Publications

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Publications

2022 (7)

2021 (758)

2020 (595)

2019 (722)

2018 (638)

2017 (678)

2016 (656)

2015 (427)

2014 (376)

2013 (320)

2012 (243)

2011 (163)

2010 (139)

All (5722)


Infrastructure Units

Journals

5722 publications

PubMed DOI Crossref
SARS-CoV-2 induces a durable and antigen specific humoral immunity after asymptomatic to mild COVID-19 infection.
Havervall S, Jernbom Falk A, Klingström J, ..., Nilsson P, Thålin C
PLoS ONE 17 (1) e0262169 [2022-01-12; online 2022-01-12]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Influence of cysteine, serine, sulfate, and sulfide on anaerobic conversion of unsaturated long-chain fatty acid, oleate, to methane.
Yekta SS, Elreedy A, Liu T, ..., Fujii M, Schnürer A
Sci. Total Environ. - (-) 152967 [2022-01-08; online 2022-01-08]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Backbone chemical shift assignment and dynamics of the N-terminal domain of ClpB from Francisella tularensis type VI secretion system.
Mushtaq AU, Ådén J, Alam A, Sjöstedt A, Gröbner G
Biomol NMR Assign - (-) - [2022-01-05; online 2022-01-05]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Transcriptome sequencing of archived lymphoma specimens is feasible and clinically relevant using exome capture technology.
Skaftason A, Qu Y, Abdulla M, ..., Rosenquist R, Mansouri L
Genes Chromosomes Cancer 61 (1) 27-36 [2022-01-00; online 2021-10-23]
Clinical Genomics Uppsala [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Super-Resolution Imaging of the Filtration Barrier Suggests a Role for Podocin R229Q in Genetic Predisposition to Glomerular Disease.
Butt L, Unnersjö-Jess D, Höhne M, ..., Schermer B, Benzing T
J. Am. Soc. Nephrol. 33 (1) 138-154 [2022-01-00; online 2021-12-01]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Fibroblast growth factor 23 is associated with risk of intracerebral hemorrhage.
Svensson EH, Söderholm M
Eur. J. Neurol. 29 (1) 114-120 [2022-01-00; online 2021-08-31]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Amplification of ERBB2 (HER2) in embryonal rhabdomyosarcoma: A potential treatment target in rare cases?
Mitra S, Sydow S, Magnusson L, ..., Gisselsson D, Mertens F
Genes Chromosomes Cancer 61 (1) 5-9 [2022-01-00; online 2021-09-01]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
Global CO2 fertilization of Sphagnum peat mosses via suppression of photorespiration during the twentieth century.
Serk H, Nilsson MB, Bohlin E, ..., Pancotto V, Schleucher J
Sci Rep 11 (1) 24517 [2021-12-31; online 2021-12-31]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
CD105+CD90+CD13+ identifies a clonogenic subset of adventitial lung fibroblasts.
Kadefors M, Rolandsson Enes S, Åhrman E, ..., Scheding S, Westergren-Thorsson G
Sci Rep 11 (1) 24417 [2021-12-24; online 2021-12-24]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
The antimicrobial drug pyrimethamine inhibits STAT3 transcriptional activity by targeting the enzyme dihydrofolate reductase.
Heppler LN, Attarha S, Persaud R, ..., Page BDG, Frank DA
J. Biol. Chem. - (-) 101531 [2021-12-22; online 2021-12-22]
Chemical Proteomics [Collaborative]
DOI Crossref
Immune-Proteome Profiling in Classical Hodgkin Lymphoma Tumor Diagnostic Tissue
Gholiha AR, Hollander P, Löf L, ..., Kamali-Moghaddam M, Enblad G
Cancers (Basel) 14 (1) 9 [2021-12-21; online 2021-12-21]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Characterization of backbone dynamics using solution NMR spectroscopy to discern the functional plasticity of structurally analogous proteins.
Kawale AA, Burmann BM
STAR Protoc 2 (4) 100919 [2021-12-17; online 2021-10-29]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Childhood Kaposi sarcoma related to hypomorphic severe combined immunodeficiency caused by a novel CORO1A mutation.
Muleviciene A, Sekine T, Zondag T, ..., Tesi B, Rascon J
Pediatr Blood Cancer - (-) e29487 [2021-12-16; online 2021-12-16]
Clinical Genomics Stockholm
DOI Crossref
Ultralight ultrafast enzymes
Zhang X, Meng Z, Beusch C, ..., Gaetani M, Zubarev R
- - (-) - [2021-12-15; online 2021-12-15]
Chemical Proteomics [Collaborative]
PubMed DOI Crossref
A Phase 2 Trial of the Effect of Antiandrogen Therapy on COVID-19 Outcome: No Evidence of Benefit, Supported by Epidemiology and In Vitro Data.
Welén K, Rosendal E, Gisslén M, ..., Överby AK, Josefsson A
Eur. Urol. - (-) - [2021-12-15; online 2021-12-15]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Rapid genome editing by CRISPR-Cas9-POLD3 fusion
Reint G, Li Z, Labun K, ..., Taipale J, Haapaniemi E
eLife 10:e75415 (-) - [2021-12-13]
CRISPR Functional Genomics [Collaborative]
PubMed DOI Crossref
Imitation of β-lactam binding enables broad-spectrum metallo-β-lactamase inhibitors.
Brem J, Panduwawala T, Hansen JU, ..., Walsh TR, Schofield CJ
Nat Chem - (-) - [2021-12-13; online 2021-12-13]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
A polygenic risk score predicts mosaic loss of chromosome Y in circulating blood cells.
Riaz M, Mattisson J, Polekhina G, ..., Forsberg LA, Lacaze P
Cell Biosci 11 (1) 205 [2021-12-12; online 2021-12-12]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Clinical and biological relevance of the transcriptomic-based prostate cancer metastasis subtypes MetA-C.
Thysell E, Köhn L, Semenas J, ..., Bergh A, Wikström P
Mol Oncol - (-) - [2021-12-10; online 2021-12-10]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
The power of genetic diversity in genome-wide association studies of lipids.
Graham SE, Clarke SL, Wu KH, ..., Sun YV, Willer CJ
Nature - (-) - [2021-12-09; online 2021-12-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
Proteome Integral Solubility Alteration (PISA) for High-Throughput Ligand Target Deconvolution with Increased Statistical Significance and Reduced Sample Amount (Book chapter)
Gaetani_M_and_Zubarev_RA
Methods in Molecular Biology in press (-) - [2021-12-09]
Chemical Proteomics [Technology development]
PubMed DOI Crossref
Plasma Metabolite Markers of Parkinson’s Disease and Atypical Parkinsonism
Pathan M, Wu J, Lakso HÅ, Forsgren L, Öhman A
Metabolites 11 (12) 860 [2021-12-09; online 2021-12-09]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Meta-analyses identify DNA methylation associated with kidney function and damage.
Schlosser P, Tin A, Matias-Garcia PR, ..., Köttgen A, Teumer A
Nat Commun 12 (1) 7174 [2021-12-09; online 2021-12-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification and Functional Characterization of a Novel Susceptibility Locus for Small Vessel Vasculitis with MPO-ANCA.
Dahlqvist J, Ekman D, Sennblad B, ..., Eriksson P, Lindblad-Toh K
Rheumatology (Oxford) - (-) - [2021-12-09; online 2021-12-09]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Epigenome-wide association study of serum urate reveals insights into urate co-regulation and the SLC2A9 locus.
Tin A, Schlosser P, Matias-Garcia PR, ..., Teumer A, Köttgen A
Nat Commun 12 (1) 7173 [2021-12-09; online 2021-12-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structural basis for transthyretin amyloid formation in vitreous body of the eye.
Iakovleva I, Hall M, Oelker M, ..., Anan I, Sauer-Eriksson AE
Nat Commun 12 (1) 7141 [2021-12-08; online 2021-12-08]
Cryo-EM [Collaborative] Structural Proteomics [Service]
PubMed DOI Crossref
Long-term STED imaging of membrane packing and dynamics by exchangeable polarity-sensitive dyes.
Carravilla P, Dasgupta A, Zhurgenbayeva G, ..., Sezgin E, Eggeling C
Biophysical Reports 1 (2) None [2021-12-08; online 2021-12-08]
Integrated Microscopy Technologies Stockholm [Service]
DOI Crossref
Plasma Proteome Fingerprints Reveal Distinctiveness and Clinical Outcome of SARS-CoV-2 Infection
Bauer W , Weber M , Diehl-Wiesenecker E , ..., Micke P , K K
Viruses 13 (12) - [2021-12-07]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Male-biased migration from East Africa introduced pastoralism into southern Africa.
Vicente M, Lankheet I, Russell T, ..., Jongh M, Schlebusch CM
BMC Biol. 19 (1) 259 [2021-12-07; online 2021-12-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The SEQC2 epigenomics quality control (EpiQC) study.
Foox J, Nordlund J, Lalancette C, ..., Deng Y, Mason CE
Genome Biol. 22 (1) 332 [2021-12-06; online 2021-12-06]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Early Pregnancy Exposure to Ambient Air Pollution among Late-Onset Preeclamptic Cases Is Associated with Placental DNA Hypomethylation of Specific Genes and Slower Placental Maturation.
Engström K, Mandakh Y, Garmire L, ..., Erlandsson L, Hansson SR
Toxics 9 (12) 338 [2021-12-06; online 2021-12-06]
Clinical Genomics Lund [Service]
DOI Crossref
Three-Dimensional Super-Resolved Imaging of Paraffin-Embedded Kidney Samples
Unnersjö-Jess D, Ramdedovic A, Höhne M, ..., Schermer B, Benzing T
Kidney360 - (-) 10.34067/KID.0005882021 [2021-12-03; online 2021-12-03]
Integrated Microscopy Technologies Stockholm [Technology development]
DOI Crossref
Recommendations for connecting molecular sequence and biodiversity research infrastructures through ELIXIR
Waterhouse RM, Adam-Blondon AF, Agosti D, ..., Willassen NP, Lanfear J
F1000Res 10 (-) 1238 [2021-12-03; online 2021-12-03]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Insights into the changes in the proteome of Alzheimer disease elucidated by a meta-analysis.
Haytural H, Benfeitas R, Schedin-Weiss S, ..., Frykman S, Tjernberg LO
Sci Data 8 (1) 312 [2021-12-03; online 2021-12-03]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Improved Peripheral and Hepatic Insulin Sensitivity after Lifestyle Interventions in Type 2 Diabetes Is Associated with Specific Metabolomic and Lipidomic Signatures in Skeletal Muscle and Plasma.
Chorell E, Otten J, Stomby A, ..., Svensson M, Olsson T
Metabolites 11 (12) 834 [2021-12-03; online 2021-12-03]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Holistic Characterization of a Salmonella Typhimurium Infection Model Using Integrated Molecular Imaging.
Strittmatter N, Kanvatirth P, Inglese P, ..., Goodwin RJA, Mastroeni P
J. Am. Soc. Mass Spectrom. 32 (12) 2791-2802 [2021-12-01; online 2021-11-12]
Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
Global similarity, and some key differences, in the metagenomes of Swedish varroa-surviving and varroa-susceptible honeybees.
Thaduri S, Marupakula S, Terenius O, ..., Locke B, de Miranda JR
Sci Rep 11 (1) 23214 [2021-12-01; online 2021-12-01]
Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
TUBB3 Arg262His causes a recognizable syndrome including CFEOM3, facial palsy, joint contractures, and early-onset peripheral neuropathy.
Whitman MC, Barry BJ, Robson CD, ..., Manoli I, Engle EC
Hum. Genet. 140 (12) 1709-1731 [2021-12-00; online 2021-10-15]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Pyramiding of scald resistance genes in four spring barley MAGIC populations.
Hautsalo J, Novakazi F, Jalli M, ..., Bengtsson T, PPP Barley Consortium
Theor. Appl. Genet. 134 (12) 3829-3843 [2021-12-00; online 2021-08-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Physiological properties, composition and structural profiling of porcine gastrointestinal mucus.
Barmpatsalou V, Dubbelboer IR, Rodler A, ..., Pedersen BL, Bergström CAS
Eur J Pharm Biopharm 169 (-) 156-167 [2021-12-00; online 2021-10-20]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Perfluorooctane sulfonate (PFOS) exposure of bovine oocytes affects early embryonic development at human-relevant levels in an in vitro model.
Hallberg I, Persson S, Olovsson M, ..., Rüegg J, Sjunnesson YCB
Toxicology 464 (-) 153028 [2021-12-00; online 2021-11-08]
BioImage Informatics [Service]
PubMed DOI Crossref
Novel Mutation of the TGF-β 3 Protein (Loeys-Dietz Type 5) Associated With Aortic and Carotid Dissections: Case Report.
Hussein D, Olsson C, Lagerstedt-Robinson K, Moreira T
Neurol Genet 7 (6) e625 [2021-12-00; online 2021-09-14]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Melphalan flufenamide inhibits osteoclastogenesis by suppressing proliferation of monocytes.
Byrgazov K, Lind T, Rasmusson AJ, ..., Larsson R, Fryknäs M
Bone Rep 15 (-) 101098 [2021-12-00; online 2021-06-07]
Drug Discovery and Development (DDD)
PubMed DOI Crossref
Lowered nutritional quality of plankton caused by global environmental changes.
Lau DCP, Jonsson A, Isles PDF, Creed IF, Bergström AK
Glob Chang Biol 27 (23) 6294-6306 [2021-12-00; online 2021-09-30]
Swedish Metabolomics Centre (SMC) [Service]
DOI Crossref
Long-term agricultural management impacts arbuscular mycorrhizal fungi more than short-term experimental drought
Kozjek K, Kundel D, Kushwaha SK, ..., Birkhofer K, Hedlund K
Applied Soil Ecology 168 (-) 104140 [2021-12-00; online 2021-12-00]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of Endothelial Proteins in Plasma Associated With Cardiovascular Risk Factors.
Iglesias MJ, Kruse LD, Sanchez-Rivera L, ..., Odeberg J, Butler LM
Arterioscler. Thromb. Vasc. Biol. 41 (12) 2990-3004 [2021-12-00; online 2021-10-28]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Historical population declines prompted significant genomic erosion in the northern and southern white rhinoceros (Ceratotherium simum).
Sánchez-Barreiro F, Gopalakrishnan S, Ramos-Madrigal J, ..., Moodley Y, Gilbert MTP
Mol. Ecol. 30 (23) 6355-6369 [2021-12-00; online 2021-07-07]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Global phylogeny of Treponema pallidum lineages reveals recent expansion and spread of contemporary syphilis.
Beale MA, Marks M, Cole MJ, ..., Fifer H, Thomson NR
Nat Microbiol 6 (12) 1549-1560 [2021-12-00; online 2021-11-24]
Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Genetic variants at the RTP4/MASP1 locus are associated with fatigue in Scandinavian patients with primary Sjögren's syndrome.
Norheim KB, Imgenberg-Kreuz J, Alexsson A, ..., Ronnblom L, Omdal R
RMD Open 7 (3) - [2021-12-00; online 2021-12-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Expression of BCL6 in paediatric B-cell acute lymphoblastic leukaemia and association with prognosis.
Mäkinen A, Nikkilä A, Mehtonen J, ..., Paavonen T, Lohi O
Pathology 53 (7) 875-882 [2021-12-00; online 2021-05-26]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Differences in risk for SARS-CoV-2 infection among healthcare workers.
Elfström KM, Blomqvist J, Nilsson P, ..., Lundgren KC, Dillner J
Prev Med Rep 24 (-) 101518 [2021-12-00; online 2021-08-21]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
Differences in biomarker concentrations and predictions of long-term outcome in patients with ST-elevation and non-ST-elevation myocardial infarction.
Hjort M, Eggers KM, Lindhagen L, ..., Spaak J, Lindahl B
Clin. Biochem. 98 (-) 17-23 [2021-12-00; online 2021-09-05]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Clustered sparsity and Poisson-gap sampling.
Kasprzak P, Urbańczyk M, Kazimierczuk K
J. Biomol. NMR 75 (10-12) 401-416 [2021-12-00; online 2021-11-05]
Swedish NMR Centre (SNC) [Service]
DOI Crossref
Aqueous N,N-dimethylmorpholinium hydroxide as a novel solvent for cellulose
Naserifar S, Swensson B, Bernin D, Hasani M
European Polymer Journal 161 (-) 110822 [2021-12-00; online 2021-12-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Altered ceramide metabolism is a feature in the extracellular vesicle-mediated spread of alpha-synuclein in Lewy body disorders.
Kurzawa-Akanbi M, Tammireddy S, Fabrik I, ..., Whitfield PD, Morris CM
Acta Neuropathol. 142 (6) 961-984 [2021-12-00; online 2021-09-13]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Adult-Onset Ataxia With Neuropathy and White Matter Abnormalities Due to a Novel SAMD9L Variant.
Paucar M, Tesi B, Eshtad S, ..., Bryceson YT, Svenningsson P
Neurol Genet 7 (6) e628 [2021-12-00; online 2021-10-28]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Multiomics and digital monitoring during lifestyle changes reveal independent dimensions of human biology and health.
Marabita F, James T, Karhu A, ..., Sallinen R, Kallioniemi O
Cell Syst - (-) - [2021-11-30; online 2021-11-30]
Autoimmunity and Serology Profiling [Service] Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
Safety and efficacy of the mRNA BNT162b2 vaccine against SARS-CoV-2 in five groups of immunocompromised patients and healthy controls in a prospective open-label clinical trial.
Bergman P, Blennow O, Hansson L, ..., Aleman S, COVAXID-collaborator group (shown separately)
EBioMedicine 74 (-) 103705 [2021-11-29; online 2021-11-29]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Metabolomics reveals changes in metabolite profiles due to growth and metamorphosis during the ontogeny of the northern damselfly.
Späth J, Brodin T, McCallum E, ..., Fick J, Nording ML
J Insect Physiol 136 (-) 104341 [2021-11-27; online 2021-11-27]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
A genomic and morphometric analysis of alpine bumblebees: Ongoing reductions in tongue length but no clear genetic component.
Christmas MJ, Jones JC, Olsson A, ..., Miller-Struttmann NE, Webster MT
Mol. Ecol. - (-) - [2021-11-27; online 2021-11-27]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Fed-batch production assessment of a tetravalent bispecific antibody: A case study on piggyBac stably transfected HEK293 cells.
Napoleone A, Laurén I, Linkgreim T, ..., Lord M, Mangsbo S
N Biotechnol 65 (-) 9-19 [2021-11-25; online 2021-07-15]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Author Correction: A global effort to dissect the human genetic basis of resistance to SARS-CoV-2 infection.
Andreakos E, Abel L, Vinh DC, ..., Casanova JL, Spaan AN
Nat. Immunol. - (-) - [2021-11-24; online 2021-11-24]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
A multi-scale map of cell structure fusing protein images and interactions.
Qin Y, Huttlin EL, Winsnes CF, ..., Lundberg E, Ideker T
Nature - (-) - [2021-11-24; online 2021-11-24]
Spatial Proteomics [Service]
PubMed DOI Crossref
THCz: Small molecules with antimicrobial activity that block cell wall lipid intermediates.
Reithuber E, Wixe T, Ludwig KC, ..., Almqvist F, Mellroth P
Proc. Natl. Acad. Sci. U.S.A. 118 (47) - [2021-11-23; online 2021-11-18]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Massive genome inversion drives coexistence of divergent morphs in common quails.
Sanchez-Donoso I, Ravagni S, Rodríguez-Teijeiro JD, ..., Leonard JA, Vilà C
Curr. Biol. - (-) - [2021-11-23; online 2021-11-23]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
High Dimensional Immune Profiling Reveals Different Response Patterns in Active and Latent Tuberculosis Following Stimulation With Mycobacterial Glycolipids.
Silva CS, Sundling C, Folkesson E, ..., Correia-Neves M, Källenius G
Front Immunol 12 (-) 727300 [2021-11-23; online 2021-11-23]
Affinity Proteomics Stockholm [Service] Cellular Immunomonitoring [Service]
PubMed DOI Crossref
Dredging and deposition of metal sulfide rich river sediments results in rapid conversion to acid sulfate soil materials.
Johnson A, Högfors-Rönnholm E, Engblom S, ..., Åström M, Dopson M
Sci. Total Environ. - (-) 151864 [2021-11-23; online 2021-11-23]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatial mapping of protein composition and tissue organization: a primer for multiplexed antibody-based imaging.
Hickey JW, Neumann EK, Radtke AJ, ..., Kelleher NL, Saka SK
Nat. Methods - (-) - [2021-11-22; online 2021-11-22]
Spatial Proteomics [Collaborative]
PubMed DOI Crossref
Population-based study of multisystem inflammatory syndrome associated with COVID-19 found that 36% of children had persistent symptoms.
Kahn R, Berg S, Berntson L, ..., Säve-Söderbergh E, Altman M
Acta Paediatr. - (-) - [2021-11-22; online 2021-11-22]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Tracking the ATP-binding response in adenylate kinase in real time.
Orädd F, Ravishankar H, Goodman J, ..., Wolf-Watz M, Andersson M
Sci Adv 7 (47) eabi5514 [2021-11-19; online 2021-11-17]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Real-time evaluation of glioblastoma growth in patient-specific zebrafish xenografts.
Almstedt E, Rosén E, Gloger M, ..., Krona C, Nelander S
Neuro-oncology - (-) - [2021-11-19; online 2021-11-19]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Interplay between copy number alterations and immune profiles in the early breast cancer Scandinavian Breast Group 2004-1 randomized phase II trial: results from a feasibility study.
Zerdes I, Simonetti M, Matikas A, ..., Crosetto N, Foukakis T
NPJ Breast Cancer 7 (1) 144 [2021-11-19; online 2021-11-19]
Bioinformatics Compute and Storage [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
In vivo Profiling of the Alk Proximitome in the Developing Drosophila Brain.
Uçkun E, Wolfstetter G, Anthonydhason V, ..., Fuchs J, Palmer RH
J. Mol. Biol. 433 (23) 167282 [2021-11-19; online 2021-10-06]
Glycoproteomics [Service]
PubMed DOI Crossref
