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9482 publications

DOI Crossref
Mycelial biomass growth stage at death determines fungal necromass decay dynamics
Maillard F, Lopes Ramos D, Zhang B, ..., Persson P, Tunlid A
Soil Biology and Biochemistry 214 (-) 110079 [2026-03-00; online 2026-03-00]
Swedish NMR Centre [Collaborative]
Results of Archaeological Research on Burials at St. George’s Church in Gokhnari
Sulkhanishvili D, Ioramashvili S, Mshvildadze M, Goguadze D, Burjanadze G
Chronos 6 (-) 220–246 [2026-01-15; online 2026-01-15]
Ancient DNA [Service]
PubMed DOI Crossref
Single-Cell Omics Analysis of Human Basophils Reveals Two Transcriptionally Distinct Populations.
Papavasileiou S, Mo J, Boey D, ..., Nilsson G, Dahlin JS
Allergy - (-) - [2026-01-07; online 2026-01-07]
NGI Long read [Collaborative] NGI Short read [Service] NGI Single cell [Collaborative] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
TGFβ signaling mediates microglial resilience to spatiotemporally restricted myelin degeneration.
Zhu K, Liu Y, Min JH, ..., Harris RA, Lund H
Nat. Neurosci. - (-) - [2026-01-02; online 2026-01-02]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Acute high-dose irradiation disrupts cell adhesion and Silk-Ovarioid formation in human primary ovarian cells
Deligiannis SP, Li T, Moussaud-Lamodière E, ..., Salumets A, Di Nisio V
J Ovarian Res - (-) - [2026-01-02; online 2026-01-02]
NGI Short read NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Using Historic and Contemporary Genomes to Assess the Genetic Consequences of a Population Decline in an Endangered Tern Population.
Schnelle A, Rollins RE, Müller IA, ..., Bouwhuis S, Liedvogel M
Evol Appl 19 (1) e70192 [2026-01-00; online 2026-01-02]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Anoctamin-2-specific T cells link Epstein-Barr virus to multiple sclerosis
Thomas OG, Rykaczewska U, Galešić M, ..., Guerreiro-Cacais AO, Olsson T
Cell - (-) - [2026-01-00; online 2026-01-00]
Autoimmunity and Serology Profiling [Service]
DOI Crossref
A combinatorial transcription factor screening platform for immune cell reprogramming
Kurochkin I, Altman AR, Caiado I, ..., Theis FJ, Pereira CF
Cell Syst - (-) 101457 [2026-01-00; online 2026-01-00]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Impact of hydrogen peroxide photolysis on viable bacterial count and composition of in vivo dental biofilm-an ex vivo study.
Shirato M, Lehrkinder A, Nakamura K, ..., Lingström P, Örtengren U
BMC Oral Health - (-) - [2025-12-30; online 2025-12-30]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Characterization of CTNND2-related neurodevelopmental disease, phenotype-genotype spectrum and WNT dynamics in early neurogenesis.
Shahsavani M, Wincent J, Reiter R, ..., Weis D, Lindstrand A
Res Sq - (-) - [2025-12-30; online 2025-12-30]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A north-south hemispheric migratory divide in the butterfly Vanessa cardui.
García-Berro A, Shipilina D, Backström N, ..., Vila R, Talavera G
Nat Commun 16 (1) 11341 [2025-12-30; online 2025-12-30]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Plasma protein profiling predicts cancer in patients with non-specific symptoms.
Wannberg F, Álvez MB, Qvick A, ..., Rosell A, Thålin C
Nat Commun 17 (1) 151 [2025-12-29; online 2025-12-29]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
Benchmarking of single nuclei RNA-seq methods on human post-mortem brain tissue.
Nikouei K, Gruyters E, Memic F, Stockmeier CA, Hjerling-Leffler J
Genomics 118 (1) 111184 [2025-12-24; online 2025-12-24]
NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The splicing genes SmEa and SmEb regulate plant development during vegetative growth in poplar.
Goretti D, Collani S, Marcon A, Nilsson O, Schmid M
BMC Plant Biol. 25 (1) 1723 [2025-12-23; online 2025-12-23]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Comparative assessment of SNP genotyping assays for challenging forensic samples utilizing ancient DNA methods
Staadig A, Krzewińska M, Sidstedt M, ..., Götherström A, Tillmar A
Genome Biol. 26 (1) 433 [2025-12-23; online 2025-12-23]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
ZEB1, a novel junctional adhesion molecule A regulator, impacts sensitivity of pancreatic cancer-associated fibroblasts to reovirus.
Dam N, Harryvan TJ, Dang H, ..., Hawinkels LJAC, Kemp V
Mol Ther Oncol 33 (4) 201071 [2025-12-18; online 2025-10-17]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Accessing the proteome of extracellular vesicles via rapid acoustic isolation of a minute human blood plasma sample.
Havers M, Scott AM, Ortenlöf N, ..., Gram M, Laurell T
Anal. Chim. Acta 1379 (-) 344661 [2025-12-15; online 2025-10-01]
Clinical Proteomics Lund [Service]
PubMed DOI Crossref
A morphology-based machine learning model for scoring epithelial-mesenchymal plasticity using organelle dynamics.
Slager J, Gatto F, Frey B, ..., Parniewska MM, Fuxe J
Commun Biol - (-) - [2025-12-10; online 2025-12-10]
Chemical Biology Consortium Sweden [Collaborative]
PubMed DOI Crossref
Ultra-large virtual screening unveils potent agonists of the neuromodulatory orphan receptor GPR139.
Cabeza de Vaca I, Trapkov B, Shen L, ..., Hauser AS, Carlsson J
Nat Commun - (-) - [2025-12-09; online 2025-12-09]
Drug Discovery and Development [Service]
PubMed DOI Crossref
Pharmacological activation of p53 induces dose-dependent changes in endothelial cell fate during angiogenic sprouting
Al-Radi O, Ingelshed K, Eichhorn L, ..., Lane DP, Kannan P
Cell Death Dis 16 (1) 883 [2025-12-08; online 2025-12-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Near-infrared MINFLUX imaging enabled by suppression of fluorophore blinking.
Srambickal CV, Esmaeeli HM, Piguet J, ..., Egner A, Widengren J
Sci Adv 11 (49) eadw3149 [2025-12-05; online 2025-12-05]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Human oligodendrocyte progenitor cells mediate synapse elimination through TAM receptor activation.
Gkogka A, Malwade S, Koskuvi M, ..., Samudyata S, Sellgren CM
Nat Commun 16 (1) 10612 [2025-12-05; online 2025-12-05]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structural basis of specific lysine transport by Pseudomonas aeruginosa permease LysP.
Bicer D, Matsuoka R, Moumbock AFA, ..., Griese JJ, Nji E
Nat Commun - (-) - [2025-12-04; online 2025-12-04]
Cryo-EM [Service]
PubMed DOI Crossref
Homo sapiens-specific evolution unveiled by ancient southern African genomes.
Jakobsson M, Bernhardsson C, McKenna J, ..., Lombard M, Schlebusch CM
Nature - (-) - [2025-12-03; online 2025-12-03]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome of the extinct Gotland cattle breed.
Johnsson M, Johansson AM
BMC Genomics 26 (1) 1093 [2025-12-03; online 2025-12-03]
Ancient DNA [Service]
PubMed DOI Crossref
Gray wolves in an anthropogenic context on a small island in prehistoric Scandinavia.
Girdland-Flink L, Bergström A, Storå J, ..., Götherström A, Skoglund P
Proc. Natl. Acad. Sci. U.S.A. 122 (48) e2421759122 [2025-12-02; online 2025-11-24]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Engineered calcium-regulated affinity protein for efficient internalization and lysosomal toxin delivery.
Jönsson M, Möller M, Schierholz L, ..., Brismar H, Hober S
Proc. Natl. Acad. Sci. U.S.A. 122 (48) e2509081122 [2025-12-02; online 2025-11-25]
Integrated Microscopy Technologies Stockholm [Collaborative]
DOI Crossref
Structural diversity and conservation among CRESS-DNA bacilladnaviruses revealed through cryo-EM and computational modelling
Gebhard LJ, Tomaru Y, Okamoto K, Munke A
Virol J 22 (1) - [2025-12-01; online 2025-12-01]
Cryo-EM [Service]
PubMed DOI Crossref
Sacrificial redox modulation by a secreted bacterial effector molecule mitigates oxidative stress and inflammation in vivo.
Andersson T, Anwaar S, Fuentes-Lemus E, ..., Wells JW, Lood R
Free Radic. Biol. Med. 240 (-) 339-346 [2025-12-01; online 2025-08-21]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Phenotypic variability in early-onset dementia segregating with a novel APP (p.I718M) variant.
Johansson C, Rodriguez-Vieitez E, Bluma M, ..., Nordberg A, Graff C
Alzheimers Res Ther 17 (1) 254 [2025-12-01; online 2025-12-01]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Holotype genome of the lesula provides insights into demography and evolution of a threatened primate lineage.
Jensen A, Horton ER, Koko MB, Detwiler KM, Guschanski K
Genome Biol. 26 (1) 408 [2025-12-01; online 2025-12-01]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Tree retention levels and prescribed burning effects on ectomycorrhizal fungal communities in a boreal Scots pine forest
Lariviere D, Djupström L, Lindahl BD, Dahlberg A
Forest Ecology and Management 598 (-) 123186 [2025-12-00; online 2025-12-00]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transforming solid-state nuclear magnetic resonance towards a chemistry-ready technique
Coulon R, Gajan D, Papawassiliou W, ..., Pintacuda G, Lesage A
Solid State Nuclear Magnetic Resonance 140 (-) 102048 [2025-12-00; online 2025-12-00]
Swedish NMR Centre [Collaborative]
DOI Crossref
The utility of combining deep learning with metabarcoding to model biodiversity dynamics at a national scale
Baggström A, Goodsell R, van Dijk L, ..., Tack AJM, Andermann T
Ecological Informatics 90 (-) 103318 [2025-12-00; online 2025-12-00]
Bioinformatics Support for Computational Resources [Service]
DOI Crossref
The effect of glycerol and protein structure on chemical degradation through deamidation and isomerization
Ramm I, Diehl C, Västberg A, ..., Wahlgren M, Nilsson L
International Journal of Pharmaceutics 686 (-) 126322 [2025-12-00; online 2025-12-00]
Swedish NMR Centre [Service]
PubMed DOI Crossref
Swapped domain orders in ZO-1 PDZ3 fusion proteins - implications for binding of established and novel targets.
Hamsikova M, Hurdalek J, Simonetti L, ..., Ivarsson Y, Zemanova L
Arch. Biochem. Biophys. 774 (-) 110634 [2025-12-00; online 2025-10-03]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Soil carbon and nitrogen near alder, birch and spruce trees in four mixed Norway spruce-dominated stands
Soronen P, Jämtgård S, Myllymäki M, Smolander A
Forest Ecology and Management 598 (-) 123224 [2025-12-00; online 2025-12-00]
Swedish Metabolomics Centre [Service]
DOI Crossref
Quantitative and chemical adaptation of exopolymeric substances formed by a river microbial consortium during exposure to the antibiotic trimethoprim
Duteil T, Gorzsás A, Ramstedt M
Biofilm 10 (-) 100334 [2025-12-00; online 2025-12-00]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Microbiome signatures of virulence in the oral-gut-brain axis influence Parkinson's disease and cognitive decline pathophysiology.
Clasen F, Yildirim S, Arıkan M, ..., Uhlen M, Shoaie S
Gut Microbes 17 (1) 2506843 [2025-12-00; online 2025-05-27]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome Variation in Three Anthophora Bee Species Reflects Divergent Demographic Histories
Taliadoros D, Soares AER, Dias G, ..., Lindblad‐Toh K, Webster MT
Mol Ecol 34 (24) e70204 [2025-12-00; online 2025-12-12]
NGI Long read [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
EphA2 and phosphoantigen-mediated selective killing of medulloblastoma by γδT cells preserves neuronal and stem cell integrity.
Boutin L, Liu M, Déchanet Merville J, Bedoya-Reina O, Wilhelm MT
Oncoimmunology 14 (1) 2485535 [2025-12-00; online 2025-04-07]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Distinct transcriptomic and epigenomic responses of mature oligodendrocytes during disease progression in a mouse model of multiple sclerosis.
Zheng C, Hervé B, Meijer M, ..., Agirre E, Castelo-Branco G
Nat. Neurosci. 28 (12) 2612-2627 [2025-12-00; online 2025-11-17]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Development of DARPin T cell engagers for specific targeting of tumor-associated HLA/peptide complexes
Venetz-Arenas N, Schulte T, Müller S, ..., Walser M, Achour A
iScience 28 (12) 113926 [2025-12-00; online 2025-12-00]
Cryo-EM [Collaborative]
DOI Crossref
Detailed analysis of fungal communities in Norway spruce logs reveals stochastic fine-scale patterns of species and detects lichen forming fungi without their photobionts
Dahlberg A, Pioli S, Jönsson M, ..., Thor G, Nogerius VT
Fungal Ecology 78 (-) 101458 [2025-12-00; online 2025-12-00]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Changes in silver birch biochemical profiles and leaf-associated fungi across genetic markers induced by seed treatment with DBD plasma
Čėsnienė I, Čėsna V, Mildažienė V, ..., Shiratani M, Sirgedaitė-Šėžienė V
Plant Stress 18 (-) 101077 [2025-12-00; online 2025-12-00]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Acylcarnitine enrichment as a characteristic of rheumatoid arthritis fibroblast-like synoviocyte metabolic fingerprint.
Vasileiadis GK, Zhang Y, Laudette M, ..., Guma M, Maglio C
J Transl Autoimmun 11 (-) 100310 [2025-12-00; online 2025-08-19]
Swedish Metabolomics Centre [Service]
DOI Crossref
A nonlocal multiscale model for Brownian particles: Application to hindered deposition in microfluidic systems
Michael AJ, Mark A, Sasic S, Ström H
International Journal of Multiphase Flow 193 (-) 105421 [2025-12-00; online 2025-12-00]
Bioinformatics Support for Computational Resources [Service]
DOI Crossref
Mapping Interactions Between Cytokines, Chemokines, Growth Factors, and Conventional Biomarkers in COVID-19 ICU-Patients
Eriksson MB, Marks-Hultström M, Åberg M, ..., Frithiof R, Larsson AO
Int J Mol Sci 26 (23) 11419 [2025-11-26; online 2025-11-26]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
Blood biomarkers of Alzheimer's disease and progression across different stages of cognitive decline in the community.
Valletta M, Vetrano DL, Gregorio C, ..., Fratiglioni L, Grande G
Nat Commun - (-) - [2025-11-23; online 2025-11-23]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Single cell long read whole genome sequencing reveals somatic transposon activity in human brain.
Izydorczyk MB, Kalef-Ezra E, Horner DW, ..., Sedlazeck FJ, Proukakis C
Commun Biol 8 (1) 1627 [2025-11-20; online 2025-11-20]
NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
DOI Crossref
NUDT5 regulates the global efficacy of nucleoside analog drugs by coordinating purine synthesis and PRPP allocation
Valerie NCK, Alam S, Hormann FM, ..., Arvidsson PI, Altun M
biorxiv - (-) - [2025-11-20; online 2025-11-20]
Chemical Proteomics [Collaborative]
PubMed DOI Crossref
PTBP1 variants displaying altered nucleocytoplasmic distribution are responsible for a neurodevelopmental disorder with skeletal dysplasia.
Masson A, Paccaud J, Orefice M, ..., Thomas Q, Vitobello A
J. Clin. Invest. 135 (22) - [2025-11-17; online 2025-09-18]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Correcting CFTR mRNA splicing defects with the plant cytokine kinetin and its analogues.
Rimoldi V, Soldà G, Capalbo A, ..., Asselta R, Straniero L
J Cyst Fibros - (-) - [2025-11-15; online 2025-11-15]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
scFFPE-ATAC enables high-throughput single cell chromatin accessibility profiling in formalin-fixed paraffin-embedded samples.
Yadav RP, Xing P, Zhao M, ..., Hellström M, Chen X
Nat Commun 16 (1) 10022 [2025-11-14; online 2025-11-14]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Validation of a Genetic Risk Score Combined with Clinical Variables for Predicting Pulmonary Fibrosis in early Rheumatoid Arthritis.
Brink M, Wheeler A, England BR, Rantapää-Dahlqvist S
Arthritis Care Res (Hoboken) - (-) - [2025-11-14; online 2025-11-14]
Clinical Genomics [Service] Clinical Genomics Umeå [Service]
PubMed DOI Crossref
Ancient RNA expression profiles from the extinct woolly mammoth.
Mármol-Sánchez E, Fromm B, Oskolkov N, ..., Friedländer MR, Dalén L
Cell - (-) - [2025-11-14; online 2025-11-14]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A [11C]PBR28 PET study on the associations between sleep health and microglial density.
Balter LJ, Malmros J, Stenkrona P, ..., Kalpouzos G, Papenberg G
J Neuroinflammation 22 (1) 270 [2025-11-14; online 2025-11-14]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
That's So Last Season: Unraveling the Genomic Consequences of Fur Farming in Arctic Foxes (Vulpes lagopus).
Cockerill CA, Chacón-Duque JC, Bergfeldt N, ..., Dalén L, Norén K
Mol. Ecol. - (-) e70166 [2025-11-13; online 2025-11-13]
NGI Long read [Collaborative] NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]
DOI Crossref
Glucosinolate diversity in seven field-collected Brassicaceae species
Pormetter L, Pfalz M, Kagho MD, ..., Kroymann J, Wittstock U
PLoS ONE 20 (11) e0336172 [2025-11-13; online 2025-11-13]
Swedish NMR Centre [Service]
PubMed DOI Crossref
Ancient host-associated microbes obtained from mammoth remains.
Guinet B, Oskolkov N, Moreland K, ..., Dalén L, van der Valk T
Cell 188 (23) 6606-6619.e24 [2025-11-13; online 2025-09-02]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Oligodendroglia as functional effectors of Multiple Sclerosis risk variants
Carlström KE, Agirre E, Sun T, ..., Goldman SA, Castelo-Branco G
biorxiv - (-) - [2025-11-12; online 2025-11-12]
CRISPR Functional Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Stable clonal contribution of lineage-restricted stem cells to human hematopoiesis.
Yoshizato T, Nilsson C, Grasso F, ..., Woll PS, Jacobsen SEW
Nat. Genet. - (-) - [2025-11-11; online 2025-11-11]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Linking nutrient availability and community size to stochasticity in microbial community assembly.
Bick B, Lumpi T, Lindström ES, Langenheder S
FEMS Microbiol. Ecol. 101 (12) - [2025-11-11; online 2025-10-28]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of Streptococcus pneumoniae-Specific Proteins by Surface-Shaving Proteomics.
Acha Alarcon L, Seguí G, Piñeiro-Iglesias B, ..., Moore ERB, Karlsson R
J. Proteome Res. - (-) - [2025-11-10; online 2025-11-10]
Glycoproteomics and MS Proteomics [Service]
DOI Crossref
ALC1 Finds a New Foothold on the Nucleosome’s Super-Groove
Bridges HR, Bacic L, Deindl S, Gaullier G
biorxiv - (-) - [2025-11-10; online 2025-11-10]
Cryo-EM [Service]
DOI Crossref
Metabolomics and glucose tolerance in pregnancy and postpartum: The PONCH study
Andersson-Hall U, Nord AB, Malmodin D, Holmäng A
PLoS ONE 20 (11) e0335708 [2025-11-07; online 2025-11-07]
Swedish NMR Centre [Collaborative]
PubMed DOI Crossref
Preclinical Validation of [177Lu]Lu-AKIR001, a CD44v6-Targeted Radiotherapeutic Entering First-in-Human Trials.
Mortensen ACL, Mohajershojai T, Gustafsson A, ..., Frejd FY, Nestor M
J Nucl Med - (-) - [2025-11-06; online 2025-11-06]
Drug Discovery and Development [Collaborative]
PubMed DOI Crossref
Spatial single-cell atlas reveals regional variations in healthy and diseased human lung.
Firsova AB, Marco Salas S, Kuemmerle LB, ..., Nawijn MC, Samakovlis C
Nat Commun 16 (1) 9745 [2025-11-05; online 2025-11-05]
In Situ Sequencing [Service]
PubMed DOI Crossref
Parallel clines of chromosomal inversion frequencies in seaweed flies are associated with thermal variation.
Nicolas LA, Berdan EL, Wellenreuther M, ..., Glémin S, Mérot C
Heredity (Edinb) - (-) - [2025-11-05; online 2025-11-05]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Improving Triplet-Triplet Annihilation Upconversion Output by a Triplet Mediator Approach: Mechanistic Insights on Homo and Hetero-Annihilation in Three-Component Systems.
Kandappa SK, Gray V
J. Am. Chem. Soc. 147 (44) 40214-40224 [2025-11-05; online 2025-10-24]
Spatial Mass Spectrometry [Service]
PubMed DOI Crossref
Cold-induced serum short-chain fatty acids act as markers of brown adipose tissue metabolism in humans.
Monfort-Pires M, U-Din M, de Mello V, ..., Klingenspor M, Virtanen KA
J. Clin. Endocrinol. Metab. - (-) - [2025-11-05; online 2025-11-05]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
Comparative evaluation of Olink Explore 3072 and mass spectrometry with peptide fractionation for plasma proteomics.
Sissala N, Babačić H, Leo IR, ..., Åberg M, Pernemalm M
Commun Chem 8 (1) 327 [2025-11-04; online 2025-11-04]
Affinity Proteomics Stockholm [Collaborative] Affinity Proteomics Uppsala [Collaborative] Global Proteomics and Proteogenomics [Service] NGI Proteomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
T2T-CHM13 improves read mapping and detection of clinically relevant genetic variation in the Swedish population.
Schmitz D, Ameur A, Johansson Å
Genome Res. 35 (11) 2377-2388 [2025-11-03; online 2025-11-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Ancient DNA and dating evidence for the dispersal of hippos into central Europe during the last glacial.
Arnold P, Döppes D, Alberti F, ..., Rosendahl W, Hofreiter M
Curr. Biol. 35 (21) 5363-5371.e6 [2025-11-03; online 2025-10-08]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Studying macromolecular composition in cell-cell interfaces using 3D membrane reconstitution systems
Ragaller F, Schneider AM, Sjule E, ..., Achour A, Sezgin E
biorxiv - (-) - [2025-11-02; online 2025-11-02]
Integrated Microscopy Technologies Stockholm [Service]
DOI Crossref
Open and closed forms of assembled henipavirus nucleoprotein suggest structural basis of genome access
Jayachandran RB, Quignon E, Renner M
biorxiv - (-) - [2025-11-02; online 2025-11-02]
Cryo-EM [Service]
DOI Crossref
Metabolomic biomarkers associated with trismus and dysphagia, radiation therapy, tumour stage and location in patients with head and neck cancer
Torinsson Naluai Å, Tuomi L, Karlsson T, Finizia C, Skiljic D
Acta Otolaryngol. 145 (11) 1109-1121 [2025-11-02; online 2025-09-26]
Swedish NMR Centre [Service]
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Cryo-EM exposes diverse polymorphism in IAPP mutants to guide the rational design of peptide-based therapeutics.
Ooi SA, Valli D, Kuska MI, ..., Servitja JM, Maj M
J. Mol. Biol. 437 (21) 169405 [2025-11-01; online 2025-08-22]
Bioinformatics Support for Computational Resources [Service] Cryo-EM [Service] Integrated Microscopy Technologies Gothenburg [Service]
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Warming-Induced Effects on Microbial Communities and Nitrogen Cycling Capacity in Tundra Litter Are Modulated by Herb Abundance and Litter Quality.
Jeanbille M, Clemmensen KE, Juhanson J, ..., Tolvanen A, Hallin S
Glob Chang Biol 31 (11) e70582 [2025-11-00; online 2025-11-12]
NGI Long read [Service] NGI Short read NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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The circulating dihydrotestosterone/testosterone ratio is increased by gut microbial 5α-reductase activity in females.
