [2019-04-00; online 2018-11-26]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
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Successful optimization of reconstruction parameters in structured illumination microscopy – A practical guide
Karras C, Smedh M, Förster R, ..., Fernandez-Rodriguez J, Heintzmann R
Optics Communications 436 (-) 69-75 [2019-04-00; online 2019-04-00]
Integrated Microscopy Technologies Gothenburg [Service]
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Selection for longer lived sperm within ejaculate reduces reproductive ageing in offspring.
Alavioon G, Cabrera Garcia A, LeChatelier M, Maklakov AA, Immler S
Evolution Letters 3 (2) 198-206 [2019-04-00; online 2019-02-14]
Genome Engineering Zebrafish [Service]
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Post-glacial colonization routes coincide with a life-history breakpoint along a latitudinal gradient.
Luquet E, Rödin Mörch P, Cortázar-Chinarro M, ..., Höglund J, Laurila A
J. Evol. Biol. 32 (4) 356-368 [2019-04-00; online 2019-02-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Placing RNA in context and space - methods for spatially resolved transcriptomics.
Strell C, Hilscher MM, Laxman N, ..., Yokota C, Nilsson M
FEBS J. 286 (8) 1468-1481 [2019-04-00; online 2018-03-31]
In Situ Sequencing (ISS) [Technology development]
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Outbreak of Methicillin-resistant Staphylococcus aureus in a Hospital Center for Children's and Women's Health in a Swedish County.
Gideskog M, Melhus Å
APMIS 127 (4) 181-186 [2019-04-00; online 2019-03-26]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Novel fibronectin mutations and expansion of the phenotype in spondylometaphyseal dysplasia with "corner fractures".
Costantini A, Valta H, Baratang NV, ..., Mäkitie O, Campeau PM
Bone 121 (-) 163-171 [2019-04-00; online 2018-12-30]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Nitrogen utilization during germination of somatic embryos of Norway spruce: revealing the importance of supplied glutamine for nitrogen metabolism
Carlsson J, Egertsdotter U, Ganeteg U, Svennerstam H
Trees 33 (2) 383-394 [2019-04-00; online 2018-11-09]
Swedish Metabolomics Centre (SMC) [Service]
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Mutation patterns in a population-based non-small cell lung cancer cohort and prognostic impact of concomitant mutations in KRAS and TP53 or STK11.
La Fleur L, Falk-Sörqvist E, Smeds P, ..., Moens L, Botling J
Lung Cancer 130 (-) 50-58 [2019-04-00; online 2019-01-09]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Multi-ancestry genome-wide gene-smoking interaction study of 387,272 individuals identifies new loci associated with serum lipids.
Bentley AR, Sung YJ, Brown MR, ..., Rotimi CN, Cupples LA
Nat. Genet. 51 (4) 636-648 [2019-04-00; online 2019-03-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Increased vascular endothelial growth factor D is associated with atrial fibrillation and ischaemic stroke.
Berntsson J, Smith JG, Johnson LSB, ..., Nilsson J, Engström G
Heart 105 (7) 553-558 [2019-04-00; online 2018-10-16]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Increase of invasive meningococcal serogroup W disease in Europe, 2013 to 2017.
Krone M, Gray S, Abad R, ..., Vogel U, Borrow R
Euro Surveill. 24 (14) - [2019-04-00; online 2019-04-11]
Clinical Genomics Örebro [Collaborative]
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Gain-of-function mutation of microRNA-140 in human skeletal dysplasia.
Grigelioniene G, Suzuki HI, Taylan F, ..., Sharp PA, Kobayashi T
Nat. Med. 25 (4) 583-590 [2019-04-00; online 2019-02-25]
Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Dynamics of Resistance Plasmids in Extended-Spectrum-β-Lactamase-Producing Enterobacteriaceae during Postinfection Colonization.
Brolund A, Rajer F, Giske CG, ..., Titelman E, Sandegren L
Antimicrob. Agents Chemother. 63 (4) - [2019-04-00; online 2019-03-27]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Deep Learning in Image Cytometry: A Review.
Gupta A, Harrison PJ, Wieslander H, ..., Sintorn IM, Wählby C
Cytometry A 95 (4) 366-380 [2019-04-00; online 2018-12-19]
BioImage Informatics [Collaborative]
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Backbone 1H, 13C, and 15N resonance assignments of BoMan26A, a β-mannanase of the glycoside hydrolase family 26 from the human gut bacterium Bacteroides ovatus.
Wernersson S, Bågenholm V, Persson C, ..., Stålbrand H, Akke M
Biomol NMR Assign 13 (1) 213-218 [2019-04-00; online 2019-02-07]
Swedish NMR Centre (SNC) [Service]
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Univariate and classification analysis reveals potential diagnostic biomarkers for early stage ovarian cancer Type 1 and Type 2.
Marcišauskas S, Ulfenborg B, Kristjansdottir B, Waldemarson S, Sundfeldt K
J Proteomics 196 (-) 57-68 [2019-03-30; online 2019-01-30]
Glycoproteomics and MS Proteomics [Service]
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A geographically matched control population efficiently limits the number of candidate disease-causing variants in an unbiased whole-genome analysis
Rentoft M, Svensson D, Sjödin A, ..., Melin BS, Johansson E
PLoS ONE 14 (3) e0213350 [2019-03-27; online 2019-03-27]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] Systems Biology [Collaborative]
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Selective auxin agonists induce specific AUX/IAA protein degradation to modulate plant development.
Vain T, Raggi S, Ferro N, ..., Pauwels L, Robert S
Proc. Natl. Acad. Sci. U.S.A. 116 (13) 6463-6472 [2019-03-26; online 2019-03-08]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Swedish Metabolomics Centre (SMC) [Service]
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Improved survival prognostication of node-positive malignant melanoma patients utilizing shotgun proteomics guided by histopathological characterization and genomic data.
Betancourt LH, Pawłowski K, Eriksson J, ..., Jönsson G, Marko-Varga G
Sci Rep 9 (1) 5154 [2019-03-26; online 2019-03-26]
Structural Proteomics [Service]
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High Serum sCD40 and a Distinct Colonic T Cell Profile in Ulcerative Colitis Associated With Primary Sclerosing Cholangitis.