The Genetic Architecture of Obsessive-Compulsive Disorder: Contribution of Liability to OCD From Alleles Across the Frequency Spectrum.
Mahjani B, Klei L, Mattheisen M, ..., Devlin B, Grice DE
Am J Psychiatry - (-) appiajp202121010101 [2021-11-18; online 2021-11-18]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic Characterization of Staphylococcus aureus From Subclinical Mastitis Cases in Dairy Cows in Rwanda.
Ndahetuye JB, Leijon M, Båge R, Artursson K, Persson Y
Front Vet Sci 8 (-) 751229 [2021-11-18; online 2021-11-18]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Single cell genomics reveals plastid-lacking Picozoa are close relatives of red algae.
Schön ME, Zlatogursky VV, Singh RP, ..., Wideman JG, Burki F
Nat Commun 12 (1) 6651 [2021-11-17; online 2021-11-17]
Bioinformatics Compute and Storage [Service] Microbial Single Cell Genomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Root traits and soil microorganisms as drivers of plant‐soil feedbacks within the sub‐arctic tundra meadow
Spitzer CM, Wardle DA, Lindahl BD, ..., Fanin N, Kardol P
J Ecol - (-) - [2021-11-17; online 2021-11-17]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Novel loss-of-function variant in DENND5A impedes melanosomal cargo transport and predisposes to familial cutaneous melanoma.
Yang M, Johnsson P, Bräutigam L, ..., Cao Y, Höiom V
Genet Med - (-) - [2021-11-17; online 2021-11-17]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Exciton Delocalization Counteracts the Energy Gap: A New Pathway toward NIR-Emissive Dyes.
Cravcenco A, Yu Y, Edhborg F, ..., Albinsson B, Börjesson K
J. Am. Chem. Soc. 143 (45) 19232-19239 [2021-11-17; online 2021-11-08]
Swedish NMR Centre (SNC) [Collaborative]
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Comparison of EM-seq and PBAT methylome library methods for low-input DNA.
Han Y, Zheleznyakova GY, Marincevic-Zuniga Y, ..., Needhamsen M, Jagodic M
Epigenetics - (-) 1-10 [2021-11-17; online 2021-11-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Rare variant analysis in eczema identifies exonic variants in DUSP1, NOTCH4 and SLC9A4.
Grosche S, Marenholz I, Esparza-Gordillo J, ..., Xu C, Lee Y
Nat Commun 12 (1) 6618 [2021-11-16; online 2021-11-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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MapToCleave: High-throughput profiling of microRNA biogenesis in living cells.
Kang W, Fromm B, Houben AJ, ..., Biryukova I, Friedländer MR
Cell Rep 37 (7) 110015 [2021-11-16; online 2021-11-18]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Engineered Human Induced Pluripotent Cells Enable Genetic Code Expansion in Brain Organoids.
van Husen LS, Katsori A, Meineke B, ..., Schedin-Weiss S, Elsässer SJ
ChemBioChem 22 (22) 3208-3213 [2021-11-16; online 2021-09-13]
Integrated Microscopy Technologies Stockholm [Service]
DOI Crossref
Towards understanding kraft lignin depolymerisation under hydrothermal conditions
Ahlbom A, Maschietti M, Nielsen R, Hasani M, Theliander H
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Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Limited benefit in patients with MDS receiving venetoclax and azacitidine as a bridge to allogeneic stem cell transplantation.
Jädersten M, Boriskina K, Lindholm C, ..., Mielke S, Tobiasson M
Leuk. Lymphoma - (-) 1-4 [2021-11-15; online 2021-11-15]
Clinical Genomics Uppsala [Collaborative]
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Identification and characterization of distinct cell cycle stages in cardiomyocytes using the FUCCI transgenic system.
Baniol M, Murganti F, Smialowska A, ..., Derks W, Bergmann O
Exp. Cell Res. 408 (2) 112880 [2021-11-15; online 2021-10-14]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Different Responses to Neoadjuvant Chemotherapy in Urothelial Carcinoma Molecular Subtypes.
Sjödahl G, Abrahamsson J, Holmsten K, ..., Ullén A, Liedberg F
Eur. Urol. - (-) - [2021-11-12; online 2021-11-12]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
An integrative proteomics method identifies a regulator of translation during stem cell maintenance and differentiation.
Sabatier P, Beusch CM, Saei AA, ..., Rodin S, Zubarev RA
Nat Commun 12 (1) 6558 [2021-11-12; online 2021-11-12]
Chemical Proteomics [Technology development]
PubMed DOI Crossref
A comparison of rule-based and centroid single-sample multiclass predictors for transcriptomic classification.
Eriksson P, Marzouka NA, Sjödahl G, ..., Liedberg F, Höglund M
Bioinformatics - (-) - [2021-11-12; online 2021-11-12]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
Proteins associated with incident metabolic syndrome in population-based cohorts.
Lind L, Sundström J, Ärnlöv J
Diabetol Metab Syndr 13 (1) 131 [2021-11-10; online 2021-11-10]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Elevated circulating follistatin associates with an increased risk of type 2 diabetes.
Wu C, Borné Y, Gao R, ..., Groop L, De Marinis Y
Nat Commun 12 (1) 6486 [2021-11-10; online 2021-11-10]
Affinity Proteomics Stockholm [Collaborative] Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
The role of circulating galectin-1 in type 2 diabetes and chronic kidney disease: evidence from cross-sectional, longitudinal and Mendelian randomisation analyses.
Drake I, Fryk E, Strindberg L, ..., Orho-Melander M, Jansson PA
Diabetologia - (-) - [2021-11-07; online 2021-11-07]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Leaf Apoplast of Field-Grown Potato Analyzed by Quantitative Proteomics and Activity-Based Protein Profiling.
Abreha KB, Alexandersson E, Resjö S, ..., Levander F, Andreasson E
Int J Mol Sci 22 (21) - [2021-11-06; online 2021-11-06]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Tracing the evolution of aneuploid cancers by multiregional sequencing with CRUST.
Chattopadhyay S, Karlsson J, Valind A, Andersson N, Gisselsson D
Brief. Bioinformatics 22 (6) - [2021-11-05; online 2021-08-04]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Multiomics Profiling of Alzheimer's Disease Serum for the Identification of Autoantibody Biomarkers.
San Segundo-Acosta P, Montero-Calle A, Jernbom-Falk A, ..., Nilsson P, Barderas R
J. Proteome Res. 20 (11) 5115-5130 [2021-11-05; online 2021-10-10]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Identification of a novel compound that simultaneously impairs the ubiquitin-proteasome system and autophagy.
Giovannucci TA, Salomons FA, Stoy H, ..., Vallin M, Dantuma NP
Autophagy - (-) 1-17 [2021-11-05; online 2021-11-05]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Selection and structural characterization of anti-TREM2 scFvs that reduce levels of shed ectodomain.
Szykowska A, Chen Y, Smith TB, ..., Burgess-Brown NA, Bullock AN
Structure 29 (11) 1241-1252.e5 [2021-11-04; online 2021-07-06]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Plasma proteins elevated in severe asthma despite oral steroid use and unrelated to Type-2 inflammation.
Mikus MS, Kolmert J, Andersson LI, ..., U–BIOPRED (Unbiased Biomarkers for the Prediction of Respiratory Disease outcome) Study Group , BIOAIR (Longitudinal Assessment of Clinical Course and Biomarkers in Severe Chronic Airway Disease) Consortium
Eur. Respir. J. - (-) 2100142 [2021-11-04; online 2021-11-04]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Inherent backbone dynamics fine-tune the functional plasticity of Tudor domains.
Kawale AA, Burmann BM
Structure 29 (11) 1253-1265.e4 [2021-11-04; online 2021-06-30]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
A common polymorphism in the dopamine transporter gene predicts working memory performance and in vivo dopamine integrity in aging.
Karalija N, Köhncke Y, Düzel S, ..., Lindenberger U, Brandmaier AM
Neuroimage 245 (-) 118707 [2021-11-03; online 2021-11-03]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Platelet proteome and function in X-linked thrombocytopenia with thalassemia and <i>in silico</i> comparisons with gray platelet syndrome.
Bergemalm D, Ramström S, Kardeby C, ..., Palmblad J, Åström M
Haematologica 106 (11) 2947-2959 [2021-11-01; online 2021-11-01]
Glycoproteomics [Service]
PubMed DOI Crossref
Loss of Y and clonal hematopoiesis in blood-two sides of the same coin?
Ljungström V, Mattisson J, Halvardson J, ..., Baliakas P, Forsberg LA
Leukemia - (-) - [2021-11-01; online 2021-11-01]
Bioinformatics Compute and Storage [Service] Clinical Genomics Uppsala [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
cGMP-PKG dependent transcriptome in normal and degenerating retinas: Novel insights into the retinitis pigmentosa pathology.
Zhou J, Rasmussen M, Ekström P
Exp. Eye Res. 212 (-) 108752 [2021-11-00; online 2021-08-31]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
Systemic Inflammation in Preclinical Ulcerative Colitis.
Bergemalm D, Andersson E, Hultdin J, ..., Karling P, Halfvarson J
Gastroenterology 161 (5) 1526-1539.e9 [2021-11-00; online 2021-07-21]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Risk of SARS-CoV-2 exposure among hospital healthcare workers in relation to patient contact and type of care.
Klevebro S, Bahram F, Elfström KM, ..., Dillner J, Melén E
Scand J Public Health 49 (7) 707-712 [2021-11-00; online 2021-06-19]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
Proteogenomics of non-small cell lung cancer reveals molecular subtypes associated with specific therapeutic targets and immune evasion mechanisms.
Lehtiö J, Arslan T, Siavelis I, ..., Staaf J, Orre LM
Nat Cancer 2 (11) 1224-1242 [2021-11-00; online 2021-11-22]
Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Multiplex protein screening of biomarkers associated with major bleeding in patients with atrial fibrillation treated with oral anticoagulation.
Siegbahn A, Lindbäck J, Hijazi Z, ..., Yusuf S, Wallentin L
J. Thromb. Haemost. 19 (11) 2726-2737 [2021-11-00; online 2021-08-24]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
Increased diagnostic sensitivity of palpation-guided thyroid nodule fine-needle aspiration cytology by BRAF V600E-mutation analysis.
Gimm O, Ivansson K, Beka E, ..., Garvin S, Söderkvist P
J Pathol Clin Res 7 (6) 556-564 [2021-11-00; online 2021-06-22]
Clinical Genomics Linköping [Collaborative]
PubMed DOI Crossref
Community evaluation of glycoproteomics informatics solutions reveals high-performance search strategies for serum glycopeptide analysis.
Kawahara R, Chernykh A, Alagesan K, ..., Packer NH, Thaysen-Andersen M
Nat. Methods 18 (11) 1304-1316 [2021-11-00; online 2021-11-01]
Glycoproteomics [Technology development]
PubMed DOI Crossref
BMP2-induction of FN14 promotes protumorigenic signaling in gynecologic cancer cells.
Fukuda T, Fukuda R, Koinuma D, ..., Miyazono K, Heldin CH
Cell. Signal. 87 (-) 110146 [2021-11-00; online 2021-09-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Antibacterial activity of apramycin at acidic pH warrants wide therapeutic window in the treatment of complicated urinary tract infections and acute pyelonephritis.
Becker K, Cao S, Nilsson A, ..., Liepinsh E, Hobbie SN
EBioMedicine 73 (-) 103652 [2021-11-00; online 2021-11-02]
Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
5´XP sRNA-seq: efficient identification of transcripts with and without 5´ phosphorylation reveals evolutionary conserved small RNA.
Kugelberg U, Nätt D, Skog S, Kutter C, Öst A
RNA Biol 18 (11) 1588-1599 [2021-11-00; online 2020-12-31]
Clinical Genomics Linköping [Service]
Utredning av den initiala smittspridningen av SARS-CoV-2 till och inom Sverige
Dyrdak R, Albert J
SOU 89 (-) - [2021-10-29]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Small RNA Response to Infection of the Insect-Specific Lammi Virus and Hanko Virus in an Aedes albopictus Cell Line.
Öhlund P, Hayer J, Hesson JC, Blomström AL
Viruses 13 (11) - [2021-10-29; online 2021-10-29]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Microbial Plankton Community Structure and Function Responses to Vitamin B12 and B1 Amendments in an Upwelling System.
Joglar V, Pontiller B, Martínez-García S, ..., Fernández E, Teira E
Appl. Environ. Microbiol. 87 (22) e0152521 [2021-10-28; online 2021-09-08]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Massive parallel sequencing in individuals with multiple primary tumours reveals the benefit of re-analysis.
Wallander K, Thonberg H, Nilsson D, Tham E
Hered Cancer Clin Pract 19 (1) 46 [2021-10-28; online 2021-10-28]
Bioinformatics Compute and Storage [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The structure of neurofibromin isoform 2 reveals different functional states.
Naschberger A, Baradaran R, Rupp B, Carroni M
Nature - (-) - [2021-10-27; online 2021-10-27]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Monensin induces selective mast cell apoptosis through a secretory granule-mediated pathway.
Maccarana M, Liu J, Lampinen M, ..., Pejler G, Paivandy A
Allergy - (-) - [2021-10-27; online 2021-10-27]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Human AdV-20-42-42, a Promising Novel Adenoviral Vector for Gene Therapy and Vaccine Product Development.
Ballmann MZ, Raus S, Engelhart R, ..., Havenga M, Baker AH
J. Virol. 95 (22) e0038721 [2021-10-27; online 2021-09-01]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Adaptive Introgression Facilitates Adaptation to High Latitudes in European Aspen (Populus tremula L.).
Rendón-Anaya M, Wilson J, Sveinsson S, ..., Street NR, Ingvarsson PK
Mol. Biol. Evol. 38 (11) 5034-5050 [2021-10-27; online 2021-07-31]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A missense mutation converts the Na+,K+-ATPase into an ion channel and causes therapy-resistant epilepsy.
Ygberg S, Akkuratov EE, Howard RJ, ..., Brismar H, Aperia A
J. Biol. Chem. - (-) 101355 [2021-10-27; online 2021-10-27]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Whole-genome resequencing confirms reproductive isolation between sympatric demes of brown trout (Salmo trutta) detected with allozymes.
Saha A, Andersson A, Kurland S, ..., Ryman N, Laikre L
Mol. Ecol. - (-) - [2021-10-26; online 2021-10-26]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Streptococcus pyogenes Forms Serotype- and Local Environment-Dependent Interspecies Protein Complexes.
Chowdhury S, Khakzad H, Bergdahl GE, ..., Happonen L, Malmström J
mSystems 6 (5) e0027121 [2021-10-26; online 2021-09-28]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Identification of driver genes for critical forms of COVID-19 in a deeply phenotyped young patient cohort.
Carapito R, Li R, Helms J, ..., Chittenden TW, Bahram S
Sci Transl Med - (-) eabj7521 [2021-10-26; online 2021-10-26]
Autoimmunity and Serology Profiling [Service]
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Carbon flux around leaf-cytosolic glyceraldehyde-3-phosphate dehydrogenase introduces a 13C signal in plant glucose.
Wieloch T, Werner RA, Schleucher J
J. Exp. Bot. 72 (20) 7136-7144 [2021-10-26; online 2021-07-06]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Unambiguous Tracking of Protein Phosphorylation by Fast High-Resolution FOSY NMR*.
Lesovoy DM, Georgoulia PS, Diercks T, ..., Bermel W, Orekhov VY
Angew. Chem. Int. Ed. Engl. 60 (44) 23540-23544 [2021-10-25; online 2021-07-13]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Tonsillar Cancer with High CD8+ T-Cell Infiltration Features Increased Levels of Dendritic Cells and Transcriptional Regulation Associated with an Inflamed Tumor Microenvironment.
Jimenez DG, Sobti A, Askmyr D, ..., Greiff L, Lindstedt M
Cancers (Basel) 13 (21) - [2021-10-25; online 2021-10-25]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
The oral microbiota of wild bears in Sweden reflects the history of antibiotic use by humans.
Brealey JC, Leitão HG, Hofstede T, Kalthoff DC, Guschanski K
Curr. Biol. 31 (20) 4650-4658.e6 [2021-10-25; online 2021-08-25]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Lon protease temporally restricts polar cell differentiation events during the Caulobacter cell cycle.
Omnus DJ, Fink MJ, Szwedo K, Jonas K
Elife 10 (-) - [2021-10-25; online 2021-10-25]
Global Proteomics and Proteogenomics [Service]
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X-Linked TLR7 Deficiency Underlies Critical COVID-19 Pneumonia in a Male Patient with Ataxia-Telangiectasia.
Abolhassani H, Vosughimotlagh A, Asano T, ..., Hammarström L, Pan-Hammarström Q
J Clin Immunol - (-) - [2021-10-23; online 2021-10-23]
Autoimmunity and Serology Profiling [Service]
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SARS-CoV-2-specific B- and T-cell immunity in a population-based study of young Swedish adults.
Björkander S, Du L, Zuo F, ..., Pan-Hammarström Q, BAMSE COVID-19 study group
J. Allergy Clin. Immunol. - (-) - [2021-10-23; online 2021-10-23]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Milking system and premilking routines have strong effect on the microbial community in bulk tank milk.
Sun L, Lundh Å, Höjer A, ..., Saedén KH, Dicksved J
J Dairy Sci - (-) - [2021-10-22; online 2021-10-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Whole-genome Sequencing of Follicular Thyroid Carcinomas Reveal Recurrent Mutations in MicroRNA Processing Subunit DGCR8.
Paulsson JO, Rafati N, DiLorenzo S, ..., Zedenius J, Juhlin CC
J. Clin. Endocrinol. Metab. 106 (11) 3265-3282 [2021-10-21; online 2021-06-26]
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PubMed DOI Crossref
Seasonal migration patterns and the maintenance of evolutionary diversity in a cryptic bird radiation.
Tang Q, Burri R, Liu Y, ..., Heckel G, Schweizer M
Mol. Ecol. - (-) - [2021-10-21; online 2021-10-21]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SLC4A2 Deficiency Causes a New Type of Osteopetrosis.
Xue JY, Grigelioniene G, Wang Z, ..., Ikegawa S, Guo L
J. Bone Miner. Res. - (-) - [2021-10-20; online 2021-10-20]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Symptoms and oxylipins in plasma before and after exposure to rooms in which individuals have both experienced and not experienced building-related symptoms - an exploratory study.
Claeson AS, Sommar J, Liljelind I
Int J Environ Health Res - (-) 1-11 [2021-10-19; online 2021-10-19]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Transcriptome Analysis of Potato Infected with the Necrotrophic Pathogen Alternaria solani.
Brouwer SM, Brus-Szkalej M, Saripella GV, ..., Liljeroth E, Grenville-Briggs LJ
Plants (Basel) 10 (10) - [2021-10-18; online 2021-10-18]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Frailty and the risk of dementia: is the association explained by shared environmental and genetic factors?
Bai G, Wang Y, Kuja-Halkola R, ..., Hägg S, Jylhävä J
BMC Med 19 (1) 248 [2021-10-18; online 2021-10-18]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A global effort to dissect the human genetic basis of resistance to SARS-CoV-2 infection.
Andreakos E, Abel L, Vinh DC, ..., Casanova JL, Spaan AN
Nat. Immunol. - (-) - [2021-10-18; online 2021-10-18]
Cellular Immunomonitoring [Collaborative]
DOI Crossref
scSPLAT, a scalable plate-based protocol for single cell WGBS library preparation
Raine A, Lundmark A, Annett A, ..., Bergin C, Nordlund J
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Bioinformatics Compute and Storage [Service] Microbial Single Cell Genomics [Technology development] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
RNA sequencing reveals metabolic and regulatory changes leading to more robust fermentation performance during short-term adaptation of Saccharomyces cerevisiae to lignocellulosic inhibitors.
van Dijk M, Rugbjerg P, Nygård Y, Olsson L
Biotechnol Biofuels 14 (1) 201 [2021-10-15; online 2021-10-15]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Spatial deconvolution of HER2-positive breast cancer delineates tumor-associated cell type interactions.
Andersson A, Larsson L, Stenbeck L, ..., Engblom C, Lundeberg J
Nat Commun 12 (1) 6012 [2021-10-14; online 2021-10-14]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Imatinib protects against human beta-cell death via inhibition of mitochondrial respiration and activation of AMPK.
Elksnis A, Schiffer TA, Palm F, ..., Welsh N, Wang X
Clin Sci (Lond) 135 (19) 2243-2263 [2021-10-14; online 2021-09-28]
Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
Unraveling the Metabolic Derangements Occurring in Non-infarcted Areas of Pig Hearts With Chronic Heart Failure.
Correia C, Wang QD, Linhardt G, ..., Jennbacken K, Synnergren J
Front Cardiovasc Med 8 (-) 753470 [2021-10-13; online 2021-10-13]
Swedish Metabolomics Centre (SMC) [Service]
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Evolutionary history of the extinct Sardinian dhole.
Ciucani MM, Jensen JK, Sinding MS, ..., Gilbert MTP, Gopalakrishnan S
Curr. Biol. - (-) - [2021-10-13; online 2021-10-13]
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Coordinated pyruvate kinase activity is crucial for metabolic adaptation and cell survival during mitochondrial dysfunction.
Zhou X, Mikaeloff F, Curbo S, ..., Neogi U, Karlsson A
