Publications 2021

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892 publications

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
Endogenous Levels of Gamma Amino-Butyric Acid Are Correlated to Glutamic-Acid Decarboxylase Antibody Levels in Type 1 Diabetes.
Hill H, Elksnis A, Lundkvist P, ..., Carlsson PO, Espes D
Biomedicines 10 (1) - [2021-12-31; online 2021-12-31]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Biased TCR gene usage in citrullinated Tenascin C specific T-cells in rheumatoid arthritis.
Sharma RK, Boddul SV, Yoosuf N, ..., Klareskog L, Malmström V
Sci Rep 11 (1) 24512 [2021-12-31; online 2021-12-31]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exploring bycatch diversity of organisms in whole genome sequencing of Erebidae moths (Lepidoptera).
Ghanavi HR, Twort VG, Duplouy A
Sci Rep 11 (1) 24499 [2021-12-30; online 2021-12-30]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Immunoprofiling of active and inactive systemic juvenile idiopathic arthritis reveals distinct biomarkers: a single-center study.
Qu H, Sundberg E, Aulin C, ..., Olsson M, Harris HE
Pediatr Rheumatol Online J 19 (1) 173 [2021-12-28; online 2021-12-28]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Whole-Exome Sequencing of HPV Positive Tonsillar and Base of Tongue Squamous Cell Carcinomas Reveals a Global Mutational Pattern along with Relapse-Specific Somatic Variants.
Ährlund-Richter A, Holzhauser S, Dalianis T, Näsman A, Mints M
Cancers (Basel) 14 (1) - [2021-12-24; online 2021-12-24]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Structure and ion-release mechanism of PIB-4-type ATPases.
Grønberg C, Hu Q, Mahato DR, ..., Wang K, Gourdon P
Elife 10 (-) - [2021-12-24; online 2021-12-24]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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
Structural Analysis of Botulinum Neurotoxins Type B and E by Cryo-EM.
Košenina S, Martínez-Carranza M, Davies JR, Masuyer G, Stenmark P
Toxins (Basel) 14 (1) - [2021-12-23; online 2021-12-23]
Cryo-EM [Service]
PubMed DOI Crossref
Pan-AMPK activator O304 prevents gene expression changes and remobilisation of histone marks in islets of diet-induced obese mice.
López-Pérez A, Norlin S, Steneberg P, ..., Edlund H, Hörnblad A
Sci Rep 11 (1) 24410 [2021-12-23; online 2021-12-23]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Localization and Absolute Quantification of Dopamine in Discrete Intravesicular Compartments Using NanoSIMS Imaging.
Rabasco S, Nguyen TDK, Gu C, ..., Phan NTN, Ewing AG
Int J Mol Sci 23 (1) - [2021-12-23; online 2021-12-23]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Taxon-Specific Shifts in Bacterial and Archaeal Transcription of Dissolved Organic Matter Cycling Genes in a Stratified Fjord.
Pontiller B, Pérez-Martínez C, Bunse C, ..., Lundin D, Pinhassi J
mSystems 6 (6) e0057521 [2021-12-21; online 2021-12-14]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed 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
Adaptations in metabolism and protein translation give rise to the Crabtree effect in yeast.
Malina C, Yu R, Björkeroth J, Kerkhoven EJ, Nielsen J
Proc. Natl. Acad. Sci. U.S.A. 118 (51) - [2021-12-21; online 2021-12-15]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Chitinase 3 like 1 is a regulator of smooth muscle cell physiology and atherosclerotic lesion stability.
Tsantilas P, Lao S, Wu Z, ..., Maegdefessel L, Leeper NJ
Cardiovasc. Res. 117 (14) 2767-2780 [2021-12-17; online 2021-01-21]
Global Proteomics and Proteogenomics [Service]
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
C3a Receptor Signaling Inhibits Neurodegeneration Induced by Neonatal Hypoxic-Ischemic Brain Injury.
Pozo-Rodrigálvarez A, Li Y, Stokowska A, ..., Pekny M, Pekna M
Front Immunol 12 (-) 768198 [2021-12-17; online 2021-12-17]
Integrated Microscopy Technologies Gothenburg [Service]
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 [Service]
PubMed DOI Crossref
Phytoplankton settling quality has a subtle but significant effect on sediment microeukaryotic and bacterial communities.
Albert S, Hedberg P, Motwani NH, ..., Winder M, Nascimento FJA
Sci Rep 11 (1) 24033 [2021-12-15; online 2021-12-15]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of Novel Neurocircuitry Through Which Leptin Targets Multiple Inputs to the Dopamine System to Reduce Food Reward Seeking.
Omrani A, de Vrind VAJ, Lodder B, ..., Meye FJ, Adan RAH
Biol. Psychiatry 90 (12) 843-852 [2021-12-15; online 2021-02-23]
Integrated Microscopy Technologies Gothenburg [Service]
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 (-) - [2021-12-13; online 2021-12-13]
CRISPR Functional Genomics [Collaborative]
PubMed DOI Crossref
A polygenic risk score predicts mosaic loss of chromosome Y in circulating blood cells.
Riaz M, Mattisson J, Polekhina G, ..., Forsberg LA, Lacaze P
Cell Biosci 11 (1) 205 [2021-12-12; online 2021-12-12]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Structural basis of DegP protease temperature-dependent activation.
Šulskis D, Thoma J, Burmann BM
Sci Adv 7 (50) eabj1816 [2021-12-10; online 2021-12-08]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Causal effects of inflammatory protein biomarkers on inflammatory diseases.
Ek WE, Karlsson T, Höglund J, Rask-Andersen M, Johansson Å
Sci Adv 7 (50) eabl4359 [2021-12-10; online 2021-12-08]
Affinity Proteomics Uppsala [Service]
DOI Crossref
Unraveling complex magnetism in two-dimensional <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"><mml:msub>FeS2</mml:msub></mml:math>
Wang D, Chen X, Sanyal B
Phys. Rev. B 104 (24) - [2021-12-09; online 2021-12-09]
Bioinformatics Support for Computational Resources [Service]
Proteome Integral Solubility Alteration (PISA) for High-Throughput Ligand Target Deconvolution with Increased Statistical Significance and Reduced Sample Amount (Book chapter)
Gaetani_M_and_Zubarev_RA
Methods in Molecular Biology in press (-) - [2021-12-09]
Chemical Proteomics [Technology development]
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
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]
PubMed DOI Crossref
Genome-wide spatial expression profiling in formalin-fixed tissues.
Gracia Villacampa E, Larsson L, Mirzazadeh R, ..., Carlson J, Lundeberg J
Cell Genomics 1 (3) 100065 [2021-12-08; online 2021-12-08]
NGI Short read [Service] NGI Spatial omics [Service] National Genomics Infrastructure [Service]
DOI Crossref
Plasma Proteome Fingerprints Reveal Distinctiveness and Clinical Outcome of SARS-CoV-2 Infection
Bauer W, Weber M, Diehl-Wiesenecker E, ..., Micke P, Kappert K
Viruses 13 (12) 2456 [2021-12-07; online 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 Support for Computational Resources [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
Interplay between eutrophication and climate warming on bacterial communities in coastal sediments differs depending on water depth and oxygen history.
Seidel L, Broman E, Turner S, Ståhle M, Dopson M
Sci Rep 11 (1) 23384 [2021-12-03; online 2021-12-03]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Improved Peripheral and Hepatic Insulin Sensitivity after Lifestyle Interventions in Type 2 Diabetes Is Associated with Specific Metabolomic and Lipidomic Signatures in Skeletal Muscle and Plasma.
Chorell E, Otten J, Stomby A, ..., Svensson M, Olsson T
Metabolites 11 (12) 834 [2021-12-03; online 2021-12-03]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Spatial Transcriptomics to define transcriptional patterns of zonation and structural components in the mouse liver.
Hildebrandt F, Andersson A, Saarenpää S, ..., Lundeberg J, Ankarklev J
Nat Commun 12 (1) 7046 [2021-12-02; online 2021-12-02]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Holistic Characterization of a Salmonella Typhimurium Infection Model Using Integrated Molecular Imaging.
Strittmatter N, Kanvatirth P, Inglese P, ..., Goodwin RJA, Mastroeni P
J. Am. Soc. Mass Spectrom. 32 (12) 2791-2802 [2021-12-01; online 2021-11-12]
Spatial Mass Spectrometry [Collaborative]
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 Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [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 600 (7890) 675-679 [2021-12-00; online 2021-12-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 8 (6) 5531-5541 [2021-12-00; online 2021-09-03]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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
QUAREP-LiMi: a community endeavor to advance quality assessment and reproducibility in light microscopy.
Boehm U, Nelson G, Brown CM, ..., Swedlow JR, Nitschke R
Nat. Methods 18 (12) 1423-1426 [2021-12-00; online 2021-05-23]
Integrated Microscopy Technologies Gothenburg [Collaborative]
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]
Global Proteomics and Proteogenomics [Service] Integrated Microscopy Technologies Umeå [Service] 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
Multiplexed single‐cell mass cytometry reveals distinct inhibitory effects on intracellular phosphoproteins by midostaurin in combination with chemotherapy in AML cells
Rörby E, Adolfsson J, Hultin E, ..., Cammenga J, Jönsson JI
Exp Hematol Oncol 10 (1) 7 [2021-12-00; online 2021-02-02]
Cellular Immunomonitoring [Service]
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 Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Evolutionary history of the extinct Sardinian dhole
Ciucani MM, Jensen JK, Sinding MHS, ..., Gilbert MTP, Gopalakrishnan S
Current Biology 31 (24) 5571-5579.e6 [2021-12-00; online 2021-12-00]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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]
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 26 (12) 7446-7453 [2021-12-00; online 2021-08-04]
Affinity Proteomics Uppsala [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
An atlas of the Norway spruce needle seasonal transcriptome.
Bag P, Lihavainen J, Delhomme N, ..., Robinson KM, Jansson S
Plant J. 108 (6) 1815-1829 [2021-12-00; online 2021-10-21]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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
Changes in the Proteome in the Development of Chronic Human Papillomavirus Infection-A Prospective Study in HIV Positive and HIV Negative Rwandan Women.
Bienvenu E, Mukanyangezi MF, Rulisa S, ..., Tobin G, Giglio D
Cancers (Basel) 13 (23) - [2021-11-28; online 2021-11-28]
Glycoproteomics and MS Proteomics [Service]
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
ATR inhibition enables complete tumour regression in ALK-driven NB mouse models.
Szydzik J, Lind DE, Arefin B, ..., Hallberg B, Palmer RH
Nat Commun 12 (1) 6813 [2021-11-24; online 2021-11-24]
Glycoproteomics and MS Proteomics [Service]
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
In vitro evaluation of chemical decontamination of titanium discs.
Ichioka Y, Derks J, Dahlén G, Berglundh T, Larsson L
Sci Rep 11 (1) 22753 [2021-11-23; online 2021-11-23]
Integrated Microscopy Technologies Gothenburg [Technology development]
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High Dimensional Immune Profiling Reveals Different Response Patterns in Active and Latent Tuberculosis Following Stimulation With Mycobacterial Glycolipids.
Silva CS, Sundling C, Folkesson E, ..., Correia-Neves M, Källenius G
Front Immunol 12 (-) 727300 [2021-11-23; online 2021-11-23]
Affinity Proteomics Stockholm [Service] Cellular Immunomonitoring [Collaborative]
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Dredging and deposition of metal sulfide rich river sediments results in rapid conversion to acid sulfate soil materials.