Ohlsson C, Li L, Horkeby K, ..., Fall T, Grahnemo L
EBioMedicine 121 (-) 105978 [2025-11-00; online 2025-10-21]
Bioinformatics Support for Computational Resources [Service]
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Spatiotemporal gene expression and cellular dynamics of the developing human heart.
Lázár E, Mauron R, Andrusivová Ž, ..., Adameyko I, Lundeberg J
Nat. Genet. 57 (11) 2756-2771 [2025-11-00; online 2025-10-29]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Reticulate and Hybrid Speciation is Promoted by Environmental Instability in an Indo-Pacific Species Complex of Whistlers (Aves: Pachycephala).
Irestedt M, Müller IA, Thörn F, ..., van der Valk T, Jønsson KA
Mol. Ecol. 34 (21) e70018 [2025-11-00; online 2025-07-12]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Reproductive Isolation due to Divergent Ecological Selection Is Accompanied by Vast Genomic Instability in Experimentally Evolved Yeast Populations.
Bendixsen DP, Gilchrist C, Haberkorn C, ..., Warringer J, Stelkens R
Mol. Ecol. 34 (22) e70110 [2025-11-00; online 2025-09-17]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Probing physicochemical properties of a mixed-anion protic ionic liquid based on [TFSI] and [NO3]
Abdou N, Pipertzis A, Swenson J, Martinelli A
Journal of Molecular Liquids 437 (-) 128418 [2025-11-00; online 2025-11-00]
Swedish NMR Centre [Service]
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Paleogenomic evidence on the temporal continuity of indigenous goat exploitation in the Canary Islands
Díaz-Pérez C, Santana J, Daly KG, ..., Arnay M, Fregel R
iScience 28 (11) 113771 [2025-11-00; online 2025-11-00]
Ancient DNA [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Novel protein targets for type 2 diabetes prevention and their mediating role in the diet-disease relationship: evidence from 2 population-based cohorts and a Mendelian randomization analysis.
Shi L, Zheng R, Brunius C, ..., Michaëlsson K, Landberg R
Am. J. Clin. Nutr. 122 (5) 1400-1412 [2025-11-00; online 2025-09-15]
Affinity Proteomics Uppsala [Service]
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Impact of Shared Facilities in Advancing Solid-State NMR Research: 2025 Edition
Schurko RW, Rienstra CM, Jaroniec CP, ..., Kigawa T, Manjunatha Reddy GN
Solid State Nuclear Magnetic Resonance - (-) 102053 [2025-11-00; online 2025-11-00]
Swedish NMR Centre [Collaborative]
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Host Traits Impact the Outcome of Metagenomic Library Preparation From Dental Calculus Samples Across Diverse Mammals.
Moraitou M, Richards JL, Bolyos C, ..., Portela Miguez R, Guschanski K
Mol Ecol Resour 25 (8) e70039 [2025-11-00; online 2025-09-01]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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HAPP: High-accuracy pipeline for processing deep metabarcoding data.
Sundh J, Granqvist E, Iwaszkiewicz-Eggebrecht E, ..., Andersson AF, Ronquist F
PLoS Comput. Biol. 21 (11) e1013558 [2025-11-00; online 2025-11-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Growth failure in aggrecan deficiency is due to decreased extracellular matrix and impaired growth plate chondrocyte hypertrophy.
Bendre A, Ottosson L, Baroncelli M, Dou Z, Nilsson O
Bone 200 (-) 117594 [2025-11-00; online 2025-07-18]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Genomic analysis of a Neisseria meningitidis patient isolate causing a false-positive result in the Abbott Alinity m STI, Sweden: a case report.
Herrmann B, Sälléber A, Kaden R
ASM Case Rep 1 (6) - [2025-11-00; online 2025-09-30]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Genomic Landscape of Divergence in Ballan Wrasse (Labrus bergylta).
Jansson E, Ayllon F, Rubin CJ, ..., Lille-Langøy R, Glover KA
Mol. Ecol. 34 (21) e17732 [2025-11-00; online 2025-03-17]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Other NGI Short read NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Genome sequencing in a cohort of 32 fetuses with genetic skeletal disorders.
Lindelöf H, Hammarsjö A, Voss U, ..., Nishimura G, Grigelioniene G
Eur. J. Hum. Genet. 33 (11) 1474-1483 [2025-11-00; online 2025-06-11]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Genetic mapping in the red mason bee implicates ANTSR as an ancient sex-determining locus in bees and ants.
Rönneburg T, Taliadoros D, Olsson A, ..., Seidelmann K, Webster MT
PLoS Biol. 23 (11) e3003458 [2025-11-00; online 2025-11-03]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Epigenetic alterations facilitate transcriptional and translational programs in hypoxia.
Watt K, Dauber B, Szkop KJ, ..., Larsson O, Postovit LM
Nat Cell Biol 27 (11) 1965-1981 [2025-11-00; online 2025-10-16]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Ephemeral Speciation in a New Guinean Honeyeater Complex (Aves: Melidectes).
Müller IA, Thörn F, Rajan S, ..., Irestedt M, Jønsson KA
Mol. Ecol. 34 (21) e17760 [2025-11-00; online 2025-04-11]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Early prediction of subsequent peg-asparaginase inactivation in acute lymphoblastic leukaemia patients-A NOPHO ALL2008 study.
Dam M, Centanni M, Centanni D, ..., Hansen SN, Albertsen BK
Br. J. Haematol. 207 (5) 1920-1929 [2025-11-00; online 2025-09-07]
Bioinformatics Support for Computational Resources [Service]
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Depression Polygenicity and Disease Activity and Disability Worsening in Multiple Sclerosis.
Manouchehrinia A, Fitzgerald KC, Salter A, ..., Wolinsky JS, Kowalec K
Ann Neurol 98 (5) 1057-1069 [2025-11-00; online 2025-08-07]
Bioinformatics Support for Computational Resources [Service]
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Cytomegalovirus infection is common in prostate cancer and antiviral therapies inhibit progression in disease models.
Classon J, Stenudd M, Zamboni M, ..., Druid H, Frisén J
Mol Oncol 19 (11) 3035-3059 [2025-11-00; online 2025-06-10]
Bioinformatics Support for Computational Resources [Service]
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Characterisation of airway inflammation and proteomes associated with cystic fibrosis-related diabetes.
Diemer S, Chowdhury S, Sahl C, Happonen L, Påhlman LI
ERJ Open Res 11 (6) - [2025-11-00; online 2025-11-10]
Clinical Proteomics Lund [Service]
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Aquatic fungal diversity assessment through metagenomics is still limited to current databases
Sanyal A, Kluge M, Redondo MA, ..., Bertilsson S, Peura S
Limnol Oceanogr 70 (11) 3249-3260 [2025-11-00; online 2025-09-12]
Bioinformatics Support for Computational Resources [Service]
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Aberrant expression of SLAMF6 constitutes a targetable immune escape mechanism in acute myeloid leukemia.
Sandén C, Landberg N, Peña-Martínez P, ..., Ågerstam H, Fioretos T
Nat Cancer 6 (11) 1821-1838 [2025-11-00; online 2025-10-03]
Clinical Genomics Lund [Service] Drug Discovery and Development [Collaborative] Structural Proteomics [Service]
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High-resolution structure of proIAPP(1-48) fibrils suggests a mechanistic pathway for diabetes-associated IAPP fibril polymorphs.
Valli D, Maj M
RSC Chem Biol - (-) - [2025-10-31; online 2025-10-31]
Cryo-EM [Service]
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Genetic Analysis of Apple Autumn Canopy Senescence in a Nordic Climate.
Skytte Af Sätra J
Physiol Plantarum 177 (6) e70599 [2025-10-30; online 2025-10-30]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Disease-specific epigenetic deregulation of enhancers, transposons, and polycomb targets in acute promyelocytic leukemia.
Zhong X, Cordeddu L, Gamboa-Cedeno A, ..., Lennartsson A, Lehmann S
Genome Med 17 (1) 135 [2025-10-30; online 2025-10-30]
Bioinformatics Support for Computational Resources [Service]
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Advancing a sensitive method for measuring mitochondrial ATP production in small muscle biopsy samples.
Wibom R, Alsina D, Naess K, ..., Wedell A, Wredenberg A
Anal. Biochem. 709 (-) 116004 [2025-10-30; online 2025-10-30]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Regulation of ADP-ribosyltransferase activity by ART domain dimerization in PARP15
Ebenwaldner C, García Saura AG, Ekström S, ..., Cohen MS, Schüler H
Nat Commun 16 (1) - [2025-10-29; online 2025-10-29]
Structural Proteomics [Collaborative]
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Persistence-Directed Testing of Chemicals Discharged from Offshore Oil Platforms Combined with Nontargeted Analysis.
Møller MT, Birch H, Sjøholm KK, ..., Martin JW, Mayer P
Environ. Sci. Technol. - (-) - [2025-10-29; online 2025-10-29]
Exposomics [Collaborative]
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Paleogenomics Reveals a Loss of Bovine Lineages in Mid-latitude Asia Over the Last 200,000 Years.
Gilardet A, Oppenheimer J, Sinding MS, ..., Heintzman PD, Dalén L
Genome Biol Evol 17 (11) - [2025-10-29; online 2025-11-09]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Epigenetic mediation may explain intergenerational associations between maternal obesogenic lifestyle and children's birth weight: findings from the NorthPop prospective birth cohort.
De Silva K, Lundberg-Ulfsdotter R, Bodén S, ..., Domellöf M, Harlid S
Clin Epigenetics 17 (1) 180 [2025-10-29; online 2025-10-29]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A pangenome and pantranscriptome of hexaploid oat.
Avni R, Kamal N, Bitz L, ..., Spannagl M, Mascher M
Nature - (-) - [2025-10-29; online 2025-10-29]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A Novel Supergene Controls Queen Size and Colony Social Organization in the Ant Myrmica ruginodis.
Sigeman H, Seppä P, Downing PA, ..., Helanterä H, Viljakainen L
Mol. Biol. Evol. 42 (11) - [2025-10-29; online 2025-10-13]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Proteolytic cleavage activates the mitochondrial isoform of TOP3A.
Erdinc D, Albus CA, Rodríguez-Luis A, ..., Gustafsson CM, Nicholls TJJ
Nucleic Acids Res. 53 (20) - [2025-10-28; online 2025-11-05]
Glycoproteomics and MS Proteomics [Collaborative]
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Nucleobase catalysts for the enzymatic activation of 8-oxoguanine DNA glycosylase 1.
Hank EC, D'Arcy-Evans ND, Scaletti ER, ..., Helleday T, Michel M
RSC Chem Biol - (-) - [2025-10-28; online 2025-10-28]
Chemical Biology Consortium Sweden [Service]
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Identification of human gut bacteria that produce bioactive serotonin and promote colonic innervation.
Moretti CH, Grasset E, Zhu J, ..., Simrén M, Bäckhed F
Cell Rep 44 (10) 116434 [2025-10-28; online 2025-10-20]
Bioinformatics Support for Computational Resources [Service]
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Extracellular ATP is an environmental cue in bacteria.
Tronnet S, Pandey V, Lloret-Berrocal M, ..., Nordström A, Puhar A
Cell Rep 44 (10) 116356 [2025-10-28; online 2025-10-08]
Swedish Metabolomics Centre [Service]
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Denitrification is a community trait with partial pathways dominating across microbial genomes and biomes.
Pold G, Saghaï A, Jones CM, Hallin S
Nat Commun 16 (1) 9495 [2025-10-28; online 2025-10-28]
Bioinformatics Support for Computational Resources [Service]
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Intracellular Regulation of a Serotonin-Gated Ion Channel Links Receptor Trafficking to Memory
Cesar L, Zabeo D, Aspholm E, ..., Höög JL, Morud J
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Integrated Microscopy Technologies Gothenburg [Service]
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Altered DNA Methylation Pattern Contributes to Differential Epigenetic Immune Signaling in the Upper Respiratory Airway of Unvaccinated COVID-19 Patients
Govender M, Das J, Hopkins FR, ..., Nyström S, Larsson M
Cells 14 (21) 1673 [2025-10-27; online 2025-10-27]
Clinical Genomics [Service] Clinical Genomics Linköping [Collaborative]
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Autoreactive T cells identified in patients with anti-Jo1+ antisynthetase syndrome recognise a new epitope on histidyl t-RNA synthetase.
Galindo-Feria AS, Sharma RK, Dubnovitsky A, ..., Lundberg IE, Horuluoglu B
Ann. Rheum. Dis. - (-) - [2025-10-25; online 2025-10-25]
NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Comparing methods collecting mucosal secretions and detecting SARS-CoV-2 spike IgA in three laboratories across three countries.
Bladh O, Aguilera K, Sheikh-Mohamed S, ..., Thålin C, Simon V
Vaccine 65 (-) 127792 [2025-10-24; online 2025-10-04]
Affinity Proteomics Uppsala [Collaborative] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Targeted proteomics identifies differentially expressed proteins in Sjögren's disease with incident lymphoma.
Imgenberg-Kreuz J, Fugmann C, Molin AM, ..., Nordmark G, Steering committee
RMD Open 11 (4) - [2025-10-23; online 2025-10-23]
Affinity Proteomics Uppsala [Service]
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Identification and whole-genome characterization of a novel equine papillomavirus.
Blomström AL, Hansen S, Riihimäki M
Virus Genes - (-) - [2025-10-23; online 2025-10-23]
Bioinformatics Support for Computational Resources [Service]
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Diagnostic and prognostic biomarkers associated with histotype in advanced epithelial ovarian cancer.
Ittner E, Swenson H, Werner L, ..., Parris TZ, Helou K
Sci Rep 15 (1) 37171 [2025-10-23; online 2025-10-23]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
Customizing Spider Silk: Generative Models with Mechanical Property Conditioning for Protein Engineering
Neeru D, Karlsson E, Redondo MA, ..., Rising A, Kjellström H
Transactions on ML research - (-) - [2025-10-22]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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A multi-omics approach uncovers causality of IL6R on endotypes of subclinical carotid atherosclerosis and the possible role of the IL6R/OSMR pathway.
Chen QS, Björck HM, Bergman O, ..., Strawbridge RJ, Gigante B
Cardiovasc. Res. - (-) - [2025-10-22; online 2025-10-22]
Affinity Proteomics Uppsala [Service]
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Transcriptomic responses of beet to infection by beet mild yellowing virus.
Puthanveed V, Sajeevan RS, Siddique AB, ..., Lennefors BL, Kvarnheden A
BMC Plant Biol. 25 (1) 1406 [2025-10-21; online 2025-10-21]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Exploring Helical Fraying Linked to Dynamics and Catalysis in Adenylate Kinase.
Mattsson J, Phoeurk C, Schierholz L, ..., Sauer-Eriksson AE, Wolf-Watz M
Biochemistry 64 (20) 4281-4295 [2025-10-21; online 2025-10-03]
Swedish NMR Centre [Service]
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Toxicological and nutritional evaluation of plant cell cultures from scurvy grass (Cochlearia danica) and rowan (Sorbus aucuparia).
Cheung HL, Lo EKK, Zhang F, ..., Nordlund E, El-Nezami H
Front Toxicol 7 (-) 1655489 [2025-10-20; online 2025-10-20]
Glycoproteomics and MS Proteomics [Collaborative]
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Evaluation of a diagnostic metagenomic sequencing assay: Virus detection sensitivity and background nucleic acids in three different sample materials.
Ekman M, Mahani AN, Aralaguppe SG, ..., Albert J, Allander T
J. Clin. Virol. 181 (-) 105882 [2025-10-20; online 2025-10-20]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Pan-Cancer Detection Through DNA Methylation Profiling Using Enzymatic Conversion Library Preparation with Targeted Sequencing.
Qvick A, Adolfsson E, Tornéus L, ..., Karlsson C, Helenius G
Int J Mol Sci 26 (20) - [2025-10-19; online 2025-10-19]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Glycoalkaloid-Free Starch Potatoes Generated by CRISPR/Cas9-Mediated Mutations of Genes in the Glycoalkaloid Biosynthesis Pathway Enable More Sustainable Uses of By-Products From Starch Production.
Liu Y, Merino I, Gutensohn M, ..., Hofvander P, Sitbon F
Plant Biotechnol. J. - (-) - [2025-10-18; online 2025-10-18]
Swedish Metabolomics Centre [Collaborative]
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Cryo-EM structure of CLCA1 identifies CLCA1 as a founding member of a novel metzincin family
Nyström E, van der Post S, Barrett DB, ..., Luis AS, Trillo-Muyo S
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Integrated Microscopy Technologies Gothenburg [Service]
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Ultrafast, remote-controlled protonation reaction enables structural changes in a phytochrome.
Shankar MK, Grunewald L, Wahlgren WY, ..., Ihalainen JA, Westenhoff S
Sci Adv 11 (42) eady0499 [2025-10-17; online 2025-10-17]
Bioinformatics Support for Computational Resources [Service]
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Symbiont Diversity of Rice-Associated Leafhoppers (Cicadellidae) in the Tropical Floodplains of the Tonle Sap Lake, Cambodia.
Phauk S, Assentato L, Sin S, ..., Hap S, Terenius O
Microb. Ecol. 88 (1) 109 [2025-10-17; online 2025-10-17]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Recommendations for bioinformatics in clinical practice.
Lavrichenko K, Engdal ES, Marvig RL, ..., Wirta V, Bagger FO
Genome Med 17 (1) 124 [2025-10-17; online 2025-10-17]
Clinical Genomics [Collaborative] Clinical Genomics Umeå [Collaborative]
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Prodan-based solvatochromic probes for polarity imaging of organelles
Aknine N, Holban P, Ragaller F, ..., Sezgin E, Klymchenko AS
biorxiv - (-) - [2025-10-17; online 2025-10-17]
Integrated Microscopy Technologies Stockholm [Service]
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Reduced vascular leakage correlates with breast carcinoma T regulatory cell infiltration but not with metastatic propensity.
He L, Testini C, Hekmati N, ..., Strell C, Welsh M
Mol Oncol - (-) - [2025-10-16; online 2025-10-16]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Evaluating cell-specific gene expression using single-cell and single-nuclei RNA-sequencing data from human pancreatic islets of the same donors.
Engström K, Nilsson Å, Ofori JK, ..., Bacos K, Ling C
Sci Rep 15 (1) 36133 [2025-10-16; online 2025-10-16]
Clinical Genomics Lund [Service]
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Do 6-9-Year-Old Children in Denmark Adhere to National Dietary Recommendations and Are There Sociodemographic Disparities? The Generation Healthy Kids Study
Holmegaard F, Eilersen AG, Lauritzen L, ..., Toft U, Trab C
res sq - (-) - [2025-10-16; online 2025-10-16]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Distribution of photosensitive fagopyrin in buckwheat flowers and its potential biological relevance.
Hornyák M, Kula-Maximenko M, Miszalski Z, ..., Göransson U, Slazak B
Sci Rep 15 (1) 36279 [2025-10-16; online 2025-10-16]
Spatial Mass Spectrometry [Collaborative]
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Association of estrogen receptor single nucleotide polymorphisms and perinatal depression.
Björvang RD, Gumbo LF, Årdahl A, ..., Fransson E, Skalkidou A
PLoS ONE 20 (10) e0334705 [2025-10-16; online 2025-10-16]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A generative deep learning approach to de novo antibiotic design.
Krishnan A, Anahtar MN, Valeri JA, ..., Wong F, Collins JJ
Cell 188 (21) 5962-5979.e22 [2025-10-16; online 2025-08-14]
Chemical Proteomics [Collaborative]
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Postnatal sustentacular cells as chromaffin progenitors and tumor cells of origin in VHL-related paragangliomas.
Bullova P, Cui P, Arceo M, ..., Mints M, Schlisio S
NPJ Precis Oncol 9 (1) 324 [2025-10-15; online 2025-10-15]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Microbial hydrocarbon degradation potential of the Baltic Sea ecosystem.
Serrana JM, Dessirier B, Nascimento FJA, Broman E, Posselt M
Microbiome 13 (1) 204 [2025-10-15; online 2025-10-15]
Bioinformatics Support for Computational Resources [Service]
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Comparable area under the curve for three risk scores to detect interstitial lung disease in patients with rheumatoid arthritis: an external validation.
Blomberg E, Wahlin B, Södergren A
Rheumatol. Int. 45 (11) 252 [2025-10-15; online 2025-10-15]
Clinical Genomics [Service] Clinical Genomics Umeå [Service]
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Structure of the central Staphylococcus aureus AAA+ protease MecA/ClpC/ClpP.
Azinas S, Wallden K, Katikaridis P, ..., Mogk A, Carroni M
Commun Biol 8 (1) 1467 [2025-10-14; online 2025-10-14]
Cryo-EM [Collaborative]
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Deciphering the determinants of recombinant protein expression across the human secretome.
Masson HO, Di Giusto P, Kuo CC, ..., Rockberg J, Lewis NE
Proc. Natl. Acad. Sci. U.S.A. 122 (41) e2506036122 [2025-10-14; online 2025-10-07]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Anchored screening identifies transcription factor blueprints underlying dendritic cell diversity and subset-specific anti-tumor immunity.
Henriques-Oliveira L, Altman AR, Kurochkin I, ..., Pires CF, Pereira CF
Immunity 58 (10) 2419-2438.e13 [2025-10-14; online 2025-08-29]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Tick-borne encephalitis virus associated with foetal death in a bitch, a case report.
Holst BS, Bonnevie A, Spens J, ..., Syrjä P, Blomström AL
Virol J 22 (1) 326 [2025-10-13; online 2025-10-13]
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Multi-layered dosage compensation of the avian Z chromosome by increased transcriptional burst frequency and elevated translational rates.
Papanicolaou N, Lentini A, Wettersten S, ..., Wright D, Reinius B
Nat Commun 16 (1) 9088 [2025-10-13; online 2025-10-13]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Green Biorefinery Side Stream as a Source of Chlorophyll Pigments, Lignin, and Cellulose for Textile Fibers
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ACS Sustainable Chem. Eng. 13 (40) 16946-16957 [2025-10-13; online 2025-09-29]
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Exposure to marine contaminant mixtures with different toxicity drivers reduces microzooplankton diversity.
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Integrated Microscopy Technologies Stockholm [Technology development]
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Clinical Genomics [Service] Clinical Genomics Lund [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Cell Genomics 5 (10) 100979 [2025-10-08; online 2025-08-22]
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G3 (Bethesda) 15 (10) - [2025-10-08; online 2025-07-30]
Ancient DNA [Collaborative] Bioinformatics Support for Computational Resources [Service]
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Climate-driven deoxygenation promoted potential mercury methylators in the past Black Sea water column
Zhong M, Barrenechea Angeles I, More KD, ..., Coolen MJL, Capo E
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Sci Rep 15 (1) 35039 [2025-10-08; online 2025-10-08]
Affinity Proteomics Stockholm [Service]
DOI Crossref
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Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Long-term warming raises risks of seasonal seafloor methane release in the coastal Baltic Sea.
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Front Microbiol 16 (-) 1636301 [2025-10-07; online 2025-10-07]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Autoimmunity-associated DIORA1 binds the MRCK family of serine/threonine kinases and controls cell motility.
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Proc. Natl. Acad. Sci. U.S.A. 122 (40) e2426917122 [2025-10-07; online 2025-10-03]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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Cell Death Dis 16 (1) 693 [2025-10-06; online 2025-10-06]
Spatial Mass Spectrometry [Collaborative]
DOI Crossref
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Mol. Pharmaceutics 22 (10) 5870-5878 [2025-10-06; online 2025-08-29]
Swedish NMR Centre [Collaborative]
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Sci Rep 15 (1) 34482 [2025-10-03; online 2025-10-03]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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Sci Rep 15 (1) 34481 [2025-10-03; online 2025-10-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics [Service] Clinical Genomics Lund [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Quantitative temporal analysis of pancreatic islet T lymphocyte and macrophage infiltration heralded by serum IgE in congenic BioBreeding (BB) Gimap5-/- rats at risk for insulitis and acute onset diabetes.
Jönsson J, Faxius L, Tångrot J, ..., Ramelius A, Lernmark Å
Inflamm Res 74 (1) 134 [2025-10-03; online 2025-10-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Proteomic analysis of nemaline myopathy in infants reveals distinct common dysregulated proteins and cellular pathways.