Lampinen M, Vessby J, Fredricsson A, ..., Rorsman F, Carlson M
J Crohns Colitis 13 (3) 341-350 [2019-03-26; online 2018-11-02]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Corticosteroids protect infected cells against mycobacterial killing in vitro.
Tükenmez H, Edström I, Kalsum S, ..., Elofsson M, Larsson C
Biochem. Biophys. Res. Commun. 511 (1) 117-121 [2019-03-26; online 2019-02-14]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Swedish NMR Centre (SNC) [Service]
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Thickness determines microbial community structure and function in nitrifying biofilms via deterministic assembly.
Suarez C, Piculell M, Modin O, ..., Persson F, Hermansson M
Sci Rep 9 (1) 5110 [2019-03-25; online 2019-03-25]
Integrated Microscopy Technologies Gothenburg [Service]
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A novel human in vitro papillomavirus type 16 positive tonsil cancer cell line with high sensitivity to radiation and cisplatin.
Forslund O, Sugiyama N, Wu C, ..., Wennerberg J, Ekblad L
BMC Cancer 19 (1) 265 [2019-03-25; online 2019-03-25]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Time-Resolved Study of Silicate Slag Formation During Combustion of Wheat Straw Pellets
Strandberg A, Skoglund N, Thyrel M, ..., Broström M, Backman R
Energy Fuels 33 (3) 2308-2318 [2019-03-21; online 2019-02-21]
Integrated Microscopy Technologies Umeå [Service]
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Subsequent Event Risk in Individuals with Established Coronary Heart Disease: Design and Rationale of the GENIUS-CHD Consortium.
Patel R, Tragante V, Schmidt AF, ..., Hingorani AD, Asselbergs FW
Circ Genom Precis Med - (-) - [2019-03-21; online 2019-03-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Helicase/SUMO-targeted ubiquitin ligase Uls1 interacts with the Holliday junction resolvase Yen1.
Bauer SL, Chen J, Åström SU
PLoS ONE 14 (3) e0214102 [2019-03-21; online 2019-03-21]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Association of Chromosome 9p21 with Subsequent Coronary Heart Disease Events: A GENIUS-CHD Study of Individual Participant Data.
Patel RS, Schmidt AF, Tragante V, ..., Hingorani AD, Asselbergs FW
Circ Genom Precis Med - (-) - [2019-03-21; online 2019-03-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Characterization of Double Leached Waelz Oxide for Identification of Fluoride Mineral
Sar S, Sundqvist Ökvist L, Sparrman T, Engström F, Samuelsson C
Metals 9 (3) 361 [2019-03-20; online 2019-03-20]
Swedish NMR Centre (SNC) [Service]
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Current Status and Future Prospects of Clinically Exploiting Cancer-specific Metabolism-Why Is Tumor Metabolism Not More Extensively Translated into Clinical Targets and Biomarkers?
Muthu M, Nordström A
Int J Mol Sci 20 (6) 1385 [2019-03-19; online 2019-03-19]
Swedish Metabolomics Centre (SMC) [Service]
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An ABCA4 loss-of-function mutation causes a canine form of Stargardt disease
Mäkeläinen S, Gòdia M, Hellsand M, ..., Andersson G, Bergström TF
PLoS Genet. 15 (3) e1007873 [2019-03-19; online 2019-03-19]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Regulatory Diversification of INDEHISCENT in the Capsella Genus Directs Variation in Fruit Morphology.
Dong Y, Jantzen F, Stacey N, ..., Ljung K, Østergaard L
Curr. Biol. 29 (6) 1038-1046.e4 [2019-03-18; online 2019-02-28]
Swedish Metabolomics Centre (SMC) [Service]
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Pax6 and KDM5C co-occupy a subset of developmentally critical genes including Notch signaling regulators in neural progenitors
Gaudenzi G, Dethlefsen O, Walfridsson J, Hermanson O
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Interaction of toluene with polar stationary phases under conditions typical of hydrophilic interaction chromatography probed by saturation transfer difference nuclear magnetic resonance spectroscopy.
Shamshir A, Dinh NP, Jonsson T, ..., Ashiq MJ, Irgum K
Journal of Chromatography A 1588 (-) 58-67 [2019-03-15; online 2018-12-13]
Swedish NMR Centre (SNC) [Collaborative]
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Extended insight into the Mycobacterium chelonae-abscessus complex through whole genome sequencing of Mycobacterium salmoniphilum outbreak and Mycobacterium salmoniphilum-like strains.
Behra PRK, Das S, Pettersson BMF, ..., Ennis DG, Kirsebom LA
Sci Rep 9 (1) 4603 [2019-03-14; online 2019-03-14]
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The Interactome of Palmitoyl-Protein Thioesterase 1 (PPT1) Affects Neuronal Morphology and Function.
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Surveillance of cell wall diffusion barrier integrity modulates water and solute transport in plants.
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Sci Rep 9 (1) 4227 [2019-03-12; online 2019-03-12]
Swedish Metabolomics Centre (SMC) [Service]
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Ancient Mitochondrial Genomes Reveal the Absence of Maternal Kinship in the Burials of Çatalhöyük People and Their Genetic Affinities.
Chyleński M, Ehler E, Somel M, ..., Juras A, Marciniak A
Genes 10 (3) - [2019-03-11; online 2019-03-11]
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In situ quantification of individual mRNA transcripts in melanocytes discloses gene regulation of relevance to speciation.
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J Exp Biol 222 (Pt 5) jeb194431 [2019-03-08; online 2019-03-08]
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Polymer gels with tunable ionic Seebeck coefficient for ultra-sensitive printed thermopiles.
Zhao D, Martinelli A, Willfahrt A, ..., Fabiano S, Crispin X
Nat Commun 10 (1) 1093 [2019-03-06; online 2019-03-06]
Swedish NMR Centre (SNC) [Collaborative]
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Single-Cell RNA-Seq Reveals Cellular Heterogeneity of Pluripotency Transition and X Chromosome Dynamics during Early Mouse Development.