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Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A tripartite cytolytic toxin formed by Vibrio cholerae proteins with flagellum-facilitated secretion.
Nadeem A, Nagampalli R, Toh E, ..., Wai SN, Persson K
Proc. Natl. Acad. Sci. U.S.A. 118 (47) - [2021-11-23; online 2021-11-21]
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Nat. Methods - (-) - [2021-11-22; online 2021-11-22]
Spatial Proteomics [Collaborative]
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Tracking the ATP-binding response in adenylate kinase in real time.
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Sci Adv 7 (47) eabi5514 [2021-11-19; online 2021-11-17]
Swedish NMR Centre (SNC) [Service]
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Interplay between copy number alterations and immune profiles in the early breast cancer Scandinavian Breast Group 2004-1 randomized phase II trial: results from a feasibility study.
Zerdes I, Simonetti M, Matikas A, ..., Crosetto N, Foukakis T
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Bioinformatics Support for Computational Resources [Service] Clinical Genomics Stockholm [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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In vivo Profiling of the Alk Proximitome in the Developing Drosophila Brain.
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Glycoproteomics and MS Proteomics [Service]
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Genetic Characterization of Staphylococcus aureus From Subclinical Mastitis Cases in Dairy Cows in Rwanda.
Ndahetuye JB, Leijon M, Båge R, Artursson K, Persson Y
Front Vet Sci 8 (-) 751229 [2021-11-18; online 2021-11-18]
Clinical Genomics Stockholm [Service]
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Single cell genomics reveals plastid-lacking Picozoa are close relatives of red algae.
Schön ME, Zlatogursky VV, Singh RP, ..., Wideman JG, Burki F
Nat Commun 12 (1) 6651 [2021-11-17; online 2021-11-17]
Bioinformatics Support for Computational Resources [Service] Microbial Single Cell Genomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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]
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Exciton Delocalization Counteracts the Energy Gap: A New Pathway toward NIR-Emissive Dyes.
Cravcenco A, Yu Y, Edhborg F, ..., Albinsson B, Börjesson K
J. Am. Chem. Soc. 143 (45) 19232-19239 [2021-11-17; online 2021-11-08]
Swedish NMR Centre (SNC) [Collaborative]
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Comparison of EM-seq and PBAT methylome library methods for low-input DNA.
Han Y, Zheleznyakova GY, Marincevic-Zuniga Y, ..., Needhamsen M, Jagodic M
Epigenetics 17 (10) 1195-1204 [2021-11-17; online 2021-11-17]
NGI Short read [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Rare variant analysis in eczema identifies exonic variants in DUSP1, NOTCH4 and SLC9A4.
Grosche S, Marenholz I, Esparza-Gordillo J, ..., Xu C, Lee Y
Nat Commun 12 (1) 6618 [2021-11-16; online 2021-11-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Polyoxoniobates as molecular building blocks in thin films.
Rambaran MA, Gorzsás A, Holmboe M, Ohlin CA
Dalton Trans 50 (44) 16030-16038 [2021-11-16; online 2021-11-16]
Integrated Microscopy Technologies Umeå [Service]
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Palmdelphin Regulates Nuclear Resilience to Mechanical Stress in the Endothelium.
Sáinz-Jaspeado M, Smith RO, Plunde O, ..., Bäck M, Claesson-Welsh L
Circulation 144 (20) 1629-1645 [2021-11-16; online 2021-10-12]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Global Proteomics and Proteogenomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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MapToCleave: High-throughput profiling of microRNA biogenesis in living cells.
Kang W, Fromm B, Houben AJ, ..., Biryukova I, Friedländer MR
Cell Rep 37 (7) 110015 [2021-11-16; online 2021-11-18]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Engineered Human Induced Pluripotent Cells Enable Genetic Code Expansion in Brain Organoids.
van Husen LS, Katsori A, Meineke B, ..., Schedin-Weiss S, Elsässer SJ
ChemBioChem 22 (22) 3208-3213 [2021-11-16; online 2021-09-13]
Integrated Microscopy Technologies Stockholm [Service]
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]
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MTH1 Inhibitor TH1579 Induces Oxidative DNA Damage and Mitotic Arrest in Acute Myeloid Leukemia.
Sanjiv K, Calderón-Montaño JM, Pham TM, ..., Helleday T, Warpman Berglund U
Cancer Res. 81 (22) 5733-5744 [2021-11-15; online 2021-09-30]
Bioinformatics Support for Computational Resources [Service]
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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]
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Mitochondrial genomes of two parasitic Cuscuta species lack clear evidence of horizontal gene transfer and retain unusually fragmented ccmFC genes.
Anderson BM, Krause K, Petersen G
BMC Genomics 22 (1) 816 [2021-11-12; online 2021-11-12]
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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]
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An integrative proteomics method identifies a regulator of translation during stem cell maintenance and differentiation.
Sabatier P, Beusch CM, Saei AA, ..., Rodin S, Zubarev RA
Nat Commun 12 (1) 6558 [2021-11-12; online 2021-11-12]
Chemical Proteomics [Technology development]
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A comparison of rule-based and centroid single-sample multiclass predictors for transcriptomic classification.
Eriksson P, Marzouka NA, Sjödahl G, ..., Liedberg F, Höglund M
Bioinformatics - (-) - [2021-11-12; online 2021-11-12]
Clinical Genomics Lund [Service]
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Proteins associated with incident metabolic syndrome in population-based cohorts.
Lind L, Sundström J, Ärnlöv J
Diabetol Metab Syndr 13 (1) 131 [2021-11-10; online 2021-11-10]
Affinity Proteomics Uppsala [Service]
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Elevated circulating follistatin associates with an increased risk of type 2 diabetes.
Wu C, Borné Y, Gao R, ..., Groop L, De Marinis Y
Nat Commun 12 (1) 6486 [2021-11-10; online 2021-11-10]
Affinity Proteomics Stockholm [Collaborative] Affinity Proteomics Uppsala [Service]
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Whole genome and exome sequencing reference datasets from a multi-center and cross-platform benchmark study.
Zhao Y, Fang LT, Shen T, ..., Hong H, Xiao W
Sci Data 8 (1) 296 [2021-11-09; online 2021-11-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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The role of circulating galectin-1 in type 2 diabetes and chronic kidney disease: evidence from cross-sectional, longitudinal and Mendelian randomisation analyses.
Drake I, Fryk E, Strindberg L, ..., Orho-Melander M, Jansson PA
Diabetologia - (-) - [2021-11-07; online 2021-11-07]
Affinity Proteomics Uppsala [Service]
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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]
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Tracing the evolution of aneuploid cancers by multiregional sequencing with CRUST.
Chattopadhyay S, Karlsson J, Valind A, Andersson N, Gisselsson D
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NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Multiomics Profiling of Alzheimer's Disease Serum for the Identification of Autoantibody Biomarkers.
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J. Proteome Res. 20 (11) 5115-5130 [2021-11-05; online 2021-10-10]
Autoimmunity and Serology Profiling [Collaborative]
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Selection and structural characterization of anti-TREM2 scFvs that reduce levels of shed ectodomain.
Szykowska A, Chen Y, Smith TB, ..., Burgess-Brown NA, Bullock AN
Structure 29 (11) 1241-1252.e5 [2021-11-04; online 2021-07-06]
Drug Discovery and Development (DDD) [Collaborative]
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Inherent backbone dynamics fine-tune the functional plasticity of Tudor domains.
Kawale AA, Burmann BM
Structure 29 (11) 1253-1265.e4 [2021-11-04; online 2021-06-30]
Swedish NMR Centre (SNC) [Service]
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A common polymorphism in the dopamine transporter gene predicts working memory performance and in vivo dopamine integrity in aging.
Karalija N, Köhncke Y, Düzel S, ..., Lindenberger U, Brandmaier AM
Neuroimage 245 (-) 118707 [2021-11-03; online 2021-11-03]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Platelet proteome and function in X-linked thrombocytopenia with thalassemia and in silico comparisons with gray platelet syndrome.
Bergemalm D, Ramström S, Kardeby C, ..., Palmblad J, Åström M
Haematologica 106 (11) 2947-2959 [2021-11-01; online 2021-11-01]
Glycoproteomics and MS Proteomics [Collaborative]
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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]
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Virological and immunological features of SARS-COV-2 infected children with distinct symptomatology.
Cotugno N, Ruggiero A, Pascucci GR, ..., De Rossi A, Palma P
Pediatr Allergy Immunol 32 (8) 1833-1842 [2021-11-00; online 2021-07-16]
Affinity Proteomics Stockholm [Service]
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Targeted genomic investigations in a population-based cohort of mantle cell lymphoma reveal novel clinically relevant targets.
Rodrigues JM, Porwit A, Hassan M, Ek S, Jerkeman M
Leuk. Lymphoma 62 (11) 2637-2647 [2021-11-00; online 2021-06-03]
Clinical Genomics Lund [Service]
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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]
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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]
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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]
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Multiplex protein screening of biomarkers associated with major bleeding in patients with atrial fibrillation treated with oral anticoagulation.
Siegbahn A, Lindbäck J, Hijazi Z, ..., Yusuf S, Wallentin L
J. Thromb. Haemost. 19 (11) 2726-2737 [2021-11-00; online 2021-08-24]
Affinity Proteomics Uppsala [Service]
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Making complex measurements of meat composition fast: Application of rapid evaporative ionisation mass spectrometry to measuring meat quality and fraud.
Ross A, Brunius C, Chevallier O, ..., Zhang R, Vanhaecke L
Meat Sci 181 (-) 108333 [2021-11-00; online 2020-10-06]
Chalmers Mass Spectrometry Infrastructure [Service]
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Longitudinal study of Staphylococcus aureus genotypes isolated from bovine clinical mastitis.
Leijon M, Atkins E, Persson Waller K, Artursson K
J Dairy Sci 104 (11) 11945-11954 [2021-11-00; online 2021-08-26]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Increased diagnostic sensitivity of palpation-guided thyroid nodule fine-needle aspiration cytology by BRAF V600E-mutation analysis.
Gimm O, Ivansson K, Beka E, ..., Garvin S, Söderkvist P
J Pathol Clin Res 7 (6) 556-564 [2021-11-00; online 2021-06-22]
Clinical Genomics Linköping [Collaborative]
PubMed DOI Crossref
Do different growth rates of trees cause distinct habitat qualities for saproxylic assemblages?
Runnel K, Stephan JG, Jonsell M, ..., Tamm H, Ranius T
Oecologia 197 (3) 807-816 [2021-11-00; online 2021-10-17]
Bioinformatics Support for Computational Resources [Service]
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Community evaluation of glycoproteomics informatics solutions reveals high-performance search strategies for serum glycopeptide analysis.
Kawahara R, Chernykh A, Alagesan K, ..., Packer NH, Thaysen-Andersen M
Nat. Methods 18 (11) 1304-1316 [2021-11-00; online 2021-11-01]
Glycoproteomics and MS Proteomics [Technology development]
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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]
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Artificial Intelligence Detection of Missed Cancers at Digital Mammography That Were Detected at Digital Breast Tomosynthesis.
Dahlblom V, Andersson I, Lång K, ..., Zackrisson S, Dustler M
Radiol Artif Intell 3 (6) e200299 [2021-11-00; online 2021-09-01]
AIDA Data Hub [Service]
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 Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Microbial Plankton Community Structure and Function Responses to Vitamin B12 and B1 Amendments in an Upwelling System.