Hum. Mol. Genet. 30 (21) 2012-2026 [2021-10-13; online 2021-06-26]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Cis-acting mutation affecting GJA5 transcription is underlying the Melanotic within-feather pigmentation pattern in chickens.
Li J, Lee MO, Chen J, ..., Chuong CM, Andersson L
Proc. Natl. Acad. Sci. U.S.A. 118 (41) - [2021-10-12; online 2021-10-06]
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Potassium transporter TRH1/KUP4 contributes to distinct auxin-mediated root system architecture responses.
Templalexis D, Tsitsekian D, Liu C, ..., Hatzopoulos P, Rigas S
Plant Physiol. - (-) - [2021-10-11; online 2021-10-11]
Swedish Metabolomics Centre (SMC) [Service]
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Philippine Ayta possess the highest level of Denisovan ancestry in the world.
Larena M, McKenna J, Sanchez-Quinto F, ..., Endicott P, Jakobsson M
Curr. Biol. 31 (19) 4219-4230.e10 [2021-10-11; online 2021-08-12]
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HPA axis dysregulation is associated with differential methylation of CpG-sites in related genes.
Chatzittofis A, Boström ADE, Ciuculete DM, ..., Schiöth HB, Jokinen J
Sci Rep 11 (1) 20134 [2021-10-11; online 2021-10-11]
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Chromosome-level genome assembly and transcriptome-based annotation of the oleaginous yeast Rhodotorula toruloides CBS 14.
Martín-Hernández GC, Müller B, Chmielarz M, ..., Viehweger A, Passoth V
Genomics 113 (6) 4022-4027 [2021-10-11; online 2021-10-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Changes in serum and urinary metabolomic profile after a dietary intervention in patients with irritable bowel syndrome.
Nybacka S, Simrén M, Störsrud S, ..., Winkvist A, Lindqvist HM
PLoS ONE 16 (10) e0257331 [2021-10-11; online 2021-10-11]
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A Glycoproteomic Approach to Identify Novel Proteoglycans.
Noborn F, Nikpour M, Persson A, ..., Nilsson J, Larson G
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Glycoproteomics [Technology development]
PubMed DOI Crossref
Comparison of sequencing data processing pipelines and application to underrepresented African human populations.
Breton G, Johansson ACV, Sjödin P, Schlebusch CM, Jakobsson M
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An atlas of the Norway spruce needle seasonal transcriptome.
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Ultrafast and Selective Labeling of Endogenous Proteins Using Affinity-based Benzotriazole Chemistry
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Bioinformatics Compute and Storage [Service] Clinical Genomics Uppsala [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Proteomic and Metabolomic Characterization of Metabolically Healthy Obesity: A Descriptive Study from a Swedish Cohort.
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Inhibition of the ubiquitin-proteasome system by an NQO1-activatable compound.
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CRISPR Functional Genomics Chemical Biology Consortium Sweden (CBCS) [Collaborative] Global Proteomics and Proteogenomics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Metabolic Perturbation Associated With COVID-19 Disease Severity and SARS-CoV-2 Replication.
Krishnan S, Nordqvist H, Ambikan AT, ..., Treutiger CJ, Neogi U
Mol. Cell Proteomics 20 (-) 100159 [2021-10-05; online 2021-10-05]
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Hallingbäck HR, Pucholt P, Ingvarsson PK, Rönnberg-Wästljung AC, Berlin S
BMC Genomics 22 (1) 710 [2021-10-02; online 2021-10-02]
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BMC Musculoskelet Disord 22 (1) 844 [2021-10-02; online 2021-10-02]
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Urinary cytokines correlate with acute kidney injury in critically ill COVID-19 patients.
Gradin A, Andersson H, Luther T, ..., Frithiof R, Hultström M
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The role of H3K36 methylation and associated methyltransferases in chromosome-specific gene regulation.
Lindehell H, Glotov A, Dorafshan E, Schwartz YB, Larsson J
Sci Adv 7 (40) eabh4390 [2021-10-00; online 2021-10-01]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Cellulose 28 (15) 9633-9644 [2021-10-00; online 2021-08-17]
Swedish NMR Centre (SNC) [Service]
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Sleep duration is associated with protein biomarkers for cardiometabolic health: A large-scale population study.
Theorell-Haglöw J, Hammar U, Lind L, ..., Lindberg E, Fall T
J Sleep Res 30 (5) e13284 [2021-10-00; online 2021-03-09]
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Proteomic analysis in diffuse large B-cell lymphoma identifies dysregulated tumor microenvironment proteins in non-GCB/ABC subtype patients.
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Leuk. Lymphoma 62 (10) 2360-2373 [2021-10-00; online 2021-06-11]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] Glycoproteomics [Service]
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Presenting artificial intelligence, deep learning, and machine learning studies to clinicians and healthcare stakeholders: an introductory reference with a guideline and a Clinical AI Research (CAIR) checklist proposal.
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Pregnancy-related hormones and COMT genotype: Associations with maternal working memory.
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Psychoneuroendocrinology 132 (-) 105361 [2021-10-00; online 2021-07-17]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Phylogenetic history of patrilineages rare in northern and eastern Europe from large-scale re-sequencing of human Y-chromosomes.
Ilumäe AM, Post H, Flores R, ..., Rootsi S, Villems R
Eur. J. Hum. Genet. 29 (10) 1510-1519 [2021-10-00; online 2021-05-07]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Milligram scale expression, refolding, and purification of Bombyx mori cocoonase using a recombinant E. coli system.
Phoeurk C, Mushtaq AU, Rogne P, Wolf-Watz M
Protein Expression and Purification 186 (-) 105919 [2021-10-00; online 2021-05-24]
Swedish NMR Centre (SNC) [Service]
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Maternal genetic origin of the late and final Neolithic human populations from present-day Poland.
Juras A, Ehler E, Chyleński M, ..., Jakobsson M, Dabert M
Am. J. Phys. Anthropol. 176 (2) 223-236 [2021-10-00; online 2021-07-26]
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Sundquist K, Memon AA, Palmér K, Sundquist J, Wang X
Cytokine 146 (-) 155646 [2021-10-00; online 2021-07-27]
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Yao Mattisson I, Rattik S, Björkbacka H, ..., Nilsson J, Wigren M
Vascul Pharmacol 140 (-) 106863 [2021-10-00; online 2021-04-15]
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Hyperglycaemia-associated Caspase-3 predicts diabetes and coronary artery disease events.
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High diagnostic yield in skeletal ciliopathies using massively parallel genome sequencing, structural variant screening and RNA analyses.
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Bioinformatics Compute and Storage [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Genome-wide association study of liver enzyme elevation in rheumatoid arthritis patients starting methotrexate.
Sundbaum JK, Baecklund E, Eriksson N, ..., Wadelius M, Hallberg P
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Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Ecologically coherent population structure of uncultivated bacterioplankton.
Sjöqvist C, Delgado LF, Alneberg J, Andersson AF
ISME J 15 (10) 3034-3049 [2021-10-00; online 2021-05-05]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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DE-ETIOLATED1 has a role in the circadian clock of the liverwort Marchantia polymorpha.
Lagercrantz U, Billhardt A, Rousku SN, ..., Reza SH, Eklund DM
New Phytol. 232 (2) 595-609 [2021-10-00; online 2021-08-19]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Combined metabolic activators therapy ameliorates liver fat in nonalcoholic fatty liver disease patients.
Zeybel M, Altay O, Arif M, ..., Borén J, Mardinoglu A
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Carotid atherosclerosis, changes in tissue remodeling and repair in patients with aortic coarctation.
Hlebowicz J, Holm J, Lindstedt S, Goncalves I, Nilsson J
Atherosclerosis 335 (-) 47-52 [2021-10-00; online 2021-09-21]
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Broadening the roles of UDP-glycosyltransferases in auxin homeostasis and plant development.
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New Phytol. 232 (2) 642-654 [2021-10-00; online 2021-08-10]
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A single sulfatase is required to access colonic mucin by a gut bacterium.
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Nature 598 (7880) 332-337 [2021-10-00; online 2021-10-06]
Glycoproteomics [Collaborative]
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Design and development of a photoswitchable DFG-out kinase inhibitor.
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PLoS ONE 16 (9) e0258041 [2021-09-30; online 2021-09-30]
Autoimmunity and Serology Profiling [Technology development]
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In-depth Phylogenomic Analysis of Arbuscular Mycorrhizal Fungi Based on a Comprehensive Set of de novo Genome Assemblies
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Morphological Features Extracted by AI Associated with Spatial Transcriptomics in Prostate Cancer.
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BioImage Informatics [Collaborative]
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Composition and Seasonality of Membrane Transporters in Marine Picoplankton.
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Front Microbiol 12 (-) 714732 [2021-09-28; online 2021-09-28]
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A cell-type-specific atlas of the inner ear transcriptional response to acoustic trauma.
Milon B, Shulman ED, So KS, ..., Elkon R, Hertzano R
Cell Rep 36 (13) 109758 [2021-09-28; online 2021-10-01]
Eukaryotic Single Cell Genomics (ESCG) [Service]
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Saturation mutagenesis charts the functional landscape of Salmonella ProQ and reveals a gene regulatory function of its C-terminal domain.
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iScience 24 (9) 103078 [2021-09-24; online 2021-09-02]
Autoimmunity and Serology Profiling [Collaborative]
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Glycemic Control and Metabolic Adaptation in Response to High-Fat versus High-Carbohydrate Diets-Data from a Randomized Cross-Over Study in Healthy Subjects.
Wallenius V, Elebring E, Casselbrant A, ..., Marschall HU, Fändriks L
Nutrients 13 (10) - [2021-09-23; online 2021-09-23]
Swedish NMR Centre (SNC) [Service]
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Metabolic drift in the aging nervous system is reflected in human cerebrospinal fluid.
Peters K, Herman S, Khoonsari PE, ..., Neumann S, Kultima K
Sci Rep 11 (1) 18822 [2021-09-22; online 2021-09-22]
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Arroyo Mühr LS, Dillner J, Ure AE, Sundström K, Hultin E
Sci Rep 11 (1) 18852 [2021-09-22; online 2021-09-22]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Thomsson KA, Vitiazeva V, Mateoiu C, ..., Sundfeldt K, Karlsson NG
Mol. Cell Proteomics 20 (-) 100150 [2021-09-21; online 2021-09-21]
Glycoproteomics [Collaborative]
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Avian neo-sex chromosomes reveal dynamics of recombination suppression and W degeneration.
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Long-Term Elevated Inflammatory Protein Levels in Asymptomatic SARS-CoV-2 Infected Individuals.
Tserel L, Jõgi P, Naaber P, ..., Lutsar I, Peterson P
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Single-Cell Analysis Reveals Major Histocompatibility Complex II‒Expressing Keratinocytes in Pressure Ulcers with Worse Healing Outcomes.
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Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Ancient and modern genomes unravel the evolutionary history of the rhinoceros family.
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Cell 184 (19) 4874-4885.e16 [2021-09-16; online 2021-08-24]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Limited access to antigen drives generation of early B cell memory while restraining the plasmablast response.
Glaros V, Rauschmeier R, Artemov AV, ..., Busslinger M, Kreslavsky T
Immunity 54 (9) 2005-2023.e10 [2021-09-14; online 2021-09-16]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Sandholt AKS, Wattrang E, Lilja T, ..., Svärd SG, Söderlund R
BMC Genomics 22 (1) 660 [2021-09-14; online 2021-09-14]
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The avian W chromosome is a refugium for endogenous retroviruses with likely effects on female-biased mutational load and genetic incompatibilities.
Peona V, Palacios-Gimenez OM, Blommaert J, ..., Jern P, Suh A
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Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Autoantibody profiles associated with clinical features in psychotic disorders.
Jernbom Falk A, Galletly C, Just D, ..., Månberg A, Schubert KO
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Autoimmunity and Serology Profiling [Collaborative]
PubMed
Increased antibody reactivity against insulin receptor-A and insulin like growth factor 1 receptor and their ligands in cerebrospinal fluid and serum of patients with schizophrenia or related psychosis.
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The liver-alpha-cell axis after a mixed meal and during weight loss in type 2 diabetes.
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Endocr Connect 10 (9) 1101-1110 [2021-09-09; online 2021-09-09]
Swedish Metabolomics Centre (SMC) [Service]
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Proteoglycan profiling of human, rat and mouse insulin-secreting cells.
Nikpour M, Nilsson J, Persson A, ..., Vorontsov E, Larson G
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Glycoproteomics [Collaborative]
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Commun Biol 4 (1) 1059 [2021-09-09; online 2021-09-09]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Temporally balanced selection during development of larval Pacific oysters (Crassostrea gigas) inherently preserves genetic diversity within offspring.
Durland E, De Wit P, Langdon C
Proc. Biol. Sci. 288 (1958) 20203223 [2021-09-08; online 2021-09-01]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Selection on accessible chromatin regions in Capsella grandiflora.
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Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Spatial mapping reveals human adipocyte subpopulations with distinct sensitivities to insulin.
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Single-nuclei transcriptomes from human adrenal gland reveal distinct cellular identities of low and high-risk neuroblastoma tumors.
Bedoya-Reina OC, Li W, Arceo M, ..., Kogner P, Schlisio S
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Nat Commun 12 (1) 5277 [2021-09-06; online 2021-09-06]
Cryo-EM [Service]
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Structure and dynamics of the chromatin remodeler ALC1 bound to a PARylated nucleosome.
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Elife 10 (-) - [2021-09-06; online 2021-09-06]
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Allogeneic Hematopoietic Stem Cell Transplantation for Chronic Myelomonocytic Leukemia: Clinical and Molecular Genetic Prognostic Factors in a Nordic Population.
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Transplant Cell Ther - (-) - [2021-09-06; online 2021-09-06]
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The genomics of heart failure: design and rationale of the HERMES consortium.
Lumbers RT, Shah S, Lin H, ..., Vasan RS, Smith JG
ESC Heart Failure - (-) - [2021-09-03; online 2021-09-03]
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Stop codon readthrough alters the activity of a POU/Oct transcription factor during Drosophila development.
Zhao Y, Lindberg BG, Esfahani SS, ..., Piazza S, Engström Y
BMC Biol. 19 (1) 185 [2021-09-03; online 2021-09-03]
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Spatial Mass Spectrometry [Technology development]
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Global Proteomics and Proteogenomics [Technology development]
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Immunoglobulin A Autoreactivity toward Brain Enriched and Apoptosis-Regulating Proteins in Saliva of Athletes after Acute Concussion and Subconcussive Impacts.
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Autoimmunity and Serology Profiling [Collaborative]
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Genetic Variant Score and Arrhythmogenic Right Ventricular Cardiomyopathy Phenotype in Plakophilin-2 Mutation Carriers.
Svensson A, Platonov PG, Haugaa KH, ..., Svendsen JH, Gunnarsson C
Cardiology 146 (6) 763-771 [2021-09-01; online 2021-09-01]
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Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing.
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Nat. Biotechnol. 39 (9) 1141-1150 [2021-09-00; online 2021-09-09]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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The microRNA response associated with methyl jasmonate-induced resistance in Norway spruce bark
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The genetic consequences of dog breed formation-Accumulation of deleterious genetic variation and fixation of mutations associated with myxomatous mitral valve disease in cavalier King Charles spaniels.
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PLoS Genet. 17 (9) e1009726 [2021-09-00; online 2021-09-02]
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Solving patients with rare diseases through programmatic reanalysis of genome-phenome data.
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Soil physico-chemical properties have a greater effect on soil fungi than host species in Mediterranean pure and mixed pine forests
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Soil Biology and Biochemistry 160 (-) 108320 [2021-09-00; online 2021-09-00]
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Reindeer control over subarctic treeline alters soil fungal communities with potential consequences for soil carbon storage.
Ylänne H, Madsen RL, Castaño C, Metcalfe DB, Clemmensen KE
Glob Chang Biol 27 (18) 4254-4268 [2021-09-00; online 2021-06-14]
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Regulatory T cells reduce endothelial neutral sphingomyelinase 2 to prevent T-cell migration into tumors.
Akeus P, Szeponik L, Langenes V, ..., Slusher BS, Quiding-Järbrink M
Eur. J. Immunol. 51 (9) 2317-2329 [2021-09-00; online 2021-07-29]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Positive selection plays a major role in shaping signatures of differentiation across the genomic landscape of two independent Ficedula flycatcher species pairs.
Chase MA, Ellegren H, Mugal CF
Evolution 75 (9) 2179-2196 [2021-09-00; online 2021-05-03]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Novel genome reveals susceptibility of popular gamebird, the red-legged partridge (Alectoris rufa, Phasianidae), to climate change.
Chattopadhyay B, Forcina G, Garg KM, ..., Barbanera F, Rheindt FE
Genomics 113 (5) 3430-3438 [2021-09-00; online 2021-08-13]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Interaction between the STAT4 rs11889341(T) risk allele and smoking confers increased risk of myocardial infarction and nephritis in patients with systemic lupus erythematosus.
Reid S, Hagberg N, Sandling JK, ..., Rönnblom L, Leonard D
Ann. Rheum. Dis. 80 (9) 1183-1189 [2021-09-00; online 2021-03-25]
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Impact of Different Synthesis Methods on the Low-Temperature Deactivation of Cu/SAPO-34 for NH3-SCR Reaction
Woo J, Wang A, Bernin D, ..., Zammit M, Olsson L
Emiss. Control Sci. Technol. 7 (3) 198-209 [2021-09-00; online 2021-08-03]
Swedish NMR Centre (SNC) [Service]
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Genomic and transcriptomic characterization of desmoplastic small round cell tumors.
Sydow S, Versleijen-Jonkers YMH, Hansson M, ..., Flucke UE, Mertens F
Genes Chromosomes Cancer 60 (9) 595-603 [2021-09-00; online 2021-05-17]
Bioinformatics Compute and Storage [Service] Clinical Genomics Lund [Service]