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Cell Rep 26 (10) 2593-2607.e3 [2019-03-05; online 2019-03-07]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A microfluidic platform towards automated multiplexed in situ sequencing.
Maïno N, Hauling T, Cappi G, ..., Dupouy DG, Nilsson M
Sci Rep 9 (1) 3542 [2019-03-05; online 2019-03-05]
In Situ Sequencing (ISS) [Technology development]
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Oxygen induces the expression of invasion and stress response genes in the anaerobic salmon parasite Spironucleus salmonicida.
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BMC Biol. 17 (1) 19 [2019-03-01; online 2019-03-01]
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Association of Genetic Risk Factors for Psychiatric Disorders and Traits of These Disorders in a Swedish Population Twin Sample.
Taylor MJ, Martin J, Lu Y, ..., Larsson H, Lichtenstein P
JAMA Psychiatry 76 (3) 280-289 [2019-03-01; online 2018-12-20]
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Whole genome sequencing of consanguineous families reveals novel pathogenic variants in intellectual disability.
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Clin. Genet. 95 (3) 436-439 [2019-03-00; online 2018-12-07]
Clinical Genomics Uppsala [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The high prevalence of antibiotic heteroresistance in pathogenic bacteria is mainly caused by gene amplification.
Nicoloff H, Hjort K, Levin BR, Andersson DI
Nat Microbiol 4 (3) 504-514 [2019-03-00; online 2019-02-11]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Spontaneous calcium activity in metanephric mesenchymal cells regulates branching morphogenesis in the embryonic kidney.
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FASEB J. 33 (3) 4089-4096 [2019-03-00; online 2018-11-29]
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Proteomic Analysis of Endothelial Cells Exposed to Ultrasmall Nanoparticles Reveals Disruption in Paracellular and Transcellular Transport.
Kuruvilla J, Bayat N, Cristobal S
Proteomics 19 (5) e1800228 [2019-03-00; online 2019-02-25]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Protein-coding variants implicate novel genes related to lipid homeostasis contributing to body-fat distribution.
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Nat. Genet. 51 (3) 452-469 [2019-03-00; online 2019-02-18]
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New genetic signals for lung function highlight pathways and chronic obstructive pulmonary disease associations across multiple ancestries.
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Nat. Genet. 51 (3) 481-493 [2019-03-00; online 2019-02-25]
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Genome-wide meta-analysis reveals shared new loci in systemic seropositive rheumatic diseases.
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Ann. Rheum. Dis. 78 (3) 311-319 [2019-03-00; online 2018-12-20]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genome-wide meta-analysis identifies new loci and functional pathways influencing Alzheimer's disease risk.
Jansen IE, Savage JE, Watanabe K, ..., Andreassen OA, Posthuma D
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NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Estimating the Fitness Effect of Deleterious Mutations During the Two Phases of the Life Cycle: A New Method Applied to the Root-Rot Fungus Heterobasidion parviporum.
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Genetics 211 (3) 963-976 [2019-03-00; online 2018-12-31]
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Endosperm-specific transcriptome analysis by applying the INTACT system.
Del Toro-De León G, Köhler C
Plant Reprod 32 (1) 55-61 [2019-03-00; online 2018-12-26]
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Chromosomal inversions associated with environmental adaptation in honeybees.
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Mol. Ecol. 28 (6) 1358-1374 [2019-03-00; online 2018-12-21]
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Asexual reproduction and growth rate: independent and plastic life history traits in Neurospora crassa.
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ISME J 13 (3) 780-788 [2019-03-00; online 2018-11-09]
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A rare regulatory variant in the MEF2D gene affects gene regulation and splicing and is associated with a SLE sub-phenotype in Swedish cohorts.
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A radical switch in clonality reveals a stem cell niche in the epiphyseal growth plate.
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Nature 567 (7747) 234-238 [2019-03-00; online 2019-02-27]
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A Phenotypic Screening Assay Identifies Modulators of Diamond Blackfan Anemia.
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SLAS DISCOVERY: Advancing Life Sciences R&D 24 (3) 304-313 [2019-03-00; online 2019-02-21]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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A High-throughput Bead-based Affinity Assay Enables Analysis of Genital Protein Signatures in Women At Risk of HIV Infection.
Månberg A, Bradley F, Qundos U, ..., Nilsson P, Broliden K
Mol. Cell Proteomics 18 (3) 461-476 [2019-03-00; online 2018-11-30]
Affinity Proteomics Stockholm [Collaborative]
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Transcriptomics of cardiac biopsies reveals differences in patients with or without diagnostic parameters for heart failure with preserved ejection fraction.
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Sci Rep 9 (1) 3179 [2019-02-28; online 2019-02-28]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Regulatory changes in pterin and carotenoid genes underlie balanced color polymorphisms in the wall lizard
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Proc Natl Acad Sci USA - (-) 201820320 [2019-02-28; online 2019-02-28]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Nanomedical Relevance of the Intermolecular Interaction Dynamics-Examples from Lysozymes and Insulins.
Zhang R, Zhang N, Mohri M, ..., Nifantiev NE, Siebert HC
ACS Omega 4 (2) 4206-4220 [2019-02-28; online 2019-02-27]
Swedish NMR Centre (SNC) [Service]
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A genome-wide association study identifies new loci for factor VII and implicates factor VII in ischemic stroke etiology.
de Vries PS, Sabater-Lleal M, Huffman JE, ..., O'Donnell CJ, Smith NL
Blood 133 (9) 967-977 [2019-02-28; online 2019-01-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Population and Single-Cell Analysis of Human Cardiogenesis Reveals Unique LGR5 Ventricular Progenitors in Embryonic Outflow Tract.
Sahara M, Santoro F, Sohlmér J, ..., Gruber P, Chien KR
Dev. Cell 48 (4) 475-490.e7 [2019-02-25; online 2019-01-31]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Longitudinal effects of aging on plasma proteins levels in older adults - associations with kidney function and hemoglobin levels.