Joglar V, Pontiller B, Martínez-García S, ..., Fernández E, Teira E
Appl. Environ. Microbiol. 87 (22) e0152521 [2021-10-28; online 2021-09-08]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Massive parallel sequencing in individuals with multiple primary tumours reveals the benefit of re-analysis.
Wallander K, Thonberg H, Nilsson D, Tham E
Hered Cancer Clin Pract 19 (1) 46 [2021-10-28; online 2021-10-28]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics 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
Effects of Recreational Boating on Microbial and Meiofauna Diversity in Coastal Shallow Ecosystems of the Baltic Sea.
Iburg S, Izabel-Shen D, Austin ÅN, ..., Eklöf JS, Nascimento FJA
mSphere 6 (5) e0012721 [2021-10-27; online 2021-09-01]
Bioinformatics Support for Computational Resources [Service]
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Adaptive Introgression Facilitates Adaptation to High Latitudes in European Aspen (Populus tremula L.).
Rendón-Anaya M, Wilson J, Sveinsson S, ..., Street NR, Ingvarsson PK
Mol. Biol. Evol. 38 (11) 5034-5050 [2021-10-27; online 2021-07-31]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A missense mutation converts the Na+,K+-ATPase into an ion channel and causes therapy-resistant epilepsy.
Ygberg S, Akkuratov EE, Howard RJ, ..., Brismar H, Aperia A
J. Biol. Chem. - (-) 101355 [2021-10-27; online 2021-10-27]
Integrated Microscopy Technologies Stockholm [Service]
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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]
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PeptiCHIP: A Microfluidic Platform for Tumor Antigen Landscape Identification.
Feola S, Haapala M, Peltonen K, ..., Sikanen TM, Cerullo V
ACS Nano 15 (10) 15992-16010 [2021-10-26; online 2021-10-04]
Global Proteomics and Proteogenomics [Technology development]
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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]
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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]
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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]
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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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Direct Evidence for Reaction between Cellulose and CO<sub>2</sub> from Nuclear Magnetic Resonance
Gunnarsson M, Bernin D, Hasani M, Lund M, Bialik E
ACS Sustainable Chem. Eng. 9 (42) 14006-14011 [2021-10-25; online 2021-10-12]
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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]
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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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The performance of common SNP arrays in assigning African mitochondrial haplogroups.
Lankheet I, Vicente M, Barbieri C, Schlebusch C
BMC Genom Data 22 (1) 43 [2021-10-21; online 2021-10-21]
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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]
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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]
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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]
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De novo biosynthesis of bioactive isoflavonoids by engineered yeast cell factories.
Liu Q, Liu Y, Li G, ..., Chen Y, Nielsen J
Nat Commun 12 (1) 6085 [2021-10-19; online 2021-10-19]
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Transcriptome Analysis of Potato Infected with the Necrotrophic Pathogen Alternaria solani.
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Philippine Ayta possess the highest level of Denisovan ancestry in the world.
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Uçkun E, Siaw JT, Guan J, ..., Hallberg B, Palmer RH
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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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Cell 184 (19) 4874-4885.e16 [2021-09-16; online 2021-08-24]
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Nontypeable Haemophilus influenzae P5 Binds Human C4b-Binding Protein, Promoting Serum Resistance.
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Limited access to antigen drives generation of early B cell memory while restraining the plasmablast response.
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Immunity 54 (9) 2005-2023.e10 [2021-09-14; online 2021-09-16]
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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
Philos. Trans. R. Soc. Lond., B, Biol. Sci. 376 (1833) 20200186 [2021-09-13; online 2021-07-26]
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Autoantibody profiles associated with clinical features in psychotic disorders.
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Powell D, Groβe-Wilde E, Krokene P, ..., Andersson MN, Schlyter F
Commun Biol 4 (1) 1059 [2021-09-09; online 2021-09-09]
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Durland E, De Wit P, Langdon C
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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
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Nat. Biotechnol. 39 (9) 1141-1150 [2021-09-00; online 2021-09-09]
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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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Akeus P, Szeponik L, Langenes V, ..., Slusher BS, Quiding-Järbrink M
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Q-space trajectory imaging with positivity constraints (QTI+).
Herberthson M, Boito D, Haije TD, ..., Westin CF, Özarslan E
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Chattopadhyay B, Forcina G, Garg KM, ..., Barbanera F, Rheindt FE
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Mitochondrial dysfunction in adult midbrain dopamine neurons triggers an early immune response.
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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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Emiss. Control Sci. Technol. 7 (3) 198-209 [2021-09-00; online 2021-08-03]
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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]
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Genetic deletion of the ghrelin receptor (GHSR) impairs growth and blunts endocrine response to fasting in Ghsr-IRES-Cre mice.
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Mol Metab 51 (-) 101223 [2021-09-00; online 2021-03-31]
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Broberg K, Svensson J, Grahn K, ..., Selander J, Enroth S
Bioessays 43 (9) e2000299 [2021-09-00; online 2021-02-15]
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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
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Becker K, Aranzana-Climent V, Cao S, ..., Hobbie SN, ENABLE consortium
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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
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Gülen T, Teufelberger A, Ekoff M, ..., Dahlén B, Nilsson G
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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
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Climate warming dominates over plant genotype in shaping the seasonal trajectory of foliar fungal communities on oak.
Faticov M, Abdelfattah A, Roslin T, ..., Lindahl BD, Tack AJM
New Phytol. 231 (5) 1770-1783 [2021-09-00; online 2021-06-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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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]
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Haniffa M, Taylor D, Linnarsson S, ..., Webb S, Human Cell Atlas Developmental Biological Network
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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
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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
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Atkins JL, Jylhävä J, Pedersen NL, ..., Williams DM, Pilling LC
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de Boer E, Ockeloen CW, Matalonga L, ..., Verloes A, Vissers LELM
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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
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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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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
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Chromoanagenesis Event Underlies a de novo Pericentric and Multiple Paracentric Inversions in a Single Chromosome Causing Coffin-Siris Syndrome.
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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
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Devkota R, Kaper D, Bodhicharla R, ..., Borén J, Pilon M
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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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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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The Amot/integrin protein complex transmits mechanical forces required for vascular expansion.
Zhang Y, Zhang Y, Kameishi S, ..., Cavallo F, Holmgren L
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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.
Gianecini RA, Poklepovich T, Golparian D, ..., Galarza P, Gonococcal Antimicrobial Susceptibility Surveillance Programme—Argentina1
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Comprehensive in situ mapping of human cortical transcriptomic cell types.
Langseth CM, Gyllborg D, Miller JA, ..., Hilscher MM, Nilsson M
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Ecological Specialization and Evolutionary Reticulation in Extant Hyaenidae.
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RqcH and RqcP catalyze processive poly-alanine synthesis in a reconstituted ribosome-associated quality control system.
Takada H, Crowe-McAuliffe C, Polte C, ..., Wilson DN, Hauryliuk V
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Deiana M, Obi I, Andreasson M, ..., Chorell E, Sabouri N
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Ghouse J, Ahlberg G, Andreasen L, ..., Bundgaard H, Olesen MS
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Front Plant Sci 12 (-) 710867 [2021-08-16; online 2021-08-16]
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Genes 12 (8) - [2021-08-13; online 2021-08-13]
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Front Microbiol 12 (-) 669937 [2021-08-12; online 2021-08-12]
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Bellenberg S, Salas B, Ganji S, ..., Dopson M, Vera M
Sci Rep 11 (1) 16275 [2021-08-11; online 2021-08-11]
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Sensitive Measurement of Drug-Target Engagement by a Cellular Thermal Shift Assay with Multiplex Proximity Extension Readout.
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Yu Y, Gao Y, Winblad B, Tjernberg LO, Schedin-Weiss S
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Industrial Crops and Products 166 (-) 113449 [2021-08-00; online 2021-08-00]
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Falck-Ytter T, Hamrefors L, Siqueiros Sanches M, ..., Tammimies K, Ronald A
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Figueroa D, Capo E, Lindh MV, ..., Pinhassi J, Andersson A
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Strong Associations Between Early Tubular Damage and Urinary Cytokine, Chemokine, and Growth Factor Levels in Elderly Males and Females.
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Salehi M A, Nilsson IA, Figueira J, ..., Bulik CM, Landén M
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SFRP2 induces a mesenchymal subtype transition by suppression of SOX2 in glioblastoma.
Guo M, Goudarzi KM, Abedi S, ..., Nistér M, Hägerstrand D
Oncogene 40 (32) 5066-5080 [2021-08-00; online 2021-05-21]
Global Proteomics and Proteogenomics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Quantitative proteomic analysis to identify differentially expressed proteins in patients with epilepsy.
Banote RK, Larsson D, Berger E, Kumlien E, Zelano J
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Neoplasia 23 (8) 783-791 [2021-08-00; online 2021-07-08]
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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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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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Furneaux B, Bahram M, Rosling A, Yorou NS, Ryberg M
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Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Nadachowska-Brzyska K, Dutoit L, Smeds L, ..., Gustafsson L, Ellegren H
Mol. Ecol. 30 (16) 3965-3973 [2021-08-00; online 2021-07-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Ruth KS, Day FR, Hussain J, ..., Roig I, Perry JRB
Nature 596 (7872) 393-397 [2021-08-00; online 2021-08-04]
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Bioinformatics Support for Computational Resources [Service]
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Swedish NMR Centre (SNC) [Service]
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Hoetzinger M, Nilsson E, Arabi R, ..., Middelboe M, Holmfeldt K
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Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Decidual stromal cells support tolerance at the human foetal-maternal interface by inducing regulatory M2 macrophages and regulatory T-cells.
Lindau R, Vondra S, Spreckels J, ..., Jenmalm MC, Ernerudh J
J Reprod Immunol 146 (-) 103330 [2021-08-00; online 2021-05-12]
Affinity Proteomics Uppsala [Service]
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Daura E, Tegelberg S, Yoshihara M, ..., Lehesjoki AE, Joensuu T
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Pettersson L, Johansson Alm S, Almstedt A, ..., Fogelstrand L, Ehinger M
Int J Lab Hematol 43 (4) 664-674 [2021-08-00; online 2021-05-30]
Clinical Genomics Gothenburg [Collaborative]
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Co-mutation pattern, clonal hierarchy, and clone size concur to determine disease phenotype of SRSF2P95-mutated neoplasms.
Todisco G, Creignou M, Gallì A, ..., Cazzola M, Malcovati L
Leukemia 35 (8) 2371-2381 [2021-08-00; online 2020-12-21]
Clinical Genomics Uppsala [Service]
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Antibody responses after a single dose of ChAdOx1 nCoV-19 vaccine in healthcare workers previously infected with SARS-CoV-2.
Havervall S, Marking U, Greilert-Norin N, ..., Åberg M, Thålin C
EBioMedicine 70 (-) 103523 [2021-08-00; online 2021-08-12]
Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
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Anti-tumor effects of rigosertib in high-risk neuroblastoma.
Radke K, Hansson K, Sjölund J, ..., Gisselsson D, Bexell D
Transl Oncol 14 (8) 101149 [2021-08-00; online 2021-06-09]
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Marco Salas S, Gyllborg D, Mattsson Langseth C, Nilsson M
BMC Bioinformatics 22 (1) 391 [2021-07-31; online 2021-07-31]
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High-resolution model of Arabidopsis Photosystem II reveals the structural consequences of digitonin-extraction.