Hedberg-Oldfors C, Bedir AZ, Visuttijai K, Michael E, Oldfors A
Front Neurol 16 (-) 1661747 [2025-10-03; online 2025-10-03]
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Latent plasticity of the human pancreas across development, health, and disease.
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bioRxiv - (-) - [2025-10-03; online 2025-10-03]
Spatial Proteomics [Service]
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Innate immune cell subsets are enriched in synovial fluid of ACPA-negative rheumatoid arthritis and characterized by distinct type I IFN gene signatures.
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Correlation of autoantibody profiles with clinical parameters in exfoliative glaucoma patients.
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Int Ophthalmol 45 (1) 404 [2025-10-03; online 2025-10-03]
Autoimmunity and Serology Profiling [Service]
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npj Biol Timing Sleep 2 (1) - [2025-10-01; online 2025-10-01]
Swedish Metabolomics Centre [Service]
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Role of GDH and PARP inhibitors as novel treatments for SDHB-deficient PPGLs.
Tabebi M, Abdallah S, El-Serafi A, Söderkvist P, Gimm O
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Clinical Genomics [Collaborative] Clinical Genomics Linköping [Collaborative]
PubMed DOI Crossref
Developmental low-dose bisphenol A exposure leads to extensive transcriptome female masculinization and male feminization later in life.
Lind T, Dunder L, Lejonklou MH, ..., Melhus H, Lind L
Commun Med (Lond) 5 (1) 410 [2025-10-01; online 2025-10-01]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] Swedish Metabolomics Centre [Service] Swedish NMR Centre [Service]
PubMed DOI Crossref
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FitzGerald EA, Cederfelt D, Kovryzhenko D, ..., de Esch IJP, Danielson UH
RSC Chem Biol 6 (10) 1625-1639 [2025-10-01; online 2025-08-13]
Drug Discovery and Development [Collaborative]
PubMed DOI Crossref
Decoding the genetic drivers of marine bacterial blooms through comparative genomics.
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Microbiome 13 (1) 198 [2025-10-01; online 2025-10-01]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Chromosome-level assembly of the club-legged grasshopper (Gomphocerus sibiricus) genome.
Palacios-Gimenez OM, Varma M, Cheng X, ..., Suh A, Schielzeth H
G3 (Bethesda) - (-) - [2025-10-01; online 2025-10-01]
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 [Collaborative]
PubMed DOI Crossref
Bioinspired mycobacterial lipid coating of porous particles for enhanced antimicrobial efficacy.
Campos Pacheco JE, Davids C, Yalovenko T, ..., Godaly G, Valetti S
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Swedish Metabolomics Centre [Collaborative]
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Mol. Ecol. 34 (19) e70085 [2025-10-00; online 2025-08-26]
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Chemical Proteomics [Technology development]
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Cell Death Differ. 32 (10) 1915-1929 [2025-10-00; online 2025-03-28]
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Fish Shellfish Immunol. 165 (-) 110515 [2025-10-00; online 2025-06-25]
Glycoproteomics and MS Proteomics [Collaborative]
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Affinity Proteomics Uppsala [Service]
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State-of-the-Art and Future Directions in Structural Proteomics.
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Mol. Cell Proteomics 24 (10) 101065 [2025-10-00; online 2025-09-03]
Structural Proteomics [Technology development]
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Spatial transcriptomics exploration of the primary neuroblastoma microenvironment in archived FFPE samples unveils novel paracrine interactions.
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Sleep health associations with serum metabolites in healthy adults.
Sørensen C, Dudka I, Virel A, ..., Kalpouzos G, Sindi S
Brain Behav Immun Health 48 (-) 101050 [2025-10-00; online 2025-07-04]
Swedish NMR Centre [Collaborative]
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Progenitor exhausted PD-1+ T cells are cellular targets of immune checkpoint inhibition in atherosclerosis.
Mulholland M, Chalou A, Andersson SHA, ..., Gisterå A, Engelbertsen D
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Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Phauk S, Assentato L, Meas S, Terenius O
Environ Microbiol Rep 17 (5) e70196 [2025-10-00; online 2025-09-17]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
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Polymer Testing 151 (-) 108942 [2025-10-00; online 2025-10-00]
Swedish NMR Centre [Collaborative]
PubMed DOI Crossref
Microbiota modulates compound-specific toxicity of environmental chemicals: A multi-omics analysis in zebrafish embryos.
Gugescu L, Yang Y, Kool JF, ..., Wincent E, Alenius H
Environ Int 204 (-) 109828 [2025-10-00; online 2025-09-28]
Swedish Metabolomics Centre [Service]
DOI Crossref
Metaaltijden (vol. 12). Bijdragen in de studie van de metaaltijden
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Ancient DNA [Service]
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In Atlantic salmon skin infested with salmon lice, elevated seawater temperatures change gene expression and mucus glycosylation, which promotes pathogen binding.
Thomsson KA, Sveen L, Benktander J, ..., Ytteborg E, Linden SK
Fish Shellfish Immunol. 165 (-) 110557 [2025-10-00; online 2025-07-08]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Impact of systemic SARS-CoV-2 vaccination on mucosal IgA responses to subsequent breakthrough infection.
Marking U, Bladh O, Aguilera K, ..., Åberg M, Thålin C
EBioMedicine 120 (-) 105912 [2025-10-00; online 2025-09-16]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
Harmonizing human plasma metabolite annotation with Plasma Benchmark.
Koistinen V, Meuronen T, Keski-Rahkonen P, ..., Scalbert A, Hanhineva K
Nat Metab 7 (10) 1955-1957 [2025-10-00; online 2025-09-12]
Chalmers Mass Spectrometry Infrastructure [Technology development]
PubMed DOI Crossref
Frequent longitudinal blood microsampling and proteome monitoring identify disease markers and enable timely intervention in a mouse model of type 1 diabetes.
Parajuli A, Bendes A, Byvald F, ..., Schwenk JM, Flodström-Tullberg M
Diabetologia 68 (10) 2277-2289 [2025-10-00; online 2025-08-04]
Affinity Proteomics Stockholm [Service]
DOI Crossref
Effects of rainfall exclusion on soil fungi in a boreal forest landscape
Koelemeijer IA, Castaño C, Clemmensen KE, ..., Jönsson M, Hylander K
Fungal Ecology 77 (-) 101452 [2025-10-00; online 2025-10-00]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Haars J, Wallin F, Elfving K, ..., Palanisamy N, Lennerstrand J
Infect Dis (Lond) 57 (10) 956-965 [2025-10-00; online 2025-05-26]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Cross-Sectional and Longitudinal Immunoprofiling of Oligoarticular Juvenile Idiopathic Arthritis Reveals Different Patterns in Synovial Fluid and Plasma.
Qu H, Neog M, Palmblad K, ..., Aulin C, Harris HE
Scand. J. Immunol. 102 (4) e70055 [2025-10-00; online 2025-09-27]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Add-on probiotics for inflammatory depression - A double-blind randomized placebo-controlled trial.
Söderberg Veibäck G, Lindahl J, Suneson K, ..., Wolkowitz OM, Lindqvist D
Brain, Behavior, and Immunity 129 (-) 348-358 [2025-10-00; online 2025-06-06]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Use of skeletal muscle fiber composition to assess relationship between amino acid metabolism and insulin sensitivity.
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Eur. J. Endocrinol. 193 (4) 553-563 [2025-09-30; online 2025-09-20]
Swedish Metabolomics Centre [Service]
DOI Crossref
Disrupting Notch signalling by a small molecule inhibiting dihydroorotate dehydrogenase activity
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biorxiv - (-) - [2025-09-30; online 2025-09-30]
Chemical Biology Consortium Sweden [Collaborative]
PubMed DOI Crossref
Cellular Hallmarks From Volume Electron Microscopy Reveal Developmental Progression of Plasmodium Ookinetes.
Darif N, Rheinnecker M, Hildenbrand K, ..., Schwab Y, Frischknecht F
Adv Sci (Weinh) - (-) e08250 [2025-09-30; online 2025-09-30]
Integrated Microscopy Technologies Umeå [Collaborative]
PubMed DOI Crossref
Plasma proteomic and metabolomic profiling of coronary and carotid atherosclerosis in the SCAPIS study-differences and similarities.
Fall T, Gummesson A, Hammar U, ..., Östgren CJ, Engström G
Cardiovasc. Res. 121 (11) 1649-1652 [2025-09-29; online 2025-05-06]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Comparative analysis of commercial human primary mesangial cell, implications for experimental design.
Johansson A, Narasimhan G, Keuenhof K, Boi R, Ebefors K
BMC Nephrol 26 (1) 539 [2025-09-29; online 2025-09-29]
Glycoproteomics and MS Proteomics [Service]
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EMBO J. - (-) - [2025-09-29; online 2025-09-29]
Cryo-EM [Service]
DOI Crossref
Scalable deep learning reconstruction for accelerated multidimensional nuclear magnetic resonance spectroscopy of proteins
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Sci Adv 11 (39) - [2025-09-26; online 2025-09-26]
Swedish NMR Centre [Collaborative]
PubMed DOI Crossref
Liquid biomarkers associate with TGF-β Type I receptor and hypoxia in kidney cancer.
Mallikarjuna P, Erdem C, Beorlegui RI, ..., Kamali-Moghaddam M, Landström M
Signal Transduct Target Ther 10 (1) 309 [2025-09-26; online 2025-09-26]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
An injury-associated lobular microniche is associated with the classical tumor cell phenotype in pancreatic cancer.
Söderqvist S, Viljamaa A, Geyer N, ..., Fernández Moro C, Gerling M
Nat Commun 16 (1) 8307 [2025-09-26; online 2025-09-26]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Patients with systemic lupus erythematosus (SLE) have an increased bisphenol A methylation score linked to SLE risk genes and selected clinical subphenotypes.
Vestin H, Oparina N, Eloranta ML, ..., Imgenberg-Kreuz J, Leonard D
RMD Open 11 (3) - [2025-09-25; online 2025-09-25]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Oral mucosal manifestations with identical mutations to the bone marrow in a patient with VEXAS syndrome
Vasaitis L, Blomstrand L, Pandzic T, ..., Baliakas P, Ljungström V
Rheumatology & Autoimmunity - (-) - [2025-09-25; online 2025-09-25]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
PubMed DOI Crossref
Intrinsic heterogeneity of primary cilia revealed through spatial proteomics.
Hansen JN, Sun H, Kahnert K, ..., Axelsson U, Lundberg E
Cell - (-) - [2025-09-25; online 2025-09-25]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Apoptotic bodies in phytoplankton suggest evolutionary conservation of cell death mechanisms.
Corredor L, Vergou GA, Skalický V, ..., Gorzsás A, Funk C
Nat Commun 16 (1) 8427 [2025-09-25; online 2025-09-25]
Cryo-EM [Service] Integrated Microscopy Technologies Umeå [Service]
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Position specific isotope analysis of diethylamine by 2H and 13C NMR - Dual nucleus analysis in forensic investigation of illegal use of chemical weapons.
Lindberg S, Sparrman T, Schleucher J, Norlin R
Talanta 298 (Pt A) 128912 [2025-09-24; online 2025-09-24]
Swedish NMR Centre [Collaborative]
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Major Histocompatibility Complex modulation of Batrachochytrium dendrobatidis and Ranavirus infections in amphibians.
Cortazar-Chinarro M, Richter-Boix A, Halvarsson P, Palomar G, Bosch J
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NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
High Cerebrospinal DOPA Decarboxylase Level Predicts Cognitive Decline in Parkinson's Disease.
Sturchio A, Paslawski W, Khosousi S, ..., Iwaki H, Svenningsson P
Mov Disord Clin Pract - (-) - [2025-09-24; online 2025-09-24]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Corrigendum to "In vitro study of cold atmospheric plasma-induced proliferation inhibition and morphological changes in head and neck carcinoma cell lines" [Journal of Dentistry161 (2025) 106007].
Maravic T, Petrucci G, di Giacomo V, ..., Breschi L, Perrotti V
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Integrated Microscopy Technologies Gothenburg [Technology development]
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Tertiary lymphoid structures in Merkel cell carcinoma facilitate naïve and central memory T-cell infiltration linked to immunotherapy response.
Srinivas N, Spassova I, Lei KC, ..., Lui WO, Becker JC
J Immunother Cancer 13 (9) - [2025-09-23; online 2025-09-23]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Influence of the pre-membrane and envelope proteins on structure, pathogenicity, and tropism of tick-borne encephalitis virus.
Rosendal E, Bisikalo K, Willekens SMA, ..., Nilsson E, Överby AK
J. Virol. 99 (9) e0087025 [2025-09-23; online 2025-08-19]
Cryo-EM [Service] Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
FET fusion oncoproteins enrich SWI/SNF complex subtypes and interaction partners.
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Cell Mol Biol Lett 30 (1) 107 [2025-09-23; online 2025-09-23]
Bioinformatics Support for Computational Resources [Service] Glycoproteomics and MS Proteomics [Service]
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SAG1.3-derived Frizzled-targeting small molecule compounds.
Grätz L, Turku A, Kozielewicz P, ..., Gmeiner P, Schulte G
J. Biol. Chem. - (-) 110751 [2025-09-22; online 2025-09-22]
Chemical Biology Consortium Sweden [Collaborative]
PubMed DOI Crossref
Effects of Stress Coping Styles and Social Defeat on Zebrafish Behaviour and Brain Transcriptomics.
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Bioinformatics Support for Computational Resources [Service]
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Controllable properties and versatile dynamics of meron topological magnetism in van der Waals multiferroic CuCrP2S6.
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iScience 28 (9) 113291 [2025-09-19; online 2025-08-05]
Bioinformatics Support for Computational Resources [Service]
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Werner L, Ittner E, Swenson H, ..., Parris TZ, Helou K
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Bioinformatics Support for Computational Resources [Service]
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Clinical Genomics Lund [Service]
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Pronounced seasonal dynamics in transcription of vitamin B1 acquisition strategies diverge among Baltic Sea bacterioplankton.
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Environ Microbiome 20 (1) 115 [2025-09-16; online 2025-09-16]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Effects of Oligolysine-Polyethylene Glycol Coating on the Biodistribution of Wireframe DNA Origami Nanosheets in Zebrafish Embryos.
Kolonelou C, Engström E, Bräutigam L, ..., Andersson O, Teixeira AI
ACS Nano 19 (36) 32145-32157 [2025-09-16; online 2025-09-03]
Integrated Microscopy Technologies Stockholm [Service]
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Schiopu A, Svedlund S, Narasimhan G, ..., Nilsson J, Gan LM
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Affinity Proteomics Uppsala [Service]
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Method development and validation for quantitative determination of urinary biomarkers of food intake for multiple foods.
Hassenberg C, Soukup ST, Armeni M, ..., Kulling SE, Mack CI
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Chalmers Mass Spectrometry Infrastructure [Technology development]
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Jaén-Luchoro D, Salvà-Serra F, Piñeiro-Iglesias B, ..., Moore ERB, Karlsson R
Int J Mol Sci 26 (18) - [2025-09-15; online 2025-09-15]
Glycoproteomics and MS Proteomics [Service]
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Temporal control of human DNA replication licensing by CDK4/6-RB signalling and chemical genetics.
Sosenko Piscitello A, Nilsson AS, Hawgood M, ..., Halazonetis TD, Lemmens B
Nat Commun 16 (1) 8268 [2025-09-12; online 2025-09-12]
Integrated Microscopy Technologies Stockholm [Service]
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Genome sequences of six clinical isolates of Candida parapsilosis exhibiting different degrees and temporal regulation of biofilm formation.
Shafeeq S, Pannanusorn S, Dainat J, ..., Nystedt B, Römling U
Microbiol Resour Announc 14 (9) e0130024 [2025-09-11; online 2025-08-11]
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Personality and repeated social defeat affect health condition and gene expression in the skin and intestines in zebrafish.
Benrejdal L, Hubená P, Brodin D, ..., Winberg S, Bergman P
Prog. Neuropsychopharmacol. Biol. Psychiatry - (-) 111487 [2025-09-09; online 2025-09-09]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Immunogenicity and innate immunity to high-dose and repeated vaccination of modified mRNA versus unmodified mRNA.
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Chemical Proteomics [Technology development]
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Glycoproteomics and MS Proteomics [Service]
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Jaiswal RK, Garibo Domingo T, Grunchec H, ..., Elhaik E, Cohn M
Curr Genet 71 (1) 19 [2025-09-03; online 2025-09-03]
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Genetic Adaptation to Brackish Water and Spawning Season in European Cisco.
Deng Q, Goodall J, Bergenius Nord M, ..., Pettersson OV, Andersson L
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Tissue Architecture Modulates Compositional and Structural Properties of Corneal Myofibroblast-Derived Matrix.
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Cryo-EM [Service] Integrated Microscopy Technologies Umeå [Service]
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Bioinformatics Support for Computational Resources [Service]
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Plasma membrane labelling efficiency, internalization and partitioning of functionalized fluorescent lipids as a function of lipid structure.
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Immune-coagulation dynamics in severe COVID-19 revealed by autoantibody profiling and multi-omics integration.
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Sci Rep 15 (1) 32149 [2025-09-01; online 2025-09-01]
Affinity Proteomics Uppsala [Service] Autoimmunity and Serology Profiling [Service]
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Systematic profiling of cancer-fibroblast interactions reveals drug combinations in ovarian cancer.
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Affinity Proteomics Stockholm [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Ecol Evol 15 (9) e72163 [2025-09-00; online 2025-09-16]
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Autoimmunity and Serology Profiling [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Proteomic biomarkers and pathway analysis for progression to heart failure in three epidemiological representative cohorts.
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Affinity Proteomics Uppsala [Service]
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Bioinformatics Support for Computational Resources [Service]
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Oral contraceptive use increases bone density and reduces the risk of osteoporosis.
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Bioinformatics Support for Computational Resources [Service]
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Ontogeny-specific induction of the KMT2A::AFF1-fusion drives development of a distinct CD24 positive pre-leukemic state.
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Leukemia 39 (9) 2099-2111 [2025-09-00; online 2025-07-11]
Clinical Genomics Lund [Service]
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Multilayered Epigenetic Analysis Identifies a Molecular Portrait for Psychological Resilience in Patients With Breast Cancer.
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Lineage-specific targets of positive selection in three leaf beetles correspond with defence capacity against their shared parasitoid wasp.
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Heredity (Edinb) 134 (9) 567-575 [2025-09-00; online 2025-09-08]
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Gonçalves I, Sun J, Singh P, ..., Edsfeldt A, Shami A
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Affinity Proteomics Uppsala [Service]
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Ancient DNA [Service] Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genomic determinants of therapy response in ETV6::RUNX1 leukemia.
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Bioinformatics Support for Computational Resources [Service]
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Bioinformatics Support for Computational Resources [Service]
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Disease-specific U1 spliceosomal RNA mutations in mature B-cell neoplasms.
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NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Atherosclerosis 408 (-) 120457 [2025-09-00; online 2025-07-18]
Affinity Proteomics Uppsala [Service]
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Affinity Proteomics Uppsala [Service]
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Clinical Proteomics Lund [Service]
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Nutr Metab Cardiovasc Dis 35 (9) 104102 [2025-09-00; online 2025-04-25]
Bioinformatics Support for Computational Resources [Service]
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Classification of Paediatric Celiac Disease Using RNA Sequencing and Real-Time PCR of Duodenal Biomarkers.
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Circulating protein biomarkers and their association with vulnerable plaque characteristics - a PROSPECT II substudy.
Sharma T, Maehara A, Maeng M, ..., Stone GW, Erlinge D
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Affinity Proteomics Uppsala [Service]
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Applying Deep Learning to Quantify Drivers of Long-Term Ecological Change in a Swedish Marine Protected Area.
Nilsson CL, Faurby S, Burman E, Germishuys J, Obst M
Ecol Evol 15 (9) e72091 [2025-09-00; online 2025-09-02]
Bioinformatics Support for Computational Resources [Service]
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Among-individual asynchrony but not genetic diversity is associated with temporal stability of tree growth in natural Quercus robur oak stands.
Hall M, Sunde J, Franzén M, Forsman A
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Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Affinity Proteomics Uppsala [Service]
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Glycoproteomics and MS Proteomics [Collaborative]
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Affinity Proteomics Uppsala [Service]
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NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Structure of the complete 14-subunit botulinum neurotoxin B complex reveals a unique anchoring through the narrow central pore of HA70.
Krč A, Košenina SP, Nowakowska MB, Masuyer G, Stenmark P
Sci Adv 11 (35) eadx5058 [2025-08-29; online 2025-08-27]
Cryo-EM [Service]
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Abas Bİ, Bergqvist M, Yu L, ..., Park K, Lötvall J
Adv Materials Inter - (-) - [2025-08-29; online 2025-08-29]
Integrated Microscopy Technologies Gothenburg [Service]
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Structural and biochemical basis for activity of Aspergillus nidulans α-1,3-glucanases from glycoside hydrolase family 71
Mazurkewich S, Widén T, Karlsson H, ..., Brändén G, Larsbrink J
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Swedish NMR Centre [Service]
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Chemical Biology Consortium Sweden [Collaborative]
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Sci Data 12 (1) 1502 [2025-08-28; online 2025-08-28]
Bioinformatics Support for Computational Resources [Service]
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In Situ Sequencing [Collaborative]
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Nucleic Acids Res. 53 (16) - [2025-08-27; online 2025-09-01]
CRISPR Functional Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mettl15-Mettl17 modulates the transition from early to late pre-mitoribosome.
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Structure - (-) - [2025-08-27; online 2025-08-27]
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Combinatorial DNMTs and EZH2 inhibition reprograms the H3K27me3 and DNAme-mediated onco-epigenome to suppress multiple myeloma proliferation.
Atienza Párraga A, Nylund P, Diamanti K, ..., Jernberg Wiklund H, Kalushkova A
Sci Rep 15 (1) 31568 [2025-08-27; online 2025-08-27]
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Muntjewerff EM, Epremidze D, Nezhyva M, ..., Mahata SK, Christoffersson G
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Spatial Mass Spectrometry [Collaborative]
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Björk KI, Langen B, Schroff A, ..., Spetz J, Forssell-Aronsson E
Radiat Prot Dosimetry 201 (13-14) 919-933 [2025-08-26; online 2025-08-30]
Glycoproteomics and MS Proteomics [Collaborative]
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Wood-specific modification of glucuronoxylan can enhance growth in Populus.
Urbancsok J, Donev EN, Derba-Maceluch M, ..., Scheepers G, Mellerowicz EJ
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Swedish Metabolomics Centre [Service]
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Cozzi E, Neddermeyer A, Zhong X, ..., Lennartsson A, Lehmann S
Cancer Gene Ther - (-) - [2025-08-23; online 2025-08-23]
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Kaya I, Vallianatou T, Nilsson A, ..., Bezard E, Andrén PE
NPJ Parkinsons Dis 11 (1) 258 [2025-08-23; online 2025-08-23]
Spatial Mass Spectrometry [Technology development]
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Tjakra M, Lidayová K, Avenel C, Bergström CAS, Hossain S
J Nanobiotechnology 23 (1) 583 [2025-08-22; online 2025-08-22]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support for Computational Resources [Service]
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Kauko O, Turunen M, Pihlajamaa P, ..., Hautaniemi S, Taipale J
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Environmental and Inflammatory Factors Drive Perinuclear-Antineutrophil Cytoplasmic Antibodies (pANCA) in Ulcerative Colitis: A European Twin Study.
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Chelebian E, Avenel C, Järemo H, ..., Bergh A, Wählby C
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PLoS ONE 20 (8) e0328831 [2025-08-20; online 2025-08-20]
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García-Calzón S, Maguolo A, Eichelmann F, ..., Gonçalves I, Ling C
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Dalsbecker P, Suominen S, Faridi MA, ..., Viiri LE, Adiels CB
Lab Chip 25 (17) 4328-4344 [2025-08-19; online 2025-08-19]
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Schwochow D, Alameddine A, Spörndly-Nees E, ..., Niazi A, Lindgren G
BMC Genomics 26 (1) 751 [2025-08-18; online 2025-08-18]
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Plant Biotechnol. J. - (-) - [2025-08-17; online 2025-08-17]
Swedish Metabolomics Centre [Service] Swedish NMR Centre [Collaborative]
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Tampere M, H Le T, Asp E, ..., Östling P, Stadler C
Biomed Pharmacother 191 (-) 118447 [2025-08-16; online 2025-08-16]
Chemical Biology Consortium Sweden [Collaborative] Spatial Proteomics [Collaborative]
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Body weight reduction by increased weight loading in mice is associated with sensory signaling in the dorsal horn of the lumbar spinal cord.