Lind L, Sundström J, Larsson A, ..., Ärnlöv J, Ingelsson E
PLoS ONE 14 (2) e0212060 [2019-02-25; online 2019-02-25]
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Recombinant Glycoprotein E of Varicella Zoster Virus Contains Glycan-Peptide Motifs That Modulate B Cell Epitopes into Discrete Immunological Signatures.
Nordén R, Nilsson J, Samuelsson E, ..., Olofsson S, Bergström T
Int J Mol Sci 20 (4) - [2019-02-22; online 2019-02-22]
Glycoproteomics and MS Proteomics [Service]
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A Quantitative Analysis of Colonic Mucosal Oxylipins and Endocannabinoids in Treatment-Naïve and Deep Remission Ulcerative Colitis Patients and the Potential Link With Cytokine Gene Expression.
Diab J, Al-Mahdi R, Gouveia-Figueira S, ..., Florholmen J, Forsdahl G
Inflamm Bowel Dis 25 (3) 490-497 [2019-02-21; online 2018-11-27]
Swedish Metabolomics Centre (SMC) [Service]
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Whole-Genome Analysis of Domestic Chicken Selection Lines Suggests Segregating Variation in ERV Makeups.
Pettersson ME, Jern P
Genes 10 (2) 162 [2019-02-20; online 2019-02-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Rostania revised: testing generic delimitations in Collemataceae (Peltigerales, Lecanoromycetes).
Košuthová A, Westberg M, Tálora MAG, Wedin M
MycoKeys 47 (47) 17-33 [2019-02-20; online 2019-02-20]
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Prediction of response to anti-cancer drugs becomes robust via network integration of molecular data.
Franco M, Jeggari A, Peuget S, ..., Selivanova G, Alexeyenko A
Sci Rep 9 (1) 2379 [2019-02-20; online 2019-02-20]
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Immune-informed mucin hydrogels evade fibrotic foreign body response in vivo
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High Levels of Soluble Lectinlike Oxidized Low-Density Lipoprotein Receptor-1 Are Associated With Carotid Plaque Inflammation and Increased Risk of Ischemic Stroke.
Markstad H, Edsfeldt A, Yao Mattison I, ..., Engström G, Gonçalves I
J Am Heart Assoc 8 (4) e009874 [2019-02-19; online 2019-02-13]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Crystal Structure and Substrate Specificity of the 8-oxo-dGTP Hydrolase NUDT1 from Arabidopsis thaliana.
Jemth AS, Scaletti E, Carter M, Helleday T, Stenmark P
Biochemistry 58 (7) 887-899 [2019-02-19; online 2019-01-16]
Protein Science Facility (PSF) [Service]
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A deep proteome and transcriptome abundance atlas of 29 healthy human tissues.
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Mol. Syst. Biol. 15 (2) e8503 [2019-02-18; online 2019-02-18]
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Genetics and epigenetics in primary Sjögren's syndrome.
Imgenberg-Kreuz J, Rasmussen A, Sivils K, Nordmark G
Rheumatology (Oxford) - (-) - [2019-02-15; online 2019-02-15]
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Fine-Tuning of Sox17 and Canonical Wnt Coordinates the Permeability Properties of the Blood-Brain Barrier.
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Circ. Res. 124 (4) 511-525 [2019-02-15; online 2018-12-29]
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Association of the coronary artery disease risk gene GUCY1A3 with ischaemic events after coronary intervention.
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Cardiovasc. Res. - (-) - [2019-02-14; online 2019-02-14]
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Zinc depletion does not necessarily induce ribosome hibernation in mycobacteria.
Tobiasson V, Dow A, Prisic S, Amunts A
Proc. Natl. Acad. Sci. U.S.A. 116 (7) 2395-2397 [2019-02-12; online 2019-01-25]
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Metabolomic and lipidomic assessment of the metabolic syndrome in Dutch middle-aged individuals reveals novel biological signatures separating health and disease.
Surowiec I, Noordam R, Bennett K, ..., Lundstedt T, van Heemst D
Metabolomics 15 (2) 23 [2019-02-12; online 2019-02-12]
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Synthesis of Sulfonimidamide-Based Amino Acid Building Blocks with Orthogonal Protecting Groups
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Eur. J. Org. Chem. 2019 (5) 1045-1057 [2019-02-07; online 2019-01-02]
Drug Discovery and Development (DDD) [Technology development]
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Mass cytometry identifies distinct CD4+ T cell clusters distinguishing HIV-1-infected patients according to antiretroviral therapy initiation.
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JCI Insight 4 (3) - [2019-02-07; online 2019-02-07]
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Interplay between Conformational Entropy and Solvation Entropy in Protein-Ligand Binding.
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J. Am. Chem. Soc. 141 (5) 2012-2026 [2019-02-06; online 2019-01-23]
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Two Basidiomycete Fungi in the Cortex of Wolf Lichens.
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Curr. Biol. 29 (3) 476-483.e5 [2019-02-04; online 2019-01-17]
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The genomics of major psychiatric disorders in a large pedigree from Northern Sweden.
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Transl Psychiatry 9 (1) 60 [2019-02-04; online 2019-02-04]
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Single-cell RNA sequencing reveals midbrain dopamine neuron diversity emerging during mouse brain development
Tiklová K, Björklund ÅK, Lahti L, ..., Parmar M, Perlmann T
Nat Commun 10 (1) 581 [2019-02-04; online 2019-02-04]
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Exploring the genetics of trotting racing ability in horses using a unique Nordic horse model.
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BMC Genomics 20 (1) 104 [2019-02-04; online 2019-02-04]
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Introgression of resistance to Rhopalosiphum padi L. from wild barley into cultivated barley facilitated by doubled haploid and molecular marker techniques.
Åhman I, Bengtsson T
Theor. Appl. Genet. - (-) - [2019-02-02; online 2019-02-02]
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Protein measurements in venous plasma, earlobe capillary plasma and in plasma stored on filter paper.
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Anal. Biochem. 566 (-) 146-150 [2019-02-01; online 2018-11-22]
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IL-6 Signaling Blockade during CD40-Mediated Immune Activation Favors Antitumor Factors by Reducing TGF-β, Collagen Type I, and PD-L1/PD-1.