Graça AT, Hall M, Persson K, Schröder WP
Sci Rep 11 (1) 15534 [2021-07-30; online 2021-07-30]
Cryo-EM [Collaborative]
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Genetic association study of childhood aggression across raters, instruments, and age.
Ip HF, van der Laan CM, Krapohl EML, ..., Nivard MG, Boomsma DI
Transl Psychiatry 11 (1) 413 [2021-07-30; online 2021-07-30]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Bacterial Composition and Metabolomics of Dental Plaque From Adolescents.
Havsed K, Stensson M, Jansson H, ..., Svensäter G, Mira A
Front. Cell. Infect. Microbiol. 11 (-) 716493 [2021-07-30; online 2021-07-30]
Swedish NMR Centre (SNC) [Collaborative]
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Neuroinflammation and Alzheimer's Disease: A Machine Learning Approach to CSF Proteomics.
Gaetani L, Bellomo G, Parnetti L, ..., Zetterberg H, Di Filippo M
Cells 10 (8) - [2021-07-29; online 2021-07-29]
Affinity Proteomics Uppsala [Service]
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Genetic Barriers to Historical Gene Flow between Cryptic Species of Alpine Bumblebees Revealed by Comparative Population Genomics.
Christmas MJ, Jones JC, Olsson A, ..., Geib JC, Webster MT
Mol. Biol. Evol. 38 (8) 3126-3143 [2021-07-29; online 2021-04-07]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure
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Complex population structure of the Atlantic puffin revealed by whole genome analyses.
Kersten O, Star B, Leigh DM, ..., Jakobsen KS, Boessenkool S
Commun Biol 4 (1) 922 [2021-07-29; online 2021-07-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Unraveling negative biotic interactions determining soil microbial community assembly and functioning.
Romdhane S, Spor A, Aubert J, ..., Tsiknia M, Philippot L
ISME J - (-) - [2021-07-28; online 2021-07-28]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Strong Associations between Plasma Osteopontin and Several Inflammatory Chemokines, Cytokines, and Growth Factors.
Larsson A, Helmersson-Karlqvist J, Lind L, Ärnlöv J, Feldreich TR
Biomedicines 9 (8) - [2021-07-28; online 2021-07-28]
Affinity Proteomics Uppsala [Service]
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Single-cell analysis of mosquito hemocytes identifies signatures of immune cell subtypes and cell differentiation.
Kwon H, Mohammed M, Franzén O, Ankarklev J, Smith RC
Elife 10 (-) - [2021-07-28; online 2021-07-28]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] Microbial Single Cell Genomics NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Metabolomics analysis for diagnosis and biomarker discovery of transthyretin amyloidosis.
Olsson M, Hellman U, Wixner J, Anan I
Amyloid - (-) 1-9 [2021-07-28; online 2021-07-28]
Swedish Metabolomics Centre (SMC) [Service]
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Super-resolution microscopy reveals that Na+/K+-ATPase signaling protects against glucose-induced apoptosis by deactivating Bad.
Bernhem K, Fontana JM, Svensson D, ..., Brismar H, Aperia A
Cell Death Dis 12 (8) 739 [2021-07-27; online 2021-07-27]
Integrated Microscopy Technologies Stockholm [Technology development]
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Genome-scale metabolic network reconstruction of model animals as a platform for translational research.
Wang H, Robinson JL, Kocabas P, ..., Zetterberg H, Nielsen J
Proc. Natl. Acad. Sci. U.S.A. 118 (30) e2102344118 [2021-07-27; online 2021-07-21]
Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Technology development]
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Solution Structure of the dATP-Inactivated Class I Ribonucleotide Reductase From Leeuwenhoekiella blandensis by SAXS and Cryo-Electron Microscopy.
Hasan M, Banerjee I, Rozman Grinberg I, Sjöberg BM, Logan DT
Front Mol Biosci 8 (-) 713608 [2021-07-26; online 2021-07-26]
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Mass Spectrometry Proteotyping-Based Detection and Identification of Staphylococcus aureus, Escherichia coli, and Candida albicans in Blood.
Kondori N, Kurtovic A, Piñeiro-Iglesias B, ..., Moore ERB, Karlsson R
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Clinical Genomics Gothenburg [Collaborative] Glycoproteomics and MS Proteomics [Service]
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Association between Cardiorespiratory Fitness and Circulating Proteins in 50-Year-Old Swedish Men and Women: a Cross-Sectional Study.
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The Promotor and Poison Effects of the Inorganic Elements of Kraft Lignin during Hydrotreatment over NiMoS Catalyst
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A search for modifying genetic factors in CHEK2:c.1100delC breast cancer patients.
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Systematic evaluation of SARS-CoV-2 antigens enables a highly specific and sensitive multiplex serological COVID-19 assay.
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Clin Transl Immunology 10 (7) e1312 [2021-07-19; online 2021-07-19]
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DNA Methylation-Based Interferon Scores Associate With Sub-Phenotypes in Primary Sjögren's Syndrome.
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Large-scale serum analysis identifies unique systemic biomarkers in psoriasis and hidradenitis suppurativa.
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Comparative Genomics of Clinical Isolates of the Emerging Tick-Borne Pathogen Neoehrlichia mikurensis.
Grankvist A, Jaén-Luchoro D, Wass L, Sikora P, Wennerås C
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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]
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Computing the orientational-average of diffusion-weighted MRI signals: a comparison of different techniques.
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Sci Rep 11 (1) 14345 [2021-07-12; online 2021-07-12]
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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.
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Therapeutic Cancer Vaccination with Immunopeptidomics-Discovered Antigens Confers Protective Antitumor Efficacy.
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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
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Genomic Predictions With Nonadditive Effects Improved Estimates of Additive Effects and Predictions of Total Genetic Values in Pinus sylvestris.
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Front Plant Sci 12 (-) 666820 [2021-07-07; online 2021-07-07]
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Common and mutation specific phenotypes of KRAS and BRAF mutations in colorectal cancer cells revealed by integrative -omics analysis.
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The Assembled and Annotated Genome of the Fairy-Ring Fungus Marasmius oreades.
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Pharmacological activation of p53 triggers viral mimicry response thereby abolishing tumor immune evasion and promoting anti-tumor immunity.
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High-Quality Genome Assembly and Comprehensive Transcriptome of the Painted Lady Butterfly Vanessa cardui.
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Comparative Genomics Reveals Factors Associated with Phenotypic Expression of Wolbachia.
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Chick fetal organ spheroids as a model to study development and disease.
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Candidate regulators and target genes of drought stress in needles and roots of Norway spruce.
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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.
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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.
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Liquid biopsy as an option for predictive testing and prognosis in patients with lung cancer.
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Gene Regulatory Network of Human GM-CSF-Secreting T Helper Cells.
Éliás S, Schmidt A, Gomez-Cabrero D, Tegnér J
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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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TAAR1-Dependent and -Independent Actions of Tyramine in Interaction With Glutamate Underlie Central Effects of Monoamine Oxidase Inhibition.
Mantas I, Vallianatou T, Yang Y, ..., Andrén PE, Svenningsson P
Biol. Psychiatry 90 (1) 16-27 [2021-07-01; online 2020-12-19]
Spatial Mass Spectrometry [Collaborative]
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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]
Swedish NMR Centre (SNC) [Service]
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Whole genome sequencing reveals high differentiation, low levels of genetic diversity and short runs of homozygosity among Swedish wels catfish.
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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.
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Global Proteomics and Proteogenomics [Service]
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The mitochondrial single-stranded DNA binding protein is essential for initiation of mtDNA replication.
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Sci Adv 7 (27) - [2021-07-00; online 2021-07-02]
Integrated Microscopy Technologies Gothenburg [Service]
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The genomics of phenotypically differentiated Asellus aquaticus cave, surface stream and lake ecotypes.
Bakovic V, Martin Cerezo ML, Höglund A, ..., Hargeby A, Wright D
Mol. Ecol. 30 (14) 3530-3547 [2021-07-00; online 2021-06-08]
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The IgGFc-binding protein FCGBP is secreted with all GDPH sequences cleaved but maintained by interfragment disulfide bonds.
Ehrencrona E, van der Post S, Gallego P, ..., Hansson GC, Johansson MEV
J. Biol. Chem. 297 (1) 100871 [2021-07-00; online 2021-06-11]
Integrated Microscopy Technologies Gothenburg [Service]
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Technical in-depth comparison of two massive parallel DNA-sequencing methods for formalin-fixed paraffin-embedded tissue from victims of sudden cardiac death.
Adolfsson E, Qvick A, Gréen H, ..., Jonasson J, Gréen A
Forensic Sci Int Genet 53 (-) 102522 [2021-07-00; online 2021-04-26]
Clinical Genomics Örebro [Technology development]
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Synthetic bacterial vesicles combined with tumour extracellular vesicles as cancer immunotherapy.
Park KS, Svennerholm K, Crescitelli R, ..., Gribonika I, Lötvall J
J Extracell Vesicles 10 (9) e12120 [2021-07-00; online 2021-07-03]
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Spatial visualization of comprehensive brain neurotransmitter systems and neuroactive substances by selective in situ chemical derivatization mass spectrometry imaging.
Shariatgorji R, Nilsson A, Fridjonsdottir E, ..., Odell LR, Andrén PE
Nat Protoc 16 (7) 3298-3321 [2021-07-00; online 2021-06-02]
Spatial Mass Spectrometry [Technology development]
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Single‐cell sequencing in translational cancer research and challenges to meet clinical diagnostic needs
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Genes Chromosomes Cancer 60 (7) 504-524 [2021-07-00; online 2021-03-15]
Clinical Genomics Lund [Service]
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Single-cell CUT&Tag profiles histone modifications and transcription factors in complex tissues.
Bartosovic M, Kabbe M, Castelo-Branco G
Nat. Biotechnol. 39 (7) 825-835 [2021-07-00; online 2021-04-12]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Collaborative] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Severe COVID-19 in an APS1 patient with interferon autoantibodies treated with plasmapheresis
Lemarquis A, Campbell T, Aranda-Guillén M, ..., Berg S, Ekwall O
Journal of Allergy and Clinical Immunology 148 (1) 96-98 [2021-07-00; online 2021-07-00]
Autoimmunity and Serology Profiling [Service]
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STED and parallelized RESOLFT optical nanoscopy of the tubular endoplasmic reticulum and its mitochondrial contacts in neuronal cells
Damenti M, Coceano G, Pennacchietti F, Bodén A, Testa I
Neurobiology of Disease 155 (-) 105361 [2021-07-00; online 2021-07-00]
Integrated Microscopy Technologies Stockholm [Service]
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Quality of phytoplankton deposition structures bacterial communities at the water-sediment interface.
Izabel-Shen D, Albert S, Winder M, Farnelid H, Nascimento FJA
Mol. Ecol. 30 (14) 3515-3529 [2021-07-00; online 2021-06-11]
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Plasma S1P (Sphingosine-1-Phosphate) Links to Hypertension and Biomarkers of Inflammation and Cardiovascular Disease: Findings From a Translational Investigation.
Jujic A, Matthes F, Vanherle L, ..., Magnusson M, Meissner A
Hypertension 78 (1) 195-209 [2021-07-00; online 2021-05-17]
Affinity Proteomics Uppsala [Service]
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On the origin of the widespread self-compatible allotetraploid Capsella bursa-pastoris (Brassicaceae).