Anesten F, Zlatkovic J, Ohlsson C, ..., Hägg D, Jansson JO
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Br J Clin Pharmacol - (-) - [2025-08-15; online 2025-08-15]
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Thorén MH, Olsson B, Vonk PJ, ..., Ryberg M, Johannesson H
Science 389 (6761) 720-723 [2025-08-14; online 2025-08-14]
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Immunity 58 (8) 2120-2136.e5 [2025-08-12; online 2025-07-14]
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Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Affinity Proteomics Stockholm [Service]
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Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling.
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The role of metabolism in shaping enzyme structures over 400 million years.
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Bioinformatics Support for Computational Resources [Service]
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Pain Rep 10 (4) e1305 [2025-08-00; online 2025-07-02]
Chemical Biology Consortium Sweden [Collaborative]
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Sublytic Activity of a Pore-Forming Protein From Commensal Bacteria Causes Epigenetic Modulation of Tumour-Affiliated Protein Expression.
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Structure, assembly and inhibition of the Toxoplasma gondii respiratory chain supercomplex.
MacLean AE, Shikha S, Ferreira Silva M, ..., Sheiner L, Mühleip A
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Nationwide multicentre study of Nanopore long-read sequencing for 16S rRNA-species identification.
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Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Service] Clinical Genomics Uppsala [Collaborative] Clinical Genomics Örebro [Collaborative] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Bioinformatics Support for Computational Resources [Service]
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Conserv Genet 26 (4) 703-714 [2025-08-00; online 2025-04-08]
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Clin. Genet. 108 (2) 199-205 [2025-08-00; online 2025-02-19]
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Genome-wide identification of modulators of Chlamydia trachomatis parasitophorous vacuole stability highlights an important role for sphingolipid supply.
Babu Sait MR, Jachmann LH, Türköz G, ..., Schmierer B, Sixt BS
PLoS Biol. 23 (8) e3003297 [2025-08-00; online 2025-08-12]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service] Chemical Biology Consortium Sweden [Service] Integrated Microscopy Technologies Umeå [Technology development] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genetics of monozygotic twins reveals the impact of environmental sensitivity on psychiatric and neurodevelopmental phenotypes.
Assary E, Coleman JRI, Hemani G, ..., Munroe PB, Keers R
Nat Hum Behav 9 (8) 1683-1696 [2025-08-00; online 2025-06-10]
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Coral Reefs 44 (4) 1185-1195 [2025-08-00; online 2025-05-30]
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ESMO Open 10 (8) 105512 [2025-08-00; online 2025-07-14]
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Oikos 2025 (8) - [2025-08-00; online 2025-04-04]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Functional Ecology 39 (8) 1998-2014 [2025-08-00; online 2025-06-12]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Forest Ecology and Management 589 (-) 122781 [2025-08-00; online 2025-08-00]
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Deep sequencing combined with high-throughput screening enables efficient development of a pH-dependent high-affinity binding domain targeting HER3.
Möller M, Jönsson M, Lundqvist M, ..., Tegel H, Hober S
Protein Sci. 34 (8) e70247 [2025-08-00; online 2025-07-29]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Complex relationship between soil fungi and conservation value assessments in boreal forests.
Kyaschenko J, Mielke L, Jönsson M, ..., Clemmensen KE, Strengbom J
Conservation Biology 39 (4) e70012 [2025-08-00; online 2025-03-12]
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Henry OJ, Ygberg S, Barbaro M, ..., Stödberg T, Wedell A
Epilepsia 66 (8) 2966-2979 [2025-08-00; online 2025-04-04]
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Cafestol and kahweol concentrations in workplace machine coffee compared with conventional brewing methods.
Orrje E, Fristedt R, Rosqvist F, Landberg R, Iggman D
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Rescue of loss-of-function long QT syndrome-associated mutations in KV7.1/KCNE1 by the endocannabinoid N-arachidonoyl-L-serine (ARA-S).
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British Journal of Pharmacology 182 (13) 2861-2877 [2025-07-00; online 2025-03-14]
Chemical Biology Consortium Sweden [Collaborative] Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Refolding of the Deinococcus Radiodurans phytochrome photosensory module and an extended backbone resonance assignment by solution NMR
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Protein Expression and Purification 231 (-) 106699 [2025-07-00; online 2025-07-00]
Swedish NMR Centre [Collaborative]
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Magn Reson Chem 63 (8) 560-568 [2025-07-00; online 2025-05-22]
Swedish NMR Centre [Collaborative]
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Arage G, Dekkers KF, Rašo LM, ..., Fall T, Ahmad S
Metabolism 168 (-) 156188 [2025-07-00; online 2025-03-11]
Bioinformatics Support for Computational Resources [Service]
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Music style preferences and well-being: A genetic perspective
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Blom MPK, Bloom-Quinn S, Marki PZ, ..., Irestedt M, Jønsson KA
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mol Metab 97 (-) 102162 [2025-07-00; online 2025-05-07]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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J Environ Manage 388 (-) 125972 [2025-07-00; online 2025-05-30]
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Integrated Microscopy Technologies Gothenburg [Service]
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Söderquist L, Joffard N, Scofield DG, ..., Karrenberg S, Sletvold N
Ecography 2025 (7) - [2025-07-00; online 2025-03-19]
Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Poult. Sci. 104 (7) 105246 [2025-07-00; online 2025-05-02]
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Dev Sci 28 (4) e70041 [2025-07-00; online 2025-06-20]
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Exposomics [Collaborative]
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Integrated Microscopy Technologies Stockholm [Service]
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Chemical Proteomics [Collaborative]
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An Y, Garcia SL, Hambäck PA
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Fossi MC, Limonta G, Baini M, ..., Rosso M, Panti C
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Valli D, Ooi SA, Kaya I, ..., Andrén PE, Maj M
Biochemistry 64 (12) 2583-2595 [2025-06-17; online 2025-05-26]
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Swedish NMR Centre [Service]
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Affinity Proteomics Stockholm [Service] Affinity Proteomics Uppsala [Service]
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Inflamm Bowel Dis 31 (6) 1493-1501 [2025-06-13; online 2024-09-14]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Commun Med (Lond) 5 (1) 230 [2025-06-12; online 2025-06-12]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Eur J Nutr 64 (5) 217 [2025-06-11; online 2025-06-11]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Virol J 22 (1) 188 [2025-06-07; online 2025-06-07]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Gut 74 (7) 1125-1136 [2025-06-06; online 2025-06-06]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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- 53 (11) - [2025-06-06; online 2025-06-06]
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NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Elife 13 (-) - [2025-06-03; online 2025-06-03]
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Wastewater surveillance of SARS-CoV-2 from aircraft to citywide monitoring.
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NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Walsh G, Donoghue BO, Höglund J, ..., Tree of Life Core Informatics collective , Darwin Tree of Life Consortium
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Referenceless 4D flow cardiovascular magnetic resonance with deep learning.
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Clinical Genomics [Collaborative] Clinical Genomics Linköping [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Affinity Proteomics Uppsala [Service]
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Transcriptomic characterization of maturing neurons from human neural stem cells across developmental time points.
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IBRO Neurosci Rep 18 (-) 679-689 [2025-06-00; online 2025-04-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Trajectories and dimensional phenotypes of depressive symptoms throughout pregnancy and postpartum in relation to prior premenstrual symptoms.
Schleimann-Jensen E, Sundström-Poromaa I, Meltzer-Brody S, ..., Skalkidou A, Comasco E
Br J Psychiatry 226 (6) 401-409 [2025-06-00; online 2025-06-20]
Bioinformatics Support for Computational Resources [Service]
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Small molecules restore mutant mitochondrial DNA polymerase activity.
Valenzuela S, Zhu X, Macao B, ..., Gustafsson CM, Falkenberg M
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Cryo-EM [Service] Integrated Microscopy Technologies Gothenburg [Service]
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Shared requirement for MYC upstream super-enhancer region in tissue regeneration and cancer.
Sur I, Zhao W, Zhang J, ..., de la Roche M, Taipale J
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Rêgo A, Baur J, Girard-Tercieux C, ..., Stelkens R, Berger D
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Affinity Proteomics Uppsala [Collaborative]
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Precision Omics Initiative Sweden (PROMISE) will integrate research with healthcare.
Kämpe A, Gudmundsson S, Walsh CP, ..., Lindstrand A, Lappalainen T
Nat. Med. 31 (6) 1730-1732 [2025-06-00; online 2025-04-05]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics Gothenburg [Collaborative] Clinical Genomics Lund [Service] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Phylogenetic relationships and the identification of allopolyploidy in circumpolar Silene sect. Physolychnis.
Quatela AS, Cangren P, de Lima Ferreira P, ..., de Boer HJ, Oxelman B
Am. J. Bot. 112 (6) e70051 [2025-06-00; online 2025-05-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Multimorbidity patterns and blood biomarkers of Alzheimer's disease in community-dwelling cognitively unimpaired older adults.
Marengoni A, Grande G, Valletta M, ..., Winblad B, Vetrano DL
Alzheimers Dement 21 (6) e70411 [2025-06-00; online 2025-06-23]
Affinity Proteomics Stockholm [Collaborative]
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Gil-Muñoz F, Ranade SS, Hayatgheibi H, ..., Östlund L, García-Gil MR
Evol Appl 18 (6) e70122 [2025-06-00; online 2025-06-23]
Swedish Metabolomics Centre [Service]
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Henkel E, Li Z, Uvehag D, ..., Henkel M, Wermeling F
CRISPR J 8 (3) 216-223 [2025-06-00; online 2025-05-07]
CRISPR Functional Genomics [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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Hernandez-Pacheco N, Björkander S, Merid SK, ..., Schwenk JM, Melén E
Allergy 80 (6) 1702-1714 [2025-06-00; online 2025-06-04]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Thörn F, Müller IA, Soares AER, ..., Blom MPK, Irestedt M
Mol. Ecol. 34 (11) e17780 [2025-06-00; online 2025-04-29]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Fermentative Yeast Diversity at the Northern Range Limit of Their Oak Tree Hosts.
Pinto J, Haberkorn C, Franzén M, Tack AJM, Stelkens R
Environ Microbiol Rep 17 (3) e70110 [2025-06-00; online 2025-05-25]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Excitatory and inhibitory neurotransmitter alterations with advancing age and injury in the mouse retina.
Bell KC, Chrysostomou V, Karlsson M, ..., Williams PA, Crowston JG
Neurobiol. Aging 150 (-) 69-79 [2025-06-00; online 2025-03-08]
Swedish Metabolomics Centre [Service]
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Camargo A, Nilsson A, Shariatgorji R, ..., Andren PE, Svenningsson P
Mol. Psychiatry 30 (6) 2504-2516 [2025-06-00; online 2024-11-26]
Spatial Mass Spectrometry [Collaborative]
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EMD missense variant causes X-linked isolated dilated cardiomyopathy with myocardial emerin deficiency.
Bulmer L, Ljungman C, Hallin J, ..., Oldfors A, Gummesson A
Eur. J. Hum. Genet. 33 (6) 775-783 [2025-06-00; online 2025-03-10]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Direct and indirect pathways linking the Lon protease to motility behaviors in the pathogen Pseudomonas aeruginosa.
Kallazhi A, Rahman A, Römling U, Jonas K
PLoS Pathog. 21 (6) e1013288 [2025-06-00; online 2025-06-25]
Global Proteomics and Proteogenomics [Service]
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Diffuse large B cell lymphoma in rheumatoid arthritis patients is associated with elevated B-cell driving factors including CXCL13.
Euler N, Hellbacher E, Klint EA, ..., Grönwall C, AUTO-LYMPHOMA study group
Clin. Immunol. 275 (-) 110476 [2025-06-00; online 2025-03-19]
Affinity Proteomics Stockholm [Service]
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Diel Bacterioplankton Community Dynamics Under Contrasting Light Regimes.
Papadopoulou S, Linkhorst A, Balmonte JP, ..., Bertilsson S, Székely AJ
Environ Microbiol Rep 17 (3) e70099 [2025-06-00; online 2025-05-09]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Defining short linear motif binding determinants by phage display-based deep mutational scanning.
Benz C, Maassen L, Simonetti L, ..., Davey NE, Ivarsson Y
Protein Sci. 34 (6) e70174 [2025-06-00; online 2025-05-25]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Basal and exercise-induced expression of NLRP3 inflammasome-related components is increased in patients with chronic coronary syndrome.
Mahmood Z, Bäck M, Leanderson P, ..., Skoglund C, Jonasson L
Atherosclerosis 405 (-) 119227 [2025-06-00; online 2025-04-30]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Bacterial transcriptional repressor NrdR - a flexible multifactorial nucleotide sensor.
Rozman Grinberg I, Bimaï O, Shahid S, ..., Sjöberg BM, Logan DT
FEBS J. 292 (12) 3091-3112 [2025-06-00; online 2025-03-03]
Cryo-EM [Service]
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An optimised Bcl‐3 inhibitor for melanoma treatment
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British Journal of Pharmacology 182 (11) 2426-2446 [2025-06-00; online 2025-02-12]
Swedish NMR Centre [Collaborative]
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An Investigation of TDA1 Deficiency in Saccharomyces cerevisiae During Diauxic Growth.
Bjurström EY, Lasin P, Brunnsåker D, Tiukova IA, King RD
Yeast 42 (5-7) 142-156 [2025-06-00; online 2025-06-26]
Chalmers Mass Spectrometry Infrastructure [Service]
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Abundance of dopamine and its receptors in the brain and adipose tissue following diet-induced obesity or caloric restriction.
Hukema FW, Hetty S, Kagios C, ..., Roman E, Eriksson JW
Translational Research 280 (-) 41-54 [2025-06-00; online 2025-05-08]
Spatial Mass Spectrometry [Collaborative]
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Graversen AEL, Lønborg C, Addamo AM, ..., Zygadlowska OM, Jensen DK
Data Brief 60 (-) 111595 [2025-06-00; online 2025-05-03]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Human LY9 governs CD4+ T cell IFN-γ immunity to Mycobacterium tuberculosis.
Ogishi M, Puchan J, Yang R, ..., Boisson-Dupuis S, Casanova JL
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Comprehensive transcriptome assessment in PBMCs of post-COVID patients at a median follow-up of 28 months after a mild COVID infection reveals upregulation of JAK/STAT signaling and a prolonged immune response.
Fineschi S, Klar J, Lopez Egido JR, ..., Kaden R, Dahl N
Front Immunol 16 (-) 1589589 [2025-05-30; online 2025-05-30]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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biorxiv - (-) - [2025-05-28; online 2025-05-28]
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Alghazali R, Tabebi M, Elmasry M, El-Serafi A
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Clinical Genomics [Collaborative] Clinical Genomics Linköping [Collaborative]
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Eur J Nutr 64 (5) 187 [2025-05-26; online 2025-05-26]
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Asghar N, Jaafar R, Valko A, ..., Lindqvist CM, Johansson M
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Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Three-Dimensional Atomic-Level Structure of an Amorphous Glucagon-Like Peptide-1 Receptor Agonist
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Swedish NMR Centre [Collaborative]
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Seasonal dynamics and nutrient controls of biogenic silica in Baltic Sea surface microplankton and picoplankton communities.
Churakova Y, Aguilera A, Charalampous E, ..., Pinhassi J, Farnelid H
Appl. Environ. Microbiol. 91 (5) e0067625 [2025-05-21; online 2025-04-28]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Metabolomic-genomic prediction realizes small increases in accuracy of estimated breeding values for daily gain in pigs
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Genet. Sel. Evol. 57 (1) - [2025-05-21; online 2025-05-21]
Swedish NMR Centre [Collaborative]
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Data of the Insect Biome Atlas: a metabarcoding survey of the terrestrial arthropods of Sweden and Madagascar.
Miraldo A, Sundh J, Iwaszkiewicz-Eggebrecht E, ..., Roslin T, Ronquist F
Sci Data 12 (1) 835 [2025-05-21; online 2025-05-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The ACBD3 protein coordinates ER-Golgi contacts to enable productive TBEV infection.
Yau W-L, Peters MBA, Rönfeldt S, ..., Överby AK, Lundmark R
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Swedish Metabolomics Centre [Collaborative]
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IL1RAP Expression in Human Atherosclerosis: A Target of Novel Antibodies to Reduce Vascular Inflammation and Adhesion.
Lindkvist M, Göthlin Eremo A, Paramel GV, ..., Sirsjö A, Fransén K
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Affinity Proteomics Stockholm [Service]
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Nat Commun 16 (1) 4633 [2025-05-19; online 2025-05-19]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Brain tumors induce immunoregulatory dendritic cells in draining lymph nodes that can be targeted by OX40 agonist treatment.
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NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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QS molecules change the planktonic/mineral subpopulations distribution of moderately thermophilic leaching bacteria in pyrite and decrease leaching in chalcopyrite.
Salas B, Bellenberg S, Nilsson E, ..., Dopson M, Vera M
Front Microbiol 16 (-) 1592588 [2025-05-16; online 2025-05-16]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Preparation for mitosis requires gradual CDK1 activation.
Akopyan K, Hao Z, Lindqvist A
iScience 28 (5) 112292 [2025-05-16; online 2025-03-25]
Bioinformatics Support for Computational Resources [Service]
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Modular deregulation of central carbon metabolism for efficient xylose utilization in Saccharomyces cerevisiae.
Li X, Wang Y, Chen X, ..., Nielsen J, Chen Y
Nat Commun 16 (1) 4551 [2025-05-16; online 2025-05-16]
Chalmers Mass Spectrometry Infrastructure [Service]
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Human proteome distribution atlas for tissue-specific plasma proteome dynamics.
Malmström E, Malmström L, Hauri S, ..., Niméus E, Malmström J
Cell 188 (10) 2810-2822.e16 [2025-05-15; online 2025-04-08]
Clinical Proteomics Lund [Technology development]
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Cryptic infection of a giant virus in a unicellular green alga.
Erazo-Garcia MP, Sheyn U, Barth ZK, ..., Moniruzzaman M, Aylward FO
Science 388 (6748) eads6303 [2025-05-15; online 2025-05-15]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Revised phylogeny of mouflon based on expanded sampling of mitogenomes.
Mereu P, Pirastru M, Morell Miranda P, ..., Günther T, Leoni GG
PLoS ONE 20 (5) e0323354 [2025-05-14; online 2025-05-14]
Ancient DNA [Service] Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Metagenomic biodiversity assessment within an offshore wind farm.
Serivichyaswat PT, Scholte T, Wilms T, Stranddorf L, van der Valk T
Sci Rep 15 (1) 16786 [2025-05-14; online 2025-05-14]
Bioinformatics Support for Computational Resources [Service]
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Proteomic and lipidomic profiling of immune cell-derived subpopulations of extracellular vesicles
Lischnig A, Karimi N, Larsson P, ..., Olin AC, Lässer C
biorxiv - (-) - [2025-05-13; online 2025-05-13]
Integrated Microscopy Technologies Gothenburg [Service]
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Combining spatial transcriptomics with tissue morphology.
Chelebian E, Avenel C, Wählby C
Nat Commun 16 (1) 4452 [2025-05-13; online 2025-05-13]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
PubMed DOI Crossref
Combining live fluorescence imaging with in situ cryoelectron tomography sheds light on the septation process in Deinococcus radiodurans.
Gaifas L, Kleman JP, Lacroix F, ..., Gutsche I, Timmins J
Proc. Natl. Acad. Sci. U.S.A. 122 (19) e2425047122 [2025-05-13; online 2025-05-06]
Cryo-EM [Collaborative]
DOI Crossref
Uromodulin velcro sheets and their interaction with uropathogenic E. coli
Banjara S, Wang H, Schaeffer C, ..., Sandblad L, Jovine L
biorxiv - (-) - [2025-05-11; online 2025-05-11]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Maternal asthma and newborn DNA methylation.
Pedersen CT, Hoang TT, Jin J, ..., London SJ, Bønnelykke K
Clin Epigenetics 17 (1) 79 [2025-05-10; online 2025-05-10]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Streamlining Multiplexed Tissue Image Analysis with PIPΣX: An Integrated Automated Pipeline for Image Processing and EXploration for Diverse Tissue Types.
Mardamshina M, Navarro FB, Casals AM, ..., Wählby C, Lundberg E
bioRxiv - (-) - [2025-05-09; online 2025-05-09]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
DOI Crossref
Open-flask, ambient temperature direct arylation synthesis of mixed ionic-electronic conductors
Kimpel J, Kim Y, Schomaker H, ..., Sommer M, Müller C
Sci Adv 11 (19) - [2025-05-09; online 2025-05-09]
Swedish NMR Centre [Service]
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Multiplex quantification of endocrine proteins in volumetric dried blood spots.
Stauch W, Olausson J, Bendes A, Beck O, Schwenk JM
Clin Proteomics 22 (1) 18 [2025-05-09; online 2025-05-09]
Affinity Proteomics Stockholm [Service]
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CpG island methylator phenotype classification improves risk assessment in pediatric T-cell acute lymphoblastic leukemia.
Schäfer Hackenhaar F, Refhagen N, Hagleitner M, ..., Hultdin M, Degerman S
Blood 145 (19) 2161-2178 [2025-05-08; online 2025-01-22]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Challenging the "Undruggable"─Targeting STAT3 but Identifying Potent TrkA-Targeted Inhibitors.
Iliev P, McCutcheon C, Admas TH, ..., Frank DA, Page BDG
J. Med. Chem. 68 (9) 9501-9524 [2025-05-08; online 2025-04-17]
Chemical Biology Consortium Sweden [Collaborative]
PubMed DOI Crossref
Anti-integrin αvβ6 IgG antibody as a diagnostic and prognostic marker in ulcerative colitis: A cross-sectional and longitudinal study defining a specific disease phenotype.
Pertsinidou E, Salomon B, Bergemalm D, ..., Høivik ML, Halfvarson J
J Crohns Colitis 19 (5) - [2025-05-08; online 2025-04-19]
Affinity Proteomics Uppsala [Service]
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Elucidation of short linear motif-based interactions of the MIT and rhodanese domains of the ubiquitin-specific protease 8.
Konstantinou A, Varga JK, Córdova-Pérez A, ..., Kulathu Y, Ivarsson Y
Biol. Direct 20 (1) 59 [2025-05-06; online 2025-05-06]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Sleeping for two: a cross-sectional study on associations between objectively measured sleep during early to mid-pregnancy and maternal and fetal outcomes and inflammatory biomarker profiles.
Macdonald C, Pitsillos T, Wikström AK, ..., Poromaa IS, Kallak TK
BMC Pregnancy Childbirth 25 (1) 533 [2025-05-05; online 2025-05-05]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Oligodendroglia vulnerability in the human dorsal striatum in Parkinson's disease.
Barba-Reyes JM, Harder L, Marco Salas S, ..., Serrano-Pozo A, Muñoz-Manchado AB
Acta Neuropathol. 149 (1) 46 [2025-05-05; online 2025-05-05]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] In Situ Sequencing [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Maintaining the Integral Membrane Proteome: Revisiting the Functional Repertoire of Integral Membrane Proteases
Fremlén H, Burmann BM
ChemBioChem 26 (9) - [2025-05-05; online 2025-03-18]
Swedish NMR Centre [Collaborative]
PubMed DOI Crossref
Integrative analyses of circulating microRNA expression profile in hexavalent chromium exposed workers - A cross-sectional study within the SafeChrom project.
Jiang Z, Pan M, Liu Y, ..., Broberg K, SafeChrom Project Team
J Hazard Mater 488 (-) 137367 [2025-05-05; online 2025-01-25]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
External validation of plasma CSF1 as a preoperative prognostic marker in patients with resectable intrahepatic cholangiocarcinoma.