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Evaluation of 92 cardiovascular proteins in dried blood spots collected under field-conditions: Off-the-shelf affinity-based multiplexed assays work well, allowing for simplified sample collection.
Broberg K, Svensson J, Grahn K, ..., Selander J, Enroth S
Bioessays 43 (9) e2000299 [2021-09-00; online 2021-02-15]
Affinity Proteomics Uppsala [Collaborative]
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Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing.
Fang LT, Zhu B, Zhao Y, ..., Xiao W, Somatic Mutation Working Group of Sequencing Quality Control Phase II Consortium
Nat. Biotechnol. 39 (9) 1151-1160 [2021-09-00; online 2021-09-09]
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Efficacy of EBL-1003 (apramycin) against Acinetobacter baumannii lung infections in mice.
Becker K, Aranzana-Climent V, Cao S, ..., Hobbie SN, ENABLE consortium
Clin. Microbiol. Infect. 27 (9) 1315-1321 [2021-09-00; online 2020-12-11]
Spatial Mass Spectrometry [Collaborative]
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Drought legacy affects microbial community trait distributions related to moisture along a savannah grassland precipitation gradient
Leizeaga A, Hicks LC, Manoharan L, Hawkes CV, Rousk J
J Ecol 109 (9) 3195-3210 [2021-09-00; online 2020-11-26]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Distinct plasma biomarkers confirm the diagnosis of mastocytosis and identify increased risk of anaphylaxis.
Gülen T, Teufelberger A, Ekoff M, ..., Dahlén B, Nilsson G
J. Allergy Clin. Immunol. 148 (3) 889-894 [2021-09-00; online 2021-03-02]
Affinity Proteomics Uppsala [Service]
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Combined Metabolic Activators Accelerates Recovery in Mild-to-Moderate COVID-19.
Altay O, Arif M, Li X, ..., Uhlén M, Mardinoglu A
Adv Sci (Weinh) 8 (17) e2101222 [2021-09-00; online 2021-06-28]
Affinity Proteomics Stockholm [Service]
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Climate warming dominates over plant genotype in shaping the seasonal trajectory of foliar fungal communities on oak.
Faticov M, Abdelfattah A, Roslin T, ..., Lindahl BD, Tack AJM
New Phytol. 231 (5) 1770-1783 [2021-09-00; online 2021-06-18]
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Calcium and pH interaction limits bloom formation and expansion of a nuisance microalga
Gollnisch R, Alling T, Stockenreiter M, ..., Grabowska M, Rengefors K
Limnol Oceanogr 66 (9) 3523-3534 [2021-09-00; online 2021-07-30]
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Branched-chain amino acid metabolism is regulated by ERRα in primary human myotubes and is further impaired by glucose loading in type 2 diabetes.
Sjögren RJO, Rizo-Roca D, Chibalin AV, ..., Näslund E, Zierath JR
Diabetologia 64 (9) 2077-2091 [2021-09-00; online 2021-06-16]
Swedish Metabolomics Centre (SMC) [Service]
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A roadmap for the Human Developmental Cell Atlas.
Haniffa M, Taylor D, Linnarsson S, ..., Webb S, Human Cell Atlas Developmental Biological Network
Nature 597 (7875) 196-205 [2021-09-00; online 2021-09-08]
In Situ Sequencing (ISS) [Collaborative] Spatial Proteomics
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A novel silver(I) di-iso-butyldithiocarbamate: Unusually complicated 1-D polymeric structure, multiple ligand-supported Ag–Ag interactions and its capability to bind gold(III). Preparation, structural organisation and (13C, 15N) CP-MAS NMR of [Ag6(S2CNiBu2)6] and [Au(S2CNiBu2)2][AgCl2]
Korneeva EV, Smolentsev AI, Antzutkin ON, Ivanov AV
Inorganica Chimica Acta 525 (-) 120383 [2021-09-00; online 2021-09-00]
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A genome-wide association study with 1,126,563 individuals identifies new risk loci for Alzheimer's disease.
Wightman DP, Jansen IE, Savage JE, ..., Andreassen OA, Posthuma D
Nat. Genet. 53 (9) 1276-1282 [2021-09-00; online 2021-09-07]
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A genome-wide association study of the frailty index highlights brain pathways in ageing.
Atkins JL, Jylhävä J, Pedersen NL, ..., Williams DM, Pilling LC
Aging Cell 20 (9) e13459 [2021-09-00; online 2021-08-25]
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A MT-TL1 variant identified by whole exome sequencing in an individual with intellectual disability, epilepsy, and spastic tetraparesis.
de Boer E, Ockeloen CW, Matalonga L, ..., Verloes A, Vissers LELM
Eur. J. Hum. Genet. 29 (9) 1359-1368 [2021-09-00; online 2021-06-01]
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Robust humoral and cellular immune responses and low risk for reinfection at least 8 months following asymptomatic to mild COVID-19.
Havervall S, Ng H, Jernbom Falk A, ..., Hober S, Thålin C
J. Intern. Med. - (-) - [2021-08-30; online 2021-08-30]
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Light-induced in situ chemical activation of a fluorescent probe for monitoring intracellular G-quadruplex structures.
Deiana M, Mosser M, Le Bahers T, ..., Monnereau C, Guy L
Nanoscale 13 (32) 13795-13808 [2021-08-28; online 2021-08-04]
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Novel Microdialysis Technique Reveals a Dramatic Shift in Metabolite Secretion during the Early Stages of the Interaction between the Ectomycorrhizal Fungus Pisolithus microcarpus and Its Host Eucalyptus grandis.
Plett KL, Buckley S, Plett JM, ..., Lundberg-Felten J, Jämtgård S
Microorganisms 9 (9) - [2021-08-26; online 2021-08-26]
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Exploring the β-tubulin gene family in a benzimidazole-resistant Parascaris univalens population.
Martin F, Halvarsson P, Delhomme N, Höglund J, Tydén E
International Journal for Parasitology: Drugs and Drug Resistance 17 (-) 84-91 [2021-08-26; online 2021-08-26]
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Consistent B Cell Receptor Immunoglobulin Features Between Siblings in Familial Chronic Lymphocytic Leukemia.
Kolijn PM, Muggen AF, Ljungström V, ..., Rosenquist R, Langerak AW
Front Oncol 11 (-) 740083 [2021-08-26; online 2021-08-26]
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Chromoanagenesis Event Underlies a de novo Pericentric and Multiple Paracentric Inversions in a Single Chromosome Causing Coffin-Siris Syndrome.
Grochowski CM, Krepischi ACV, Eisfeldt J, ..., Lindstrand A, Carvalho CMB
Front Genet 12 (-) 708348 [2021-08-26; online 2021-08-26]
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Amnion signals are essential for mesoderm formation in primates.
Yang R, Goedel A, Kang Y, ..., Niu Y, Chien KR
Nat Commun 12 (1) 5126 [2021-08-26; online 2021-08-26]
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Pulmonary and blood dendritic cells from sarcoidosis patients more potently induce IFNγ-producing Th1 cells compared with monocytes.
Lepzien R, Nie M, Czarnewski P, ..., Grunewald J, Smed-Sörensen A
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Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Interleukin 6 and Cardiovascular Outcomes in Patients With Chronic Kidney Disease and Chronic Coronary Syndrome.
Batra G, Ghukasyan Lakic T, Lindbäck J, ..., Wallentin L, STABILITY Investigators
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Affinity Proteomics Uppsala [Service]
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Cell Rep 36 (8) 109616 [2021-08-24; online 2021-08-26]
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Small-scale sequencing enables quality assessment of Ribo-Seq data: an example from Arabidopsis cell culture.
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Genomic Epidemiology of Azithromycin-Nonsusceptible Neisseria gonorrhoeae, Argentina, 2005-2019.
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Emerg. Infect. Dis. 27 (9) 2369-2378 [2021-08-24; online 2021-08-24]
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In Situ Sequencing (ISS) [Technology development]
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Ecological Specialization and Evolutionary Reticulation in Extant Hyaenidae.
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Mol. Biol. Evol. 38 (9) 3884-3897 [2021-08-23; online 2021-08-25]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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RqcH and RqcP catalyze processive poly-alanine synthesis in a reconstituted ribosome-associated quality control system.
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Nucleic Acids Res. 49 (14) 8355-8369 [2021-08-20; online 2021-07-14]
Cryo-EM
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A Minimalistic Coumarin Turn-On Probe for Selective Recognition of Parallel G-Quadruplex DNA Structures.
Deiana M, Obi I, Andreasson M, ..., Chorell E, Sabouri N
ACS Chem. Biol. 16 (8) 1365-1376 [2021-08-20; online 2021-07-30]
Swedish NMR Centre (SNC) [Service]
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X-linked recessive TLR7 deficiency in ~1% of men under 60 years old with life-threatening COVID-19.
Asano T, Boisson B, Onodi F, ..., Zhang Q, Casanova JL
Sci Immunol 6 (62) - [2021-08-19; online 2021-08-21]
Cellular Immunomonitoring [Collaborative]
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The broad role of Nkx3.2 in the development of the zebrafish axial skeleton.
Waldmann L, Leyhr J, Zhang H, ..., Allalou A, Haitina T
PLoS ONE 16 (8) e0255953 [2021-08-19; online 2021-08-19]
BioImage Informatics [Collaborative] Genome Engineering Zebrafish [Service]
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Community composition of aquatic fungi across the thawing Arctic.
Kluge M, Wurzbacher C, Wauthy M, ..., Stenlid J, Peura S
Sci Data 8 (1) 221 [2021-08-19; online 2021-08-19]
Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Autoantibodies neutralizing type I IFNs are present in ~4% of uninfected individuals over 70 years old and account for ~20% of COVID-19 deaths.
Bastard P, Gervais A, Le Voyer T, ..., Abel L, Casanova JL
Sci Immunol 6 (62) eabl4340 [2021-08-19; online 2021-08-21]
Cellular Immunomonitoring [Collaborative]
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A simple pressure-assisted method for MicroED specimen preparation.
Zhao J, Xu H, Lebrette H, ..., Högbom M, Zou X
Nat Commun 12 (1) 5036 [2021-08-19; online 2021-08-19]
Cryo-EM [Collaborative]
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(p)ppGpp controls stringent factors by exploiting antagonistic allosteric coupling between catalytic domains.
Roghanian M, Van Nerom K, Takada H, ..., Garcia-Pino A, Hauryliuk V
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Structural Proteomics [Collaborative]
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Proteomic characterisation of polyglucosan bodies in skeletal muscle in RBCK1 deficiency.
Thomsen C, Malfatti E, Jovanovic A, ..., Lindberg C, Oldfors A
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Glycoproteomics [Service]
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Haplotype-Specific Expression Analysis of MHC Class II Genes in Healthy Individuals and Rheumatoid Arthritis Patients.
Houtman M, Hesselberg E, Rönnblom L, ..., Malmström V, Padyukov L
Front Immunol 12 (-) 707217 [2021-08-17; online 2021-08-17]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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ExSTED microscopy reveals contrasting functions of dopamine and somatostatin CSF-c neurons along the central canal
Jalalvand E, Alvelid J, Coceano G, ..., Grillner S, Testa I
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Integrated Microscopy Technologies Stockholm [Technology development]
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Association of Variants Near the Bradykinin Receptor B2 Gene With Angioedema in Patients Taking ACE Inhibitors.
Ghouse J, Ahlberg G, Andreasen L, ..., Bundgaard H, Olesen MS
J. Am. Coll. Cardiol. 78 (7) 696-709 [2021-08-17; online 2021-08-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Microbiological Surveillance of Biogas Plants: Targeting Acetogenic Community.
Singh A, Moestedt J, Berg A, Schnürer A
Front Microbiol 12 (-) 700256 [2021-08-16; online 2021-08-16]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Metabolomics profiling predicts outcome of tocilizumab in rheumatoid arthritis: an exploratory study.
Murillo-Saich JD, Diaz-Torne C, Ortiz MA, ..., Vidal S, Guma M
Metabolomics 17 (9) 74 [2021-08-16; online 2021-08-16]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Prolonged estrogen deprivation triggers a broad immunosuppressive phenotype in breast cancer cells.
Hühn D, Martí-Rodrigo P, Mouron S, ..., Carreras-Puigvert J, Fernandez-Capetillo O
Mol Oncol - (-) - [2021-08-15; online 2021-08-15]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Antimicrobial peptide induced colloidal transformations in bacteria-mimetic vesicles: Combining in silico tools and experimental methods.
Freire RVM, Pillco-Valencia Y, da Hora GCA, ..., Soares TA, Salentinig S
Journal of Colloid and Interface Science 596 (-) 352-363 [2021-08-15; online 2021-03-16]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Transcriptome Analysis of Post-Mortem Brain Tissue Reveals Up-Regulation of the Complement Cascade in a Subgroup of Schizophrenia Patients.
Lindholm Carlström E, Niazi A, Etemadikhah M, ..., Nilsson B, Feuk L
Genes 12 (8) - [2021-08-13; online 2021-08-13]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Site-Dependent Relationships Between Fungal Community Composition, Plant Genotypic Diversity and Environmental Drivers in a Salix Biomass System
Hoeber S, Baum C, Weih M, Manzoni S, Fransson P
Front. Fungal Biol. 2 (-) - [2021-08-13; online 2021-08-13]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Single-cell analysis pinpoints distinct populations of cytotoxic CD4+ T cells and an IL-10+CD109+ TH2 cell population in nasal polyps.
Ma J, Tibbitt CA, Georén SK, ..., Bachert C, Coquet JM
Sci Immunol 6 (62) - [2021-08-13; online 2021-08-15]
Bioinformatics Compute and Storage [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Expanding the Chondroitin Sulfate Glycoproteome - But How Far?
Noborn F, Nikpour M, Persson A, Nilsson J, Larson G
Front Cell Dev Biol 9 (-) 695970 [2021-08-13; online 2021-08-13]
Glycoproteomics [Service]
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Candidatus Methylumidiphilus Drives Peaks in Methanotrophic Relative Abundance in Stratified Lakes and Ponds Across Northern Landscapes.
Martin G, Rissanen AJ, Garcia SL, ..., Buck M, Peura S
Front Microbiol 12 (-) 669937 [2021-08-12; online 2021-08-12]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Diffusible signal factor signaling controls bioleaching activity and niche protection in the acidophilic, mineral-oxidizing leptospirilli.
Bellenberg S, Salas B, Ganji S, ..., Dopson M, Vera M
Sci Rep 11 (1) 16275 [2021-08-11; online 2021-08-11]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Sensitive Measurement of Drug-Target Engagement by a Cellular Thermal Shift Assay with Multiplex Proximity Extension Readout.
Al-Amin RA, Gallant CJ, Muthelo PM, Landegren U
Anal. Chem. 93 (31) 10999-11009 [2021-08-10; online 2021-07-28]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Genomic profile - a possible diagnostic and prognostic marker in upper tract urothelial carcinoma.
Grahn A, Eisfeldt J, Malm C, ..., Tham E, Brehmer M
BJU Int. - (-) - [2021-08-10; online 2021-08-10]
Bioinformatics Compute and Storage [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
A Super-Resolved View of the Alzheimer's Disease-Related Amyloidogenic Pathway in Hippocampal Neurons.
Yu Y, Gao Y, Winblad B, Tjernberg LO, Schedin-Weiss S
J. Alzheimers Dis. 83 (2) 833-852 [2021-08-10; online 2021-08-10]
Integrated Microscopy Technologies Stockholm [Service]
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Genome assemblies of three closely related leaf beetle species (Galerucella spp.).
Yang X, Slotte T, Dainat J, Hambäck PA
G3 (Bethesda) 11 (8) - [2021-08-07; online 2021-12-02]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Using multimarker screening to identify biomarkers associated with cardiovascular death in patients with atrial fibrillation.
Pol T, Hijazi Z, Lindbäck J, ..., Siegbahn A, Wallentin L
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Affinity Proteomics Uppsala [Service]
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O-145 Green Tea catechins EGCG and pro-drug of EGCG (Pro-EGCG) inhibit endometriosis through targeting molecules regulating macrophages and B cells
Hung SW, Gaetani M, Tan ZYR, ..., Zubarev RA, Wang CC
Hum. Reprod. 36 (Supplement_1) - [2021-08-06; online 2021-08-06]
Chemical Proteomics
PubMed DOI Crossref
Mutational patterns and clonal evolution from diagnosis to relapse in pediatric acute lymphoblastic leukemia.
Sayyab S, Lundmark A, Larsson M, ..., Nordlund J, Syvänen A
Sci Rep 11 (1) 15988 [2021-08-06; online 2021-08-06]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
High-Resolution Proteomic Profiling Shows Sexual Dimorphism in Zebrafish Heart-Associated Proteins.
Niksirat H, Siino V, Steinbach C, Levander F
J. Proteome Res. 20 (8) 4075-4088 [2021-08-06; online 2021-06-29]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Shifts in gene expression variability in the blood-stage of Plasmodium relictum.
Kalbskopf V, Ahrén D, Valkiūnas G, Palinauskas V, Hellgren O
Gene 792 (-) 145723 [2021-08-05; online 2021-05-18]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Complete Genome Sequence and Methylome of the Type Strain of Shewanella algae.
Tellgren-Roth C, Thorell K, Galperin MY, ..., Sjöling Å, Martín-Rodríguez AJ
Microbiol Resour Announc 10 (31) e0055921 [2021-08-05; online 2021-08-05]
Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Cerebrospinal fluid proteomics targeted for central nervous system processes in bipolar disorder.
Göteson A, Isgren A, Jonsson L, ..., Holmén-Larsson J, Landén M
Mol. Psychiatry - (-) - [2021-08-04; online 2021-08-04]
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PubMed DOI Crossref
Single-cell multimodal analysis in a case with reduced penetrance of Progranulin-Frontotemporal Dementia.
Natarajan K, Eisfeldt J, Hammond M, ..., Öijerstedt L, Graff C
Acta Neuropathol Commun 9 (1) 132 [2021-08-03; online 2021-08-03]
Affinity Proteomics Uppsala [Technology development] Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
PopulusPtERF85 Balances Xylem Cell Expansion and Secondary Cell Wall Formation in Hybrid Aspen.
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Cells 10 (8) 1971 [2021-08-03; online 2021-08-03]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Persisting Salivary IgG Against SARS-CoV-2 at 9 Months After Mild COVID-19: A Complementary Approach to Population Surveys.
Alkharaan H, Bayati S, Hellström C, ..., Pin E, Sällberg Chen M
J. Infect. Dis. 224 (3) 407-414 [2021-08-02; online 2021-05-13]
Autoimmunity and Serology Profiling [Collaborative]
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Three weeks of interrupting sitting lowers fasting glucose and glycemic variability, but not glucose tolerance, in free-living women and men with obesity.
Smith JAB, Savikj M, Sethi P, ..., Zierath JR, Näslund E
Am J Physiol Endocrinol Metab 321 (2) E203-E216 [2021-08-01; online 2021-06-21]
Swedish Metabolomics Centre (SMC) [Service]
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Genome-wide estrogen receptor β chromatin binding in human colon cancer cells reveals its tumor suppressor activity.
Indukuri R, Jafferali MH, Song D, ..., Archer A, Williams C
Int. J. Cancer 149 (3) 692-706 [2021-08-01; online 2021-04-05]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Transcriptional study reveals a potential leptin-dependent gene regulatory network in zebrafish brain.
Ahi EP, Tsakoumis E, Brunel M, Schmitz M
Fish Physiol Biochem 47 (4) 1283-1298 [2021-08-00; online 2021-07-08]
Genome Engineering Zebrafish [Service]
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The exon-junction complex helicase eIF4A3 controls cell fate via coordinated regulation of ribosome biogenesis and translational output.
Kanellis DC, Espinoza JA, Zisi A, ..., Lindström MS, Bartek J
Sci Adv 7 (32) - [2021-08-00; online 2021-08-04]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The effects of chemical and structural factors on the enzymatic saccharification of Eucalyptus sp. samples pre-treated by various technologies
Thoresen M, Malgas S, Gandla ML, ..., Sithole B, Pletschke BI
Industrial Crops and Products 166 (-) 113449 [2021-08-00; online 2021-08-00]
Swedish NMR Centre (SNC) [Service]
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Terrestrial dissolved organic matter inflow drives temporal dynamics of the bacterial community of a subarctic estuary (northern Baltic Sea).
Figueroa D, Capo E, Lindh MV, ..., Pinhassi J, Andersson A