Bachmann JA, Tedder A, Fracassetti M, ..., Köhler C, Slotte T
Heredity (Edinb) 127 (1) 124-134 [2021-07-00; online 2021-04-19]
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Non-uniform sampling for NOESY? A case study on spiramycin.
Wieske LHE, Erdélyi M
Magn Reson Chem 59 (7) 723-737 [2021-07-00; online 2021-02-02]
Swedish NMR Centre (SNC) [Service]
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Nicotinamide provides neuroprotection in glaucoma by protecting against mitochondrial and metabolic dysfunction.
Tribble JR, Otmani A, Sun S, ..., Votruba M, Williams PA
Redox Biol 43 (-) 101988 [2021-07-00; online 2021-04-24]
Swedish Metabolomics Centre (SMC) [Service]
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Monocytes in sarcoidosis are potent tumour necrosis factor producers and predict disease outcome.
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Eur. Respir. J. 58 (1) 2003468 [2021-07-00; online 2021-07-22]
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Molecular evaluation of five different isolation methods for extracellular vesicles reveals different clinical applicability and subcellular origin.
Veerman RE, Teeuwen L, Czarnewski P, ..., Gabrielsson S, Eldh M
J Extracell Vesicles 10 (9) e12128 [2021-07-00; online 2021-07-22]
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Mammuthus sp. (Early and Middle Pleistocene Mammoths).
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Trends Genet. 37 (7) 682-683 [2021-07-00; online 2021-05-11]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Lack of diagnostic-escape mutants of group B streptococcus in Slovenia.
Perme T, Golparian D, Unemo M, Jeverica S
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Clinical Genomics Örebro [Collaborative]
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Insights into the multitrophic interactions between the biocontrol agent Bacillus subtilis MBI 600, the pathogen Botrytis cinerea and their plant host.
Samaras A, Karaoglanidis GS, Tzelepis G
Microbiol Res 248 (-) 126752 [2021-07-00; online 2021-04-02]
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Human Primary Airway Basal Cells Display a Continuum of Molecular Phases from Health to Disease in Chronic Obstructive Pulmonary Disease.
Wijk SC, Prabhala P, Michaliková B, ..., Westergren-Thorsson G, Magnusson M
Am J Respir Cell Mol Biol 65 (1) 103-113 [2021-07-00; online 2021-04-01]
Clinical Genomics Lund [Service]
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High throughput shotgun sequencing of eRNA reveals taxonomic and derived functional shifts across a benthic productivity gradient.
Broman E, Bonaglia S, Norkko A, Creer S, Nascimento FJA
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Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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HIV-Infected Individuals on ART With Impaired Immune Recovery Have Altered Plasma Metabolite Profiles.
Nyström S, Govender M, Yap SH, ..., Rajasuriar R, Larsson M
Open Forum Infect Dis 8 (7) ofab288 [2021-07-00; online 2021-06-02]
Swedish Metabolomics Centre (SMC) [Service]
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Genomic signatures of rapid adaptive divergence in a tropical montane species.
Ericson PGP, Irestedt M, She H, Qu Y
Biol. Lett. 17 (7) 20210089 [2021-07-00; online 2021-07-28]
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Gene regulation of the avian malaria parasite Plasmodium relictum, during the different stages within the mosquito vector.
Sekar V, Rivero A, Pigeault R, ..., Ahren D, Hellgren O
Genomics 113 (4) 2327-2337 [2021-07-00; online 2021-05-21]
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FGFR1 overexpression in non-small cell lung cancer is mediated by genetic and epigenetic mechanisms and is a determinant of FGFR1 inhibitor response.
Bogatyrova O, Mattsson JSM, Ross EM, ..., Esdar C, Micke P
Eur. J. Cancer 151 (-) 136-149 [2021-07-00; online 2021-05-10]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Extreme Y chromosome polymorphism corresponds to five male reproductive morphs of a freshwater fish.
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Exercise training improves mitochondrial respiration and is associated with an altered intramuscular phospholipid signature in women with obesity.
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Diabetologia 64 (7) 1642-1659 [2021-07-00; online 2021-03-26]
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Bifidobacteria-mediated immune system imprinting early in life
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Cell 184 (15) 3884-3898.e11 [2021-07-00; online 2021-07-00]
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Mäkitie RE, Henning P, Jiu Y, ..., Lappalainen P, Mäkitie O
JBMR Plus 5 (7) e10509 [2021-07-00; online 2021-06-07]
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A single-cell type transcriptomics map of human tissues.
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Towards Bioleaching of a Vanadium Containing Magnetite for Metal Recovery.
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Front Microbiol 12 (-) 693615 [2021-06-30; online 2021-06-30]
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DNA metabarcoding reveals trophic niche diversity of micro and mesozooplankton species.
Novotny A, Zamora-Terol S, Winder M
Proc. Biol. Sci. 288 (1953) 20210908 [2021-06-30; online 2021-06-16]
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Combined prenatal Lactobacillus reuteri and ω-3 supplementation synergistically modulates DNA methylation in neonatal T helper cells.
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Clin Epigenetics 13 (1) 135 [2021-06-30; online 2021-06-30]
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Proteomic Profiling of Tissue Exosomes Indicates Continuous Release of Malignant Exosomes in Urinary Bladder Cancer Patients, Even with Pathologically Undetectable Tumour.
Eldh M, Mints M, Hiltbrunner S, ..., Sherif A, Gabrielsson S
Cancers (Basel) 13 (13) - [2021-06-29; online 2021-06-29]
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High Sensitivity Detection of a Solubility Limiting Surface Transformation of Drug Particles by DNP SENS.
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Divergent clonal differentiation trajectories establish CD8+ memory T cell heterogeneity during acute viral infections in humans.
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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.
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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.
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Stromal Heterogeneity in the Human Proliferative Endometrium-A Single-Cell RNA Sequencing Study.
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Towards a bioengineered uterus: bioactive sheep uterus scaffolds are effectively recellularized by enzymatic preconditioning.
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Integrated Microscopy Technologies Gothenburg [Service]
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Pharmacodynamic Evaluation of Dosing, Bacterial Kill, and Resistance Suppression for Zoliflodacin Against Neisseria gonorrhoeae in a Dynamic Hollow Fiber Infection Model.
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Virus Diversity and Loads in Crickets Reared for Feed: Implications for Husbandry.
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Continent-wide genomic signatures of adaptation to urbanisation in a songbird across Europe.
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Complement-Opsonized HIV Modulates Pathways Involved in Infection of Cervical Mucosal Tissues: A Transcriptomic and Proteomic Study.
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Which image-based phenotypes are most promising for using AI to understand cellular functions and why?
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Cell Syst 12 (5) 384-387 [2021-05-19; online 2021-05-21]
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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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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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Spatial Mass Spectrometry [Technology development]
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X-chromosome variants are associated with aldosterone producing adenomas.
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Sci Rep 11 (1) 10562 [2021-05-18; online 2021-05-18]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics Linköping [Service]
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Symptoms and Functional Impairment Assessed 8 Months After Mild COVID-19 Among Health Care Workers.
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Factors Affecting Detoxification of Softwood Enzymatic Hydrolysates Using Sodium Dithionite
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Phage Biocontrol of Pseudomonas aeruginosa in Water.
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Pulmonary fibrosis in relation to genetic loci in an inception cohort of patients with early rheumatoid arthritis from northern Sweden.
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A plasma lipid signature predicts incident coronary artery disease.
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Comprehensive dataset of shotgun metagenomes from oxygen stratified freshwater lakes and ponds.
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Complete Multipartite Genome Sequence of the Cupriavidus basilensis Type Strain, a 2,6-Dichlorophenol-Degrading Bacterium.
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NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Progesterone Dampens Immune Responses in In Vitro Activated CD4+ T Cells and Affects Genes Associated With Autoimmune Diseases That Improve During Pregnancy.
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Highly Permeable Fluorinated Polymer Nanocomposites for Plasmonic Hydrogen Sensing.
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Dynamics of Auxin and Cytokinin Metabolism during Early Root and Hypocotyl Growth in Theobroma cacao.
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Freshwater Chlorobia Exhibit Metabolic Specialization among Cosmopolitan and Endemic Populations.
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NMR structural analysis of the yeast cytochrome c oxidase subunit Cox13 and its interaction with ATP.
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African and Asian leopards are highly differentiated at the genomic level.
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NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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The Genomic Architecture and Evolutionary Fates of Supergenes.
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The Genetic Variation of Lactase Persistence Alleles in Sudan and South Sudan.
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The Effects of GC-Biased Gene Conversion on Patterns of Genetic Diversity among and across Butterfly Genomes.
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INT-Hi-C reveals distinct chromatin architecture in endosperm and leaf tissues of Arabidopsis.
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Genetically determined NLRP3 inflammasome activation associates with systemic inflammation and cardiovascular mortality.
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Chromosome Level Assembly of the Comma Butterfly (Polygonia c-album).
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Serine Protease HTRA1 as a Novel Target Antigen in Primary Membranous Nephropathy.
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Plasma Protein Profile of Carotid Artery Atherosclerosis and Atherosclerotic Outcomes: Meta-Analyses and Mendelian Randomization Analyses.
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The Subcellular Proteome of a Planctomycetes Bacterium Shows That Newly Evolved Proteins Have Distinct Fractionation Patterns.
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How to Make a Rodent Giant: Genomic Basis and Tradeoffs of Gigantism in the Capybara, the World's Largest Rodent.
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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]
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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]
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Activation of endogenous retroviruses during brain development causes an inflammatory response.
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The transcriptome-wide landscape of molecular subtype-specific mRNA expression profiles in acute myeloid leukemia.
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Cell Res 31 (5) 554-568 [2021-05-00; online 2021-01-08]
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Single-cell transcriptomics of human embryos identifies multiple sympathoblast lineages with potential implications for neuroblastoma origin.
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Nat. Genet. 53 (5) 694-706 [2021-05-00; online 2021-04-08]
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Serum metabolomic profiling correlated with ISS and clinical outcome for multiple myeloma patients treated with high-dose melphalan and autologous stem cell transplantation.
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Exp Hematol 97 (-) 79-88.e8 [2021-05-00; online 2021-02-18]
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Chemical Engineering Journal Advances 6 (-) 100097 [2021-05-00; online 2021-05-00]
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Prediction of complex phenotypes using the Drosophila melanogaster metabolome.
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Heredity (Edinb) 126 (5) 717-732 [2021-05-00; online 2021-01-28]
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Novel form of rhizomelic skeletal dysplasia associated with a homozygous variant in GNPNAT1.
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In vivo screen identifies a SIK inhibitor that induces β cell proliferation through a transient UPR.
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Nat Metab 3 (5) 682-700 [2021-05-00; online 2021-05-20]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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ImageJ and CellProfiler: Complements in Open-Source Bioimage Analysis.
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Ibrutinib Has Time-dependent On- and Off-target Effects on Plasma Biomarkers and Immune Cells in Chronic Lymphocytic Leukemia.
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Hybrid sequencing resolves two germline ultra-complex chromosomal rearrangements consisting of 137 breakpoint junctions in a single carrier.
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Bioinformatics Support for Computational Resources [Service] NGI Long read [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]
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Histological and transcriptional characterization of the pancreatic acinar tissue in type 1 diabetes.
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Genetic basis of lacunar stroke: a pooled analysis of individual patient data and genome-wide association studies.