Akiki A, Jacobsson H, Nouairia G, ..., Taflin H, Jansson H
Eur J Surg Oncol 51 (8) 110123 [2025-05-04; online 2025-05-04]
Affinity Proteomics Stockholm [Service]
Vikby – gård, gravar och gårdsritualer i Täby
Hamilton J, Lindberg M, Andersson L, ..., Magnell O, Plikk A
Uppdragsarkeologiska rapporter, diarenummer 431-2360-2020 - (-) - [2025-05-02; online 2025-05-02]
Ancient DNA [Service]
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Unexpectedly low recombination rates and presence of hotspots in termite genomes.
Everitt T, Rönneburg T, Elsner D, ..., Korb J, Webster MT
Genome Res. 35 (5) 1124-1137 [2025-05-02; online 2025-05-02]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Museum Ecologies
Fredengren C, Ewing A, Owman C, Holmstedt J
Mus. Soc. 23 (1) - [2025-05-01; online 2025-05-01]
Ancient DNA [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The value of age of onset and family history as predictors of molecular diagnosis in a Swedish cohort of inherited retinal disease.
De Geer K, Löfgren S, Lindstrand A, Kvarnung M, Björck E
Acta Ophthalmol 103 (3) 327-338 [2025-05-00; online 2024-12-06]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
TOR1AIP2 as a candidate gene for dystonia-hemichorea/hemiballism.
Kafantari E, Hernandez VJ, Necpál J, ..., Schwartz TU, Puschmann A
Parkinsonism Relat Disord 134 (-) 107781 [2025-05-00; online 2025-03-11]
Clinical Genomics Lund [Service]
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Structural Battery Electrolytes Based on a Cross‐Linked Methacrylate Polymer and a Protic Ionic Liquid: Is There an Optimal Composition?
Abdou N, Pipertzis A, Chaudhary R, ..., Swenson J, Martinelli A
Adv Energy and Sustain Res 6 (5) - [2025-05-00; online 2025-03-11]
Swedish NMR Centre [Service]
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Sperm DNA methylation landscape and its links to male fertility in a non-model teleost using EM-seq.
Pappas F, Johnsson M, Andersson G, Debes PV, Palaiokostas C
Heredity (Edinb) 134 (5) 293-305 [2025-05-00; online 2025-03-18]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Sex pheromone biosynthesis in the Oriental fruit moth Grapholita molesta involves Δ8 desaturation.
Dam MI, Ding BJ, Brauburger K, ..., Heckel DG, Löfstedt C
Insect Biochem. Mol. Biol. 180 (-) 104307 [2025-05-00; online 2025-03-30]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Proteins associated with preserved ratio impaired spirometry.
Lindberg E, Zhou X, Behndig AF, ..., Malinovschi A, Blomberg A
ERJ Open Res 11 (3) - [2025-05-00; online 2025-06-30]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Protein profiling in intensive care unit-treated COVID-19 patients identifies biomarkers of residual lung abnormalities.
Kalafatis D, Björnson M, Svobodová B, ..., Westergren-Thorsson G, Sköld M
ERJ Open Res 11 (3) - [2025-05-00; online 2025-06-23]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Neural ensembles that encode nocifensive mechanical and heat pain in mouse spinal cord.
Zhang MD, Kupari J, Su J, ..., Lagerström MC, Ernfors P
Nat. Neurosci. 28 (5) 1012-1023 [2025-05-00; online 2025-03-24]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mutational signatures and kataegis in pediatric B-cell precursor acute lymphoblastic leukemia.
Gunnarsson R, Yang M, Biloglav A, ..., Paulsson K, Johansson B
Hemasphere 9 (5) e70136 [2025-05-00; online 2025-05-19]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Large Inversions Shape Diversification and Genome Evolution in Common Quails.
Ravagni S, Montero-Mendieta S, Leonard JA, ..., Sanchez-Donoso I, Vilà C
Mol. Ecol. 34 (9) e17740 [2025-05-00; online 2025-04-04]
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Intermediate Monocytes and High Levels of Chemokine CCL3 Are Associated With Increased Risk of Atrial Fibrillation in the General Population.
Sveen KA, Smith JG, Goncalves I, ..., Björkbacka H, Bengtsson E
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Affinity Proteomics Uppsala [Service]
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Kvarnung M, Pettersson M, Chun-On P, ..., Nordgren A, Tesi B
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Iwaszkiewicz-Eggebrecht E, Goodsell RM, Bengsson BÅ, ..., Roslin T, Ronquist F
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Hemagglutinin Protease HapA Associated With Vibrio cholerae Outer Membrane Vesicles (OMVs) Disrupts Tight and Adherens Junctions.
Baryalai P, Irenaeus D, Toh E, ..., Nadeem A, Wai SN
J Extracell Vesicles 14 (5) e70092 [2025-05-00; online 2025-05-26]
Cryo-EM [Service]
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Genome-wide association study of direct oral anticoagulants and their relation to bleeding.
Attelind S, Eriksson N, Wadelius M, Hallberg P
Eur J Clin Pharmacol 81 (5) 771-783 [2025-05-00; online 2025-03-21]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Fertilizer‐induced soil carbon rapidly disappears after clearcutting in boreal production forests
Boeraeve M, Granath G, Lindahl BD, Clemmensen KE, Strengbom J
Journal of Applied Ecology 62 (5) 1202-1215 [2025-05-00; online 2025-04-06]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Error Reduction in Leukemia Machine Learning Classification With Conformal Prediction.
Lysenkova Wiklander M, Zachariah D, Krali O, Nordlund J
JCO Clin Cancer Inform 9 (-) e2400324 [2025-05-00; online 2025-05-28]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Pesu H, Mbabazi J, Mutumba R, ..., Friis H, Grenov B
J Pediatr Gastroenterol Nutr 80 (5) 889-898 [2025-05-00; online 2025-03-03]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Characterization of Extracellular Vesicles Derived From Human Precision-Cut Liver Slices in Metabolic Dysfunction-Associated Steatotic Liver Disease.
Geng Y, Luo K, Stam J, ..., Wolters JC, Olinga P
J Extracell Biol 4 (5) e70043 [2025-05-00; online 2025-04-30]
Integrated Microscopy Technologies Gothenburg [Service]
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Blood biomarkers of Alzheimer's disease and 12-year muscle strength trajectories in community-dwelling older adults: a cohort study.
Ornago AM, Pinardi E, Grande G, ..., Bellelli G, Vetrano DL
Lancet Healthy Longev 6 (5) 100715 [2025-05-00; online 2025-05-22]
Affinity Proteomics Stockholm [Collaborative]
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Mol Ecol Resour 25 (4) e14067 [2025-05-00; online 2025-02-04]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Maternal Adiponectin Decreases Placenta Nutrient Transport in Mice.
Samad M, Ulfenborg B, Soleimani Sani S, ..., Wernstedt Asterholm I, Benrick A
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Glycoproteomics and MS Proteomics [Service]
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High Content Imaging in Drug Discovery
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BTB/POZ-MATH proteins regulate Arabidopsis seedling development by promoting auxin-independent degradation of the Aux/IAA protein IAA10.
Ban Z, Hou YJ, Ku E, ..., Zhao Y, Estelle M
Plant Physiol. 198 (1) - [2025-04-30; online 2025-04-21]
Swedish Metabolomics Centre [Service]
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The overlooked trio: sleep duration, sampling time and physical exercise alter levels of olink-assessed blood biomarkers of cardiovascular risk.
Brandão LEM, Zhang L, Grip A, ..., Benedict C, Cedernaes J
Biomark Res 13 (1) 67 [2025-04-29; online 2025-04-29]
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Jung S, Kokane S, Li H, ..., Nomura N, Drew D
Int J Mol Sci 26 (9) - [2025-04-29; online 2025-04-29]
Cryo-EM [Service]
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Met-ID: An Open-Source Software for Comprehensive Annotation of Multiple On-Tissue Chemical Modifications in MALDI-MSI.
Bjärterot P, Nilsson A, Shariatgorji R, ..., Käll L, Andrén PE
Anal. Chem. 97 (16) 9033-9041 [2025-04-29; online 2025-04-20]
Spatial Mass Spectrometry [Technology development]
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Viruses 17 (5) - [2025-04-29; online 2025-04-29]
Glycoproteomics and MS Proteomics [Service]
PubMed
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Melkersson K
Neuro Endocrinol. Lett. 46 (1) 1-14 [2025-04-28; online 2025-04-28]
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Significant Associations Between Blood Cell Counts and Plasma Cytokines, Chemokines, and Growth Factors.
Eriksson LB, Eriksson MB, Gordh T, Larsson AO
Int J Mol Sci 26 (9) - [2025-04-25; online 2025-04-25]
Affinity Proteomics Uppsala [Service]
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Geroscience - (-) - [2025-04-24; online 2025-04-24]
Affinity Proteomics Stockholm [Collaborative]
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Conformal prediction enables disease course prediction and allows individualized diagnostic uncertainty in multiple sclerosis.
Sreenivasan AP, Vaivade A, Noui Y, ..., Spjuth O, Kultima K
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Balakrishnan A, Hunziker M, Tiwary P, ..., Drew D, Billker O
Nat Commun 16 (1) 3895 [2025-04-24; online 2025-04-24]
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Aguilera A, Lundin D, Charalampous E, ..., Farnelid H, Pinhassi J
Appl. Environ. Microbiol. 91 (4) e0252724 [2025-04-23; online 2025-03-27]
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Pregnancy is associated with a simultaneous but independent increase in circulating CD177pos and immature low-density granulocytes.
Dahlstrand Rudin A, Torell A, Popovic J, ..., Lundell AC, Bylund J
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Glycoproteomics and MS Proteomics [Service]
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Sex differences in DNMT3A-mutant clonal hematopoiesis and the effects of estrogen.
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Cell Rep 44 (4) 115494 [2025-04-22; online 2025-04-02]
Bioinformatics Support for Computational Resources [Service]
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Goedecke JH, Danquah I, Abidha CA, ..., Landberg R, Olsson T
BMJ Open 15 (4) e099108 [2025-04-22; online 2025-04-22]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Kosek DM, Petzold K, Andersson ER
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Prognostic Value of the Circulating Tumor DNA Fraction in Metastatic Castration-resistant Prostate Cancer: Results from the ProBio Platform Trial.
Crippa A, Laere B, Discacciati A, ..., Eklund M, ProBio Investigators
Eur Urol Oncol - (-) - [2025-04-21; online 2025-04-21]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Constraints to gene flow increase the risk of genome erosion in the Ngorongoro Crater lion population.
Dussex N, Jansson I, van der Valk T, ..., E Mjingo E, Spong G
Commun Biol 8 (1) 640 [2025-04-21; online 2025-04-21]
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BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Targeted inhibition of WIP1 and histone H3K27 demethylase activity synergistically suppresses neuroblastoma growth.
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Cell Death Dis 16 (1) 318 [2025-04-19; online 2025-04-19]
Bioinformatics Support for Computational Resources [Service]
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Karyotype evolution and speciation in Orthoptera.
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Bioinformatics Support for Computational Resources [Service]
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Disruption-induced changes in syntrophic propionate and acetate oxidation: flocculation, cell proximity, and microbial activity.
Weng N, Najafabadi HN, Westerholm M
Biotechnol Biofuels Bioprod 18 (1) 45 [2025-04-19; online 2025-04-19]
NGI Short read [Service] NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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González-López A, Ge X, Larsson DSD, ..., Sanyal S, Selmer M
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Integrated Microscopy Technologies Stockholm [Service]
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Garre E, Rhost S, Gustafsson A, ..., Ståhlberg A, Landberg G
Commun Biol 8 (1) 621 [2025-04-16; online 2025-04-16]
Glycoproteomics and MS Proteomics [Service]
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Integrated Microscopy Technologies Gothenburg [Service]
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In vivo composition of the mitochondrial nucleoid in mice.
García-Villegas R, Odenthal F, Giannoula Y, ..., Levander F, Larsson NG
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Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Cell Reports Medicine 6 (4) 101992 [2025-04-15; online 2025-03-06]
Bioinformatics Support for Computational Resources [Service]
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Choline levels in the pregenual anterior cingulate cortex associated with unpleasant pain experience and anxiety.
Hudhud L, Hauksson J, Haney M, ..., Eriksson J, Lindgren L
Neuroimage 310 (-) 121153 [2025-04-15; online 2025-03-16]
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High diversity of nitrifying bacteria and archaea in biofilms from a subsea tunnel.
Kop LFM, Koch H, Dalcin Martins P, ..., Jetten MSM, Lücker S
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Bioinformatics Support for Computational Resources [Service]
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Deep targeted sequencing of circulating tumor DNA to inform treatment in patients with metastatic castration-resistant prostate cancer.
Nørgaard M, Rusan M, Kondrup K, ..., Lindberg J, Sørensen KD
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Contamination on inner walls of syringes used for compounding and administration of hazardous drugs.
Sessink P, Tans B, Devolder D
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Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Cytoskeletal alterations in neuronal cells implicate Toxoplasma gondii secretory machinery and host microRNA-containing extracellular vesicles.
Mazza T, Aslanzadeh M, Berentsen L, ..., Friedländer MR, Barragan A
Sci Rep 15 (1) 12606 [2025-04-12; online 2025-04-12]
NGI Other [Collaborative] NGI Short read [Collaborative] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Collaborative]
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Inflammatory and lipemic response to red meat intake in women with and without Rheumatoid Arthritis: a single meal study within a randomized controlled trial
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Swedish NMR Centre [Service]
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Chemical Biology Consortium Sweden [Collaborative]
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A red fluorescent lifeact marker to study actin morphology in podocytes.
Wiesner E, Binz-Lotter J, Tröder SE, ..., Wedlich-Söldner R, Hackl MJ
Sci Rep 15 (1) 12386 [2025-04-11; online 2025-04-11]
Integrated Microscopy Technologies Stockholm [Service]
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Nuclear AGO2 supports influenza A virus replication through type-I interferon regulation.
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Nucleic Acids Res. 53 (7) - [2025-04-10; online 2025-04-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genome-wide comparison reveals large structural variants in cassava landraces.
Landi M, Carluccio AV, Shah T, ..., Gisel A, Bongcam-Rudloff E
BMC Genomics 26 (1) 362 [2025-04-10; online 2025-04-10]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Dual GSK-3β/HDAC Inhibitors Enhance the Efficacy of Macrophages to Control Mycobacterium tuberculosis Infection.
Kalsum S, Xu R, Akber M, ..., Zhou Y, Brighenti S
Biomolecules 15 (4) 550 [2025-04-09; online 2025-04-09]
Chemical Biology Consortium Sweden [Service]
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Chemical Biology Consortium Sweden [Service]
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AMPK activator ATX-304 reduces oxidative stress and improves MASLD via metabolic switching.
Holm E, Vermeulen I, Parween S, ..., Remeseiro S, Hörnblad A
JCI Insight 10 (7) - [2025-04-08; online 2025-04-08]
Bioinformatics Support for Computational Resources [Service]
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Metabolic readouts of tumor instructed normal tissues (TINT) identify aggressive prostate cancer subgroups for tailored therapy.
Dudka I, Figueira J, Wikström P, Bergh A, Gröbner G
Front Mol Biosci 12 (-) 1426949 [2025-04-07; online 2025-04-07]
Swedish NMR Centre [Collaborative]
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Bioinformatics Support for Computational Resources [Service]
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Environmental drivers of the resistome across the Baltic Sea.
Serrana JM, Nascimento FJA, Dessirier B, Broman E, Posselt M
Microbiome 13 (1) 92 [2025-04-07; online 2025-04-07]
Bioinformatics Support for Computational Resources [Service]
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Comparison of the proteomic landscape in experimental ischemia reperfusion with versus without ischemic preconditioning.
Kakaei Y, Hussain S, Elmahdy A, ..., Omerovic E, Redfors B
Sci Rep 15 (1) 11836 [2025-04-07; online 2025-04-07]
Glycoproteomics and MS Proteomics [Service]
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Tuomi L, Parris TZ, Rawshani A, ..., Orozco A, Finizia C
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Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Sci Rep 15 (1) 11641 [2025-04-04; online 2025-04-04]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Ectoderm barcoding reveals neural and cochlear compartmentalization.
de Haan S, He J, Corbat AA, ..., Kelley MW, Andersson ER
Science 388 (6742) 60-68 [2025-04-04; online 2025-04-03]
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ATP1A3 dysfunction causes motor hyperexcitability and afterhyperpolarization loss in a dystonia model.
Akkuratov EE, Sorrell F, Picton LD, ..., Miles GB, Aperia A
Brain 148 (4) 1099-1105 [2025-04-03; online 2024-11-13]
Integrated Microscopy Technologies Stockholm [Service]
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The protein kinases KIPK and KIPK-LIKE1 suppress overbending during negative hypocotyl gravitropic growth in Arabidopsis.
Xiao Y, Zourelidou M, Bassukas AEL, ..., Li J, Schwechheimer C
Plant Cell 37 (4) - [2025-04-02; online 2025-04-22]
Swedish Metabolomics Centre [Service]
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The identity of Canthydrus testaceus (Boheman, 1858) and a new faunistic record of Sternocanthus indicus (Wehncke, 1876) (Coleoptera: Noteridae).
Toledo ME, Negri I, Bergsten J
Zootaxa 5618 (2) 284-286 [2025-04-02; online 2025-04-02]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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On the origin of an insular hybrid butterfly lineage.
Boman J, Nolen ZJ, Backström N
Evolution 79 (4) 510-524 [2025-04-02; online 2025-01-27]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Design and application of a fluorescent probe for imaging of endogenous Bruton's tyrosine kinase with preserved enzymatic activity.
Valaka AP, Nyström H, Håversen L, ..., Borén J, Grøtli M
RSC Chem Biol 6 (4) 618-629 [2025-04-02; online 2025-02-20]
Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service] Swedish NMR Centre [Service]
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Chacón-Duque JC, Thomas Thorpe JA, Li W, ..., Heintzman PD, Dalén L
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Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Corciulo C, Askar F, Chatziagorou G, ..., Ekman A, Rudin A
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Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Three cases with chronic obsessive compulsive disorder report gains in wellbeing and function following rituximab treatment.
Gallwitz M, Lindqvist I, Mulder J, ..., Burman J, Cunningham JL
Mol. Psychiatry 30 (4) 1396-1406 [2025-04-00; online 2024-09-21]
Affinity Proteomics Uppsala [Service]
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The prognostic value of changes in Ki67 following neoadjuvant chemotherapy in residual triple-negative breast cancer: a Swedish nationwide registry-based study.
Nyqvist-Streng J, Helou M, Helou K, ..., Kovács A, Parris TZ
Breast Cancer Res. Treat. 210 (3) 719-736 [2025-04-00; online 2025-01-12]
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The guinea pig serves as an alternative model to study human preimplantation development.
Canizo JR, Zhao C, Petropoulos S
Nat Cell Biol 27 (4) 696-710 [2025-04-00; online 2025-04-04]
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The Development of Selective Chemical Probes for Serine Arginine Protein Kinase 3.
Hanke D, McCutcheon C, Page BDG
Chem Biol Drug Des 105 (4) e70101 [2025-04-00; online 2025-04-03]
Chemical Biology Consortium Sweden [Service]
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Simulation-based evaluation of the impact of dose fractionation study design on antibiotic PKPD analyses.
Saporta R, Madan M, Friberg LE
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Rapid traversal of vast chemical space using machine learning-guided docking screens.
Luttens A, Cabeza de Vaca I, Sparring L, ..., Norinder U, Carlsson J
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Bioinformatics Support for Computational Resources [Service]
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Pain in idiopathic scoliosis not associated with known genetic variants for pain.
Cheng T, Diarbakerli E, Simony A, ..., Einarsdottir E, Gerdhem P
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Bioinformatics Support for Computational Resources [Service]
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Bioinformatics Support for Computational Resources [Service]
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Swedish NMR Centre [Technology development]
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Genomic prediction for yield and malting traits in barley using metabolomic and near-infrared spectra
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Theor. Appl. Genet. 138 (1) - [2025-01-00; online 2025-01-09]
Swedish NMR Centre [Service]
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Genomic analyses of Streptococcus uberis reveal high diversity but few antibiotic resistance genes.
Myrenås M, Fasth C, Waller KP, Pedersen K
Vet. Microbiol. 300 (-) 110319 [2025-01-00; online 2024-11-30]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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GBA1 T369M and Parkinson's disease - Further evidence of a lack of association in the Swedish population.
Brolin KA, Bäckström D, Wallenius J, ..., Hansson O, Swanberg M
Parkinsonism Relat Disord 130 (-) 107191 [2025-01-00; online 2024-10-31]
Clinical Genomics Lund [Service]
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Fear extinction retention in children, adolescents, and adults.
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Evaluation of nationwide analysis surveillance for methicillin-resistant Staphylococcus aureus within Genomic Medicine Sweden.
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Microb Genom 11 (1) - [2025-01-00; online 2025-01-27]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] Clinical Genomics Uppsala [Collaborative] Clinical Genomics Örebro [Collaborative]
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DNA methylation in cord blood partially mediates the effects of prepregnancy BMI on early childhood offspring BMI.
Maguolo A, Jönsson J, Perfilyev A, ..., Renault KM, Ling C
Obesity (Silver Spring) 33 (1) 177-189 [2025-01-00; online 2024-12-11]
Clinical Genomics Lund [Service]
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Compound heterozygosity for two variants in BMP5 in human skeletal dysostosis with atrioventricular septal defect.
Gregersen PA, Hammarsjö A, Graversen L, ..., Hellfritzsch MB, Grigelioniene G
Clin. Genet. 107 (1) 78-82 [2025-01-00; online 2024-09-06]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Comparative Analysis of Traditional and Pharmacometric-Based Pharmacoeconomic Modeling in the Cost-Utility Evaluation of Sunitinib Therapy.
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Pharmacoeconomics 43 (1) 31-43 [2025-01-00; online 2024-09-26]
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Chemogenomic Screening in a Patient‐Derived 3D Fatty Liver Disease Model Reveals the CHRM1‐TRPM8 Axis as a Novel Module for Targeted Intervention
Youhanna S, Kemas AM, Wright SC, ..., Sundström M, Lauschke VM
Adv Sci (Weinh) 12 (3) - [2025-01-00; online 2024-11-28]
Chemical Biology Consortium Sweden [Service]
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Can genetic diversity in microalgae species be explained by climate: an overview of metabarcoding with diatoms.
Kulaš A, Lemonnier C, Alric B, ..., Udovič MG, Rimet F
ISME COMMUN. 5 (1) ycaf171 [2025-01-00; online 2025-09-26]
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A comprehensive human embryo reference tool using single-cell RNA-sequencing data
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Nat Methods 22 (1) 193-206 [2025-01-00; online 2024-11-14]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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A Non-Centrifugation Method to Concentrate and Purify Extracellular Vesicles Using Superabsorbent Polymer Followed by Size Exclusion Chromatography.
Bergqvist M, Lässer C, Crescitelli R, Park KS, Lötvall J
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Wojtasz J, Sjöstedt N, Storm B, ..., Rydberg T, Bernin D
RSC Sustain. 3 (5) 2210-2220 [2025-00-00; online 2025-00-00]
Swedish NMR Centre [Service]
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Cord Blood Biomarkers Predict Psoriasis Many Years Before Diagnosis: A Prospective Birth Cohort Study
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Affinity Proteomics Uppsala [Service] NGI Proteomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Sulfidic mine waste rock alkaliphilic microbial communities rapidly replaced by aerobic acidophiles following deposition
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Biogeochemistry 168 (1) - [2024-12-31; online 2024-12-31]
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Life Science 2.0: reframing the life science sector for 'the benefit on mankind'.
Vallin M, Tomson G, Kampmann B, ..., Wanyenze RK, Ottersen OP
Glob Health Action 17 (1) 2330758 [2024-12-31; online 2024-04-05]
Chemical Biology Consortium Sweden [Collaborative]
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Parallel single-cell metabolic analysis and extracellular vesicle profiling reveal vulnerabilities with prognostic significance in acute myeloid leukemia.