Environ. Microbiol. 23 (8) 4200-4213 [2021-08-00; online 2021-06-01]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Strong Associations Between Early Tubular Damage and Urinary Cytokine, Chemokine, and Growth Factor Levels in Elderly Males and Females.
Fellström B, Helmersson-Karlqvist J, Lind L, ..., Kultima K, Larsson A
Journal of Interferon & Cytokine Research 41 (8) 283-290 [2021-08-00; online 2021-08-20]
Affinity Proteomics Uppsala [Service]
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Serum profiling of anorexia nervosa: A 1H NMR-based metabolomics study.
Salehi M A, Nilsson IA, Figueira J, ..., Bulik CM, Landén M
Eur Neuropsychopharmacol 49 (-) 1-10 [2021-08-00; online 2021-03-18]
Swedish NMR Centre (SNC) [Collaborative]
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SFRP2 induces a mesenchymal subtype transition by suppression of SOX2 in glioblastoma.
Guo M, Goudarzi KM, Abedi S, ..., Nistér M, Hägerstrand D
Oncogene 40 (32) 5066-5080 [2021-08-00; online 2021-05-21]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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SARS-CoV-2 infections amongst personnel providing home care services for older persons in Stockholm, Sweden.
Hassan SS, Seigerud Å, Abdirahman R, ..., Conneryd Lundgren K, Dillner J
J. Intern. Med. 290 (2) 430-436 [2021-08-00; online 2021-04-12]
Autoimmunity and Serology Profiling [Service]
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Quantitative proteomic analysis to identify differentially expressed proteins in patients with epilepsy.
Banote RK, Larsson D, Berger E, Kumlien E, Zelano J
Epilepsy Res 174 (-) 106674 [2021-08-00; online 2021-05-15]
Glycoproteomics [Service]
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Plasma proteome alterations by MAPK inhibitors in BRAFV600-mutated metastatic cutaneous melanoma.
Babačić H, Eriksson H, Pernemalm M
Neoplasia 23 (8) 783-791 [2021-08-00; online 2021-07-08]
Affinity Proteomics Uppsala [Service]
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Optimization of droplet digital PCR assays for the type-specific detection and quantification of five HPV genotypes, including additional data on viral loads of nine different HPV genotypes in cervical carcinomas.
Malin K, Louise BM, Gisela H, Mats KG, Gabriella L
J Virol Methods 294 (-) 114193 [2021-08-00; online 2021-05-19]
Clinical Genomics Örebro [Collaborative]
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Molecular architecture of the developing mouse brain.
La Manno G, Siletti K, Furlan A, ..., Lönnerberg P, Linnarsson S
Nature 596 (7870) 92-96 [2021-08-00; online 2021-07-28]
In Situ Sequencing (ISS) [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Long- and short-read metabarcoding technologies reveal similar spatiotemporal structures in fungal communities.
Furneaux B, Bahram M, Rosling A, Yorou NS, Ryberg M
Mol Ecol Resour 21 (6) 1833-1849 [2021-08-00; online 2021-05-06]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Genomic inference of contemporary effective population size in a large island population of collared flycatchers (Ficedula albicollis).
Nadachowska-Brzyska K, Dutoit L, Smeds L, ..., Gustafsson L, Ellegren H
Mol. Ecol. 30 (16) 3965-3973 [2021-08-00; online 2021-07-01]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genetic insights into biological mechanisms governing human ovarian ageing.
Ruth KS, Day FR, Hussain J, ..., Roig I, Perry JRB
Nature 596 (7872) 393-397 [2021-08-00; online 2021-08-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Electrochemical N2 reduction at ambient condition – Overcoming the selectivity issue via control of reactants’ availabilities
Kwong WL, Wågberg T, Messinger J
International Journal of Hydrogen Energy 46 (59) 30366-30372 [2021-08-00; online 2021-08-00]
Swedish NMR Centre (SNC) [Service]
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Dynamics of Baltic Sea phages driven by environmental changes.
Hoetzinger M, Nilsson E, Arabi R, ..., Middelboe M, Holmfeldt K
Environ. Microbiol. 23 (8) 4576-4594 [2021-08-00; online 2021-07-07]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Decidual stromal cells support tolerance at the human foetal-maternal interface by inducing regulatory M2 macrophages and regulatory T-cells.
Lindau R, Vondra S, Spreckels J, ..., Jenmalm MC, Ernerudh J
J Reprod Immunol 146 (-) 103330 [2021-08-00; online 2021-05-12]
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Co-mutation pattern, clonal hierarchy, and clone size concur to determine disease phenotype of SRSF2P95-mutated neoplasms.
Todisco G, Creignou M, Gallì A, ..., Cazzola M, Malcovati L
Leukemia 35 (8) 2371-2381 [2021-08-00; online 2020-12-21]
Clinical Genomics Uppsala [Service]
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Antibody responses after a single dose of ChAdOx1 nCoV-19 vaccine in healthcare workers previously infected with SARS-CoV-2.
Havervall S, Marking U, Greilert-Norin N, ..., Åberg M, Thålin C
EBioMedicine 70 (-) 103523 [2021-08-00; online 2021-08-12]
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Anti-tumor effects of rigosertib in high-risk neuroblastoma.
Radke K, Hansson K, Sjölund J, ..., Gisselsson D, Bexell D
Transl Oncol 14 (8) 101149 [2021-08-00; online 2021-06-09]
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Matisse: a MATLAB-based analysis toolbox for in situ sequencing expression maps.
Marco Salas S, Gyllborg D, Mattsson Langseth C, Nilsson M
BMC Bioinformatics 22 (1) 391 [2021-07-31; online 2021-07-31]
In Situ Sequencing (ISS) [Technology development]
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High-resolution model of Arabidopsis Photosystem II reveals the structural consequences of digitonin-extraction.
Graça AT, Hall M, Persson K, Schröder WP
Sci Rep 11 (1) 15534 [2021-07-30; online 2021-07-30]
Cryo-EM [Collaborative]
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Genetic association study of childhood aggression across raters, instruments, and age.
Ip HF, van der Laan CM, Krapohl EML, ..., Nivard MG, Boomsma DI
Transl Psychiatry 11 (1) 413 [2021-07-30; online 2021-07-30]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Bacterial Composition and Metabolomics of Dental Plaque From Adolescents.
Havsed K, Stensson M, Jansson H, ..., Svensäter G, Mira A
Front. Cell. Infect. Microbiol. 11 (-) 716493 [2021-07-30; online 2021-07-30]
Swedish NMR Centre (SNC) [Collaborative]
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Neuroinflammation and Alzheimer's Disease: A Machine Learning Approach to CSF Proteomics.
Gaetani L, Bellomo G, Parnetti L, ..., Zetterberg H, Di Filippo M
Cells 10 (8) - [2021-07-29; online 2021-07-29]
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Genetic Barriers to Historical Gene Flow between Cryptic Species of Alpine Bumblebees Revealed by Comparative Population Genomics.
Christmas MJ, Jones JC, Olsson A, ..., Geib JC, Webster MT
Mol. Biol. Evol. 38 (8) 3126-3143 [2021-07-29; online 2021-04-07]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure
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Complex population structure of the Atlantic puffin revealed by whole genome analyses.
Kersten O, Star B, Leigh DM, ..., Jakobsen KS, Boessenkool S
Commun Biol 4 (1) 922 [2021-07-29; online 2021-07-29]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Unraveling negative biotic interactions determining soil microbial community assembly and functioning.
Romdhane S, Spor A, Aubert J, ..., Tsiknia M, Philippot L
ISME J - (-) - [2021-07-28; online 2021-07-28]
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Strong Associations between Plasma Osteopontin and Several Inflammatory Chemokines, Cytokines, and Growth Factors.
Larsson A, Helmersson-Karlqvist J, Lind L, Ärnlöv J, Feldreich TR
Biomedicines 9 (8) - [2021-07-28; online 2021-07-28]
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Single-cell analysis of mosquito hemocytes identifies signatures of immune cell subtypes and cell differentiation.
Kwon H, Mohammed M, Franzén O, Ankarklev J, Smith RC
Elife 10 (-) - [2021-07-28; online 2021-07-28]
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Metabolomics analysis for diagnosis and biomarker discovery of transthyretin amyloidosis.
Olsson M, Hellman U, Wixner J, Anan I
Amyloid - (-) 1-9 [2021-07-28; online 2021-07-28]
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Super-resolution microscopy reveals that Na+/K+-ATPase signaling protects against glucose-induced apoptosis by deactivating Bad.
Bernhem K, Fontana JM, Svensson D, ..., Brismar H, Aperia A
Cell Death Dis 12 (8) 739 [2021-07-27; online 2021-07-27]
Integrated Microscopy Technologies Stockholm [Technology development]
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Genome-scale metabolic network reconstruction of model animals as a platform for translational research.
Wang H, Robinson JL, Kocabas P, ..., Zetterberg H, Nielsen J
Proc. Natl. Acad. Sci. U.S.A. 118 (30) e2102344118 [2021-07-27; online 2021-07-21]
Bioinformatics Compute and Storage [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Technology development]
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Solution Structure of the dATP-Inactivated Class I Ribonucleotide Reductase From Leeuwenhoekiella blandensis by SAXS and Cryo-Electron Microscopy.
Hasan M, Banerjee I, Rozman Grinberg I, Sjöberg BM, Logan DT
Front Mol Biosci 8 (-) 713608 [2021-07-26; online 2021-07-26]
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Leukocytes with chromosome Y loss have reduced abundance of the cell surface immunoprotein CD99.
Mattisson J, Danielsson M, Hammond M, ..., Halvardson J, Forsberg LA
Sci Rep 11 (1) 15160 [2021-07-26; online 2021-07-26]
Affinity Proteomics Uppsala [Technology development] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Genome of Peştera Muierii skull shows high diversity and low mutational load in pre-glacial Europe.
Svensson E, Günther T, Hoischen A, ..., Netea MG, Jakobsson M
Curr. Biol. 31 (14) 2973-2983.e9 [2021-07-26; online 2021-05-18]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Association between Cardiorespiratory Fitness and Circulating Proteins in 50-Year-Old Swedish Men and Women: a Cross-Sectional Study.
Enarsson M, Feldreich T, Byberg L, ..., Lind L, Ärnlöv J
Sports Med Open 7 (1) 52 [2021-07-26; online 2021-07-26]
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The enigmatic RNase MRP of kinetoplastids.
Alm Rosenblad M, López MD, Samuelsson T
RNA Biol - (-) 1-9 [2021-07-25; online 2021-07-25]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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A vision of immuno-oncology: the Siena think tank of the Italian network for tumor biotherapy (NIBIT) foundation.
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J. Exp. Clin. Cancer Res. 40 (1) 240 [2021-07-23; online 2021-07-23]
Cellular Immunomonitoring [Collaborative]
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A genome sequence resource for the genus Passiflora, the genome of the wild diploid species Passiflora organensis.
Costa ZP, Varani AM, Cauz-Santos LA, ..., Monteiro-Vitorello CB, Carneiro Vieira ML
Plant Genome - (-) e20117 [2021-07-23; online 2021-07-23]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Bifidobacteria-mediated immune system imprinting early in life.
Henrick BM, Rodriguez L, Lakshmikanth T, ..., Frese SA, Brodin P
Cell 184 (15) 3884-3898.e11 [2021-07-22; online 2021-06-17]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] Cellular Immunomonitoring [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The Promotor and Poison Effects of the Inorganic Elements of Kraft Lignin during Hydrotreatment over NiMoS Catalyst
Sebastian J, Cheah YW, Bernin D, Creaser D, Olsson L
Catalysts 11 (8) 874 [2021-07-21; online 2021-07-21]
Swedish NMR Centre (SNC) [Service]
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Dynamic Connection between Enzymatic Catalysis and Collective Protein Motions.
Ojeda-May P, Mushtaq AU, Rogne P, ..., Wolf-Watz M, Nam K
Biochemistry 60 (28) 2246-2258 [2021-07-20; online 2021-07-12]
Swedish NMR Centre (SNC) [Service]
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A search for modifying genetic factors in CHEK2:c.1100delC breast cancer patients.
Wendt C, Muranen TA, Mielikäinen L, ..., Borg Å, Lindblom A
Sci Rep 11 (1) 14763 [2021-07-20; online 2021-07-20]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Systematic evaluation of SARS-CoV-2 antigens enables a highly specific and sensitive multiplex serological COVID-19 assay.
Hober S, Hellström C, Olofsson J, ..., Hedhammar M, Nilsson P
Clin Transl Immunology 10 (7) e1312 [2021-07-19; online 2021-07-19]
Autoimmunity and Serology Profiling [Technology development]
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DNA Methylation-Based Interferon Scores Associate With Sub-Phenotypes in Primary Sjögren's Syndrome.
Imgenberg-Kreuz J, Sandling JK, Norheim KB, ..., Eloranta ML, Nordmark G
Front Immunol 12 (-) 702037 [2021-07-16; online 2021-07-16]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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From Your Nose to Your Toes: A Review of Severe Acute Respiratory Syndrome Coronavirus 2 Pandemic‒Associated Pernio.
Arkin LM, Moon JJ, Tran JM, ..., Drolet BA, COVID Human Genetic Effort
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Cellular Immunomonitoring [Collaborative]
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Large-scale serum analysis identifies unique systemic biomarkers in psoriasis and hidradenitis suppurativa.
Navrazhina K, Renert-Yuval Y, Frew JW, ..., Garcet S, Krueger JG
Br J Dermatol - (-) - [2021-07-13; online 2021-07-13]
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Energy efficiency and biological interactions define the core microbiome of deep oligotrophic groundwater.
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Nat Commun 12 (1) 4253 [2021-07-12; online 2021-07-12]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The role of Gdf5 in the development of the zebrafish fin endoskeleton.
Waldmann L, Leyhr J, Zhang H, ..., Öhman-Mägi C, Haitina T
Dev. Dyn. - (-) - [2021-07-09; online 2021-07-09]
BioImage Informatics [Collaborative] Genome Engineering Zebrafish [Service]
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Wide-Ranging Effects on the Brain Proteome in a Transgenic Mouse Model of Alzheimer's Disease Following Treatment with a Brain-Targeting Somatostatin Peptide.
Rofo F, Sandbaumhüter FA, Chourlia A, ..., Jansson ET, Hultqvist G
ACS Chem Neurosci 12 (13) 2529-2541 [2021-07-07; online 2021-06-25]
Spatial Mass Spectrometry [Collaborative]
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Therapeutic Cancer Vaccination with Immunopeptidomics-Discovered Antigens Confers Protective Antitumor Efficacy.
Peltonen K, Feola S, Umer HM, ..., Lehtiö J, Cerullo V
Cancers (Basel) 13 (14) - [2021-07-07; online 2021-07-07]
Global Proteomics and Proteogenomics [Technology development]
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Single-cell RNAseq and longitudinal proteomic analysis of a novel semi-spontaneous urothelial cancer model reveals tumor cell heterogeneity and pretumoral urine protein alterations.
Kerzeli IK, Lord M, Doroszko M, ..., Segersten U, Mangsbo SM
PLoS ONE 16 (7) e0253178 [2021-07-07; online 2021-07-07]
Affinity Proteomics Uppsala [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genomic Predictions With Nonadditive Effects Improved Estimates of Additive Effects and Predictions of Total Genetic Values in Pinus sylvestris.
Calleja-Rodriguez A, Chen Z, Suontama M, Pan J, Wu HX
Front Plant Sci 12 (-) 666820 [2021-07-07; online 2021-07-07]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Common and mutation specific phenotypes of KRAS and BRAF mutations in colorectal cancer cells revealed by integrative -omics analysis.
Kundu S, Ali MA, Handin N, ..., Globisch D, Sjöblom T
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Pharmacological activation of p53 triggers viral mimicry response thereby abolishing tumor immune evasion and promoting anti-tumor immunity.
Zhou X, Singh M, Sanz Santos G, ..., Johnsen JI, Selivanova G
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High-Quality Genome Assembly and Comprehensive Transcriptome of the Painted Lady Butterfly Vanessa cardui.
Zhang L, Steward RA, Wheat CW, Reed RD
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Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Candidate regulators and target genes of drought stress in needles and roots of Norway spruce.
Haas JC, Vergara A, Serrano AR, ..., Hurry V, Street NR
Tree Physiol 41 (7) 1230-1246 [2021-07-05; online 2021-01-09]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Metabolic Profiling of Plasma in Patients with Irritable Bowel Syndrome after a 4-Week Starch- and Sucrose-Reduced Diet.
Stenlund H, Nilholm C, Chorell E, ..., D'Amato M, Ohlsson B
Metabolites 11 (7) - [2021-07-04; online 2021-07-04]
Swedish Metabolomics Centre (SMC) [Collaborative]
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Comparative analyses of the Hymenoscyphus fraxineus and Hymenoscyphus albidus genomes reveals potentially adaptive differences in secondary metabolite and transposable element repertoires.
Elfstrand M, Chen J, Cleary M, ..., Stadler M, Durling MB
BMC Genomics 22 (1) 503 [2021-07-04; online 2021-07-04]
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Real-world effectiveness of vedolizumab in inflammatory bowel disease: week 52 results from the Swedish prospective multicentre SVEAH study.
Eriksson C, Rundquist S, Lykiardopoulos V, ..., Halfvarson J, SWIBREG SVEAH Study Group
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Liquid biopsy as an option for predictive testing and prognosis in patients with lung cancer.
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Mol. Med. 27 (1) 68 [2021-07-03; online 2021-07-03]
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Gene Regulatory Network of Human GM-CSF-Secreting T Helper Cells.
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High Amounts of SARS-CoV-2 Precede Sickness Among Asymptomatic Health Care Workers.
Dillner J, Elfström KM, Blomqvist J, ..., Arroyo Mühr LS, Lundgren KC
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Treatment of Multisystem Inflammatory Syndrome in Children.
McArdle AJ, Vito O, Patel H, ..., Levin M, BATS Consortium
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Cellular Immunomonitoring [Collaborative]
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TAAR1-Dependent and -Independent Actions of Tyramine in Interaction With Glutamate Underlie Central Effects of Monoamine Oxidase Inhibition.
Mantas I, Vallianatou T, Yang Y, ..., Andrén PE, Svenningsson P
Biol. Psychiatry 90 (1) 16-27 [2021-07-01; online 2020-12-19]
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Structural determinants of multimerization and dissociation in 2-Cys peroxiredoxin chaperone function.
Troussicot L, Burmann BM, Molin M
Structure 29 (7) 640-654 [2021-07-01; online 2021-05-03]
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Whole genome sequencing reveals high differentiation, low levels of genetic diversity and short runs of homozygosity among Swedish wels catfish.
Jensen A, Lillie M, Bergström K, Larsson P, Höglund J
Heredity (Edinb) 127 (1) 79-91 [2021-07-00; online 2021-05-07]
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Variants in BANK1 are associated with lupus nephritis of European ancestry.
Bolin K, Imgenberg-Kreuz J, Leonard D, ..., Rönnblom L, Nordmark G
Genes Immun. 22 (3) 194-202 [2021-07-00; online 2021-06-14]
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Thermal proteome profiling identifies PIP4K2A and ZADH2 as off-targets of Polo-like kinase 1 inhibitor volasertib.
Goroshchuk O, Kolosenko I, Kunold E, ..., Jafari R, Palm-Apergi C
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The genomics of phenotypically differentiated Asellus aquaticus cave, surface stream and lake ecotypes.
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PLoS ONE 16 (6) e0252804 [2021-06-14; online 2021-06-14]
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BUTTERFLY: addressing the pooled amplification paradox with unique molecular identifiers in single-cell RNA-seq.
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SARS-CoV-2-related MIS-C: A key to the viral and genetic causes of Kawasaki disease?
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Common variants in Alzheimer's disease and risk stratification by polygenic risk scores.
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Low Energy Electron Irradiation Is a Potent Alternative to Gamma Irradiation for the Inactivation of (CAR-)NK-92 Cells in ATMP Manufacturing.
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CryoEM reveals BIN1 (isoform 8) does not bind to single actin filaments in vitro.