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GlyConnect: Glycoproteomics Goes Visual, Interactive, and Analytical.
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Glycoproteomics and MS Proteomics [Collaborative]
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Disentangling the genetics of lean mass.
Karasik D, Zillikens MC, Hsu YH, ..., Kiel DP, Ohlsson C
Am. J. Clin. Nutr. 109 (2) 276-287 [2019-02-01; online 2019-02-06]
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Allele-Specific Methylation of SPDEF: A Novel Moderator of Psychosocial Stress and Substance Abuse.
Tay N, Macare C, Liu Y, ..., Schumann G, IMAGEN Consortium
Am J Psychiatry 176 (2) 146-155 [2019-02-01; online 2018-12-11]
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Whole-genome sequencing identifies complex contributions to genetic risk by variants in genes causing monogenic systemic lupus erythematosus.
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Hum. Genet. 138 (2) 141-150 [2019-02-00; online 2019-02-01]
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Titanium release in peri-implantitis.
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Structural Basis of Cross-Reactivity of Anti-Citrullinated Protein Antibodies.
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Arthritis & rheumatology (Hoboken, N.J.) 71 (2) 210-221 [2019-02-00; online 2019-01-04]
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Spatial and temporal heterogeneity of mouse and human microglia at single-cell resolution.
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Nature 566 (7744) 388-392 [2019-02-00; online 2019-02-13]
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Recognition of Amino Acid Motifs, Rather Than Specific Proteins, by Human Plasma Cell-Derived Monoclonal Antibodies to Posttranslationally Modified Proteins in Rheumatoid Arthritis.
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Arthritis & rheumatology (Hoboken, N.J.) 71 (2) 196-209 [2019-02-00; online 2018-08-29]
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Protein profiling of fine-needle aspirates reveals subtype-associated immune signatures and involvement of chemokines in breast cancer.
Franzén B, Alexeyenko A, Kamali-Moghaddam M, ..., Landegren U, Lewensohn R
Mol Oncol 13 (2) 376-391 [2019-02-00; online 2019-01-07]
Affinity Proteomics Uppsala [Technology development] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Technology development]
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Plasma Profiles of Inflammatory Markers Associated With Active Tuberculosis in Antiretroviral Therapy-Naive Human Immunodeficiency Virus-Positive Individuals.
Olsson O, Björkman P, Jansson M, ..., Carlsson F, Skogmar S
Open Forum Infect Dis 6 (2) ofz015 [2019-02-00; online 2019-01-31]
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Parental legacy, demography, and admixture influenced the evolution of the two subgenomes of the tetraploid Capsella bursa-pastoris (Brassicaceae).
Kryvokhyzha D, Salcedo A, Eriksson MC, ..., Wright SI, Lascoux M
PLoS Genet. 15 (2) e1007949 [2019-02-00; online 2019-02-15]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Metformin is the key factor in elevated plasma growth differentiation factor-15 levels in type 2 diabetes: A nested, case-control study.
Natali A, Nesti L, Venturi E, ..., Nilsson J, SUMMIT consortium
Diabetes Obes Metab 21 (2) 412-416 [2019-02-00; online 2018-10-02]
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Longitudinal changes in the genetic and environmental influences on the epigenetic clocks across old age: Evidence from two twin cohorts.
Jylhävä J, Hjelmborg J, Soerensen M, ..., Pedersen NL, Reynolds CA
EBioMedicine 40 (-) 710-716 [2019-02-00; online 2019-01-28]
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Insights into hydrothermal aging of phosphorus-poisoned Cu-SSZ-13 for NH3-SCR
Xie K, Woo J, Bernin D, ..., Kamasamudram K, Olsson L
Applied Catalysis B: Environmental 241 (-) 205-216 [2019-02-00; online 2019-02-00]
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Individual and stable autoantibody repertoires in healthy individuals.
Neiman M, Hellström C, Just D, ..., Uhlén M, Nilsson P
Autoimmunity 52 (1) 1-11 [2019-02-00; online 2019-03-05]
Autoimmunity and Serology Profiling [Collaborative]
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Genome-wide association analyses of risk tolerance and risky behaviors in over 1 million individuals identify hundreds of loci and shared genetic influences.
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Nat. Genet. 51 (2) 245-257 [2019-02-00; online 2019-01-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Eleven loci with new reproducible genetic associations with allergic disease risk
Ferreira MAR, Vonk JM, Baurecht H, ..., Koppelman GH, Paternoster L
Journal of Allergy and Clinical Immunology 143 (2) 691-699 [2019-02-00; online 2019-02-00]
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Drug sensitivity testing on patient-derived sarcoma cells predicts patient response to treatment and identifies c-Sarc inhibitors as active drugs for translocation sarcomas.
Brodin BA, Wennerberg K, Lidbrink E, ..., Kallioniemi O, Stragliotto CL
Br. J. Cancer 120 (4) 435-443 [2019-02-00; online 2019-02-12]
Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Comprehensive structural variation genome map of individuals carrying complex chromosomal rearrangements.
Eisfeldt J, Pettersson M, Vezzi F, ..., Carvalho CMB, Lindstrand A
PLoS Genet. 15 (2) e1007858 [2019-02-00; online 2019-02-08]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Circulating proteins as predictors of cardiovascular mortality in end-stage renal disease.
Feldreich T, Nowak C, Fall T, ..., Green D, Ärnlöv J
J Nephrol 32 (1) 111-119 [2019-02-00; online 2018-11-29]
Affinity Proteomics Stockholm [Service] Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service]
PubMed DOI Crossref
CD99 expression is strongly associated with clinical outcome in children with B-cell precursor acute lymphoblastic leukaemia.
Chen D, Camponeschi A, Wu Q, ..., Fogelstrand L, Mårtensson IL
Br. J. Haematol. 184 (3) 418-423 [2019-02-00; online 2018-11-28]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
B cell alterations during BAFF inhibition with belimumab in SLE.