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Evidence for discrete modes of YAP1 signaling via mRNA splice isoforms in development and diseases.
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Effects of liraglutide on the metabolism of triglyceride‐rich lipoproteins in type 2 diabetes
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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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Dissolution of wood components during hot water extraction of birch
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Comparison of DNA Methylation Profiles of Hemostatic Genes between Liver Tissue and Peripheral Blood within Individuals.
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Chromatin interactions in differentiating keratinocytes reveal novel atopic dermatitis- and psoriasis-associated genes.
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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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Association of Epicardial Fat Volume With the Extent of Coronary Atherosclerosis and Cardiovascular Adverse Events in Asymptomatic Patients With Diabetes.
Venuraju SM, Lahiri A, Jeevarethinam A, ..., Shah PK, Nilsson J
Angiology 72 (5) 442-450 [2021-05-00; online 2021-01-20]
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Association between inflammasome-related polymorphisms and psoriatic arthritis.
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An amylin and calcitonin receptor agonist modulates alcohol behaviors by acting on reward-related areas in the brain.
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A chemical screen for modulators of mRNA translation identifies a distinct mechanism of toxicity for sphingosine kinase inhibitors.
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Heredity (Edinb) 126 (4) 656-667 [2021-04-00; online 2021-02-09]
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Multiple migrations to the Philippines during the last 50,000 years.
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Case Report: A Novel Mutation in the Mitochondrial MT-ND5 Gene Is Associated With Leber Hereditary Optic Neuropathy (LHON).
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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]
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CytoBrowser: a browser-based collaborative annotation platform for whole slide images
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Genotyping Strategies Using ddRAD Sequencing in Farmed Arctic Charr (Salvelinus alpinus).
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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 and MS Proteomics [Collaborative]
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SOCS3 Expression by Thymic Stromal Cells Is Required for Normal T Cell Development.
Gao Y, Liu R, He C, ..., Carow B, Rottenberg ME
Front Immunol 12 (-) 642173 [2021-03-18; online 2021-03-18]
Global Proteomics and Proteogenomics [Collaborative]
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Proteomic blood profiling in mild, severe and critical COVID-19 patients.
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Sci Rep 11 (1) 6357 [2021-03-18; online 2021-03-18]
Affinity Proteomics Uppsala [Service]
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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]
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Dynamics of Ku and bacterial non-homologous end-joining characterized using single DNA molecule analysis.
Öz R, Wang JL, Guerois R, ..., Strick TR, Westerlund F
Nucleic Acids Res. 49 (5) 2629-2641 [2021-03-18; online 2021-02-17]
Integrated Microscopy Technologies Gothenburg [Service]
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PRDM16 regulates a temporal transcriptional program to promote progression of cortical neural progenitors.
He L, Jones J, He W, ..., Wen J, Dai Q
Development 148 (6) - [2021-03-17; online 2021-03-17]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Integration of whole genome sequencing into a healthcare setting: high diagnostic rates across multiple clinical entities in 3219 rare disease patients.
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]
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Reproducible, portable, and efficient ancient genome reconstruction with nf-core/eager.
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PeerJ 9 (-) e10947 [2021-03-16; online 2021-03-16]
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Expansions of adaptive-like NK cells with a tissue-resident phenotype in human lung and blood.
Brownlie D, Scharenberg M, Mold JE, ..., Marquardt N, Michaëlsson J
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
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Effects of Lactobacillus reuteri supplementation on the gut microbiota in extremely preterm infants in a randomized placebo-controlled trial.
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Cell Reports Medicine 2 (3) 100206 [2021-03-16; online 2021-02-22]
Bioinformatics Support for Computational Resources [Service]
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COVIDENZA - A prospective, multicenter, randomized PHASE II clinical trial of enzalutamide treatment to decrease the morbidity in patients with Corona virus disease 2019 (COVID-19): a structured summary of a study protocol for a randomised controlled trial.
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Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Subcellular Distribution of p53 by the p53-Responsive lncRNA NBAT1 Determines Chemotherapeutic Response in Neuroblastoma.
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Cancer Res. 81 (6) 1457-1471 [2021-03-15; online 2020-12-28]
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Quantifying absolute gene expression profiles reveals distinct regulation of central carbon metabolism genes in yeast.
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Elife 10 (-) - [2021-03-15; online 2021-03-15]
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Circulating proteins associated with allergy development in infants-an exploratory analysis.
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Clin Proteomics 18 (1) 11 [2021-03-15; online 2021-03-15]
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3D-printing of solid lipid tablets from emulsion gels.
Johannesson J, Khan J, Hubert M, Teleki A, Bergström CAS
Int J Pharm 597 (-) 120304 [2021-03-15; online 2021-02-01]
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Transcriptional analysis of islets of Langerhans from organ donors of different ages.
Seiron P, Stenwall A, Hedin A, ..., Lundberg M, Skog O
PLoS ONE 16 (3) e0247888 [2021-03-12; online 2021-03-12]
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Neisseria gonorrhoeae Sequence Typing for Antimicrobial Resistance (NG-STAR) clonal complexes are consistent with genomic phylogeny and provide simple nomenclature, rapid visualization and antimicrobial resistance (AMR) lineage predictions.
Golparian D, Sánchez-Busó L, Cole M, Unemo M
J. Antimicrob. Chemother. 76 (4) 940-944 [2021-03-12; online 2021-01-08]
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The Fennoscandian Shield deep terrestrial virosphere suggests slow motion 'boom and burst' cycles.
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Single cell transcriptomics of primate sensory neurons identifies cell types associated with chronic pain.
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Insight into Functional Membrane Proteins by Solution NMR: The Human Bcl-2 Protein-A Promising Cancer Drug Target.
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Molecules 26 (5) 1467 [2021-03-08; online 2021-03-08]
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Heterogeneous Hunter-Gatherer and Steppe-Related Ancestries in Late Neolithic and Bell Beaker Genomes from Present-Day France.
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NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Albumin Urinary Excretion Is Associated with Increased Levels of Urinary Chemokines, Cytokines, and Growth Factors Levels in Humans.
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Sperm Methylome Profiling Can Discern Fertility Levels in the Porcine Biomedical Model.
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Prevalence of germline pathogenic variants in 22 cancer susceptibility genes in Swedish pediatric cancer patients.
von Stedingk K, Stjernfelt KJ, Kvist A, ..., Olsson H, Øra I
Sci Rep 11 (1) 5307 [2021-03-05; online 2021-03-05]
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OmicLoupe: facilitating biological discovery by interactive exploration of multiple omic datasets and statistical comparisons.
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BMC Bioinformatics 22 (1) 107 [2021-03-04; online 2021-03-04]
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NMR Structure and Dynamics Studies of Yeast Respiratory Supercomplex Factor 2.
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Structure 29 (3) 275-283.e4 [2021-03-04; online 2020-09-08]
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Expanding functional protein sequence spaces using generative adversarial networks
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Nat Mach Intell 3 (4) 324-333 [2021-03-04; online 2021-03-04]
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Effluent solids recirculation to municipal sludge digesters enhances long-chain fatty acids degradation capacity.
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Biotechnol Biofuels 14 (1) 56 [2021-03-04; online 2021-03-04]
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Antibodies to SARS-CoV-2 and risk of past or future sick leave.
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Sci Rep 11 (1) 5160 [2021-03-04; online 2021-03-04]
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A two-tiered targeted proteomics approach to identify pre-diagnostic biomarkers of colorectal cancer risk.
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Sci Rep 11 (1) 5151 [2021-03-04; online 2021-03-04]
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Extracellular Vesicles for the Treatment of Radiation-Induced Normal Tissue Toxicity in the Lung.
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Front Oncol 10 (-) 602763 [2021-03-02; online 2021-03-02]
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A polysaccharide utilization locus from the gut bacterium Dysgonomonas mossii encodes functionally distinct carbohydrate esterases.
Kmezik C, Mazurkewich S, Meents T, ..., Brändén G, Larsbrink J
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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 Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Comparative analysis of targeted next-generation sequencing panels for the detection of gene mutations in chronic lymphocytic leukemia: an ERIC multi-center study.
Sutton L, Ljungström V, Enjuanes A, ..., Stamatopoulos K, Rosenquist R
Haematologica 106 (3) 682-691 [2021-03-01; online 2021-03-01]
Clinical Genomics Uppsala [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Whole-genome analyses provide no evidence for dog introgression in Fennoscandian wolf populations.
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Evol Appl 14 (3) 721-734 [2021-03-00; online 2020-11-09]
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Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics.
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Nat. Med. 27 (3) 546-559 [2021-03-00; online 2021-03-02]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Serum choline in extremely preterm infants declines with increasing parenteral nutrition.
Nilsson AK, Pedersen A, Malmodin D, ..., Pupp IH, Hellström A
Eur J Nutr 60 (2) 1081-1089 [2021-03-00; online 2020-06-25]
Swedish NMR Centre (SNC) [Collaborative]
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RNA transcript response by an Acidithiobacillus spp. mixed culture reveals adaptations to growth on arsenopyrite.
Barragán CE, Márquez MA, Dopson M, Montoya D
Extremophiles 25 (2) 143-158 [2021-03-00; online 2021-02-22]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Plasma oxylipin levels associated with preterm birth in preterm labor✰.
Svenvik M, Raffetseder J, Brudin L, ..., Ernerudh J, Nording ML
Prostaglandins, Leukotrienes and Essential Fatty Acids (PLEFA) 166 (-) 102251 [2021-03-00; online 2021-01-23]
Swedish Metabolomics Centre (SMC) [Service]
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Plasma metabolomics of presymptomatic PSEN1-H163Y mutation carriers: a pilot study.
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Million-year-old DNA sheds light on the genomic history of mammoths.
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Nature 591 (7849) 265-269 [2021-03-00; online 2021-02-17]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Isolation and characterization of extracellular vesicle subpopulations from tissues.
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Integrating the evidence for a terrestrial carbon sink caused by increasing atmospheric CO2.
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New Phytol. 229 (5) 2413-2445 [2021-03-00; online 2020-10-21]
Swedish NMR Centre (SNC) [Collaborative]
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Inflammatory bowel disease and risk of severe COVID-19: A nationwide population-based cohort study in Sweden.
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Experimental evolution of adaptive divergence under varying degrees of gene flow.
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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.
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Open Heart 8 (1) - [2021-03-00; online 2021-03-21]
Affinity Proteomics Uppsala [Service]
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Escherichia coli EC93 deploys two plasmid-encoded class I contact-dependent growth inhibition systems for antagonistic bacterial interactions.
Wäneskog M, Halvorsen T, Filek K, ..., Poole SJ, Koskiniemi S
Microb Genom 7 (3) - [2021-03-00; online 2021-03-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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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]
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Combined Use of Detergents and Ultrasonication for Generation of an Acellular Pig Larynx.
Nayakawde NB, Methe K, Premaratne GU, Banerjee D, Olausson M
Tissue Eng Part A 27 (5-6) 362-371 [2021-03-00; online 2020-09-10]
Integrated Microscopy Technologies Gothenburg [Collaborative]
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Changes in Circulating Cytokines and Adipokines After RYGB in Patients with and without Type 2 Diabetes.