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Genomic and transcriptomic analysis of the thermophilic lignocellulose-degrading fungus Thielavia terrestris LPH172.
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EBF1 and PAX5 control pro-B cell expansion via opposing regulation of the Myc gene.
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Gene count from target sequence capture places three whole genome duplication events in Hibiscus L. (Malvaceae).
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Cancer Med 10 (12) 3997-4003 [2021-06-00; online 2021-05-13]
NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Mishra LS, Kim SY, Caddell DF, Coleman-Derr D, Funk C
Physiol Plantarum 172 (2) 1045-1058 [2021-06-00; online 2020-12-16]
Swedish Metabolomics Centre (SMC) [Service]
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Kapell S, Jakobsson ME
NAR Genom Bioinform 3 (2) lqab045 [2021-06-00; online 2021-05-22]
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Mol. Ecol. 30 (12) 2790-2799 [2021-06-00; online 2021-05-20]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Genomic Characterization of the Barnacle Balanus improvisus Reveals Extreme Nucleotide Diversity in Coding Regions.
Alm Rosenblad M, Abramova A, Lind U, ..., Nystedt B, Blomberg A
Mar Biotechnol (NY) 23 (3) 402-416 [2021-06-00; online 2021-05-01]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Gene-educational attainment interactions in a multi-ancestry genome-wide meta-analysis identify novel blood pressure loci.
de Las Fuentes L, Sung YJ, Noordam R, ..., Rao DC, Fornage M
Mol. Psychiatry 26 (6) 2111-2125 [2021-06-00; online 2020-05-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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ENABLE: an engine for European antibacterial drug discovery and development.
Olliver M, Griestop L, Hughes D, ..., Vingsbo Lundberg C, Karlén A
Nat Rev Drug Discov 20 (6) 407-408 [2021-06-00; online 2021-05-06]
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Peng K, Safonova Y, Shugay M, ..., Karlsson Hedestam GB, Mangul S
Nat. Methods 18 (6) 588-591 [2021-06-00; online 2021-05-19]
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van Dongen J, Hagenbeek FA, Suderman M, ..., Bartels M, Boomsma DI
Mol. Psychiatry 26 (6) 2148-2162 [2021-06-00; online 2021-01-08]
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Cancer diagnostics based on plasma protein biomarkers: hard times but great expectations.
Landegren U, Hammond M
Mol Oncol 15 (6) 1715-1726 [2021-06-00; online 2020-11-17]
Affinity Proteomics Uppsala [Service]
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CO2 fertilization of Sphagnum peat mosses is modulated by water table level and other environmental factors.
Serk H, Nilsson MB, Figueira J, Wieloch T, Schleucher J
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Swedish NMR Centre (SNC) [Collaborative]
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Inflammation-related plasma protein levels and association with adiposity measurements in young adults.
Klevebro S, Björkander S, Ekström S, ..., Bergström A, Melén E
Sci Rep 11 (1) 11391 [2021-05-31; online 2021-05-31]
Affinity Proteomics Uppsala [Service]
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NK cells integrate signals over large areas when building immune synapses but require local stimuli for degranulation.
Verron Q, Forslund E, Brandt L, ..., Olofsson PE, Önfelt B
Sci Signal 14 (684) eabe2740 [2021-05-25; online 2021-05-25]
Integrated Microscopy Technologies Stockholm [Service]
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Genomic basis of parallel adaptation varies with divergence in Arabidopsis and its relatives.
Bohutínská M, Vlček J, Yair S, ..., Slotte T, Kolář F
Proc. Natl. Acad. Sci. U.S.A. 118 (21) - [2021-05-25; online 2021-05-19]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Divergent clonal differentiation trajectories establish CD8+ memory T cell heterogeneity during acute viral infections in humans.
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Cell Rep 35 (8) 109174 [2021-05-25; online 2021-05-27]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A combined approach for single-cell mRNA and intracellular protein expression analysis.
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Commun Biol 4 (1) 624 [2021-05-25; online 2021-05-25]
Affinity Proteomics Uppsala [Technology development] Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Trailblazing precision medicine in Europe: A joint view by Genomic Medicine Sweden and the Centers for Personalized Medicine, ZPM, in Germany.
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Clinical Genomics Lund [Service] Clinical Genomics Stockholm [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Crystal structure of a homotrimeric verrucomicrobial exo-β-1,4-mannosidase active in the hindgut of the wood-feeding termite Reticulitermes flavipes.
Kalyani DC, Reichenbach T, Keskitalo MM, ..., Aspeborg H, Divne C
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Cryo-EM [Collaborative]
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Adsorption of bio-organic eco-corona molecules reduces the toxic response to metallic nanoparticles in Daphnia magna.
Ekvall MT, Hedberg J, Odnevall Wallinder I, ..., Hansson LA, Cedervall T
Sci Rep 11 (1) 10784 [2021-05-24; online 2021-05-24]
Swedish NMR Centre (SNC) [Service]
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Stromal Heterogeneity in the Human Proliferative Endometrium-A Single-Cell RNA Sequencing Study.
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Jacobsson S, Golparian D, Oxelbark J, ..., Drusano G, Unemo M
Front Pharmacol 12 (-) 682135 [2021-05-21; online 2021-05-21]
Clinical Genomics Örebro [Collaborative]
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Virus Diversity and Loads in Crickets Reared for Feed: Implications for Husbandry.
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Front Vet Sci 8 (-) 642085 [2021-05-20; online 2021-05-20]
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Continent-wide genomic signatures of adaptation to urbanisation in a songbird across Europe.
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Nat Commun 12 (1) 2983 [2021-05-20; online 2021-05-20]
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Complement-Opsonized HIV Modulates Pathways Involved in Infection of Cervical Mucosal Tissues: A Transcriptomic and Proteomic Study.
Svanberg C, Ellegård R, Crisci E, ..., Shankar EM, Larsson M
Front Immunol 12 (-) 625649 [2021-05-20; online 2021-05-20]
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Which image-based phenotypes are most promising for using AI to understand cellular functions and why?
Lundberg E, Funke J, Uhlmann V, ..., Carpenter A, Coehlo LP
Cell Syst 12 (5) 384-387 [2021-05-19; online 2021-05-21]
Spatial Proteomics [Technology development]
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Size Variation of the Nonrecombining Region on the Mating-Type Chromosomes in the Fungal Podospora anserina Species Complex.
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Mol. Biol. Evol. 38 (6) 2475-2492 [2021-05-19; online 2021-02-09]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Integration of Mass Spectrometry Imaging and Machine Learning Visualizes Region-Specific Age-Induced and Drug-Target Metabolic Perturbations in the Brain.
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ACS Chem Neurosci 12 (10) 1811-1823 [2021-05-19; online 2021-05-03]
Spatial Mass Spectrometry [Technology development]
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X-chromosome variants are associated with aldosterone producing adenomas.
Dutta RK, Larsson M, Arnesen T, ..., Gimm O, Söderkvist P
Sci Rep 11 (1) 10562 [2021-05-18; online 2021-05-18]
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Symptoms and Functional Impairment Assessed 8 Months After Mild COVID-19 Among Health Care Workers.
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JAMA 325 (19) 2015-2016 [2021-05-18; online 2021-04-08]
Autoimmunity and Serology Profiling [Collaborative]
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Factors Affecting Detoxification of Softwood Enzymatic Hydrolysates Using Sodium Dithionite
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Processes 9 (5) 887 [2021-05-18; online 2021-05-18]
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Phage Biocontrol of Pseudomonas aeruginosa in Water.
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Viruses 13 (5) 928 [2021-05-17; online 2021-05-17]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Pulmonary fibrosis in relation to genetic loci in an inception cohort of patients with early rheumatoid arthritis from northern Sweden.
Jönsson E, Ljung L, Norrman E, ..., Dahlqvist J, Dahlqvist SR
Rheumatology (Oxford) - (-) - [2021-05-16; online 2021-05-16]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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A plasma lipid signature predicts incident coronary artery disease.
Ottosson F, Emami Khoonsari P, Gerl MJ, ..., Melander O, Fernandez C
Int. J. Cardiol. 331 (-) 249-254 [2021-05-15; online 2021-02-03]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Comprehensive dataset of shotgun metagenomes from oxygen stratified freshwater lakes and ponds.
Buck M, Garcia SL, Fernandez L, ..., Bertilsson S, Peura S
Sci Data 8 (1) 131 [2021-05-14; online 2021-05-14]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Ultralow amounts of DNA from long-term archived serum samples produce high-quality methylomes.
Wojewodzic MW, Leithaug M, Lauritzen M, ..., Grotmol T, Rounge TB
Clin Epigenetics 13 (1) 107 [2021-05-12; online 2021-05-12]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Progesterone Dampens Immune Responses in In Vitro Activated CD4+ T Cells and Affects Genes Associated With Autoimmune Diseases That Improve During Pregnancy.
Hellberg S, Raffetseder J, Rundquist O, ..., Ernerudh J, Gustafsson M
Front Immunol 12 (-) 672168 [2021-05-12; online 2021-05-12]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Dynamics of Auxin and Cytokinin Metabolism during Early Root and Hypocotyl Growth in Theobroma cacao.
Mboene Noah A, Casanova-Sáez R, Makondy Ango RE, ..., Niemenak N, Ljung K
Plants (Basel) 10 (5) - [2021-05-12; online 2021-05-12]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Freshwater Chlorobia Exhibit Metabolic Specialization among Cosmopolitan and Endemic Populations.
Garcia SL, Mehrshad M, Buck M, ..., Greening C, Peura S
mSystems 6 (3) - [2021-05-11; online 2021-05-11]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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NMR structural analysis of the yeast cytochrome c oxidase subunit Cox13 and its interaction with ATP.
Zhou S, Pettersson P, Björck ML, ..., Mäler L, Ädelroth P
BMC Biol. 19 (1) 98 [2021-05-10; online 2021-05-10]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
African and Asian leopards are highly differentiated at the genomic level.
Paijmans JLA, Barlow A, Becker MS, ..., Manica A, Hofreiter M
Curr. Biol. 31 (9) 1872-1882.e5 [2021-05-10; online 2021-04-12]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The Genetic Variation of Lactase Persistence Alleles in Sudan and South Sudan.
Hollfelder N, Babiker H, Granehäll L, Schlebusch CM, Jakobsson M
Genome Biol Evol 13 (5) - [2021-05-07; online 2021-03-25]
Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Effects of GC-Biased Gene Conversion on Patterns of Genetic Diversity among and across Butterfly Genomes.
Boman J, Mugal CF, Backström N
Genome Biol Evol 13 (5) - [2021-05-07; online 2021-03-25]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Metabolic Characterization of Plasma and Cyst Fluid from Cystic Precursors to Pancreatic Cancer Patients Reveal Metabolic Signatures of Bacterial Infection.
Morgell A, Reisz JA, Ateeb Z, ..., Chen MS, D'Alessandro A
J. Proteome Res. 20 (5) 2725-2738 [2021-05-07; online 2021-03-15]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
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INT-Hi-C reveals distinct chromatin architecture in endosperm and leaf tissues of Arabidopsis.
Yadav VK, Santos-González J, Köhler C
Nucleic Acids Res. 49 (8) 4371-4385 [2021-05-07; online 2021-03-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genetically determined NLRP3 inflammasome activation associates with systemic inflammation and cardiovascular mortality.
Schunk SJ, Kleber ME, März W, ..., eQTLGen consortium , BIOS consortium
Eur. Heart J. 42 (18) 1742-1756 [2021-05-07; online 2021-03-23]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Chromosome Level Assembly of the Comma Butterfly (Polygonia c-album).
Celorio-Mancera MP, Rastas P, Steward RA, Nylin S, Wheat CW
Genome Biol Evol 13 (5) - [2021-05-07; online 2021-03-23]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Serine Protease HTRA1 as a Novel Target Antigen in Primary Membranous Nephropathy.
Al-Rabadi LF, Caza T, Trivin-Avillach C, ..., Larsen C, Beck LH
J. Am. Soc. Nephrol. 32 (7) 1666-1681 [2021-05-05; online 2021-05-05]
Autoimmunity and Serology Profiling [Service]
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Plasma Protein Profile of Carotid Artery Atherosclerosis and Atherosclerotic Outcomes: Meta-Analyses and Mendelian Randomization Analyses.
Lind L, Gigante B, Borné Y, ..., Engström G, Mälarstig A
Arterioscler. Thromb. Vasc. Biol. 41 (5) 1777-1788 [2021-05-05; online 2021-03-04]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
The Subcellular Proteome of a Planctomycetes Bacterium Shows That Newly Evolved Proteins Have Distinct Fractionation Patterns.
Seeger C, Dyrhage K, Mahajan M, ..., Lind SB, Andersson SGE
Front Microbiol 12 (-) 643045 [2021-05-04; online 2021-05-04]
Cryo-EM [Service]
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How to Make a Rodent Giant: Genomic Basis and Tradeoffs of Gigantism in the Capybara, the World's Largest Rodent.
Herrera-Álvarez S, Karlsson E, Ryder OA, Lindblad-Toh K, Crawford AJ
Mol. Biol. Evol. 38 (5) 1715-1730 [2021-05-04; online 2020-11-11]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Discovery of an Allosteric Ligand Binding Site in SMYD3 Lysine Methyltransferase.
Talibov VO, Fabini E, FitzGerald EA, ..., Del Rio A, Danielson UH
ChemBioChem 22 (9) 1597-1608 [2021-05-04; online 2021-02-11]
Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
False Positive Results in SARS-CoV-2 Serological Tests for Samples From Patients With Chronic Inflammatory Diseases.
Kharlamova N, Dunn N, Bedri SK, ..., Fink K, Fogdell-Hahn A
Front Immunol 12 (-) 666114 [2021-05-03; online 2021-05-03]
Autoimmunity and Serology Profiling [Service]
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Activation of endogenous retroviruses during brain development causes an inflammatory response.
Jönsson ME, Garza R, Sharma Y, ..., Jern P, Jakobsson J
EMBO J. 40 (9) e106423 [2021-05-03; online 2021-03-01]
Bioinformatics Compute and Storage [Service] Clinical Genomics Lund [Service]
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Tissue-specific transcriptional imprinting and heterogeneity in human innate lymphoid cells revealed by full-length single-cell RNA-sequencing.
Mazzurana L, Czarnewski P, Jonsson V, ..., Almer S, Mjösberg J
Cell Res 31 (5) 554-568 [2021-05-00; online 2021-01-08]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The association between genetically determined ABO blood types and major depressive disorder.
Garvert L, Baune BT, Berger K, ..., Grabe HJ, Van der Auwera S
Psychiatry Res 299 (-) 113837 [2021-05-00; online 2021-02-24]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The Enterprise, a massive transposon carrying Spok meiotic drive genes.
Vogan AA, Ament-Velásquez SL, Bastiaans E, ..., Suh A, Johannesson H
Genome Res. 31 (5) 789-798 [2021-05-00; online 2021-04-19]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Stem girdling affects the onset of autumn senescence in aspen in interaction with metabolic signals.
Lihavainen J, Edlund E, Björkén L, ..., Robinson KM, Jansson S
Physiol Plantarum 172 (1) 201-217 [2021-05-00; online 2021-01-07]
Bioinformatics Compute and Storage [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Single-cell transcriptomics of human embryos identifies multiple sympathoblast lineages with potential implications for neuroblastoma origin.
Kameneva P, Artemov AV, Kastriti ME, ..., Kharchenko PV, Adameyko I
Nat. Genet. 53 (5) 694-706 [2021-05-00; online 2021-04-08]
Bioinformatics Compute and Storage [Service] Eukaryotic Single Cell Genomics (ESCG)
PubMed DOI Crossref
Serum metabolomic profiling correlated with ISS and clinical outcome for multiple myeloma patients treated with high-dose melphalan and autologous stem cell transplantation.
Veskovski L, Andersson PO, Turesson I, ..., Pedersen A, Mellqvist UH
Exp Hematol 97 (-) 79-88.e8 [2021-05-00; online 2021-02-18]
Swedish NMR Centre (SNC) [Collaborative]
DOI Crossref
Self-generation of low ash carbon microspheres from the hydrothermal supernatant of anaerobic digestate: Formation insights and supercapacitor performance
Latham KG, Kozyatnyk I, Figueira J, ..., Rosenbaum E, Jansson S
Chemical Engineering Journal Advances 6 (-) 100097 [2021-05-00; online 2021-05-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Prediction of complex phenotypes using the Drosophila melanogaster metabolome.
Rohde PD, Kristensen TN, Sarup P, Muñoz J, Malmendal A
Heredity (Edinb) 126 (5) 717-732 [2021-05-00; online 2021-01-28]
Swedish NMR Centre (SNC) [Service]
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Novel form of rhizomelic skeletal dysplasia associated with a homozygous variant in GNPNAT1.
Ain NU, Baroncelli M, Costantini A, ..., Mäkitie O, Naz S
J. Med. Genet. 58 (5) 351-356 [2021-05-00; online 2020-06-26]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
In vivo screen identifies a SIK inhibitor that induces β cell proliferation through a transient UPR.
Charbord J, Ren L, Sharma RB, ..., Alonso LC, Andersson O
Nat Metab 3 (5) 682-700 [2021-05-00; online 2021-05-20]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
ImageJ and CellProfiler: Complements in Open-Source Bioimage Analysis.
Dobson ETA, Cimini B, Klemm AH, ..., Carpenter AE, Eliceiri KW
Curr Protoc 1 (5) e89 [2021-05-00; online 2021-05-27]
BioImage Informatics [Collaborative]
PubMed DOI Crossref
Hybrid sequencing resolves two germline ultra-complex chromosomal rearrangements consisting of 137 breakpoint junctions in a single carrier.
Eisfeldt J, Pettersson M, Petri A, ..., Feuk L, Lindstrand A
Hum. Genet. 140 (5) 775-790 [2021-05-00; online 2020-12-14]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Histological and transcriptional characterization of the pancreatic acinar tissue in type 1 diabetes.
Granlund L, Hedin A, Wahlhütter M, ..., Skog O, Lundberg M
BMJ Open Diabetes Res Care 9 (1) - [2021-05-00; online 2021-05-26]
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Genetic basis of lacunar stroke: a pooled analysis of individual patient data and genome-wide association studies.
Traylor M, Persyn E, Tomppo L, ..., UK DNA Lacunar Stroke Study Investigators , International Stroke Genetics Consortium
Lancet Neurol 20 (5) 351-361 [2021-05-00; online 2021-03-25]
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Examination of how variations in lignin properties from Kraft and organosolv extraction influence the physicochemical characteristics of hydrothermal carbon
Latham KG, Matsakas L, Figueira J, ..., Christakopoulos P, Jansson S
Journal of Analytical and Applied Pyrolysis 155 (-) 105095 [2021-05-00; online 2021-05-00]
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Effects of liraglutide on the metabolism of triglyceride-rich lipoproteins in type 2 diabetes.
Taskinen MR, Björnson E, Matikainen N, ..., Packard CJ, Borén J
Diabetes Obes Metab 23 (5) 1191-1201 [2021-05-00; online 2021-03-05]
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Dual RNA-Seq transcriptome analysis of chicken macrophage-like cells (HD11) infected in vitro with Eimeria tenella.
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Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Dissolution of wood components during hot water extraction of birch
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Wood Sci Technol 55 (3) 811-835 [2021-05-00; online 2021-04-05]
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Comparison of DNA Methylation Profiles of Hemostatic Genes between Liver Tissue and Peripheral Blood within Individuals.
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Binding of the human antioxidation protein α1-microglobulin (A1M) to heparin and heparan sulfate. Mapping of binding site, molecular and functional characterization, and co-localization in vivo and in vitro.
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Genotypic Characterization of Clinical Klebsiella spp. Isolates Collected From Patients With Suspected Community-Onset Sepsis, Sweden.