Ramsköld D, Parodis I, Lakshmikanth T, ..., Gunnarsson I, Malmström V
EBioMedicine 40 (-) 517-527 [2019-02-00; online 2018-12-26]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
A Chemical Screen Identifies Compounds Limiting the Toxicity of C9ORF72 Dipeptide Repeats
Corman A, Jung B, Häggblad M, ..., Carreras-Puigvert J, Fernandez-Capetillo O
Cell Chem Biol 26 (2) 235-243.e5 [2019-02-00; online 2019-02-00]
Chemical Biology Consortium Sweden (CBCS) [Service] Spatial Proteomics [Service]
PubMed DOI Crossref
The antimicrobial protein S100A12 identified as a potential autoantigen in a subgroup of atopic dermatitis patients.
Mikus M, Johansson C, Acevedo N, Nilsson P, Scheynius A
Clin Transl Allergy 9 (-) 6 [2019-01-31; online 2019-01-31]
Autoimmunity and Serology Profiling [Collaborative] Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Pandemrix-induced narcolepsy is associated with genes related to immunity and neuronal survival.
Hallberg P, Smedje H, Eriksson N, ..., Wadelius M, Swedegene
EBioMedicine - (-) - [2019-01-30; online 2019-01-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Low Molecular Mass Myocardial Hyaluronan in Human Hypertrophic Cardiomyopathy.
Lorén CE, Dahl CP, Do L, ..., Mörner S, Hellman U
Cells 8 (2) 97 [2019-01-29; online 2019-01-29]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Proline 411 biases the conformation of the intrinsically disordered plant UVR8 photoreceptor C27 domain altering the functional properties of the peptide.
Wu M, Farkas D, Eriksson LA, Strid Å
Sci Rep 9 (1) 818 [2019-01-28; online 2019-01-28]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Photoactivated Colibactin Probes Induce Cellular DNA Damage.
Moodie LWK, Hubert M, Zhou X, ..., Wanrooij S, Hedberg C
Angew. Chem. Int. Ed. Engl. 58 (5) 1417-1421 [2019-01-28; online 2018-12-27]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Genomic regions of speciation and adaptation among three species of grouse.
Kozma R, Rödin-Mörch P, Höglund J
Sci Rep 9 (1) 812 [2019-01-28; online 2019-01-28]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Peri-arterial specification of vascular mural cells from naïve mesenchyme requires Notch signaling.
Ando K, Wang W, Peng D, ..., Mochizuki N, Betsholtz C
Development 146 (2) dev165589 [2019-01-25; online 2019-01-25]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Mercury methylating microbial communities of boreal forest soils.
Xu J, Buck M, Eklöf K, ..., Bertilsson S, Bravo AG
Sci Rep 9 (1) 518 [2019-01-24; online 2019-01-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Differential Expression Patterns of Glycolytic Enzymes and Mitochondria-Dependent Apoptosis in PCOS Patients with Endometrial Hyperplasia, an Early Hallmark of Endometrial Cancer, In Vivo and the Impact of Metformin In Vitro.
Wang T, Zhang J, Hu M, ..., Shao LR, Billig H
Int. J. Biol. Sci. 15 (3) 714-725 [2019-01-24; online 2019-01-24]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Carbonic Anhydrase 6 Gene Variation influences Oral Microbiota Composition and Caries Risk in Swedish adolescents.
Esberg A, Haworth S, Brunius C, Lif Holgerson P, Johansson I
Sci Rep 9 (1) 452 [2019-01-24; online 2019-01-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The ketogenic diet influences taxonomic and functional composition of the gut microbiota in children with severe epilepsy.
Lindefeldt M, Eng A, Darban H, ..., Dahlin M, Prast-Nielsen S
NPJ Biofilms Microbiomes 5 (-) 5 [2019-01-23; online 2019-01-23]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Systems-Level Immune Monitoring by Mass Cytometry.
Lakshmikanth T, Brodin P
Methods Mol. Biol. 1913 (-) 33-48 [2019-01-23; online 2019-01-23]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Altered human oligodendrocyte heterogeneity in multiple sclerosis
Jäkel S, Agirre E, Falcão AM, ..., Williams A, Castelo-Branco G
Nature - (-) - [2019-01-23; online 2019-01-23]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Valorization of Humic Acids by Hydrothermal Conversion into Carbonaceous Materials: Physical and Functional Properties
Kozyatnyk I, Latham KG, Jansson S
ACS Sustainable Chem. Eng. 7 (2) 2585-2592 [2019-01-22; online 2018-12-20]
Integrated Microscopy Technologies Umeå [Service] Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Multi-ancestry study of blood lipid levels identifies four loci interacting with physical activity.
Kilpeläinen TO, Bentley AR, Noordam R, ..., Rao DC, Loos RJF
Nat Commun 10 (1) 376 [2019-01-22; online 2019-01-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transformation of mature mouse B cells into malignant plasma cells in vitro via introduction of defined genetic elements.
Högstrand K, Lindvall JM, Sundblad A, Grandien A
Eur. J. Immunol. - (-) - [2019-01-21; online 2019-01-21]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Structure of the DP1–DP2 PolD complex bound with DNA and its implications for the evolutionary history of DNA and RNA polymerases
Raia P, Carroni M, Henry E, ..., Delarue M, Sauguet L
PLoS Biol. 17 (1) e3000122 [2019-01-18; online 2019-01-18]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Genetic and lifestyle risk factors for MRI-defined brain infarcts in a population-based setting.
Chauhan G, Adams HHH, Satizabal CL, ..., Debette S, Stroke Genetics Network (SiGN), the International Stroke Genetics Consortium (ISGC), METASTROKE, Alzheimer's Disease Genetics Consortium (ADGC), and the Neurology Working Group of the Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) Consortium
Neurology - (-) - [2019-01-16; online 2019-01-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Complement Activation Occurs at the Surface of Platelets Activated by Streptococcal M1 Protein and This Results in Phagocytosis of Platelets.
Palm F, Sjöholm K, Malmström J, Shannon O
J. Immunol. 202 (2) 503-513 [2019-01-15; online 2018-12-12]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Transcriptomic and proteomic analyses reveal new insights into the regulation of immune pathways during adenovirus type 2 infection.