Katsogiannos P, Kamble PG, Pereira MJ, ..., Eriksson JW, Espes D
Obesity (Silver Spring) 29 (3) 535-542 [2021-03-00; online 2021-02-25]
Affinity Proteomics Stockholm [Service]
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Allergome-wide peptide microarrays enable epitope deconvolution in allergen-specific immunotherapy
Mikus M, Zandian A, Sjöberg R, ..., van Hage M, Ohlin M
Journal of Allergy and Clinical Immunology 147 (3) 1077-1086 [2021-03-00; online 2021-03-00]
Autoimmunity and Serology Profiling [Collaborative]
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Abundantly expressed class of noncoding RNAs conserved through the multicellular evolution of dictyostelid social amoebas.
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Genome Res. 31 (3) 436-447 [2021-03-00; online 2021-01-21]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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System-wide identification and prioritization of enzyme substrates by thermal analysis.
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Nat Commun 12 (1) 1296 [2021-02-26; online 2021-02-26]
Chemical Proteomics [Technology development]
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Identification of a conserved virion-stabilizing network inside the interprotomer pocket of enteroviruses.
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Commun Biol 4 (1) 250 [2021-02-26; online 2021-02-26]
Cryo-EM [Service]
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Highly Soluble CsPbBr<sub>3</sub> Perovskite Quantum Dots for Solution-Processed Light-Emission Devices
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ACS Appl. Nano Mater. 4 (2) 1162-1174 [2021-02-26; online 2021-01-13]
Integrated Microscopy Technologies Umeå [Service]
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Peptidoglycan-Binding Anchor Is a Pseudomonas aeruginosa OmpA Family Lipoprotein With Importance for Outer Membrane Vesicles, Biofilms, and the Periplasmic Shape.
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Cryo-EM [Collaborative]
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Vibrio cholerae cytotoxin MakA induces noncanonical autophagy resulting in the spatial inhibition of canonical autophagy.
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Meta-Analysis of Gene Popularity: Less Than Half of Gene Citations Stem from Gene Regulatory Networks.
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Genes 12 (2) - [2021-02-23; online 2021-02-23]
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Challenging conventional karyotyping by next-generation karyotyping in 281 intensively treated patients with AML.
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Blood Adv 5 (4) 1003-1016 [2021-02-23; online 2021-02-17]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Uppsala [Collaborative]
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Chenodeoxycholic Acid Modulates Bile Acid Synthesis Independent of Fibroblast Growth Factor 19 in Primary Human Hepatocytes.
Johansson H, Søndergaard JN, Jorns C, Kutter C, Ellis ECS
Front Endocrinol (Lausanne) 11 (-) 554922 [2021-02-22; online 2021-02-22]
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Single-Cell Analysis of Blood-Brain Barrier Response to Pericyte Loss.
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Mechanism of membrane-tethered mitochondrial protein synthesis.
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Science 371 (6531) 846-849 [2021-02-19; online 2021-02-20]
Global Proteomics and Proteogenomics [Service]
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Continuous human uterine NK cell differentiation in response to endometrial regeneration and pregnancy.
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Sci Immunol 6 (56) eabb7800 [2021-02-19; online 2021-02-19]
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Acute kidney injury leading to CKD is associated with a persistence of metabolic dysfunction and hypertriglyceridemia.
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iScience 24 (2) 102046 [2021-02-19; online 2021-01-09]
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Sheep nemabiome diversity and its response to anthelmintic treatment in Swedish sheep herds.
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Parasit Vectors 14 (1) 114 [2021-02-18; online 2021-02-18]
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Distinct mechanisms of resistance to fulvestrant treatment dictate level of ER independence and selective response to CDK inhibitors in metastatic breast cancer.
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Breast Cancer Res. 23 (1) 26 [2021-02-18; online 2021-02-18]
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Characterization of the nuclear and cytosolic transcriptomes in human brain tissue reveals new insights into the subcellular distribution of RNA transcripts.
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Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Elastin-like recombinamers-based hydrogel modulates post-ischemic remodeling in a non-transmural myocardial infarction in sheep.
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SMAD4 haploinsufficiency in small intestinal neuroendocrine tumors.
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Telomeric double-strand DNA-binding proteins DTN-1 and DTN-2 ensure germline immortality in Caenorhabditis elegans.
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Porphyromonas gingivalis Produce Neutrophil Specific Chemoattractants Including Short Chain Fatty Acids.
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LRIG proteins regulate lipid metabolism via BMP signaling and affect the risk of type 2 diabetes.
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Human species D adenovirus hexon capsid protein mediates cell entry through a direct interaction with CD46.
Persson BD, John L, Rafie K, ..., Carlson LA, Arnberg N
Proc. Natl. Acad. Sci. U.S.A. 118 (3) - [2021-01-19; online 2021-01-02]
Cryo-EM [Service]
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Aging and CMV discordance are associated with increased immune diversity between monozygotic twins.
Yan Z, Maecker HT, Brodin P, ..., Nadeau KC, Andorf S
Immun Ageing 18 (1) 5 [2021-01-18; online 2021-01-18]
Cellular Immunomonitoring [Collaborative]
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A FabG inhibitor targeting an allosteric binding site inhibits several orthologs from Gram-negative ESKAPE pathogens.
Vella P, Rudraraju RS, Lundbäck T, ..., Schneider G, Schnell R
Bioorg. Med. Chem. 30 (-) 115898 [2021-01-15; online 2020-12-05]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Structure of a full-length bacterial polysaccharide co-polymerase.
Wiseman B, Nitharwal RG, Widmalm G, Högbom M
Nat Commun 12 (1) 369 [2021-01-14; online 2021-01-14]
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Ygle, Guve och Rane i Skänninge DNA-analyser löste frågan om deras släktskap
Ahlström Arcini C, Hedvall R, Lundgren M
Fornvännen 115 (4) 274-278 [2021-01-12]
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The overlap of genetic susceptibility to schizophrenia and cardiometabolic disease can be used to identify metabolically different groups of individuals.
Strawbridge RJ, Johnston KJA, Bailey MES, ..., Sennblad B, Smith DJ
Sci Rep 11 (1) 632 [2021-01-12; online 2021-01-12]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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In Situ Assembly of Choline Acetyltransferase Ligands by a Hydrothiolation Reaction Reveals Key Determinants for Inhibitor Design.
Wiktelius D, Allgardsson A, Bergström T, ..., Linusson A, Ekström F
Angew. Chem. Int. Ed. Engl. 60 (2) 813-819 [2021-01-11; online 2020-11-20]
Swedish NMR Centre (SNC) [Collaborative]
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DNA-Metabarcoding of Belowground Fungal Communities in Bare-Root Forest Nurseries: Focus on Different Tree Species.
Marčiulynienė D, Marčiulynas A, Lynikienė J, ..., Gedminas A, Menkis A
Microorganisms 9 (1) - [2021-01-11; online 2021-01-11]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Cryo-EM structure of Helicobacter pylori urease with an inhibitor in the active site at 2.0 Å resolution.
Cunha ES, Chen X, Sanz-Gaitero M, Mills DJ, Luecke H
Nat Commun 12 (1) 230 [2021-01-11; online 2021-01-11]
Cryo-EM [Service]
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In vivo Cross-Linking MS of the Complement System MAC Assembled on Live Gram-Positive Bacteria.
Khakzad H, Happonen L, Tran Van Nhieu G, Malmström J, Malmström L
Front Genet 11 (-) 612475 [2021-01-08; online 2021-01-08]
Structural Proteomics [Collaborative]
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Temporal changes in DNA methylation and RNA expression in a small song bird: within- and between-tissue comparisons.
Lindner M, Verhagen I, Viitaniemi HM, ..., Husby A, van Oers K
BMC Genomics 22 (1) 36 [2021-01-07; online 2021-01-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structural Basis for Bacterial Ribosome-Associated Quality Control by RqcH and RqcP.
Crowe-McAuliffe C, Takada H, Murina V, ..., Wilson DN, Hauryliuk V
Mol. Cell 81 (1) 115-126.e7 [2021-01-07; online 2020-11-30]
Cryo-EM [Service]
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Sex-dimorphic genetic effects and novel loci for fasting glucose and insulin variability.
Lagou V, Mägi R, Hottenga JJ, ..., Prokopenko I, Meta-Analyses of Glucose and Insulin-related traits Consortium (MAGIC)
Nat Commun 12 (1) 24 [2021-01-05; online 2021-01-05]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
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Regulation of Decay Accelerating Factor Primes Human Germinal Center B Cells for Phagocytosis.
Dernstedt A, Leidig J, Holm A, ..., Hultdin M, Forsell MNE
Front Immunol 11 (-) 599647 [2021-01-05; online 2021-01-05]
Bioinformatics Support for Computational Resources [Service]
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Urine Metabolite Profiles and Nutrient Intake Based on 4-Day Weighed Food Diary in Habitual Vegans, Vegetarians, and Omnivores.
Lindqvist HM, Rådjursöga M, Torstensson T, ..., Ellegård L, Winkvist A
J. Nutr. 151 (1) 30-39 [2021-01-04; online 2020-02-13]
Swedish NMR Centre (SNC) [Collaborative]
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Identification of Small Molecules Blocking the Pseudomonas aeruginosa type III Secretion System Protein PcrV.
Sundin C, Saleeb M, Spjut S, Qin L, Elofsson M
Biomolecules 11 (1) - [2021-01-04; online 2021-01-04]
Chemical Biology Consortium Sweden (CBCS) [Service] Swedish NMR Centre (SNC) [Service]
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Embryo-Like Features in Developing Bacillus subtilis Biofilms.
Futo M, Opašić L, Koska S, ..., Mijakovic I, Domazet-Lošo T
Mol. Biol. Evol. 38 (1) 31-47 [2021-01-04; online 2020-09-02]
Glycoproteomics and MS Proteomics [Service]
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Root distribution in intercropping systems – a comparison of DNA based methods and visual distinction of roots
Hassan A, Dresbøll DB, Rasmussen CR, ..., Lund OS, Thorup-Kristensen K
Archives of Agronomy and Soil Science 67 (1) 15-28 [2021-01-02; online 2019-10-16]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Post-treatment of dewatered digested sewage sludge by thermophilic high-solid digestion for pasteurization with positive energy output.
Nordell E, Moestedt J, Österman J, ..., Sun L, Schnürer A
Waste Management 119 (-) 11-21 [2021-01-01; online 2020-10-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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On the interference of urea with CO2/CO32- chemistry of cellulose model solutions in NaOH(aq).
Gunnarsson M, Bernin D, Hasani M
Carbohydr Polym 251 (-) 117059 [2021-01-01; online 2020-09-11]
Swedish NMR Centre (SNC) [Service]
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N-(Methyloxycarbonyl)thiophene sulfonamides as high affinity AT2 receptor ligands.
Wannberg J, Gising J, Lindman J, ..., Hallberg M, Larhed M
Bioorg. Med. Chem. 29 (-) 115859 [2021-01-01; online 2020-11-07]
Drug Discovery and Development (DDD) [Collaborative]
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ZBED6 binding motifs correlate with endogenous retroviruses and Syncytin genes.
Pettersson ME, Jern P
Virus Evol 7 (1) veaa083 [2021-01-00; online 2020-11-06]
Bioinformatics Support for Computational Resources [Service]
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Variable degree of mosaicism for tetrasomy 18p in phenotypically discordant monozygotic twins-Diagnostic implications.
Rydzanicz M, Olszewski P, Kedra D, ..., Dumanski JP, Płoski R
Mol Genet Genomic Med 9 (1) e1526 [2021-01-00; online 2020-12-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure
PubMed DOI Crossref
Urbanization is associated with modifications in DNA methylation in a small passerine bird.