Forte D, Pellegrino RM, Falvo P, ..., Cavo M, Curti A
Nat Commun 15 (1) 10878 [2024-12-30; online 2024-12-30]
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Pediatric Soft Tissue Sarcoma in Limb-Girdle Muscular Dystrophy: Molecular Findings and Clinical Implications.
Maya-González C, Díaz De Ståhl T, Wessman S, ..., Ljungman G, Nordgren A
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Identification of novel FosX family determinants from diverse environmental samples.
Kieffer N, Böhm ME, Berglund F, ..., Gillings MR, Larsson DGJ
J Glob Antimicrob Resist 41 (-) 8-14 [2024-12-24; online 2024-12-24]
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VLDLR mediates Semliki Forest virus neuroinvasion through the blood-cerebrospinal fluid barrier.
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Nat Commun 15 (1) 10718 [2024-12-23; online 2024-12-23]
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MARC1 downregulation reduces hepatocyte lipid content by increasing beta-oxidation.
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Clin Mol Hepatol - (-) - [2024-12-23; online 2024-12-23]
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Evolution of fast-growing piscivorous herring in the young Baltic Sea.
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Nat Commun 15 (1) 10707 [2024-12-23; online 2024-12-23]
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Evolution of community-associated MRSA: a 20-year genomic and epidemiological study in Region Örebro County, Sweden.
Kekki J, Thegel A, Stenmark B, Söderquist B
Front Microbiol 15 (-) 1504860 [2024-12-23; online 2024-12-23]
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Phthalate esters in baltic lagoons: Spatial distribution, ecological risks, and novel insights into their fate using transcriptomics.
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Sci. Total Environ. 957 (-) 177526 [2024-12-20; online 2024-11-18]
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Unraveling the ancient fungal DNA from the Iceman gut.
Oskolkov N, Sandionigi A, Götherström A, ..., Buzzini P, Borruso L
BMC Genomics 25 (1) 1225 [2024-12-19; online 2024-12-19]
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Overlapping Systemic Proteins in COVID-19 and Lung Fibrosis Associated with Tissue Remodeling and Inflammation.
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Biomedicines 12 (12) - [2024-12-19; online 2024-12-19]
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MUC17 is an essential small intestinal glycocalyx component that is disrupted in Crohn's disease.
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JCI Insight 10 (3) - [2024-12-19; online 2024-12-19]
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Genetic and neuro-epigenetic effects of divergent artificial selection for feather pecking behaviour in chickens.
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BMC Genomics 25 (1) 1219 [2024-12-19; online 2024-12-19]
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Treatment of Periprosthetic Joint Infection with Intravenous Vancomycin: Do We Hit the Target?
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Antibiotics (Basel) 13 (12) - [2024-12-18; online 2024-12-18]
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Transcriptome analysis of sugar beet in response to the pathogenic oomycete Aphanomyces cochlioides.
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The AxBioTick study - immune gene expression signatures in human skin bitten by Borrelia-infected versus non-infected ticks.
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BMC Infect. Dis. 24 (1) 1422 [2024-12-18; online 2024-12-18]
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Structural variant allelic heterogeneity in MECP2 duplication syndrome provides insight into clinical severity and variability of disease expression.
Pehlivan D, Bengtsson JD, Bajikar SS, ..., Zoghbi HY, Carvalho CMB
Genome Med 16 (1) 146 [2024-12-18; online 2024-12-18]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Spatiotemporal single-cell roadmap of human skin wound healing.
Liu Z, Bian X, Luo L, ..., Li D, Landén NX
Cell Stem Cell - (-) - [2024-12-18; online 2024-12-18]
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Localized Boron Sites in Large Pore Borosilicate Zeolite EMM-59 Determined by Electron Crystallography.
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ABHD2 activity is not required for the non-genomic action of progesterone on human sperm
Arnolds O, Carter EM, Edwards M, ..., Tredup C, Gileadi O
biorxiv - (-) - [2024-12-18; online 2024-12-18]
Chemical Biology Consortium Sweden [Collaborative]
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Glucose-Sensitive Biohybrid Roots for Supercapacitive Bioanodes.
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Complete genome sequences of the prosthecate dimorphic bacteria Brevundimonas intermedia CB63T and Brevundimonas staleyi FWC43T.
Hallgren J, Daneby F, Jonas K
Microbiol Resour Announc 13 (12) e0105024 [2024-12-12; online 2024-11-20]
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Tetramerization of deoxyadenosine kinase meets the demands of a DNA replication substrate challenge in Giardia intestinalis.
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Nucleic Acids Res. 52 (22) 14061-14076 [2024-12-11; online 2024-11-28]
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Stem Cell-Associated Proteins and Extracellular Matrix Composition of the Human Atrioventricular Junction.
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Evolution of a bipolar sexual compatibility system in Marasmius.
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Naturally acquired IgG responses to Plasmodium falciparum do not target the conserved termini of the malaria vaccine candidate Merozoite Surface Protein 2.
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Autoimmunity and Serology Profiling [Collaborative] Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Singh P, Sun J, Cavalera M, ..., Goncalves I, Edsfeldt A
Nat Commun 15 (1) 10464 [2024-12-09; online 2024-12-09]
Affinity Proteomics Uppsala [Service]
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Sex-Specific Dominance of Gene Expression in Seed Beetles.
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Coupling cellular drug-target engagement to downstream pharmacology with CeTEAM.
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Nat Commun 15 (1) 10347 [2024-12-06; online 2024-12-06]
Chemical Biology Consortium Sweden [Service]
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Multi-omics analysis detail a submicroscopic inv(15)(q14q15) generating fusion transcripts and MEIS2 and NUSAP1 haploinsufficiency.
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Sci Rep 14 (1) 30343 [2024-12-05; online 2024-12-05]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Long read [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Dynamics of the blood plasma proteome during hyperacute HIV-1 infection.
Nazziwa J, Freyhult E, Hong MG, ..., Hassan AS, Esbjörnsson J
Nat Commun 15 (1) 10593 [2024-12-05; online 2024-12-05]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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A landscape of X-inactivation during human T cell development.
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Nat Commun 15 (1) 10527 [2024-12-04; online 2024-12-04]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Unclassifiable short-rib thoracic dysplasia diagnosed using targeted gene panel sequencing.
Nakajima E, Yokohama Y, Sugiyama S, ..., Nishimura G, Makita Y
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Cerebrospinal Fluid Biomarkers of Central Nervous System Inflammation Predict Cortical Decline in Bipolar Disorder and Ventricular Enlargement in Healthy Controls.
Bellaagh Johansson T, Klahn AL, Göteson A, ..., Sellgren CM, Landén M
Neuropsychobiology 84 (1) 38-47 [2024-12-03; online 2024-12-03]
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Ling C, Vavakova M, Ahmad Mir B, ..., Vaag A, Nilsson E
BMC Med 22 (1) 572 [2024-12-02; online 2024-12-02]
Clinical Genomics Lund [Service]
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High-solid digestion - A comparison of completely stirred and plug-flow reactor systems.
Perman E, Karlsson A, Westerholm M, Isaksson S, Schnürer A
Waste Management 189 (-) 265-275 [2024-12-01; online 2024-08-31]
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The evolutionary history of metastatic pancreatic neuroendocrine tumours reveals a therapy driven route to high-grade transformation.
Backman S, Botling J, Nord H, ..., Åkerström T, Crona J
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Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] NGI SNP genotyping [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Arcoverde Cerveira R, Lenart K, Martin M, ..., Ols S, Loré K
Immunoinformatics (Amst) 16 (-) 100046 [2024-12-00; online 2024-12-00]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Quantitative Comparisons of Progressive Supranuclear Palsy Rating Scale Versions Using Item Response Theory.
Gewily M, Plan EL, Yousefi E, ..., Höglinger G, Karlsson MO
Mov Disord 39 (12) 2181-2189 [2024-12-00; online 2024-08-29]
Bioinformatics Support for Computational Resources [Service]
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Occurrence of cancer in Marfan syndrome: Report of two patients with neuroblastoma and review of the literature.
Maya-González C, Delgado-Vega AM, Taylan F, ..., Martinsson T, Nordgren A
Am. J. Med. Genet. A 194 (12) e63812 [2024-12-00; online 2024-07-11]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Metagenomic characterization of viruses in the serum of children with newly diagnosed cancer.
Leijonhufvud G, Soratto TAT, Matos GM, ..., Ljungman G, Andersson B
J. Clin. Virol. 175 (-) 105736 [2024-12-00; online 2024-10-06]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Longitudinal Analysis of Natural History Progression of Rare and Ultra-Rare Cerebellar Ataxias Using Item Response Theory.
Hamdan A, Hendrickx N, Hooker AC, ..., Synofzik M, Karlsson MO
Clin. Pharmacol. Ther. 116 (6) 1593-1605 [2024-12-00; online 2024-10-15]
Bioinformatics Support for Computational Resources [Service]
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Lifestyle, biological, and genetic factors related to brain iron accumulation across adulthood.
Gustavsson J, Ištvánfyová Z, Papenberg G, ..., Mangialasche F, Kalpouzos G
Neurobiol. Aging 144 (-) 56-67 [2024-12-00; online 2024-09-10]
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Leveraging deep single-soma RNA sequencing to explore the neural basis of human somatosensation.
Yu H, Nagi SS, Usoskin D, ..., Ernfors P, Luo W
Nat. Neurosci. 27 (12) 2326-2340 [2024-12-00; online 2024-11-04]
Bioinformatics Support for Computational Resources [Service]
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Genomics of severe and treatment-resistant obsessive-compulsive disorder treated with deep brain stimulation: A preliminary investigation.
Chen LL, Naesström M, Halvorsen M, ..., Crowley JJ, Pascal D
Am. J. Med. Genet. B Neuropsychiatr. Genet. 195 (8) e32983 [2024-12-00; online 2024-04-22]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genomic signals of adaptation to a natural CO2 gradient over a striking microgeographic scale
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Marine Pollution Bulletin 209 (-) 117225 [2024-12-00; online 2024-12-00]
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Genetic diversity insights from population genomics and machine learning tools for Nordic Arctic charr (Salvelinus alpinus) populations
Palaiokostas C, Kurta K, Pappas F, ..., Janhunen M, Kause A
Aquaculture Reports 39 (-) 102495 [2024-12-00; online 2024-12-00]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genetic analysis and family screening for dilated cardiomyopathy: a retrospective analysis of the stepwise pedigree approach.
Ylipää J, Andersson T
Scand Cardiovasc J 58 (1) 2379356 [2024-12-00; online 2024-07-24]
Clinical Genomics [Service] Clinical Genomics Umeå [Service]
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Different gene expression patterns between mouse and human brain pericytes revealed by single-cell/nucleus RNA sequencing.
Miao Y, Li W, Jeansson M, ..., Muhl L, He L
Vascul Pharmacol 157 (-) 107434 [2024-12-00; online 2024-10-17]
Bioinformatics Support for Computational Resources [Service]
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Designing work for healthy sleep: A multidimensional, latent transition approach to employee sleep health.
Smith CE, Lee S, Allen TD, ..., Patel SR, Almeida DM
J Occup Health Psychol 29 (6) 409-430 [2024-12-00; online 2024-12-19]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Applications of NMR based methodologies investigating the behavior of lignin and cellulose towards bio-based carbon fibers production.
Guerroudj F, Fliri L, Bengtsson J, ..., Hummel M, Bernin D
Solid State Nucl Magn Reson 134 (-) 101977 [2024-12-00; online 2024-11-21]
Swedish NMR Centre [Service]
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Achieving optically selective coatings of silica fixated carbon nanotubes for solar energy applications
Zäll E, Segervald J, Mahmoodi H, ..., Edman L, Wågberg T
Solar Energy Materials and Solar Cells 278 (-) 113202 [2024-12-00; online 2024-12-00]
Integrated Microscopy Technologies Umeå [Service]
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A transcriptome atlas of zygotic and somatic embryogenesis in Norway spruce.
Stojkovič K, Canovi C, Le KC, ..., Egertsdotter U, Street NR
Plant J. 120 (5) 2238-2252 [2024-12-00; online 2024-10-27]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A stable zeolite with atomically ordered and interconnected mesopore channel.
Lu P, Xu J, Sun Y, ..., Zou X, Valtchev V
Nature 636 (8042) 368-373 [2024-12-00; online 2024-12-11]
Cryo-EM [Service]
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A novel SARS-CoV-2 recombinant transmitted from a patient with an acute co-infection.
Dyrdak R, Stamouli S, Ganeshappa Aralaguppe S, ..., Murrell B, Albert J
Lancet Microbe 5 (12) 100998 [2024-12-00; online 2024-10-01]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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A dataset of 40 assembled and annotated transcriptomes from 34 species in Silene and related genera.
Cangren P, Bertrand YJK, Braverman JM, ..., Hamilton MB, Oxelman B
Data Brief 57 (-) 111094 [2024-12-00; online 2024-11-01]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A Versatile and Upgraded Version of the LundTax Classification Algorithm Applied to Independent Cohorts.
Cotillas EA, Bernardo C, Veerla S, ..., Sjödahl G, Eriksson P
J Mol Diagn 26 (12) 1081-1101 [2024-12-00; online 2024-09-24]
Clinical Genomics Lund [Service]
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Systemic inflammatory response in colorectal cancer is associated with tumour mismatch repair and impaired survival.
Hjortborg M, Edin S, Böckelman C, ..., Gunnarsson U, Palmqvist R
Sci Rep 14 (1) 29738 [2024-11-29; online 2024-11-29]
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Spatial profiling of the mouse colonic immune landscape associated with colitis and sex.
Holm M, Stepanauskaitė L, Bäckström A, ..., Stadler C, Williams C
Commun Biol 7 (1) 1595 [2024-11-29; online 2024-11-29]
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Combination of gallium citrate and levofloxacin induces a distinct metabolome profile and enhances growth inhibition of multidrug-resistant Mycobacterium tuberculosis compared to linezolid.
Ilchenko O, Nikolaevskaya E, Zinchenko O, ..., Ramstedt M, Rzhepishevska O
Front Microbiol 15 (-) 1474071 [2024-11-29; online 2024-11-29]
Swedish Metabolomics Centre [Service]
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Preanalytical (Mis)Handling of Plasma Investigated by 1H NMR Metabolomics
Malmodin D, Bay Nord A, Zafar H, ..., Karlsson BG, Naluai ÅT
ACS Omega - (-) - [2024-11-27; online 2024-11-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Swedish NMR Centre [Collaborative]
PubMed DOI Crossref
Altered O-Glycans in stimulated whole saliva from patients with primary Sjögren's syndrome and non-pSS sicca.
Kamounah S, Thomsson KA, Sørensen CE, ..., Karlsson NG, Pedersen AML
Sci Rep 14 (1) 29377 [2024-11-26; online 2024-11-26]
Glycoproteomics and MS Proteomics [Collaborative]
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Streptolysin O accelerates the conversion of plasminogen to plasmin
Tang D, Khakzad H, Hjortswang E, ..., Happonen L, Malmström J
Nat Commun 15 (1) 10212 [2024-11-25; online 2024-11-25]
Structural Proteomics [Technology development]
DOI Crossref
In-situ X-ray analysis of cold alkali dissolution of cellulose pulps of various origin
Wojtasz J, Bengtsson J, Ulmefors H, ..., Östlund Å, Yu S
Cellulose - (-) - [2024-11-25; online 2024-11-25]
Swedish NMR Centre [Service]
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da Silva TR, Marchesan LB, Rampelotto PH, ..., de Mello V, Spritzer PM
J Ovarian Res 17 (1) 232 [2024-11-22; online 2024-11-22]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Candidate serum protein biomarkers for active pulmonary tuberculosis diagnosis in tuberculosis endemic settings.
Ayalew S, Wegayehu T, Wondale B, ..., Fredolini C, Mihret A
BMC Infect. Dis. 24 (1) 1329 [2024-11-21; online 2024-11-21]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Visualization and analysis of medically relevant tandem repeats in nanopore sequencing of control cohorts with pathSTR.
De Coster W, Höijer I, Bruggeman I, ..., Ameur A, Rademakers R
Genome Res. 34 (11) 2074-2080 [2024-11-20; online 2024-11-20]
Clinical Genomics [Technology development] Clinical Genomics Uppsala [Technology development] NGI Long read [Technology development] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
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Systematic screens for fertility genes essential for malaria parasite transmission reveal conserved aspects of sex in a divergent eukaryote.
Sayers C, Pandey V, Balakrishnan A, ..., Berntsson R, Billker O
Cell Syst 15 (11) 1075-1091.e6 [2024-11-20; online 2024-11-13]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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SARS-CoV-2 and HSV-1 Induce Amyloid Aggregation in Human CSF Resulting in Drastic Soluble Protein Depletion.
Christ W, Kapell S, Sobkowiak MJ, ..., El Andaloussi S, Ezzat K
ACS Chem Neurosci 15 (22) 4095-4104 [2024-11-20; online 2024-11-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Global Proteomics and Proteogenomics [Service]
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Resolving complex duplication variants in autism spectrum disorder using long-read genome sequencing.
Eisfeldt J, Higginbotham EJ, Lenner F, ..., Scherer SW, Feuk L
Genome Res. 34 (11) 1763-1773 [2024-11-20; online 2024-11-20]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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One-Pot Time-Induced Proteome Integral Solubility Alteration Assay for Automated and Sensitive Drug-Target Identification.
Meng Z, Saei AA, Lyu H, Gaetani M, Zubarev RA
Anal. Chem. - (-) - [2024-11-20; online 2024-11-20]
Chemical Proteomics [Technology development]
PubMed DOI Crossref
Liver X receptor unlinks intestinal regeneration and tumorigenesis.
Das S, Parigi SM, Luo X, ..., Katajisto P, Villablanca EJ
Nature - (-) - [2024-11-20; online 2024-11-20]
BioImage Informatics [Service] Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Leveraging the T2T assembly to resolve rare and pathogenic inversions in reference genome gaps.
Bilgrav Saether K, Eisfeldt J, Bengtsson JD, ..., Carvalho CMB, Lindstrand A
Genome Res. 34 (11) 1785-1797 [2024-11-20; online 2024-11-20]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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A national long-read sequencing study on chromosomal rearrangements uncovers hidden complexities.
Eisfeldt J, Ameur A, Lenner F, ..., Feuk L, Lindstrand A
Genome Res. 34 (11) 1774-1784 [2024-11-20; online 2024-11-20]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Service] Clinical Genomics Umeå [Collaborative] Clinical Genomics Uppsala [Collaborative] NGI Long read [Technology development] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
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Thirunavukkarasu A, Hedenström M, Sparrman T, ..., Schleucher J, Öquist M
Plant Soil - (-) - [2024-11-19; online 2024-11-19]
Swedish NMR Centre [Collaborative]
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Inhibition mechanism of potential antituberculosis compound lansoprazole sulfide.
Kovalova T, Król S, Gamiz-Hernandez AP, ..., Brzezinski P, Högbom M
Proc. Natl. Acad. Sci. U.S.A. 121 (47) e2412780121 [2024-11-19; online 2024-11-12]
Cryo-EM [Service]
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Detecting transposable elements in long read genomes using sTELLeR.
Bilgrav Saether K, Eisfeldt J
Bioinformatics - (-) - [2024-11-18; online 2024-11-18]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Autoantibodies against a subunit of mitochondrial respiratory chain complex I in inclusion body myositis.
Notarnicola A, Hellstrom C, Horuluoglu B, ..., Nilsson P, Lundberg IE
J. Autoimmun. 149 (-) 103332 [2024-11-18; online 2024-11-18]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Whole-Genome Sequencing of Invasive Neonatal Escherichia coli From Uppsala County, Sweden.
Heydecke A, Myrelid Å, Normann E, ..., Tano E, Sütterlin S
J. Infect. Dis. 230 (5) e1136-e1145 [2024-11-15; online 2024-06-13]
Bioinformatics Support for Computational Resources [Service]
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Tau processing and tau-mediated inflammation differ in human APOEε2 and APOEε4 astrocytes.
Mothes T, Konstantinidis E, Eltom K, ..., Rostami J, Erlandsson A
iScience 27 (11) 111163 [2024-11-15; online 2024-10-11]
Affinity Proteomics Uppsala [Service]
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Sirtuin inhibitors reduce intracellular growth of M. tuberculosis in human macrophages via modulation of host cell immunity.
Kalsum S, Akber M, Loreti MG, ..., Lerm M, Brighenti S
Sci Rep 14 (1) 28150 [2024-11-15; online 2024-11-15]
Chemical Biology Consortium Sweden [Service]
Järn och gravar i Våmb
Gustafsson J, Nordman A, Hjärthner-Holdar E, Stilborg O
Jönköping läns museum arkeologisk rapport 2024:07 - (-) - [2024-11-15]
Ancient DNA [Service]
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Design, synthesis, and in vitro biological evaluation of meta-sulfonamidobenzamide-based antibacterial LpxH inhibitors.
Benediktsdottir A, Sooriyaarachchi S, Cao S, ..., Sandström A, Karlén A
Eur J Med Chem 278 (-) 116790 [2024-11-15; online 2024-08-22]
Chemical Biology Consortium Sweden [Collaborative]
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Plasma proteome and incident myocardial infarction: sex-specific differences.
Titova OE, Yuan S, Byberg L, ..., Michaëlsson K, Larsson SC
Eur. Heart J. 45 (43) 4647-4657 [2024-11-14; online 2024-10-14]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service]
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Samola Winnberg J, Vermani L, Liu W, ..., Lindblad M, Lindblom A
Hered Cancer Clin Pract 22 (1) 25 [2024-11-14; online 2024-11-14]
Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Prospective Screening of Cancer Syndromes in Patients with Mesenchymal Tumors.
Öfverholm I, Lin Y, Mondini J, ..., Haglund de Flon F, Wallander K
Cancers (Basel) 16 (22) 3816 [2024-11-13; online 2024-11-13]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Simultaneous detection of membrane contact dynamics and associated Ca2+ signals by reversible chemogenetic reporters.
García Casas P, Rossini M, Påvénius L, ..., Pizzo P, Filadi R
Nat Commun 15 (1) 9775 [2024-11-12; online 2024-11-12]
Integrated Microscopy Technologies Stockholm [Collaborative]
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MassiveFold: unveiling AlphaFold's hidden potential with optimized and parallelized massive sampling.
Raouraoua N, Mirabello C, Véry T, ..., Lensink MF, Brysbaert G
Nat Comput Sci - (-) - [2024-11-11; online 2024-11-11]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
Equid-human interactions in Medieval Rome: exploring the role and management of equids through an interdisciplinary approach
Claudia Minniti CCAMaDC
30th conference of the European Association of Archaeologists, session 3893 - (-) - [2024-11-11; online 2024-08-27]
Ancient DNA [Service]
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Depression in childhood to early adulthood and respiratory health in early adulthood.
Wang G, Hallberg J, Hernandez-Pacheco N, ..., Melén E, Lu D
BJPsych Open 10 (6) e202 [2024-11-11; online 2024-11-11]
Affinity Proteomics Uppsala [Service]
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Shedding of membrane complement inhibitors CD59 and CD46 into the circulation is associated with poor prognosis in acute coronary syndrome patients: a cohort study.
Zhong B, King B, Waziri H, ..., Blom AM, Schiopu A
J Transl Med 22 (1) 1011 [2024-11-10; online 2024-11-10]
Affinity Proteomics Uppsala [Service]
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Jerlström-Hultqvist J, Gallot-Lavallée L, Salas-Leiva DE, ..., Archibald JM, Roger AJ
Nat Commun 15 (1) 9726 [2024-11-09; online 2024-11-09]
Integrated Microscopy Technologies Umeå [Service]
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Patient-derived organoids in precision cancer medicine.
Tong L, Cui W, Zhang B, ..., Si L, Lundqvist A
Med 5 (11) 1351-1377 [2024-11-08; online 2024-09-27]
Chemical Biology Consortium Sweden [Collaborative]
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Non-fermented and fermented milk intake in relation to risk of ischemic heart disease and to circulating cardiometabolic proteins in swedish women and men: Two prospective longitudinal cohort studies with 100,775 participants.