Zhao H, Chen M, Valdés A, Lind SB, Pettersson U
BMC Microbiol. 19 (1) 15 [2019-01-14; online 2019-01-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The bile salt glycocholate induces global changes in gene and protein expression and activates virulence in enterotoxigenic Escherichia coli.
Joffre E, Nicklasson M, Álvarez-Carretero S, ..., Zhu B, Sjöling Å
Sci Rep 9 (1) 108 [2019-01-14; online 2019-01-14]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Rapid determination of quaternary protein structures in complex biological samples.
Hauri S, Khakzad H, Happonen L, ..., Malmström J, Malmström L
Nat Commun 10 (1) 192 [2019-01-14; online 2019-01-14]
Structural Proteomics [Technology development]
PubMed DOI Crossref
Targeted Analysis of Serum Proteins Encoded at Known Inflammatory Bowel Disease Risk Loci.
Drobin K, Assadi G, Hong MG, ..., D'Amato M, Halfvarson J
Inflamm Bowel Dis 25 (2) 306-316 [2019-01-10; online 2018-10-26]
Affinity Proteomics Stockholm [Collaborative] Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Mycobacterium tuberculosis virulence inhibitors discovered by Mycobacterium marinum high-throughput screening.
Tükenmez H, Edström I, Ummanni R, ..., Elofsson M, Larsson C
Sci Rep 9 (1) 26 [2019-01-10; online 2019-01-10]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
The genetic diversity and evolution of diatom-diazotroph associations highlights traits favoring symbiont integration.
Caputo A, Nylander JAA, Foster RA
FEMS Microbiol. Lett. - (-) - [2019-01-09; online 2019-01-09]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Diplodia Tip Blight on Its Way to the North: Drivers of Disease Emergence in Northern Europe.
Brodde L, Adamson K, Julio Camarero J, ..., Özdağ Ş, Oliva J
Front Plant Sci 9 (-) 1818 [2019-01-09; online 2019-01-09]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Decreased Snow Cover Stimulates Under-Ice Primary Producers but Impairs Methanotrophic Capacity.
Garcia SL, Szekely AJ, Bergvall C, Schattenhofer M, Peura S
mSphere 4 (1) - [2019-01-09; online 2019-01-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Fecal pollution can explain antibiotic resistance gene abundances in anthropogenically impacted environments.
Karkman A, Pärnänen K, Larsson DGJ
Nat Commun 10 (1) 80 [2019-01-08; online 2019-01-08]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Historical Genomes Reveal the Genomic Consequences of Recent Population Decline in Eastern Gorillas.
van der Valk T, Díez-Del-Molino D, Marques-Bonet T, Guschanski K, Dalén L
Curr. Biol. 29 (1) 165-170.e6 [2019-01-07; online 2018-12-27]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
AXIN1 in Plasma or Serum Is a Potential New Biomarker for Endometriosis.
Ek M, Roth B, Engström G, Ohlsson B
Int J Mol Sci 20 (1) 189 [2019-01-07; online 2019-01-07]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
The Versatility of SMRT Sequencing.
Hestand MS, Ameur A
Genes 10 (1) - [2019-01-04; online 2019-01-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Analysis of colony phase variation switch in Acinetobacter baumannii clinical isolates.
Ahmad I, Karah N, Nadeem A, Wai SN, Uhlin BE
PLoS ONE 14 (1) e0210082 [2019-01-04; online 2019-01-04]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Trans-ethnic kidney function association study reveals putative causal genes and effects on kidney-specific disease aetiologies.
Morris AP, Le TH, Wu H, ..., Humphreys BD, Franceschini N
Nat Commun 10 (1) 29 [2019-01-03; online 2019-01-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SubCellBarCode: Proteome-wide Mapping of Protein Localization and Relocalization.
Orre LM, Vesterlund M, Pan Y, ..., Fredlund E, Lehtiö J
Mol. Cell 73 (1) 166-182.e7 [2019-01-03; online 2019-01-05]
Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Technology development]
DOI Crossref
Intrinsic blinking characteristics of single colloidal CdSe-CdS/ZnS core-multishell quantum dots
Fu Y, Jussi J, Elmlund L, ..., Wang Q, Brismar H
Phys. Rev. B 99 (3) - [2019-01-02; online 2019-01-02]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Tracking the Epigenetic Clock Across the Human Life Course: A Meta-analysis of Longitudinal Cohort Data.
Marioni RE, Suderman M, Chen BH, ..., Deary IJ, Hägg S
J. Gerontol. A Biol. Sci. Med. Sci. 74 (1) 57-61 [2019-01-01; online 2018-05-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Soil organic carbon depletion and degradation in surface soil after long-term non-growing season warming in High Arctic Svalbard.
Semenchuk PR, Krab EJ, Hedenström M, ..., Ancin-Murguzur FJ, Cooper EJ
Sci. Total Environ. 646 (-) 158-167 [2019-01-01; online 2018-07-26]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
A standardized protocol for comparable analysis of GSH/GSSG by UHPLC-ESI-MSMS for human plasma.
Claeson AS, Gouveia-Figueira S, Stenlund H, Johansson AI
Journal of Chromatography B 1104 (-) 67-72 [2019-01-01; online 2018-11-10]
Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
ZBED6 negatively regulates insulin production, neuronal differentiation, and cell aggregation in MIN6 cells.
Wang X, Jiang L, Wallerman O, ..., Welsh N, Andersson L
FASEB J. 33 (1) 88-100 [2019-01-00; online 2018-06-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Tissue-specific hormone profiles from woody poplar roots under bending stress.
De Zio E, Trupiano D, Karady M, ..., Ljung K, Scippa GS
Physiol Plantarum 165 (1) 101-113 [2019-01-00; online 2018-10-15]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
The Iroquois homeobox proteins IRX3 and IRX5 have distinct roles in Wilms tumour development and human nephrogenesis.
Holmquist Mengelbier L, Lindell-Munther S, Yasui H, ..., Hopyan S, Gisselsson D
J. Pathol. 247 (1) 86-98 [2019-01-00; online 2018-11-29]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Single-Molecule Sequencing: Towards Clinical Applications.