Saxenborn P, Baxter J, Tilevik A, ..., Enroth H, Tilevik D
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Clinical Genomics Stockholm
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Subcellular proteomics.
Christopher JA, Stadler C, Martin CE, ..., Emili A, Lilley KS
Nat Rev Methods Primers 1 (1) - [2021-04-29; online 2021-04-29]
Spatial Proteomics [Technology development]
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Complete Genome Sequence of an Antimicrobial-Producing Bacillus velezensis Sam8H1 Isolate from the Makgadikgadi Saltpans of Botswana.
Modikwe G, Manoharan L, Mabutho G, ..., Lebogang L, Zhou N
Microbiol Resour Announc 10 (17) - [2021-04-29; online 2021-04-29]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Atypical presentation of Neisseria meningitidis serogroup W disease is associated with the introduction of the 2013 strain.
Säll O, Stenmark B, Jacobsson S, ..., Sundqvist M, Mölling P
Epidemiol. Infect. 149 (-) e126 [2021-04-29; online 2021-04-29]
Clinical Genomics Örebro [Collaborative]
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Sych T, Gurdap CO, Wedemann L, Sezgin E
Membranes 11 (5) 323 [2021-04-28; online 2021-04-28]
Integrated Microscopy Technologies Stockholm [Service]
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Cyanophage Diversity and Community Structure in Dead Zone Sediments.
Broman E, Holmfeldt K, Bonaglia S, Hall POJ, Nascimento FJA
mSphere 6 (2) - [2021-04-28; online 2021-04-28]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Small noncoding RNA profiling across cellular and biofluid compartments and their implications for multiple sclerosis immunopathology.
Zheleznyakova GY, Piket E, Needhamsen M, ..., Piehl F, Jagodic M
Proc. Natl. Acad. Sci. U.S.A. 118 (17) e2011574118 [2021-04-27; online 2021-04-22]
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Neutron reflectometry and NMR spectroscopy of full-length Bcl-2 protein reveal its membrane localization and conformation.
Mushtaq AU, Ådén J, Clifton LA, ..., Sparrman T, Gröbner G
Commun Biol 4 (1) 507 [2021-04-27; online 2021-04-27]
Swedish NMR Centre (SNC) [Collaborative]
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Inhibition of mitochondrial translation suppresses glioblastoma stem cell growth.
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Cell Rep 35 (4) 109024 [2021-04-27; online 2021-04-29]
Cryo-EM [Service]
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An introgressed gene causes meiotic drive in Neurospora sitophila.
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Proc. Natl. Acad. Sci. U.S.A. 118 (17) e2026605118 [2021-04-27; online 2021-04-21]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Middle Pleistocene genome calibrates a revised evolutionary history of extinct cave bears.
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Curr. Biol. 31 (8) 1771-1779.e7 [2021-04-26; online 2021-02-15]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Live Cell FRET Imaging Reveals Amyloid β-Peptide Oligomerization in Hippocampal Neurons.
Gao Y, Wennmalm S, Winblad B, Schedin-Weiss S, Tjernberg LO
Int J Mol Sci 22 (9) 4530 [2021-04-26; online 2021-04-26]
Integrated Microscopy Technologies Stockholm [Service]
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Nat Commun 12 (1) 2393 [2021-04-26; online 2021-04-26]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Entropy-Entropy Compensation between the Protein, Ligand, and Solvent Degrees of Freedom Fine-Tunes Affinity in Ligand Binding to Galectin-3C.
Wallerstein J, Ekberg V, Ignjatović MM, ..., Ryde U, Akke M
JACS Au 1 (4) 484-500 [2021-04-26; online 2021-04-01]
Swedish NMR Centre (SNC) [Collaborative]
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Bioimage analysis workflows: community resources to navigate through a complex ecosystem.
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F1000Res 10 (-) 320 [2021-04-26; online 2021-04-26]
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Danielsson H, Tebani A, Zhong W, ..., Uhlén M, Hellström A
Pediatr. Res. - (-) - [2021-04-24; online 2021-04-24]
Affinity Proteomics Stockholm [Service]
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Divergent airway microbiomes in lung transplant recipients with or without pulmonary infection.
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Respir. Res. 22 (1) 118 [2021-04-23; online 2021-04-23]
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Functional Diversity Facilitates Stability Under Environmental Changes in an Outdoor Microalgal Cultivation System.
Mattsson L, Sörenson E, Capo E, ..., Lindehoff E, Legrand C
Front Bioeng Biotechnol 9 (-) 651895 [2021-04-22; online 2021-04-22]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Clin Epigenetics 13 (1) 85 [2021-04-21; online 2021-04-21]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Wahlgren WY, Golonka D, Westenhoff S, Möglich A
Front Plant Sci 12 (-) 663751 [2021-04-21; online 2021-04-21]
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Persson Hodén K, Hu X, Martinez G, Dixelius C
Int J Mol Sci 22 (8) 4267 [2021-04-20; online 2021-04-20]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Rare deleterious mutations of HNRNP genes result in shared neurodevelopmental disorders.
Gillentine MA, Wang T, Hoekzema K, ..., Bernier RA, Eichler EE
Genome Med 13 (1) 63 [2021-04-19; online 2021-04-19]
Clinical Genomics Stockholm [Service]
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Genome Med 13 (1) 61 [2021-04-19; online 2021-04-19]
Clinical Genomics Örebro [Collaborative]
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Cross-oncopanel study reveals high sensitivity and accuracy with overall analytical performance depending on genomic regions.
Gong B, Li D, Kusko R, ..., Jones W, Xu J
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Clinical Genomics Stockholm [Collaborative]
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Swedish Metabolomics Centre (SMC) [Service] Swedish NMR Centre (SNC) [Collaborative]
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Active DNRA and denitrification in oxic hypereutrophic waters.
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Water Res. 194 (-) 116954 [2021-04-15; online 2021-02-21]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Rosengren MK, Sigurðardóttir H, Eriksson S, ..., Solé M, Lindgren G
BMC Genomics 22 (1) 267 [2021-04-14; online 2021-04-14]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
DOI Crossref
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Macromolecules 54 (7) 3507-3516 [2021-04-13; online 2021-03-19]
Swedish NMR Centre (SNC) [Service]
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DNA methylation in cord blood in association with prenatal depressive symptoms.
Kallak TK, Bränn E, Fransson E, ..., Lyle R, Skalkidou A
Clin Epigenetics 13 (1) 78 [2021-04-12; online 2021-04-12]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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PLoS ONE 16 (4) e0249830 [2021-04-08; online 2021-04-08]
Affinity Proteomics Uppsala [Service]
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CA10 regulates neurexin heparan sulfate addition via a direct binding in the secretory pathway.
Montoliu-Gaya L, Tietze D, Kaminski D, ..., Tietze AA, Sterky FH
EMBO Rep. 22 (4) e51349 [2021-04-07; online 2021-02-15]
Glycoproteomics [Collaborative] Swedish NMR Centre (SNC) [Service]
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Picton LD, Bertuzzi M, Pallucchi I, ..., Shearing PR, El Manira A
Neuron 109 (7) 1188-1201.e7 [2021-04-07; online 2021-02-11]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Serum proteins associated with periodontitis relapse post-surgery: A pilot study.
Esberg A, Isehed C, Holmlund A, Lindquist S, Lundberg P
J Periodontol - (-) - [2021-04-04; online 2021-04-04]
Affinity Proteomics Uppsala [Service]
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Using RELION software within the Scipion framework.
Sharov G, Morado DR, Carroni M, de la Rosa-Trevín JM
Acta Crystallogr D Struct Biol 77 (4) 403-410 [2021-04-01; online 2021-03-30]
Cryo-EM [Technology development]
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Monoallelic and bi-allelic variants in NCDN cause neurodevelopmental delay, intellectual disability, and epilepsy.
Fatima A, Hoeber J, Schuster J, ..., Klar J, Dahl N
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Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
Chemical Biology Consortium Sweden; Experiences in academic and industry partnerships – forging a path to translational drug discovery. - Book chapter
Gustavsson A, Chorell E
Burger's Medicinal Chemistry, Drug Discovery and Development, Volumes 1 - 8 Volume 3 (chapter 2) - [2021-04-01]
Chemical Biology Consortium Sweden (CBCS) [Technology development]
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Artificial intelligence for the classification of fractures around the knee in adults according to the 2018 AO/OTA classification system.
Lind A, Akbarian E, Olsson S, ..., Razavian AS, Gordon M
PLoS ONE 16 (4) e0248809 [2021-04-01; online 2021-04-01]
AIDA Data Hub [Service]
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Uncemented or cemented stems in first-time revision total hip replacement? An observational study of 867 patients including assessment of femoral bone defect size.
Tyson Y, Hillman C, Majenburg N, ..., Mohaddes M, Hailer NP
Acta Orthop 92 (2) 143-150 [2021-04-00; online 2020-11-12]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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The heart microbiome of insectivorous bats from Central and South Eastern Europe.
Corduneanu A, Mihalca AD, Sándor AD, ..., Viso NP, Bongcam-Rudloff E
Comp Immunol Microbiol Infect Dis 75 (-) 101605 [2021-04-00; online 2021-01-07]
Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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The effects of drift and selection on latitudinal genetic variation in Scandinavian common toads (Bufo bufo) following postglacial recolonisation.
Thörn F, Rödin-Mörch P, Cortazar-Chinarro M, ..., Laurila A, Höglund J
Heredity (Edinb) 126 (4) 656-667 [2021-04-00; online 2021-02-09]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Severe congenital lactic acidosis and hypertrophic cardiomyopathy caused by an intronic variant in NDUFB7.
Correia SP, Moedas MF, Naess K, ..., Wedell A, Wredenberg A
Hum. Mutat. 42 (4) 378-384 [2021-04-00; online 2021-02-04]
Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
PD-L1 and IDO1 are potential targets for treatment in patients with primary diffuse large B-cell lymphoma of the CNS.
Abdulla M, Alexsson A, Sundström C, ..., Hollander P, Amini R
Acta Oncol 60 (4) 531-538 [2021-04-00; online 2021-02-12]
Clinical Genomics Uppsala [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Novel Mutation m.10372A>G in MT-ND3 Causing Sensorimotor Axonal Polyneuropathy.
Bruhn H, Samuelsson K, Schober FA, ..., Wedell A, Wredenberg A
Neurol Genet 7 (2) e566 [2021-04-00; online 2021-03-15]
Bioinformatics Compute and Storage [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Modulation of Arabidopsis root growth by specialized triterpenes.
Bai Y, Fernández-Calvo P, Ritter A, ..., Goossens A, Pollier J
New Phytol. 230 (1) 228-243 [2021-04-00; online 2021-01-19]
Swedish Metabolomics Centre (SMC)
PubMed DOI Crossref
Meta-analysis uncovers genome-wide significant variants for rapid kidney function decline.
Gorski M, Jung B, Li Y, ..., Pattaro C, Heid IM
Kidney Int. 99 (4) 926-939 [2021-04-00; online 2020-10-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Machine learning-based investigation of the cancer protein secretory pathway.
Saghaleyni R, Sheikh Muhammad A, Bangalore P, Nielsen J, Robinson JL
PLoS Comput. Biol. 17 (4) e1008898 [2021-04-00; online 2021-04-05]
Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
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Life-Time Covariation of Major Cardiovascular Diseases: A 40-Year Longitudinal Study and Genetic Studies.
Lind L, Sundström J, Ärnlöv J, ..., Lumbers RT, Lampa E
Circ Genom Precis Med 14 (2) e002963 [2021-04-00; online 2021-02-26]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Later Stone Age human hair from Vaalkrans Shelter, Cape Floristic Region of South Africa, reveals genetic affinity to Khoe groups.
Coutinho A, Malmström H, Edlund H, ..., Schlebusch CM, Jakobsson M
Am. J. Phys. Anthropol. 174 (4) 701-713 [2021-04-00; online 2021-02-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Integrating omics to characterize eco-physiological adaptations: How moose diet and metabolism differ across biogeographic zones.
Fohringer C, Dudka I, Spitzer R, ..., Ericsson G, Singh NJ
Ecol Evol 11 (7) 3159-3183 [2021-04-00; online 2021-03-04]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Immune cells lacking Y chromosome show dysregulation of autosomal gene expression.
Dumanski JP, Halvardson J, Davies H, ..., Ryś J, Forsberg LA
Cell. Mol. Life Sci. 78 (8) 4019-4033 [2021-04-00; online 2021-04-10]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Illuminating Non-genetic Cellular Heterogeneity with Imaging-Based Spatial Proteomics.
Gnann C, Cesnik AJ, Lundberg E
Trends Cancer 7 (4) 278-282 [2021-04-00; online 2021-01-10]
Spatial Proteomics [Technology development]
PubMed DOI Crossref
Function of the pseudo phosphotransfer proteins has diverged between rice and Arabidopsis.
Vaughan-Hirsch J, Tallerday EJ, Burr CA, ..., Bishopp A, Kieber JJ
Plant J. 106 (1) 159-173 [2021-04-00; online 2021-02-08]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Experimental evidence of microbial inheritance in plants and transmission routes from seed to phyllosphere and root.
Abdelfattah A, Wisniewski M, Schena L, Tack AJM
Environ. Microbiol. 23 (4) 2199-2214 [2021-04-00; online 2021-01-21]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Development of a highly efficient 50K single nucleotide polymorphism genotyping array for the large and complex genome of Norway spruce (Picea abies L. Karst) by whole genome resequencing and its transferability to other spruce species.
Bernhardsson C, Zan Y, Chen Z, Ingvarsson PK, Wu HX
Mol Ecol Resour 21 (3) 880-896 [2021-04-00; online 2020-12-02]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Autoantibodies against the C-terminus of Lipopolysaccharide binding protein are elevated in young adults with psychiatric disease.
Just D, Rasmusson AJ, Nilsson P, ..., Månberg A, Cunningham JL
Psychoneuroendocrinology 126 (-) 105162 [2021-04-00; online 2021-02-04]
Affinity Proteomics Uppsala [Service] Autoimmunity and Serology Profiling [Collaborative] Cellular Immunomonitoring [Collaborative]
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A modified protein marker panel to identify four consensus molecular subtypes in colorectal cancer using immunohistochemistry.
Li X, Larsson P, Ljuslinder I, ..., Edin S, Palmqvist R
Pathol Res Pract 220 (-) 153379 [2021-04-00; online 2021-03-05]
Bioinformatics Compute and Storage [Service] Clinical Genomics Umeå [Collaborative]
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A fast and simple clearing and swelling protocol for 3D in-situ imaging of the kidney across scales.
Unnersjö-Jess D, Butt L, Höhne M, ..., Brismar H, Blom H
Kidney Int. 99 (4) 1010-1020 [2021-04-00; online 2020-12-05]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
Deletions on Chromosome Y and Downregulation of the SRY Gene in Tumor Tissue Are Associated with Worse Survival of Glioblastoma Patients.
Łysiak M, Smits A, Roodakker KR, ..., Söderkvist P, Malmström A
Cancers (Basel) 13 (7) - [2021-03-31; online 2021-03-31]
Clinical Genomics Linköping [Service]
PubMed DOI Crossref
The evolution of ancestral and species-specific adaptations in snowfinches at the Qinghai-Tibet Plateau.
Qu Y, Chen C, Chen X, ..., Zhang YE, Lei F
Proc. Natl. Acad. Sci. U.S.A. 118 (13) e2012398118 [2021-03-30; online 2021-03-24]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
The associations between red cell distribution width and plasma proteins in a general population.
Pan J, Borné Y, Orho-Melander M, ..., Melander O, Engström G
Clin Proteomics 18 (1) 12 [2021-03-30; online 2021-03-30]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Multiple migrations to the Philippines during the last 50,000 years.
Larena M, Sanchez-Quinto F, Sjödin P, ..., Endicott P, Jakobsson M
Proc. Natl. Acad. Sci. U.S.A. 118 (13) - [2021-03-30; online 2021-03-24]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Estrogen Receptor Beta Influences the Inflammatory p65 Cistrome in Colon Cancer Cells.
Indukuri R, Hases L, Archer A, Williams C
Front Endocrinol (Lausanne) 12 (-) 650625 [2021-03-30; online 2021-03-30]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
High-Throughput and Automated Acoustic Trapping of Extracellular Vesicles to Identify microRNAs With Diagnostic Potential for Prostate Cancer.
Ku A, Fredsøe J, Sørensen KD, ..., Lilja H, Ceder Y
Front Oncol 11 (-) 631021 [2021-03-25; online 2021-03-25]
Bioinformatics Compute and Storage [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Case Report: A Novel Mutation in the Mitochondrial MT-ND5 Gene Is Associated With Leber Hereditary Optic Neuropathy (LHON).
Engvall M, Kawasaki A, Carelli V, ..., Wedell A, Träisk F
Front Neurol 12 (-) 652590 [2021-03-25; online 2021-03-25]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Methodological considerations for identifying multiple plasma proteins associated with all-cause mortality in a population-based prospective cohort.
Drake I, Hindy G, Almgren P, ..., Melander O, Orho-Melander M
Sci Rep 11 (1) 6734 [2021-03-24; online 2021-03-24]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Genotyping Strategies Using ddRAD Sequencing in Farmed Arctic Charr (Salvelinus alpinus).
Pappas F, Palaiokostas C
Animals (Basel) 11 (3) - [2021-03-21; online 2021-03-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Domain Mapping of Chondroitin/Dermatan Sulfate Glycosaminoglycans Enables Structural Characterization of Proteoglycans.
Persson A, Nikpour M, Vorontsov E, Nilsson J, Larson G
Mol. Cell Proteomics 20 (-) 100074 [2021-03-20; online 2021-03-20]
Glycoproteomics [Collaborative]
PubMed DOI Crossref
SOCS3 Expression by Thymic Stromal Cells Is Required for Normal T Cell Development.
Gao Y, Liu R, He C, ..., Carow B, Rottenberg ME
Front Immunol 12 (-) 642173 [2021-03-18; online 2021-03-18]
Global Proteomics and Proteogenomics [Collaborative]
PubMed DOI Crossref
Proteomic blood profiling in mild, severe and critical COVID-19 patients.
Patel H, Ashton NJ, Dobson RJB, ..., Gisslen M, Zetterberg H
Sci Rep 11 (1) 6357 [2021-03-18; online 2021-03-18]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Genome-wide methylome analysis of two strains belonging to the hypervirulent Neisseria meningitidis serogroup W ST-11 clonal complex.
Stenmark B, Eriksson L, Thulin Hedberg S, ..., Roberts RJ, Mölling P
Sci Rep 11 (1) 6239 [2021-03-18; online 2021-03-18]
Clinical Genomics Örebro [Technology development]
PubMed DOI Crossref
PRDM16 regulates a temporal transcriptional program to promote progression of cortical neural progenitors.
He L, Jones J, He W, ..., Wen J, Dai Q
Development 148 (6) - [2021-03-17; online 2021-03-17]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Integration of whole genome sequencing into a healthcare setting: high diagnostic rates across multiple clinical entities in 3219 rare disease patients.
Stranneheim H, Lagerstedt-Robinson K, Magnusson M, ..., Lindstrand A, Wedell A
Genome Med 13 (1) 40 [2021-03-17; online 2021-03-17]
Clinical Genomics Stockholm [Collaborative]
PubMed DOI Crossref
Virological and immunological features of SARS-CoV-2-infected children who develop neutralizing antibodies.
Cotugno N, Ruggiero A, Bonfante F, ..., De Rossi A, Palma P
Cell Rep 34 (11) 108852 [2021-03-16; online 2021-03-18]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Reproducible, portable, and efficient ancient genome reconstruction with nf-core/eager.
Fellows Yates JA, Lamnidis TC, Borry M, ..., Neukamm J, Peltzer A
PeerJ 9 (-) e10947 [2021-03-16; online 2021-03-16]
NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Expansions of adaptive-like NK cells with a tissue-resident phenotype in human lung and blood.
Brownlie D, Scharenberg M, Mold JE, ..., Marquardt N, Michaëlsson J
Proc. Natl. Acad. Sci. U.S.A. 118 (11) e2016580118 [2021-03-16; online 2021-04-11]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Quantifying absolute gene expression profiles reveals distinct regulation of central carbon metabolism genes in yeast.
Yu R, Vorontsov E, Sihlbom C, Nielsen J
Elife 10 (-) - [2021-03-15; online 2021-03-15]
Glycoproteomics [Service]
PubMed DOI Crossref
Circulating proteins associated with allergy development in infants-an exploratory analysis.