Michaëlsson K, Lemming EW, Larsson SC, ..., Wolk A, Byberg L
BMC Med 22 (1) 483 [2024-11-08; online 2024-11-08]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service]
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Karlsson ME, Forsberg G, Rosberg AK, Thaning C, Alsanius B
Sci Rep 14 (1) 27197 [2024-11-08; online 2024-11-08]
Swedish Metabolomics Centre [Service]
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Cancer-associated fibroblast subtypes modulate the tumor-immune microenvironment and are associated with skin cancer malignancy.
Forsthuber A, Aschenbrenner B, Korosec A, ..., Kasper M, Lichtenberger BM
Nat Commun 15 (1) 9678 [2024-11-08; online 2024-11-08]
Bioinformatics Support for Computational Resources [Service]
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Cryo-EM structures of a bathy phytochrome histidine kinase reveal a unique light-dependent activation mechanism.
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Structure 32 (11) 1952-1962.e3 [2024-11-07; online 2024-08-30]
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Transmembrane peptide-loaded ionic liquid nanocarriers for targeting ErbB2-positive cancer
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Integrated Microscopy Technologies Gothenburg [Service]
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Li P, Bågenholm V, Hägglund P, ..., Wang K, Gourdon P
Nat Commun 15 (1) 9605 [2024-11-06; online 2024-11-06]
Cryo-EM [Service]
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Swedish NMR Centre [Service]
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Three-dimensional localization and tracking of chromosomal loci throughout the Escherichia coli cell cycle.
Karempudi P, Gras K, Amselem E, ..., Schirman D, Elf J
Commun Biol 7 (1) 1443 [2024-11-05; online 2024-11-05]
Bioinformatics Support for Computational Resources [Service]
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Pasteurella multocida from deep nasal swabs and tracheobronchial lavage in bovine calves from Sweden.
Myrenås M, Pringle M, Harbom B, Bengtsson B
Acta Vet. Scand. 66 (1) 58 [2024-11-05; online 2024-11-05]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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A bispecific CD40 agonistic antibody allowing for antibody-peptide conjugate formation to enable cancer-specific peptide delivery, resulting in improved T proliferation and anti-tumor immunity in mice.
Mebrahtu A, Laurén I, Veerman R, ..., Rockberg J, Mangsbo S
Nat Commun 15 (1) 9542 [2024-11-05; online 2024-11-05]
Affinity Proteomics Uppsala [Service] Drug Discovery and Development [Service]
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Hermann E, Van Damme R, Bongcam-Rudloff E, Nasirzadeh L
EMBnet j. 30 (-) e1059 [2024-11-04; online 2024-11-04]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Melander E, Nielsen EI, Lindqvist A, ..., Spigset O, Nordeng H
Basic Clin Pharmacol Toxicol - (-) - [2024-11-04; online 2024-11-04]
Drug Discovery and Development [Collaborative]
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Rosain J, Le Voyer T, Liu X, ..., Anderson MS, Casanova JL
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Autoimmunity and Serology Profiling [Service]
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Characterisation of IBD heterogeneity using serum proteomics: A multicentre study.
Salomon B, Sudhakar P, Bergemalm D, ..., Vermeire S, Halfvarson J
J Crohns Colitis - (-) - [2024-11-04; online 2024-11-04]
Affinity Proteomics Uppsala [Service]
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Revised diffusion law permits quantitative nanoscale characterization of membrane organization
Svobodová B, Šťastný D, Blom H, ..., Hof M, Šachl R
biorxiv - (-) - [2024-11-03; online 2024-11-03]
Integrated Microscopy Technologies Stockholm [Service]
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Spatial Multiomics Reveals Intratumoral Immune Heterogeneity with Distinct Cytokine Networks in Lung Cancer Brain Metastases.
Christensson G, Bocci M, Kazi JU, ..., Gonzalez Velozo H, Hagerling C
Cancer Res Commun 4 (11) 2888-2902 [2024-11-01; online 2024-10-14]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Perfluorooctanesulfonic acid (PFOS) induced cancer related DNA methylation alterations in human breast cells: A whole genome methylome study.
Pierozan P, Höglund A, Theodoropoulou E, Karlsson O
Sci. Total Environ. 949 (-) 174864 [2024-11-01; online 2024-07-20]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Töhönen V, Antonson P, Boggavarapu NR, ..., Nalvarte I, Inzunza J
F S Sci 5 (4) 306-317 [2024-11-00; online 2024-08-19]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Transcriptomic profiles of myxofibrosarcoma and undifferentiated pleomorphic sarcoma correlate with clinical and genomic features.
Mitra S, Farswan A, Piccinelli P, ..., Pillay N, Mertens F
J. Pathol. 264 (3) 293-304 [2024-11-00; online 2024-09-11]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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The non-canonical BAF chromatin remodeling complex is a novel target of spliceosome dysregulation in SF3B1-mutated chronic lymphocytic leukemia.
Hägerstrand D, Oder B, Cortese D, ..., Sutton LA, Rosenquist R
Leukemia 38 (11) 2429-2442 [2024-11-00; online 2024-09-11]
Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The TβRI promotes migration and metastasis through thrombospondin 1 and ITGAV in prostate cancer cells.
Mu Y, Wallenius A, Zang G, ..., Mateus A, Landström M
Oncogene 43 (45) 3321-3334 [2024-11-00; online 2024-09-20]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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The Arabidopsis splicing factor PORCUPINE/SmE1 orchestrates temperature-dependent root development via auxin homeostasis maintenance.
El Arbi N, Nardeli SM, Šimura J, Ljung K, Schmid M
New Phytol. 244 (4) 1408-1421 [2024-11-00; online 2024-09-27]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre [Service]
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Sustained immune activation and impaired epithelial barrier integrity in the ectocervix of women with chronic HIV infection.
Franzén Boger M, Hasselrot T, Kaldhusdal V, ..., Broliden K, Tjernlund A
PLoS Pathog. 20 (11) e1012709 [2024-11-00; online 2024-11-19]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Sensitive and Specific Droplet Digital PCR Assays for Circulating Tumor HPV DNA: Development, Validation, and Clinical Application in HPV-Associated Cancers.
Qvick A, Andersson E, Oldaeus Almerén A, ..., Karlsson MG, Helenius G
Mol Diagn Ther 28 (6) 835-845 [2024-11-00; online 2024-09-26]
Clinical Genomics [Technology development] Clinical Genomics Örebro [Technology development]
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Chen P, Bergman P, Blennow O, ..., Aleman S, Ljunggren HG
EBioMedicine 109 (-) 105385 [2024-11-00; online 2024-10-11]
Affinity Proteomics Uppsala [Collaborative]
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Delgado-Vega AM, Cederroth H, Taylan F, ..., Cederroth M, Nordgren A
Nat. Genet. 56 (11) 2287-2294 [2024-11-00; online 2024-10-22]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Clinical Genomics Stockholm [Service] Clinical Genomics Uppsala [Collaborative] NGI Long read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Pisolithus microcarpus isolates with contrasting abilities to colonise Eucalyptus grandis exhibit significant differences in metabolic signalling.
Vishwakarma K, Buckley S, Plett JM, ..., Jämtgård S, Plett KL
Fungal Biol 128 (7) 2157-2166 [2024-11-00; online 2024-09-10]
Swedish Metabolomics Centre [Service]
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Network analysis reveals age- and virus-specific circuits in nasal epithelial cells of extremely premature infants.
Wisgrill L, Martens A, Kasbauer R, ..., Fyhrquist N, Alenius H
Allergy 79 (11) 3062-3081 [2024-11-00; online 2024-06-19]
Bioinformatics Support for Computational Resources [Service]
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Molecular Profiling Defines Three Subtypes of Synovial Sarcoma.
Chen Y, Su Y, Cao X, ..., Li X, de Flon FH
Adv Sci (Weinh) 11 (41) e2404510 [2024-11-00; online 2024-09-10]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Loss of heterozygosity of CYP2D6 enhances the sensitivity of hepatocellular carcinomas to talazoparib.
Zhang X, Rameika N, Zhong L, ..., Globisch D, Sjöblom T
EBioMedicine 109 (-) 105368 [2024-11-00; online 2024-10-04]
Chemical Biology Consortium Sweden [Service]
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Local climate, air quality and leaf litter cover shape foliar fungal communities on an urban tree.
Faticov M, Amorim JH, Abdelfattah A, ..., Laforest-Lapointe I, Tack AJM
Ambio 53 (11) 1673-1685 [2024-11-00; online 2024-06-13]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Jag1 insufficiency alters liver fibrosis via T cell and hepatocyte differentiation defects.
Mašek J, Filipovic I, Van Hul N, ..., Dobeš J, Andersson ER
EMBO Mol Med 16 (11) 2946-2975 [2024-11-00; online 2024-10-02]
Bioinformatics Support for Computational Resources [Service]
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Sundström J, Gustafsson S, Cars T, Lindholm D
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Bioinformatics Support for Computational Resources [Service]
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Vera-Ponce de León A, Hensen T, Hoetzinger M, ..., Pope PB, La Rosa SL
Nat Microbiol 9 (11) 3059-3074 [2024-11-00; online 2024-10-14]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Examining the liver-pancreas crosstalk reveals a role for the molybdenum cofactor in β-cell regeneration.
Karampelias C, Băloiu B, Rathkolb B, ..., Hrabě de Angelis M, Andersson O
Life Sci. Alliance 7 (11) e202402771 [2024-11-00; online 2024-08-19]
Bioinformatics Support for Computational Resources [Service] NGI Short read NGI Stockholm (Genomics Production) National Genomics Infrastructure
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Depth-specific distribution of bacterial MAGs in permafrost active layer in Ny Ålesund, Svalbard (79°N).
Sipes K, Buongiorno J, Steen AD, ..., Vishnivetskaya TA, Lloyd KG
Syst. Appl. Microbiol. 47 (6) 126544 [2024-11-00; online 2024-08-28]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Characterization of Pediatric Acute Myeloid Leukemia With t(7;12)(q36;p13)
Östlund A, Waraky A, Staffas A, ..., Abrahamsson J, Palmqvist L
Genes Chromosomes Cancer 63 (11) e70003 [2024-11-00; online 2024-11-07]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Androgen receptor pathway inhibitors and taxanes in metastatic prostate cancer: an outcome-adaptive randomized platform trial.
De Laere B, Crippa A, Discacciati A, ..., Grönberg H, Lindberg J
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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An ancient ecospecies of Helicobacter pylori.
Tourrette E, Torres RC, Svensson SL, ..., Thorell K, Falush D
Nature 635 (8037) 178-185 [2024-11-00; online 2024-10-16]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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A new species of Erinaceusyllis (Annelida: Syllidae) discovered at a wood-fall in the eastern Clarion-Clipperton Zone, central Pacific Ocean.
Nilsson CL, Wiklund H, Glover AG, Bribiesca-Contreras G, Dahlgren TG
Deep Sea Research Part I: Oceanographic Research Papers - (-) 104415 [2024-11-00; online 2024-11-00]
Integrated Microscopy Technologies Gothenburg [Service]
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Orthopteran Neo-Sex Chromosomes Reveal Dynamics of Recombination Suppression and Evolution of Supergenes.
Jayaprasad S, Peona V, Ellerstrand SJ, ..., Schielzeth H, Palacios-Gimenez OM
Mol. Ecol. - (-) e17567 [2024-10-30; online 2024-10-30]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Collaborative] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
High-parametric protein maps reveal the spatial organization in early-developing human lung.
Sariyar S, Sountoulidis A, Hansen JN, ..., Lundberg E, Ayoglu B
Nat Commun 15 (1) 9381 [2024-10-30; online 2024-10-30]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service] Bioinformatics Support for Computational Resources [Service] Spatial Proteomics [Service]
PubMed DOI Crossref
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Almhöjd U, Fisic A, Cevik-Aras H, ..., Finizia C, Almståhl A
Heliyon 10 (20) e39033 [2024-10-30; online 2024-10-09]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
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Shafighi S, Geras A, Jurzysta B, ..., Lagergren J, Szczurek E
Nat Commun 15 (1) 9343 [2024-10-29; online 2024-10-29]
Bioinformatics Support for Computational Resources [Service] NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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Bian X, Piipponen M, Liu Z, ..., Halle M, Xu Landén N
Nat Commun 15 (1) 9286 [2024-10-28; online 2024-10-28]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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Dasgupta R, Becker W, Petzold K
Nucleic Acids Res. 52 (19) 11995-12004 [2024-10-28; online 2024-09-04]
Swedish NMR Centre [Service]
DOI Crossref
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Cellulose - (-) - [2024-10-28; online 2024-10-28]
Swedish NMR Centre [Collaborative]
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Karlström V, Sagredo EA, Planells J, ..., Visa N, Öhman M
Nucleic Acids Res. 52 (19) 12021-12038 [2024-10-28; online 2024-09-01]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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Jahangiri A, Orekhov V
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Swedish NMR Centre [Technology development]
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Verma A, Amnebrink D, Lee CC, ..., Pinhassi J, Wikner J
FEMS Microbiol. Ecol. 100 (11) - [2024-10-25; online 2024-09-12]
Cryo-EM [Collaborative]
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Wu X, Piñeiro-García A, Rafei M, ..., Canto-Aguilar EJ, Gracia-Espino E
ChemistryOpen - (-) e202400069 [2024-10-25; online 2024-10-25]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
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Rahlff J, Westmeijer G, Weissenbach J, Antson A, Holmfeldt K
Microbiome 12 (1) 218 [2024-10-24; online 2024-10-24]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
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Hussain S, Jha S, Berger E, ..., Omerovic E, Redfors B
Cells 13 (21) 1764 [2024-10-24; online 2024-10-24]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
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Kretzschmar G, Páez LP, Tan Z, ..., Horne A, Brodin P
J Clin Immunol 45 (1) 31 [2024-10-23; online 2024-10-23]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
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Ghantous A, Nusslé SG, Nassar FJ, ..., Munthe-Kaas MC, Herceg Z
Mol. Cancer 23 (1) 238 [2024-10-23; online 2024-10-23]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Schöneberg Y, Audisio TL, Ben Hamadou A, ..., Prost S, Kennedy S
Mol Ecol Resour - (-) e14038 [2024-10-22; online 2024-10-22]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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Correia SP, Moedas MF, Taylor LS, ..., Wedell A, Wredenberg A
JCI Insight 9 (20) - [2024-10-22; online 2024-10-22]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Lee S, Arefaine B, Begum N, ..., Shoaie S, Patel VC
J Hepatol - (-) - [2024-10-22; online 2024-10-22]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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Boisen G, Brogårdh-Roth S, Neilands J, ..., Carda-Diéguez M, Davies JR
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Swedish NMR Centre [Service]
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Cancer Risk in Patients With Muscular Dystrophy and Myotonic Dystrophy: A Register-Based Cohort Study.
Maya-González C, Tettamanti G, Taylan F, ..., Sejersen T, Nordgren A
Neurology 103 (8) e209883 [2024-10-22; online 2024-09-19]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Hörtenhuber M, Hytönen MK, Mukarram AK, ..., Kere J, Lohi H
Nat Commun 15 (1) 9082 [2024-10-21; online 2024-10-21]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Persistent effects of di-n-butyl phthalate on liver transcriptome: impaired energy and lipid metabolic pathways.
Theodoropoulou E, Pierozan P, Marabita F, Höglund A, Karlsson O
Chemosphere - (-) 143605 [2024-10-21; online 2024-10-21]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Dahmane S, Schexnaydre E, Zhang J, ..., Överby AK, Carlson LA
bioRxiv - (-) - [2024-10-21; online 2024-10-21]
Cryo-EM [Collaborative]
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Garrison E, Guarracino A, Heumos S, ..., Williams RW, Prins P
Nat. Methods - (-) - [2024-10-21; online 2024-10-21]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Commun Mater 5 (1) - [2024-10-18; online 2024-10-18]
Integrated Microscopy Technologies Umeå [Service]
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Ascic E, Åkerström F, Sreekumar Nair M, ..., Rosa FF, Pereira CF
Science 386 (6719) eadn9083 [2024-10-18; online 2024-10-18]
Clinical Genomics Lund [Service]
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Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Yalcinkaya A, Cavalli M, Aranda-Guillén M, ..., Hallberg P, Landegren N
Sci Rep 14 (1) 24512 [2024-10-18; online 2024-10-18]
Autoimmunity and Serology Profiling [Service]
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Jernbom AF, Skoglund L, Pin E, ..., Månberg A, Nilsson P
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Autoimmunity and Serology Profiling [Collaborative]
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Löwenmark T, Köhn L, Kellgren T, ..., Edin S, Palmqvist R
J Transl Med 22 (1) 947 [2024-10-17; online 2024-10-17]
Clinical Genomics [Collaborative] Clinical Genomics Umeå [Collaborative]
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Fernández-Juárez V, Riedinger DJ, Gusmao JB, ..., Labrenz M, Riemann L
MBio 15 (10) e0156924 [2024-10-16; online 2024-09-19]
Bioinformatics Support for Computational Resources [Service]
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Hellman U, Rosendal E, Lehrstrand J, ..., Överby AK, Lenman A
MBio 15 (10) e0130324 [2024-10-16; online 2024-09-20]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service]
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Yu C, Johnson A, Karlsson A, ..., Dopson M, Åström ME
Environ. Sci. Technol. 58 (41) 18324-18334 [2024-10-15; online 2024-10-03]
Bioinformatics Support for Computational Resources [Service]
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BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Integrated Microscopy Technologies Gothenburg [Service]
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Modulating protein unfolding and refolding via the synergistic association of an anionic and a nonionic surfactant.
Hjalte J, Diehl C, Leung AE, ..., Wahlgren M, Sanchez-Fernandez A
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Swedish NMR Centre [Service]
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Defective ribosome assembly impairs leukemia progression in a murine model of acute myeloid leukemia.
Sjövall D, Ghosh S, Fernandez-Fuentes N, ..., Guibentif C, Jaako P
Cell Rep 43 (11) 114864 [2024-10-15; online 2024-10-15]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Westmeijer G, van Dam F, Kietäväinen R, ..., Drake H, Dopson M
Commun Biol 7 (1) 1332 [2024-10-15; online 2024-10-15]
Bioinformatics Support for Computational Resources [Service]
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Mc Cartney AM, Formenti G, Mouton A, ..., Waterhouse RM, Mazzoni CJ
NPJ Biodivers 3 (1) 31 [2024-10-15; online 2024-10-15]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Milesi P, Kastally C, Dauphin B, ..., Pyhäjärvi T, GenTree Consortium
Nat Commun 15 (1) 8538 [2024-10-14; online 2024-10-14]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
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Rubalcava-Gracia D, Bubb K, Levander F, ..., Koolmeister C, Larsson NG
Nucleic Acids Res. 52 (18) 11266-11282 [2024-10-14; online 2024-08-01]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] CRISPR Functional Genomics [Service]
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De A, Rambaran MA, Ohlin CA
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Integrated Microscopy Technologies Umeå [Service]
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Bayati S, Nazeer J, Ng J, ..., Nilsson P, Pin E
Rheumatology (Oxford) - (-) - [2024-10-14; online 2024-10-14]
Autoimmunity and Serology Profiling [Collaborative]
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Piñeiro-García A, Wu X, Canto-Aguilar EJ, ..., Rafei M, Gracia-Espino E
ACS Appl Mater Interfaces - (-) - [2024-10-13; online 2024-10-13]
Integrated Microscopy Technologies Umeå [Service]
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Brahimllari O, Eloranta S, Georgii-Hemming P, ..., Wästerlid T, Boman M
Health Informatics J 30 (4) 14604582241290725 [2024-10-12; online 2024-10-12]
Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative]
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Ermann Lundberg L, Mata Forsberg M, Lemanczyk J, ..., Roos S, Håkansson S
Microorganisms 12 (10) - [2024-10-12; online 2024-10-12]
Swedish Metabolomics Centre [Service]
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Myrenås M, Pedersen K, Windahl U
Antibiotics (Basel) 13 (10) 962 [2024-10-12; online 2024-10-12]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Kling D, Adolfsson E, Gréen H, Gréen A
Forensic Sci Int Genet 74 (-) 103160 [2024-10-11; online 2024-10-11]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Dephosphorylation and ion binding in prokaryotic calcium transport.
Prabudiansyah I, Orädd F, Magkakis K, ..., Levantino M, Andersson M
Sci Adv 10 (41) eadp2916 [2024-10-11; online 2024-10-11]
Chemical Biology Consortium Sweden [Service] Cryo-EM [Service]
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GCKIII Kinases Control Hepatocellular Lipid Homeostasis via Shared Mode of Action.
Cansby E, Caputo M, Andersson E, ..., Hoy AJ, Mahlapuu M
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
PubMed DOI Crossref
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Mirabello C, Wallner B, Nystedt B, Azinas S, Carroni M
Nat Commun 15 (1) 8724 [2024-10-09; online 2024-10-09]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Cryo-EM [Service]
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Pálsson S, Skarphéðinsson KH, Heintz J, ..., Tree of Life Core Informatics collective , Darwin Tree of Life Consortium
Wellcome Open Res 9 (-) 575 [2024-10-09; online 2024-10-09]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
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Jiao X, Fu X, Li Q, ..., Nielsen J, Chen Y
Nat Commun 15 (1) 8759 [2024-10-09; online 2024-10-09]
Chalmers Mass Spectrometry Infrastructure [Collaborative] Integrated Microscopy Technologies Gothenburg [Service]
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Schäfer C, Ringström R, Hanrieder J, ..., Albinsson B, Börjesson K
Nat Commun 15 (1) - [2024-10-08; online 2024-10-08]
Swedish NMR Centre [Service]
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Estradiol-mediated enhancement of the human ectocervical epithelial barrier correlates with desmoglein-1 expression in the follicular menstrual phase.
Bradley F, Stern A, Franzén Boger M, ..., Fowke KR, Broliden K
Front Endocrinol (Lausanne) 15 (-) 1454006 [2024-10-08; online 2024-10-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Chemical Exposomics in Human Plasma by Lipid Removal and Large-Volume Injection Gas Chromatography–High-Resolution Mass Spectrometry
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Environ. Sci. Technol. 58 (40) 17592-17605 [2024-10-08; online 2024-09-24]
Exposomics [Technology development]
PubMed DOI Crossref
Orthogonal Phase Transfer of Oppositely Charged FeII 4L6 Cages.
Matic ES, Bernard M, Jernstedt AJ, Grommet AB
Chemistry - (-) e202403411 [2024-10-07; online 2024-10-07]
Chalmers Mass Spectrometry Infrastructure [Collaborative] Swedish NMR Centre [Service]
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Characteristics of gene expression in epicardial adipose tissue and subcutaneous adipose tissue in patients at risk for heart failure undergoing coronary artery bypass grafting.
Frisk C, Ekström M, Eriksson MJ, ..., Linde C, Persson B
BMC Genomics 25 (1) 938 [2024-10-07; online 2024-10-07]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Samakovlis C, Firsova A, Salas SM, ..., Nilsson M, Nawijn M
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In Situ Sequencing [Service]
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Li D, Liu Z, Zhang L, ..., Sommar P, Xu Landén N
Nat Commun 15 (1) 8637 [2024-10-05; online 2024-10-05]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Single cell [Service] NGI Spatial omics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Pesticide-induced transgenerational alterations of genome-wide DNA methylation patterns in the pancreas of Xenopus tropicalis correlate with metabolic phenotypes.
Roza M, Eriksson ANM, Svanholm S, Berg C, Karlsson O
J Hazard Mater 478 (-) 135455 [2024-10-05; online 2024-08-09]
Bioinformatics Support for Computational Resources [Service]
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Genomic tumor evolution dictates human medulloblastoma progression.
Ruchiy Y, Tsea I, Preka E, ..., Johnsen JI, Baryawno N
Neurooncol Adv 6 (1) vdae172 [2024-10-05; online 2024-10-05]
Bioinformatics Support for Computational Resources [Service]
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Caputo F, Siaperas R, Dias C, Nikolaivits E, Olsson L
Biotechnol Biofuels Bioprod 17 (1) 127 [2024-10-05; online 2024-10-05]
Glycoproteomics and MS Proteomics [Service]
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Techameena P, Feng X, Zhang K, Hadjab S
Nat Commun 15 (1) 8585 [2024-10-04; online 2024-10-04]
Bioinformatics Support for Computational Resources [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Population History of Domestic Sheep Revealed by Paleogenomes.