Ameur A, Kloosterman WP, Hestand MS
Trends Biotechnol. 37 (1) 72-85 [2019-01-00; online 2018-08-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Shrunken Pore Syndrome Is Associated With Increased Levels of Atherosclerosis-Promoting Proteins.
Almén MS, Björk J, Nyman U, ..., Christensson A, Grubb A
Kidney International Reports 4 (1) 67-79 [2019-01-00; online 2018-09-13]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Near-complete phylogeny and taxonomic revision of the world's babblers (Aves: Passeriformes).
Cai T, Cibois A, Alström P, ..., Lei F, Fjeldså J
Mol. Phylogenet. Evol. 130 (-) 346-356 [2019-01-00; online 2018-10-12]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mosaic loss of chromosome Y in leukocytes matters.
Forsberg LA, Halvardson J, Rychlicka-Buniowska E, ..., Ingelsson M, Dumanski JP
Nat. Genet. 51 (1) 4-7 [2019-01-00; online 2018-10-31]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Introducing ribosomal tandem repeat barcoding for fungi.
Wurzbacher C, Larsson E, Bengtsson-Palme J, ..., Kagami M, Nilsson RH
Mol Ecol Resour 19 (1) 118-127 [2019-01-00; online 2018-10-24]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Intra- and interpatient evolution of enterovirus D68 analyzed by whole-genome deep sequencing.
Dyrdak R, Mastafa M, Hodcroft EB, Neher RA, Albert J
Virus Evol 5 (1) vez007 [2019-01-00; online 2019-04-24]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Growth differentiation factor 15 is positively associated with incidence of diabetes mellitus: the Malmö Diet and Cancer-Cardiovascular Cohort.
Bao X, Borné Y, Muhammad IF, ..., Orho-Melander M, Engström G
Diabetologia 62 (1) 78-86 [2019-01-00; online 2018-10-22]
Affinity Proteomics Stockholm [Service] Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service]
PubMed DOI Crossref
Genetic risk for neuroticism predicts emotional health depending on childhood adversity.
Lehto K, Karlsson I, Lundholm C, Pedersen NL
Psychol Med 49 (2) 260-267 [2019-01-00; online 2018-03-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exploring rare and low-frequency variants in the Saguenay-Lac-Saint-Jean population identified genes associated with asthma and allergy traits.
Morin A, Madore AM, Kwan T, ..., Pastinen T, Laprise C
Eur. J. Hum. Genet. 27 (1) 90-101 [2019-01-00; online 2018-09-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Effect of CTLA4-Ig (abatacept) treatment on T cells and B cells in peripheral blood of patients with polymyositis and dermatomyositis.
Tang Q, Ramsköld D, Krystufkova O, ..., Lundberg IE, Malmström V
Scand. J. Immunol. 89 (1) e12732 [2019-01-00; online 2018-12-09]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Cryo-EM structure of the yeast respiratory supercomplex.
Rathore S, Berndtsson J, Marin-Buera L, ..., Brzezinski P, Ott M
Nat. Struct. Mol. Biol. 26 (1) 50-57 [2019-01-00; online 2018-12-31]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Complete Genome Sequence of the Marine Hydrocarbon Degrader Alcaligenes aquatilis QD168, Isolated from Crude Oil-Polluted Sediment of Quintero Bay, Central Chile.
Durán RE, Barra-Sanhueza B, Salvà-Serra F, ..., Moore ERB, Seeger M
Microbiol Resour Announc 8 (5) - [2019-01-00; online 2019-01-31]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Auxin Function in the Brown Alga Dictyota dichotoma.
Bogaert KA, Blommaert L, Ljung K, Beeckman T, De Clerck O
Plant Physiol. 179 (1) 280-299 [2019-01-00; online 2018-11-12]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
An integrated transcriptome analysis in T-cell acute lymphoblastic leukemia links DNA methylation subgroups to dysregulated TAL1 and ANTP homeobox gene expression.
Haider Z, Larsson P, Landfors M, ..., Hultdin M, Degerman S
Cancer Med 8 (1) 311-324 [2019-01-00; online 2018-12-21]
Clinical Genomics Umeå [Collaborative]
PubMed DOI Crossref
A Series of Analogues to the AT 2R Prototype Antagonist C38 Allow Fine Tuning of the Previously Reported Antagonist Binding Mode.
Isaksson R, Lindman J, Wannberg J, ..., Gising J, Larhed M
ChemistryOpen 8 (1) 114-125 [2019-01-00; online 2019-01-24]
Drug Discovery and Development (DDD) [Collaborative]
DOI Crossref
Understanding the mechanism of low temperature deactivation of Cu/SAPO-34 exposed to various amounts of water vapor in the NH3-SCR reaction
Woo J, Bernin D, Ahari H, ..., Zammit M, Olsson L
Catal. Sci. Technol. 9 (14) 3623-3636 [2019-00-00; online 2019-00-00]
Swedish NMR Centre (SNC) [Collaborative]
DOI Crossref
Trophic transfer of CuO NPs and dissolved Cu from sediment to worms to fish – a proof-of-concept study
Lammel T, Thit A, Mouneyrac C, ..., Sturve J, Selck H
Environ. Sci.: Nano 6 (4) 1140-1155 [2019-00-00; online 2019-00-00]
Integrated Microscopy Technologies Gothenburg [Service]
DOI Crossref
Pelvis Segmentation Using Multi-pass U-Net and Iterative Shape Estimation
Wang C, Connolly B, de Oliveira Lopes PF, Frangi AF, Smedby Ö
- - (-) 49-57 [2019-00-00; online 2019-01-09]
AIDA Data Hub [Service]
DOI Crossref
Efficient and catalyst free synthesis of acrylic plastic precursors: methyl propionate and methyl methacrylate synthesis through reversible CO<sub>2</sub> capture
Khokarale SG, Mikkola JP
Green Chem. 21 (8) 2138-2147 [2019-00-00; online 2019-00-00]
Swedish NMR Centre (SNC) [Service]
SciLifeLab Data Centre
Publications 9.5.1