Stockfelt M, Hong M, Hesselmar B, ..., Lundell A, Rudin A
Clin Proteomics 18 (1) 11 [2021-03-15; online 2021-03-15]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Transcriptional analysis of islets of Langerhans from organ donors of different ages.
Seiron P, Stenwall A, Hedin A, ..., Lundberg M, Skog O
PLoS ONE 16 (3) e0247888 [2021-03-12; online 2021-03-12]
Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Neisseria gonorrhoeae Sequence Typing for Antimicrobial Resistance (NG-STAR) clonal complexes are consistent with genomic phylogeny and provide simple nomenclature, rapid visualization and antimicrobial resistance (AMR) lineage predictions.
Golparian D, Sánchez-Busó L, Cole M, Unemo M
J. Antimicrob. Chemother. 76 (4) 940-944 [2021-03-12; online 2021-01-08]
Clinical Genomics Örebro [Technology development]
PubMed DOI Crossref
The chemical composition and antioxidant activity of mandaçaia (melipona quadrifasciata) geopropolis varies more due to region than month of collection.
Gabriel MB, Carneiro MJ, de Camargo RCR, Sawaya ACHF
Nat Prod Res - (-) 1-5 [2021-03-10; online 2021-03-10]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
The Fennoscandian Shield deep terrestrial virosphere suggests slow motion 'boom and burst' cycles.
Holmfeldt K, Nilsson E, Simone D, ..., Bertilsson S, Dopson M
Commun Biol 4 (1) 307 [2021-03-08; online 2021-03-08]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Single cell transcriptomics of primate sensory neurons identifies cell types associated with chronic pain.
Kupari J, Usoskin D, Parisien M, ..., Diatchenko L, Ernfors P
Nat Commun 12 (1) 1510 [2021-03-08; online 2021-03-08]
Bioinformatics Compute and Storage [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Insight into Functional Membrane Proteins by Solution NMR: The Human Bcl-2 Protein-A Promising Cancer Drug Target.
Ul Mushtaq A, Ådén J, Sparrman T, Hedenström M, Gröbner G
Molecules 26 (5) 1467 [2021-03-08; online 2021-03-08]
Chemical Biology Consortium Sweden (CBCS) [Service] Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Heterogeneous Hunter-Gatherer and Steppe-Related Ancestries in Late Neolithic and Bell Beaker Genomes from Present-Day France.
Seguin-Orlando A, Donat R, Der Sarkissian C, ..., Guilaine J, Orlando L
Curr. Biol. 31 (5) 1072-1083.e10 [2021-03-08; online 2021-01-13]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Sperm Methylome Profiling Can Discern Fertility Levels in the Porcine Biomedical Model.
Pértille F, Alvarez-Rodriguez M, da Silva AN, ..., Guerrero-Bosagna C, Rodriguez-Martinez H
Int J Mol Sci 22 (5) 2679 [2021-03-06; online 2021-03-06]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Prevalence of germline pathogenic variants in 22 cancer susceptibility genes in Swedish pediatric cancer patients.
von Stedingk K, Stjernfelt KJ, Kvist A, ..., Olsson H, Øra I
Sci Rep 11 (1) 5307 [2021-03-05; online 2021-03-05]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
OmicLoupe: facilitating biological discovery by interactive exploration of multiple omic datasets and statistical comparisons.
Willforss J, Siino V, Levander F
BMC Bioinformatics 22 (1) 107 [2021-03-04; online 2021-03-04]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
NMR Structure and Dynamics Studies of Yeast Respiratory Supercomplex Factor 2.
Zhou S, Pettersson P, Huang J, ..., Mäler L, Ädelroth P
Structure 29 (3) 275-283.e4 [2021-03-04; online 2020-09-08]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Effluent solids recirculation to municipal sludge digesters enhances long-chain fatty acids degradation capacity.
Shakeri Yekta S, Liu T, Mendes Anacleto T, ..., Björn A, Schnürer A
Biotechnol Biofuels 14 (1) 56 [2021-03-04; online 2021-03-04]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Antibodies to SARS-CoV-2 and risk of past or future sick leave.
Dillner J, Elfström KM, Blomqvist J, ..., Mühr LSA, Conneryd Lundgren K
Sci Rep 11 (1) 5160 [2021-03-04; online 2021-03-04]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
A two-tiered targeted proteomics approach to identify pre-diagnostic biomarkers of colorectal cancer risk.
Harlid S, Harbs J, Myte R, ..., Liu X, Van Guelpen B
Sci Rep 11 (1) 5151 [2021-03-04; online 2021-03-04]
Affinity Proteomics Uppsala [Service]
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Divergence in Coding Sequence and Expression of Different Functional Categories of Immune Genes between Two Wild Rodent Species.
Zhong X, Lundberg M, Råberg L
Genome Biol Evol 13 (3) - [2021-03-01; online 2021-02-11]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Comparative analysis of targeted next-generation sequencing panels for the detection of gene mutations in chronic lymphocytic leukemia: an ERIC multi-center study.
Sutton L, Ljungström V, Enjuanes A, ..., Stamatopoulos K, Rosenquist R
Haematologica 106 (3) 682-691 [2021-03-01; online 2021-03-01]
Clinical Genomics Uppsala [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Whole-genome analyses provide no evidence for dog introgression in Fennoscandian wolf populations.
Smeds L, Aspi J, Berglund J, ..., Tirronen K, Ellegren H
Evol Appl 14 (3) 721-734 [2021-03-00; online 2020-11-09]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics.
Muus C, Luecken MD, Eraslan G, ..., NHLBI LungMap Consortium , Human Cell Atlas Lung Biological Network
Nat. Med. 27 (3) 546-559 [2021-03-00; online 2021-03-02]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Serum choline in extremely preterm infants declines with increasing parenteral nutrition.
Nilsson AK, Pedersen A, Malmodin D, ..., Pupp IH, Hellström A
Eur J Nutr 60 (2) 1081-1089 [2021-03-00; online 2020-06-25]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
RNA transcript response by an Acidithiobacillus spp. mixed culture reveals adaptations to growth on arsenopyrite.
Barragán CE, Márquez MA, Dopson M, Montoya D
Extremophiles 25 (2) 143-158 [2021-03-00; online 2021-02-22]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Plasma oxylipin levels associated with preterm birth in preterm labor✰.
Svenvik M, Raffetseder J, Brudin L, ..., Ernerudh J, Nording ML
Prostaglandins, Leukotrienes and Essential Fatty Acids (PLEFA) 166 (-) 102251 [2021-03-00; online 2021-01-23]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Plasma metabolomics of presymptomatic PSEN1-H163Y mutation carriers: a pilot study.
Natarajan K, Ullgren A, Khoshnood B, ..., Blennow K, Graff C
Ann Clin Transl Neurol 8 (3) 579-591 [2021-03-00; online 2021-01-21]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Million-year-old DNA sheds light on the genomic history of mammoths.
van der Valk T, Pečnerová P, Díez-Del-Molino D, ..., Götherström A, Dalén L
Nature 591 (7849) 265-269 [2021-03-00; online 2021-02-17]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Integrating the evidence for a terrestrial carbon sink caused by increasing atmospheric CO2.
Walker AP, De Kauwe MG, Bastos A, ..., Whelan ME, Zuidema PA
New Phytol. 229 (5) 2413-2445 [2021-03-00; online 2020-10-21]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Inflammatory bowel disease and risk of severe COVID-19: A nationwide population-based cohort study in Sweden.
Ludvigsson JF, Axelrad J, Halfvarson J, ..., Söderling J, Olén O
United European Gastroenterol J 9 (2) 177-192 [2021-03-00; online 2021-03-11]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Evaluation of the prognostic value of GDF-15, ABC-AF-bleeding score and ABC-AF-death score in patients with atrial fibrillation across different geographical areas.
Pol T, Hijazi Z, Lindbäck J, ..., Siegbahn A, Wallentin L
Open Heart 8 (1) - [2021-03-00; online 2021-03-21]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Escherichia coli EC93 deploys two plasmid-encoded class I contact-dependent growth inhibition systems for antagonistic bacterial interactions.
Wäneskog M, Halvorsen T, Filek K, ..., Poole SJ, Koskiniemi S
Microb Genom 7 (3) - [2021-03-00; online 2021-03-01]
Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Decadal nitrogen addition alters chemical composition of soil organic matter in a boreal forest
Hasegawa S, Marshall J, Sparrman T, Näsholm T
Geoderma 386 (-) 114906 [2021-03-00; online 2021-03-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Cyclin A2 localises in the cytoplasm at the S/G2 transition to activate PLK1.
Silva Cascales H, Burdova K, Middleton A, ..., Macurek L, Lindqvist A
Life Sci. Alliance 4 (3) e202000980 [2021-03-00; online 2021-01-05]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Changes in Circulating Cytokines and Adipokines After RYGB in Patients with and without Type 2 Diabetes.
Katsogiannos P, Kamble PG, Pereira MJ, ..., Eriksson JW, Espes D
Obesity (Silver Spring) 29 (3) 535-542 [2021-03-00; online 2021-02-25]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Benchmarking accuracy and precision of intensity-based absolute quantification of protein abundances in Saccharomyces cerevisiae.
Sánchez BJ, Lahtvee PJ, Campbell K, ..., Zelezniak A, Nielsen J
Proteomics 21 (6) e2000093 [2021-03-00; online 2021-02-23]
Glycoproteomics [Service]
PubMed DOI Crossref
Allergome-wide peptide microarrays enable epitope deconvolution in allergen-specific immunotherapy.
Mikus M, Zandian A, Sjöberg R, ..., van Hage M, Ohlin M
J. Allergy Clin. Immunol. 147 (3) 1077-1086 [2021-03-00; online 2020-08-10]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Abundantly expressed class of noncoding RNAs conserved through the multicellular evolution of dictyostelid social amoebas.
Kjellin J, Avesson L, Reimegård J, ..., Schaap P, Söderbom F
Genome Res. 31 (3) 436-447 [2021-03-00; online 2021-01-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
System-wide identification and prioritization of enzyme substrates by thermal analysis.
Saei AA, Beusch CM, Sabatier P, ..., Schüler H, Zubarev RA
Nat Commun 12 (1) 1296 [2021-02-26; online 2021-02-26]
Chemical Proteomics [Technology development]
PubMed DOI Crossref
Identification of a conserved virion-stabilizing network inside the interprotomer pocket of enteroviruses.
Flatt JW, Domanska A, Seppälä AL, Butcher SJ
Commun Biol 4 (1) 250 [2021-02-26; online 2021-02-26]
Cryo-EM [Service]
DOI Crossref
Highly Soluble CsPbBr3 Perovskite Quantum Dots for Solution-Processed Light-Emission Devices
Liu Y, Tang S, Fan J, ..., Edman L, Wang J
ACS Appl. Nano Mater. 4 (2) 1162-1174 [2021-02-26; online 2021-01-13]
Cryo-EM [Service]
PubMed DOI Crossref
Peptidoglycan-Binding Anchor Is a Pseudomonas aeruginosa OmpA Family Lipoprotein With Importance for Outer Membrane Vesicles, Biofilms, and the Periplasmic Shape.
Paulsson M, Kragh KN, Su YC, ..., Bjarnsholt T, Riesbeck K
Front Microbiol 12 (-) 639582 [2021-02-25; online 2021-02-25]
Cryo-EM [Service]
PubMed DOI Crossref
Vibrio cholerae cytotoxin MakA induces noncanonical autophagy resulting in the spatial inhibition of canonical autophagy.
Corkery DP, Nadeem A, Aung KM, ..., Wai SN, Wu YW
J. Cell. Sci. 134 (5) jcs.252015 [2021-02-23; online 2021-02-23]
Cryo-EM [Service]
PubMed DOI Crossref
Challenging conventional karyotyping by next-generation karyotyping in 281 intensively treated patients with AML.
Mareschal S, Palau A, Lindberg J, ..., Grönberg H, Lehmann S
Blood Adv 5 (4) 1003-1016 [2021-02-23; online 2021-02-17]
Bioinformatics Compute and Storage [Service] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Mechanism of membrane-tethered mitochondrial protein synthesis.
Itoh Y, Andréll J, Choi A, ..., Battersby BJ, Amunts A
Science 371 (6531) 846-849 [2021-02-19; online 2021-02-20]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Continuous human uterine NK cell differentiation in response to endometrial regeneration and pregnancy.
Strunz B, Bister J, Jönsson H, ..., Ivarsson MA, Björkström NK
Sci Immunol 6 (56) eabb7800 [2021-02-19; online 2021-02-19]
Cellular Immunomonitoring [Service]
PubMed DOI Crossref
Sheep nemabiome diversity and its response to anthelmintic treatment in Swedish sheep herds.
Halvarsson P, Höglund J
Parasit Vectors 14 (1) 114 [2021-02-18; online 2021-02-18]
Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Distinct mechanisms of resistance to fulvestrant treatment dictate level of ER independence and selective response to CDK inhibitors in metastatic breast cancer.
Kaminska K, Akrap N, Staaf J, ..., Bosch A, Honeth G
Breast Cancer Res. 23 (1) 26 [2021-02-18; online 2021-02-18]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
Characterization of the nuclear and cytosolic transcriptomes in human brain tissue reveals new insights into the subcellular distribution of RNA transcripts.
Zaghlool A, Niazi A, Björklund ÅK, ..., Ameur A, Feuk L
Sci Rep 11 (1) 4076 [2021-02-18; online 2021-02-18]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Elastin-like recombinamers-based hydrogel modulates post-ischemic remodeling in a non-transmural myocardial infarction in sheep.
Contessotto P, Orbanić D, Da Costa M, ..., Rodríguez-Cabello JC, Pandit A
Sci Transl Med 13 (581) - [2021-02-17; online 2021-02-19]
Glycoproteomics [Service]
PubMed DOI Crossref
Overexpression of vesicle-associated membrane protein PttVAP27-17 as a tool to improve biomass production and the overall saccharification yields in Populus trees.
Gandla ML, Mähler N, Escamez S, ..., Tuominen H, Jönsson LJ
Biotechnol Biofuels 14 (1) 43 [2021-02-16; online 2021-02-16]
Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
Mode of Action of Disinfection Chemicals on the Bacterial Spore Structure and Their Raman Spectra.
Malyshev D, Dahlberg T, Wiklund K, ..., Henriksson S, Andersson M
Anal. Chem. 93 (6) 3146-3153 [2021-02-16; online 2021-02-01]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Comparative Fungal Community Analyses Using Metatranscriptomics and Internal Transcribed Spacer Amplicon Sequencing from Norway Spruce.
Schneider AN, Sundh J, Sundström G, ..., Hurry V, Street NR
mSystems 6 (1) - [2021-02-16; online 2021-02-16]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Distinct subtypes of proprioceptive dorsal root ganglion neurons regulate adaptive proprioception in mice.
Wu H, Petitpré C, Fontanet P, ..., Hadjab S, Lallemend F
Nat Commun 12 (1) 1026 [2021-02-15; online 2021-02-15]
Bioinformatics Compute and Storage [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Disassociated molecular orientation distributions of a composite cellulose-lignin carbon fiber precursor: A study by rotor synchronized NMR spectroscopy and X-ray scattering.
Svenningsson L, Bengtsson J, Jedvert K, ..., Theliander H, Evenäs L
Carbohydr Polym 254 (-) 117293 [2021-02-15; online 2020-11-08]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Combined removal of organic micropollutants and ammonium in reactive barriers developed for managed aquifer recharge.
Modrzyński JJ, Aamand J, Wittorf L, ..., Hallin S, Albers CN
Water Res. 190 (-) 116669 [2021-02-15; online 2020-11-25]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Asymmetric introgression reveals the genetic architecture of a plumage trait.
Semenov GA, Linck E, Enbody ED, ..., Andersson L, Taylor SA
Nat Commun 12 (1) 1019 [2021-02-15; online 2021-02-15]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Association between breast cancer risk and disease aggressiveness: Characterizing underlying gene expression patterns.
Ugalde-Morales E, Grassmann F, Humphreys K, ..., Hall P, Czene K
Int. J. Cancer 148 (4) 884-894 [2021-02-15; online 2020-09-05]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Temperature Stress Induces Shift From Co-Existence to Competition for Organic Carbon in Microalgae-Bacterial Photobioreactor Community - Enabling Continuous Production of Microalgal Biomass.
Sörenson E, Capo E, Farnelid H, Lindehoff E, Legrand C
Front Microbiol 12 (-) 607601 [2021-02-11; online 2021-02-11]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
DOI Crossref
Using Isopropanol as a Capping Agent in the Hydrothermal Liquefaction of Kraft Lignin in Near-Critical Water
Ahlbom A, Maschietti M, Nielsen R, ..., Hasani M, Theliander H
Energies 14 (4) 932 [2021-02-10; online 2021-02-10]
Swedish NMR Centre (SNC) [Service]
DOI Crossref
Neuromesodermal progenitor origin of trunk neural crest in vivo
Lukoseviciute M, Mayes S, Sauka-Spengler T
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Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
A novel canine reference genome resolves genomic architecture and uncovers transcript complexity.
Wang C, Wallerman O, Arendt ML, ..., Meadows JRS, Lindblad-Toh K
Commun Biol 4 (1) 185 [2021-02-10; online 2021-02-10]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Major alterations in the mononuclear phagocyte landscape associated with COVID-19 severity.
Kvedaraite E, Hertwig L, Sinha I, ..., Svensson M, Karolinska KI/K COVID-19 Study Group
Proc. Natl. Acad. Sci. U.S.A. 118 (6) e2018587118 [2021-02-09; online 2021-01-23]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Genomic characterization of relapsed acute myeloid leukemia reveals novel putative therapeutic targets.
Stratmann S, Yones SA, Mayrhofer M, ..., Cavelier L, Holmfeldt L
Blood Adv 5 (3) 900-912 [2021-02-09; online 2021-02-10]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics Uppsala [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The structure of human dermatan sulfate epimerase 1 emphasizes the importance of C5-epimerization of glucuronic acid in higher organisms.
Hasan M, Khakzad H, Happonen L, ..., Malmström A, Tykesson E
Chem. Sci. 12 (5) 1869-1885 [2021-02-07; online 2020-12-08]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
multiclassPairs: An R package to train multiclass pairbased classifier.
Marzouka NA, Eriksson P
Bioinformatics - (-) - [2021-02-05; online 2021-02-05]
Clinical Genomics Lund [Service]
DOI Crossref
Five hours total sleep deprivation does not affect CA1 dendritic length or spine density
Brodin ATS, Gabulya S, Wellfelt K, Karlsson TE
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Integrated Microscopy Technologies Stockholm [Service]
DOI Crossref
Transport Properties and Local Structure of an Imidazole/Protic Ionic Liquid Mixture Confined in the Mesopores of Hydrophobic Silica
Vavra S, Elamin K, Evenäs L, Martinelli A
J. Phys. Chem. C 125 (4) 2607-2618 [2021-02-04; online 2021-01-27]
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Signaling Mechanism of Phytochromes in Solution.
Isaksson L, Gustavsson E, Persson C, ..., Orekhov V, Westenhoff S
Structure 29 (2) 151-160.e3 [2021-02-04; online 2020-09-10]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Cell-free tumour DNA analysis detects copy number alterations in gastro-oesophageal cancer patients.
Wallander K, Eisfeldt J, Lindblad M, ..., Liedén A, Tham E
PLoS ONE 16 (2) e0245488 [2021-02-04; online 2021-02-04]
Bioinformatics Compute and Storage [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Sex Disparities in MGMT Promoter Methylation and Survival in Glioblastoma: Further Evidence from Clinical Cohorts.
Smits A, Lysiak M, Magnusson A, ..., Söderkvist P, Malmström A
J Clin Med 10 (4) - [2021-02-03; online 2021-02-03]
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PubMed DOI Crossref
Plasma proteome profiling of cardiotoxicity in patients with diffuse large B-cell lymphoma.
Mörth C, Sabaa AA, Freyhult E, ..., Eriksson A, Enblad G
Cardiooncology 7 (1) 6 [2021-02-03; online 2021-02-03]
Affinity Proteomics Uppsala [Service]
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Halophytophthora fluviatilis Pathogenicity and Distribution along a Mediterranean-Subalpine Gradient.
Caballol M, Štraus D, Macia H, ..., Redondo MÁ, Oliva J
JoF 7 (2) 112 [2021-02-03; online 2021-02-03]
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Genomic Evidence of an Ancient East Asian Divergence Event in Wild Saccharomyces cerevisiae.
Bendixsen DP, Gettle N, Gilchrist C, Zhang Z, Stelkens R
Genome Biol Evol 13 (2) - [2021-02-03; online 2021-01-13]
Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Multiplexed single-cell mass cytometry reveals distinct inhibitory effects on intracellular phosphoproteins by midostaurin in combination with chemotherapy in AML cells.
Rörby E, Adolfsson J, Hultin E, ..., Cammenga J, Jönsson JI
Exp Hematol Oncol 10 (1) 7 [2021-02-02; online 2021-02-02]
Cellular Immunomonitoring [Service]
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Soluble TatA forms oligomers that interact with membranes: Structure and insertion studies of a versatile protein transporter.
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Proactive Construction of an Annotated Imaging Database for Artificial Intelligence Training.
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In Situ Assembly of Choline Acetyltransferase Ligands by a Hydrothiolation Reaction Reveals Key Determinants for Inhibitor Design.
Wiktelius D, Allgardsson A, Bergström T, ..., Linusson A, Ekström F
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