Watson H, Powell D, Salmón P, Jacobs A, Isaksson C
Evol Appl 14 (1) 85-98 [2021-01-00; online 2020-11-13]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The structure of enteric human adenovirus 41-A leading cause of diarrhea in children.
Rafie K, Lenman A, Fuchs J, ..., Arnberg N, Carlson LA
Sci Adv 7 (2) - [2021-01-00; online 2021-01-08]
Cryo-EM [Service] Glycoproteomics and MS Proteomics [Collaborative]
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Sucrose synthase determines carbon allocation in developing wood and alters carbon flow at the whole tree level in aspen.
Dominguez PG, Donev E, Derba-Maceluch M, ..., Mellerowicz EJ, Niittylä T
New Phytol. 229 (1) 186-198 [2021-01-00; online 2020-07-03]
Swedish Metabolomics Centre (SMC) Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Studies of moss reproductive development indicate that auxin biosynthesis in apical stem cells may constitute an ancestral function for focal growth control.
Landberg K, Šimura J, Ljung K, Sundberg E, Thelander M
New Phytol. 229 (2) 845-860 [2021-01-00; online 2020-10-04]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Structural determination of Streptococcus pyogenes M1 protein interactions with human immunoglobulin G using integrative structural biology.
Khakzad H, Happonen L, Karami Y, ..., Malmström J, Malmström L
PLoS Comput. Biol. 17 (1) e1008169 [2021-01-00; online 2021-01-07]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Shared genetic risk between eating disorder- and substance-use-related phenotypes: Evidence from genome-wide association studies.
Munn-Chernoff MA, Johnson EC, Chou YL, ..., Bulik CM, Agrawal A
Addict Biol 26 (1) e12880 [2021-01-00; online 2020-02-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Severe congenital neutropenia-associated JAGN1 mutations unleash a calpain-dependent cell death programme in myeloid cells.
Khandagale A, Holmlund T, Entesarian M, ..., Nordenskjöld M, Fadeel B
Br. J. Haematol. 192 (1) 200-211 [2021-01-00; online 2020-11-18]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Plasma proteins associated with cardiovascular death in patients with chronic coronary heart disease: A retrospective study.
Wallentin L, Eriksson N, Olszowka M, ..., Åberg M, Siegbahn A
PLoS Med. 18 (1) e1003513 [2021-01-00; online 2021-01-13]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Plasma metabolites associated with exposure to perfluoroalkyl substances and risk of type 2 diabetes - A nested case-control study.
Schillemans T, Shi L, Donat-Vargas C, ..., Åkesson A, Brunius C
Environ Int 146 (-) 106180 [2021-01-00; online 2020-10-25]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Novel non-invasive particles in exhaled air method to explore the lining fluid of small airways-a European population-based cohort study.
Hussain-Alkhateeb L, Bake B, Holm M, ..., Mirgorodskaya E, Olin A
BMJ Open Respir Res 8 (1) - [2021-01-00; online 2021-01-07]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Molecular pathways in patients with systemic lupus erythematosus revealed by gene-centred DNA sequencing.
Sandling JK, Pucholt P, Hultin Rosenberg L, ..., Lindblad-Toh K, Rönnblom L
Ann. Rheum. Dis. 80 (1) 109-117 [2021-01-00; online 2020-10-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Mass spectrometry imaging identifies abnormally elevated brain l-DOPA levels and extrastriatal monoaminergic dysregulation in l-DOPA-induced dyskinesia.
Fridjonsdottir E, Shariatgorji R, Nilsson A, ..., Bezard E, Andrén PE
Sci Adv 7 (2) - [2021-01-00; online 2021-01-06]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Longitudinal plasma protein profiling of newly diagnosed type 2 diabetes.
Gummesson A, Björnson E, Fagerberg L, ..., Uhlén M, Bergström G
EBioMedicine 63 (-) 103147 [2021-01-00; online 2020-12-03]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Lake heatwaves under climate change.
Woolway RI, Jennings E, Shatwell T, ..., Pierson DC, Maberly SC
Nature 589 (7842) 402-407 [2021-01-00; online 2021-01-20]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Immunocyte single cell analysis of vaccine‐induced narcolepsy
Lind A, Salami F, Landtblom A, ..., Adolfsson J, Elding Larsson H
Eur. J. Immunol. 51 (1) 247-249 [2021-01-00; online 2020-07-30]
Cellular Immunomonitoring [Service]
PubMed DOI Crossref
Immune determinants of COVID-19 disease presentation and severity.
Brodin P
Nat. Med. 27 (1) 28-33 [2021-01-00; online 2021-01-13]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Identifying the causes and consequences of assembly gaps using a multiplatform genome assembly of a bird-of-paradise.
Peona V, Blom MPK, Xu L, ..., Irestedt M, Suh A
Mol Ecol Resour 21 (1) 263-286 [2021-01-00; online 2020-10-10]
Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Human population dynamics and Yersinia pestis in ancient northeast Asia.
Kılınç GM, Kashuba N, Koptekin D, ..., Storå J, Götherström A
Sci Adv 7 (2) - [2021-01-00; online 2021-01-06]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Host plant diet affects growth and induces altered gene expression and microbiome composition in the wood white (Leptidea sinapis) butterfly.
Näsvall K, Wiklund C, Mrazek V, ..., Vila R, Backström N
Mol. Ecol. 30 (2) 499-516 [2021-01-00; online 2020-12-14]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Heteroleptic Bismuth(III) Dithiocarbamato-Chlorido Complexes of [Bi(S2CNR2)Cl2] and [Bi(S2CNR2)2Cl] (R = C3H7, iso-C4H9): Preparation, 1D Polymer Structures, Heteronuclear (13C, 15N) CP MAS NMR, and Thermal Behavior
Novikova EV, Isakovskaya KL, Antzutkin ON, Ivanov AV
Russ J Coord Chem 47 (1) 43-51 [2021-01-00; online 2021-02-15]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Heparan Sulfate Biosynthesis in Zebrafish.
Filipek-Górniok B, Habicher J, Ledin J, Kjellén L
J. Histochem. Cytochem. 69 (1) 49-60 [2021-01-00; online 2020-11-20]
Genome Engineering Zebrafish [Collaborative]
PubMed DOI Crossref
Genetics meets proteomics: perspectives for large population-based studies.
Suhre K, McCarthy MI, Schwenk JM
Nat. Rev. Genet. 22 (1) 19-37 [2021-01-00; online 2020-08-28]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Evaluation of NTRK immunohistochemistry as a screening method for NTRK gene fusion detection in non-small cell lung cancer.
Elfving H, Broström E, Moens LNJ, ..., Botling J, Micke P
Lung Cancer 151 (-) 53-59 [2021-01-00; online 2020-11-27]
Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Evaluating totipotency using criteria of increasing stringency.
Posfai E, Schell JP, Janiszewski A, ..., Lanner F, Rossant J
Nat Cell Biol 23 (1) 49-60 [2021-01-00; online 2021-01-08]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure
PubMed DOI Crossref
Epigenome-wide cross-tissue correlation of human bone and blood DNA methylation - can blood be used as a surrogate for bone?
Ebrahimi P, Luthman H, McGuigan FE, Akesson KE
Epigenetics 16 (1) 92-105 [2021-01-00; online 2020-07-21]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Effects of operational conditions on auto-catalyzed and sulfuric-acid-catalyzed hydrothermal pretreatment of sugarcane bagasse at different severity factor
Ilanidis D, Stagge S, Jönsson LJ, Martín C
Industrial Crops and Products 159 (-) 113077 [2021-01-00; online 2021-01-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Diversification of molecularly defined myenteric neuron classes revealed by single-cell RNA sequencing.
Morarach K, Mikhailova A, Knoflach V, ..., Ernfors P, Marklund U
Nat. Neurosci. 24 (1) 34-46 [2021-01-00; online 2020-12-07]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Crown‐fire severity is more important than ground‐fire severity in determining soil fungal community development in the boreal forest
Pérez‐Izquierdo L, Clemmensen KE, Strengbom J, ..., Nilsson M, Lindahl BD
J Ecol 109 (1) 504-518 [2021-01-00; online 2020-11-00]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Correlated fluorescence microscopy and multi-ion beam secondary ion mass spectrometry imaging reveals phosphatidylethanolamine increases in the membrane of cancer cells over-expressing the molecular chaperone subunit CCTδ.
Fletcher JS, Sämfors S, Vallin J, Svanström A, Grantham J
Anal Bioanal Chem 413 (2) 445-453 [2021-01-00; online 2020-10-31]
Integrated Microscopy Technologies Gothenburg [Technology development]
PubMed DOI Crossref
Clinical Presentation, Genetic Etiology, and Coenzyme Q10 Levels in 55 Children with Combined Enzyme Deficiencies of the Mitochondrial Respiratory Chain.
Naess K, Bruhn H, Stranneheim H, ..., Wedell A, von Döbeln U
J Pediatr 228 (-) 240-251.e2 [2021-01-00; online 2020-08-19]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
CUBIC-f: An optimized clearing method for cell tracing and evaluation of neurite density in the salamander brain
Pinheiro T, Mayor I, Edwards S, ..., Kirkham M, Simon A
Journal of Neuroscience Methods 348 (-) 109002 [2021-01-00; online 2021-01-00]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
BL1391: an established cell line from a human malignant peripheral nerve sheath tumor with unique genomic features.
Tolomeo D, Agostini A, Macchia G, ..., Mertens F, Storlazzi CT
Hum Cell 34 (1) 238-245 [2021-01-00; online 2020-08-27]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
A novel type of colistin resistance genes selected from random sequence space.
Knopp M, Babina AM, Gudmundsdóttir JS, ..., Trent MS, Andersson DI
PLoS Genet. 17 (1) e1009227 [2021-01-00; online 2021-01-07]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
A Tribute to Professor Per Artursson - Scientist, Explorer, Mentor, Innovator, and Giant in Pharmaceutical Research.
Matsson P, Baranczewski P, Giacomini KM, ..., Charman WN, Bergström CAS
J Pharm Sci 110 (1) 2-11 [2021-01-00; online 2020-10-21]
Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Collaborative]
DOI Crossref
‘Lignin and extractives first’ conversion of lignocellulosic residual streams using UV light from LEDs
Hynynen J, Riddell A, Achour A, ..., Parkås J, Bernin D
Green Chem. 23 (20) 8251-8259 [2021-00-00; online 2021-00-00]
Swedish NMR Centre (SNC) [Service]
DOI Crossref
Vox2Vox: 3D-GAN for Brain Tumour Segmentation
Cirillo MD, Abramian D, Eklund A
- - (-) 274-284 [2021-00-00; online 2021-03-27]
AIDA Data Hub [Service]
DOI Crossref
Learning Cell Nuclei Segmentation Using Labels Generated With Classical Image Analysis Methods
Matuszewski DJ, Ranefall P
- - (-) - [2021-00-00; online 2021-00-00]
BioImage Informatics [Technology development]
DOI Crossref
Discovery of fragments inducing conformational effects in dynamic proteins using a second-harmonic generation biosensor
FitzGerald EA, Butko MT, Boronat P, ..., Young T, Danielson UH
RSC Adv. 11 (13) 7527-7537 [2021-00-00; online 2021-00-00]
Chemical Biology Consortium Sweden (CBCS) [Service] Drug Discovery and Development (DDD)
SciLifeLab Data Centre
Publications 9.5.1