Kaptan D, Atağ G, Vural KB, ..., Somel M, Özer F
Mol. Biol. Evol. 41 (10) - [2024-10-04; online 2024-10-23]
Ancient DNA [Service] NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Östling H, Lodefalk M, Bergman L, ..., Backman H, Kruse R
Placenta 158 (-) 78-88 [2024-10-04; online 2024-10-04]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Multiplexed chromatin immunoprecipitation sequencing for quantitative study of histone modifications and chromatin factors.
Kumar B, Navarro C, Yung PYK, ..., Martin M, Elsässer SJ
Nat Protoc - (-) - [2024-10-03; online 2024-10-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Estrogen-stimulated uropathogenic E. coli mediate enhanced neutrophil responses.
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Sci Rep 14 (1) 23030 [2024-10-03; online 2024-10-03]
Affinity Proteomics Uppsala [Service]
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Early-Life Hygiene-Related Factors and Risk of Inflammatory Bowel Disease: A Scandinavian Birth Cohort Study.
Guo A, Östensson M, Størdal K, Ludvigsson J, Mårild K
Inflamm Bowel Dis 30 (10) 1820-1830 [2024-10-03; online 2023-11-03]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Childhood Socioeconomic Characteristics and Risk of Inflammatory Bowel Disease: A Scandinavian Birth Cohort Study.
Sigvardsson I, Størdal K, Östensson M, ..., Ludvigsson J, Mårild K
Inflamm Bowel Dis 30 (10) 1801-1811 [2024-10-03; online 2023-09-23]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Liu L, Hakhverdyan M, Wallgren P, ..., Hulst M, Van Borm S
Microbiol Spectr 12 (10) e0420823 [2024-10-03; online 2024-08-20]
Bioinformatics Support for Computational Resources [Service]
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Multi-omics analysis reveals the key factors involved in the severity of the Alzheimer's disease.
Meng L, Jin H, Yulug B, ..., Uhlén M, Mardinoglu A
Alzheimers Res Ther 16 (1) 213 [2024-10-02; online 2024-10-02]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] NGI Short read NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Nezhyva M, Shahen-Zoabi S, Kabirova M, ..., Margulis K, Jansson ET
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Spatial Mass Spectrometry [Collaborative]
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Andersson A, Escriva Conde M, Surova O, ..., Nilsson M, Nyström H
Clin. Cancer Res. 30 (19) 4517-4529 [2024-10-01; online 2024-07-26]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service] In Situ Sequencing [Service]
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Arango-Franco CA, Ogishi M, Unger S, ..., Casanova JL, Puel A
J. Clin. Invest. 134 (19) - [2024-10-01; online 2024-10-01]
Autoimmunity and Serology Profiling [Service]
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Hermans M, Stranne C, Broman E, ..., Jilbert T, Humborg C
Sci. Total Environ. 945 (-) 174183 [2024-10-01; online 2024-06-21]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mirabello C, Wallner B
Bioinformatics 40 (10) - [2024-10-01; online 2024-09-30]
Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
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Exposomics [Collaborative]
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Ancient DNA [Service]
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Bioinformatics Support for Computational Resources [Service]
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Strand D, Lundgren B, Bergdahl IA, Martin JW, Karlsson O
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Drug Discovery and Development [Collaborative]
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Transl Oncol 48 (-) 102059 [2024-10-00; online 2024-07-16]
Affinity Proteomics Uppsala [Service] Swedish Metabolomics Centre [Service]
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Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Clinical Genomics [Service] Clinical Genomics Lund [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Integrated Microscopy Technologies Umeå [Service]
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Mov Disord 39 (10) 1881-1885 [2024-10-00; online 2024-05-26]
Affinity Proteomics Stockholm [Service]
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New Phytol. 244 (1) 219-234 [2024-10-00; online 2024-08-07]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Glycoproteomics and MS Proteomics [Collaborative]
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Obanda V, Akinyi M, King'ori E, ..., Stenberg-Lewerin S, Lwande OW
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Clinical Genomics [Collaborative] Clinical Genomics Umeå [Collaborative]
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Industrial Crops and Products 218 (-) 118858 [2024-10-00; online 2024-10-00]
Swedish NMR Centre [Service]
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Dyrdak R, Hodcroft EB, Broddesson S, ..., Neher RA, Albert J
Euro Surveill. 29 (41) - [2024-10-00; online 2024-10-11]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service] Clinical Genomics Örebro [Collaborative]
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Moustardas P, Abbasi M, Javidjam D, ..., Aberdam D, Lagali N
Ocul Surf 34 (-) 225-234 [2024-10-00; online 2024-08-08]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Resjö S, Willforss J, Large A, ..., Levander F, Andreasson E
Plant Physiol Biochem 215 (-) 109032 [2024-10-00; online 2024-08-10]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre [Service]
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Overgaard CK, Jamy M, Radutoiu S, Burki F, Dueholm MKD
Mol Ecol Resour 24 (7) e13991 [2024-10-00; online 2024-07-09]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Wikström Shemer D, Mostafaei S, Tang B, ..., Fall T, Hägg S
Geroscience 46 (5) 5003-5014 [2024-10-00; online 2024-06-27]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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- 56 (10S) 556-556 [2024-10-00; online 2024-10-00]
Affinity Proteomics Stockholm [Service]
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Hulander E, Bärebring L, Winkvist A, Gjertsson I, Lindqvist HM
Eur J Nutr 63 (7) 2631-2642 [2024-10-00; online 2024-06-27]
Swedish NMR Centre [Service]
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Zheng D, Wilén BM, Öberg O, Wik T, Modin O
Environ. Microbiol. 26 (10) e16696 [2024-10-00; online 2024-10-09]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Rajan A, Gallego P, Dolan B, ..., Simrén M, Pelaseyed T
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Glycoproteomics and MS Proteomics [Service]
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Murga M, Lopez-Pernas G, Soliva R, ..., Orozco M, Fernández-Capetillo O
Cell Death Dis 15 (9) 694 [2024-09-28; online 2024-09-28]
Chemical Biology Consortium Sweden [Collaborative] Global Proteomics and Proteogenomics [Service]
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NiO thin films fabricated using spray-pyrolysis technique: structural and optical characterization and ultrafast charge dynamics studies
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Integrated Microscopy Technologies Umeå [Service]
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Stopa V, Lileikyte G, Bakochi A, ..., Nielsen N, Devaux Y
Intensive Care Med Exp 12 (1) 83 [2024-09-27; online 2024-09-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Maity R, Zhang X, Liberati FR, ..., Aínsa JA, Sancho J
Elife 13 (-) - [2024-09-27; online 2024-09-27]
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Thorsson H, Henningsson R, Puente-Moncada N, ..., Lilljebjörn H, Fioretos T
Blood 144 (13) 1399-1411 [2024-09-26; online 2024-07-05]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Dudek M, López-Pacios L, Sabouri N, ..., Martinez-Fernandez L, Deiana M
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Chemical Biology Consortium Sweden [Service]
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CDK4 is co-amplified with either TP53 promoter gene fusions or MDM2 through distinct mechanisms in osteosarcoma.
Saba KH, Difilippo V, Styring E, ..., Baumhoer D, Nord KH
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Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Integrated Microscopy Technologies Gothenburg [Service]
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Biezeman H, Nubiè M, Oburoglu L
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Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Enrichment Reveals Extensive Integration of Hepatitis B Virus DNA in Hepatitis Delta Virus-Infected Patients.
Ringlander J, Strömberg LG, Stenbäck JB, ..., Rydell GE, Lindh M
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Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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PITAR, a DNA damage-inducible cancer/testis long noncoding RNA, inactivates p53 by binding and stabilizing TRIM28 mRNA.
Jana S, Mondal M, Mahale S, ..., Kanduri C, Somasundaram K
Elife 12 (-) - [2024-09-20; online 2024-09-20]
Integrated Microscopy Technologies Gothenburg [Service]
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Edelbroek B, Westholm JO, Bergquist J, Söderbom F
iScience 27 (9) 110659 [2024-09-20; online 2024-08-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Cancer associated variant enrichment CAVE, a gene agnostic approach to identify low burden variants in chronic lymphocytic leukemia.
Yaacov A, Lazarian G, Pandzic T, ..., Rosenberg S, Soussi T
Sci Rep 14 (1) 21962 [2024-09-20; online 2024-09-20]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Swedish NMR Centre [Technology development]
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Cooperative folding as a molecular switch in an evolved antibody binder.
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Swedish NMR Centre [Service]
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Sports Med Open 10 (1) 99 [2024-09-18; online 2024-09-18]
Swedish Metabolomics Centre [Service]
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Mantas I, Flais I, Masarapu Y, ..., Perlmann T, Svenningsson P
Nat Commun 15 (1) 8176 [2024-09-18; online 2024-09-18]
NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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NPJ Biodivers 3 (1) 28 [2024-09-17; online 2024-09-17]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Proteo-metabolomics and patient tumor slice experiments point to amino acid centrality for rewired mitochondria in fibrolamellar carcinoma.
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Cell Reports Medicine 5 (9) 101699 [2024-09-17; online 2024-08-28]
Global Proteomics and Proteogenomics [Service]
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Wang M, Kamali-Moghaddam M, Löf L, ..., Landegren U, Zhao H
Sci Rep 14 (1) 21655 [2024-09-17; online 2024-09-17]
Affinity Proteomics Uppsala [Technology development]
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Environ. Sci. Technol. 58 (37) 16302-16315 [2024-09-17; online 2024-09-05]
Exposomics [Collaborative]
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Mech Ageing Dev 222 (-) 111979 [2024-09-16; online 2024-09-16]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Integrated Microscopy Technologies Umeå [Service]
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Int J Mol Sci 25 (18) - [2024-09-13; online 2024-09-13]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Li X, Jayaprasad S, Einarsdottir E, ..., Kawakami T, Palacios-Gimenez OM
Sci Data 11 (1) 997 [2024-09-12; online 2024-09-12]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Collaborative] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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González-Domínguez Á, Savolainen O, Domínguez-Riscart J, ..., Lechuga-Sancho A, González-Domínguez R
Cardiovasc Diabetol 23 (1) 336 [2024-09-11; online 2024-09-11]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Jhamat N, Guo Y, Han J, ..., Andersson G, Niazi A
Int J Mol Sci 25 (18) - [2024-09-11; online 2024-09-11]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Nat Commun 15 (1) 7966 [2024-09-11; online 2024-09-11]
Bioinformatics Support for Computational Resources [Service]
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Inherited human RelB deficiency impairs innate and adaptive immunity to infection.
Le Voyer T, Maglorius Renkilaraj MRL, Moriya K, ..., Tangye SG, Puel A
Proc. Natl. Acad. Sci. U.S.A. 121 (37) e2321794121 [2024-09-10; online 2024-09-04]
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Epigenetic regulation of cell state by H2AFY governs immunogenicity in high-risk neuroblastoma.
Nagarajan D, Parracho RT, Corujo D, ..., Buschbeck M, Mao Y
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Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service]
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Loss of Lamin A leads to the nuclear translocation of AGO2 and compromised RNA interference.
Lobo V, Nowak I, Fernandez C, ..., Angeletti D, Sarshad AA
Nucleic Acids Res. 52 (16) 9917-9935 [2024-09-09; online 2024-07-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Transient colonizing microbes promote gut dysbiosis and functional impairment.
Lee S, Meslier V, Bidkhori G, ..., Uhlen M, Shoaie S
NPJ Biofilms Microbiomes 10 (1) 80 [2024-09-08; online 2024-09-08]
Bioinformatics Support for Computational Resources [Service]
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MAIT cell heterogeneity across paired human tissues reveals specialization of distinct regulatory and enhanced effector profiles.
Kammann T, Cai C, Sekine T, ..., Buggert M, Sandberg JK
Sci Immunol 9 (99) eadn2362 [2024-09-06; online 2024-09-06]
Affinity Proteomics Stockholm [Service]
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Defining the Soluble and Extracellular Vesicle Protein Compartments of Plasma Using In-Depth Mass Spectrometry-Based Proteomics.
Sharma N, Angori S, Sandberg A, ..., Eriksson H, Pernemalm M
J. Proteome Res. 23 (9) 4114-4127 [2024-09-06; online 2024-08-14]
Global Proteomics and Proteogenomics [Service]
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The Influence of Disulfide, Thioacetal and Lanthionine-Bridges on the Conformation of a Macrocyclic Peptide.
Darling WTP, Wieske LHE, Cook DT, ..., Erdélyi M, Tabor AB
Chemistry 30 (50) e202401654 [2024-09-05; online 2024-08-20]
Swedish NMR Centre [Service]
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Structure of the iminium reaction intermediate in an engineered aldolase explains the carboligation activity toward arylated ketones and aldehydes.
Hebert H, Sönmez E, Purhonen P, Widersten M
Structure 32 (9) 1322-1326.e4 [2024-09-05; online 2024-07-15]
Cryo-EM [Service]
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High-throughput neural stem cell-based drug screening identifies S6K1 inhibition as a selective vulnerability in sonic hedgehog-medulloblastoma.
Zhou L, van Bree N, Boutin L, ..., Falk A, Wilhelm M
Neuro-oncology 26 (9) 1685-1699 [2024-09-05; online 2024-06-11]
Chemical Biology Consortium Sweden [Collaborative]
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EDA2R reflects the acute brain response to cranial irradiation in liquid biopsies.
Lastra Romero A, Seitz T, Zisiadis GA, Jeffery H, Osman AM
Neuro-oncology 26 (9) 1617-1627 [2024-09-05; online 2024-04-29]
Affinity Proteomics Stockholm [Service]
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Blood based metabolic markers of glioma from pre-diagnosis to surgery.
Löding S, Antti H, Sjöberg RL, Melin B, Björkblom B
Sci Rep 14 (1) 20680 [2024-09-05; online 2024-09-05]
Swedish Metabolomics Centre [Service]
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Soil volatilomics uncovers tight linkage between soybean presence and soil omics profiles in agricultural fields.
Kuchikata H, Sano M, Fujiwara F, ..., Ichihashi Y, Kusano M
Sci Rep 14 (1) 20541 [2024-09-04; online 2024-09-04]
Swedish Metabolomics Centre [Service]
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Male-biased recombination at chromosome ends in a songbird revealed by precisely mapping crossover positions.
Zhang H, Lundberg M, Ponnikas S, Hasselquist D, Hansson B
G3 (Bethesda) 14 (9) - [2024-09-04; online 2024-07-10]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Immune system adaptation during gender-affirming testosterone treatment
Tadepally L, Consiglio C, Sardh F, ..., Landegren N, Brodin P
Nature 633 (-) 155-164 [2024-09-04]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Urine metabolomic profiles of autism and autistic traits-A twin study.
Arora A, Mastropasqua F, Bölte S, Tammimies K
PLoS ONE 19 (9) e0308224 [2024-09-03; online 2024-09-03]
Global Proteomics and Proteogenomics [Service]
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Temporal dynamics of faster neo-Z evolution in butterflies.
Höök L, Vila R, Wiklund C, Backström N
Evolution 78 (9) 1554-1567 [2024-09-03; online 2024-05-30]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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In silico gepotidacin target mining among 33 213 global Neisseria gonorrhoeae genomes from 1928 to 2023 combined with gepotidacin MIC testing of 22 gonococcal isolates with different GyrA and ParC substitutions.
David A, Golparian D, Jacobsson S, ..., Davies C, Unemo M
J. Antimicrob. Chemother. 79 (9) 2221-2226 [2024-09-03; online 2024-07-15]
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Atypical Interference in Hb A1c Measurements Might Be Due to Mosaic Expression of Hemoglobin Variants.
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Acta Crystallogr D Struct Biol 80 (Pt 9) 699-712 [2024-09-01; online 2024-09-04]
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Spinocerebellar ataxia type 4 is caused by a GGC expansion in the ZFHX3 gene and is associated with prominent dysautonomia and motor neuron signs.
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Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Basic and Applied Ecology 79 (-) 114-122 [2024-09-00; online 2024-09-00]
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Mol. Phylogenet. Evol. 198 (-) 108117 [2024-09-00; online 2024-06-07]
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Cytometry A 105 (9) 677-687 [2024-09-00; online 2024-07-03]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Longitudinal changes in cardiovascular disease-related proteins in welders.
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Immune system adaptation during gender-affirming testosterone treatment.
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Nature 633 (8028) 155-164 [2024-09-00; online 2024-09-04]
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Hop stunt viroid infection induces heterochromatin reorganization.
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Dantrolene corrects cellular disease features of Darier disease and may be a novel treatment.
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Contemporary intergeneric hybridization and backcrossing among birds-of-paradise.
Thörn F, Soares AER, Müller IA, ..., Blom MPK, Irestedt M
Evolution Letters 8 (5) 680-694 [2024-09-00; online 2024-06-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Associations between sickness behavior, but not inflammatory cytokines, and psychiatric comorbidity in chronic pain.
Åström Reitan JLM, Karshikoff B, Holmström L, ..., Kemani MK, Wicksell RK
Psychoneuroendocrinology 167 (-) 107094 [2024-09-00; online 2024-06-13]
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Hemasphere 8 (9) e70006 [2024-09-00; online 2024-09-26]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Making Multiplexed Imaging Flexible: Combining Essential Markers With Established Antibody Panels.
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BioImage Informatics [Service] Bioinformatics (NBIS) [Service] Spatial Proteomics [Technology development]
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Joint single-cell genetic and transcriptomic analysis reveal pre-malignant SCP-like subclones in human neuroblastoma.
Olsen TK, Otte J, Mei S, ..., Kharchenko PV, Baryawno N
Mol. Cancer 23 (1) 180 [2024-08-31; online 2024-08-31]
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Soft Tissue Tumor with PAK2::RAF1 Kinase Fusion: An Emerging Sarcoma Entity.
Haglund C, Behrendtz M, Hesla A, Haglund de Flon F
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Rapid and robust isolation of microglia and vascular cells from brain subregions for integrative single-cell analyses.
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Heliyon 10 (16) e35838 [2024-08-30; online 2024-08-05]
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Posterior specification of multi-lineage axial assembloids from human pluripotent stem cells
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biorxiv - (-) - [2024-08-30; online 2024-08-30]
Integrated Microscopy Technologies Stockholm [Service]
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Plastome evolution in Santalales involves relaxed selection prior to loss of ndh genes and major boundary shifts of the inverted repeat.
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Sci Adv 10 (35) eadp8625 [2024-08-30; online 2024-08-28]
Ancient DNA [Collaborative] Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Microbes Infect - (-) 105410 [2024-08-30; online 2024-08-30]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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The Crosstalk Analysis between mPSCs and Panc1 Cells Identifies CCN1 as a Positive Regulator of Gemcitabine Sensitivity in Pancreatic Cancer Cells.
Gündel B, Liu X, Pfützenreuter A, ..., Löhr JM, Heuchel R
Int J Mol Sci 25 (17) - [2024-08-29; online 2024-08-29]
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O-glycosylation contributes to mammalian glycoRNA biogenesis.
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bioRxiv - (-) - [2024-08-29; online 2024-08-29]
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Dis Esophagus 37 (9) - [2024-08-29; online 2024-04-29]
Integrated Microscopy Technologies Gothenburg [Service]
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Nat Commun 15 (1) 7510 [2024-08-29; online 2024-08-29]
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A charged tail on anti-α-Synuclein antibodies does not enhance their affinity to α-Synuclein fibrils.
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PLoS ONE 19 (8) e0308521 [2024-08-29; online 2024-08-29]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Nat Commun 15 (1) 7422 [2024-08-28; online 2024-08-28]
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Polygenic Risk Scores and Twin Concordance for Schizophrenia and Bipolar Disorder.
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JAMA Psychiatry - (-) - [2024-08-28; online 2024-08-28]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Antimicrob Agents Chemother - (-) - [2024-08-28; online 2024-08-28]
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González-Domínguez Á, Domínguez-Riscart J, Savolainen O, ..., Landberg R, González-Domínguez R
Cardiovasc Diabetol 23 (1) 315 [2024-08-27; online 2024-08-27]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Nat Commun 15 (1) 7177 [2024-08-26; online 2024-08-26]
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Intensified, Kilogram-Scaled, and Environment-Friendly: Chemoenzymatic Synthesis of Bio-Based Acylated Hydroxystyrenes.
Petermeier P, Domínguez de María P, Byström E, Kara S
ACS Sustainable Chem. Eng. 12 (34) 12869-12878 [2024-08-26; online 2024-08-15]
Swedish NMR Centre [Service]
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Clinical Genomics [Collaborative] Clinical Genomics Umeå [Collaborative]
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BaTwa populations from Zambia retain ancestry of past hunter-gatherer groups.
Breton G, Barham L, Mudenda G, ..., Schlebusch CM, Jakobsson M
Nat Commun 15 (1) 7307 [2024-08-24; online 2024-08-24]
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Vasilaki E, Bai Y, Ali MM, ..., Moustakas A, Heldin CH
Cell Commun Signal 22 (1) 411 [2024-08-23; online 2024-08-23]
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Cimaglia G, Tribble JR, Votruba M, Williams PA, Morgan JE
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Swedish Metabolomics Centre [Service]
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Science 385 (6711) 892-898 [2024-08-23; online 2024-08-22]
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Plant Cell Environ. - (-) - [2024-08-23; online 2024-08-23]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Dos Reis GS, Conrad S, Lima EC, ..., Dotto GL, Grimm A
Nanomaterials (Basel) 14 (16) - [2024-08-22; online 2024-08-22]
Integrated Microscopy Technologies Umeå [Service]
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Spatial Mass Spectrometry [Technology development]
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Chemical Biology Consortium Sweden [Service]
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Efficacy of T-cell assays for the diagnosis of primary defects in cytotoxic lymphocyte exocytosis.
Chiang SCC, Covill LE, Tesi B, ..., Meeths M, Bryceson YT
Blood 144 (8) 873-887 [2024-08-22; online 2024-07-03]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Surface-Shaving of Staphylococcus aureus Strains and Quantitative Proteomic Analysis Reveal Differences in Protein Abundance of the Surfaceome.
Karlsson A, Alarcón LA, Piñeiro-Iglesias B, ..., Jin T, Karlsson R
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Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Glycoproteomics and MS Proteomics [Service]
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FOXO-regulated OSER1 reduces oxidative stress and extends lifespan in multiple species.
Song J, Li Z, Zhou L, ..., Rasmussen LJ, Dai F
Nat Commun 15 (1) 7144 [2024-08-21; online 2024-08-21]
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Spatial Mass Spectrometry [Collaborative]
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Gel-Assisted Proteome Position Integral Shift Assay Returns Molecular Weight to Shotgun Proteomics and Identifies Caspase 3 Substrates.
Meng Z, Saei AA, Gharibi H, ..., Gaetani M, Zubarev RA
Anal. Chem. 96 (33) 13533-13541 [2024-08-20; online 2024-08-07]
Chemical Proteomics [Technology development]
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The evolutionarily ancient FOXA transcription factors shape the murine gut microbiome via control of epithelial glycosylation.
Swisa A, Kieckhaefer J, Daniel SG, ..., Bittinger K, Kaestner KH
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Glycoproteomics and MS Proteomics [Collaborative]
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Host-pathogen interactions in the Plasmodium-infected mouse liver at spatial and single-cell resolution.
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Bioinformatics Support for Computational Resources [Service]
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Type I Interferon Autoantibodies Correlate With Cellular Immune Alterations in Severe COVID-19.
Strunz B, Maucourant C, Mehta A, ..., Björkström NK, Karolinska KI/K COVID-19 Study Group
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Autoimmunity and Serology Profiling [Service]
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Sonavane S, Hassan S, Chatterjee U, ..., Reimegård J, Rising A
Sci Adv 10 (33) eadn0597 [2024-08-16; online 2024-08-14]
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Integrated Microscopy Technologies Stockholm [Collaborative]
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Glycogen synthase kinase 3 inhibition controls Mycobacterium tuberculosis infection.
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Chemical Biology Consortium Sweden [Service]
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Schaus SR, Vasconcelos Pereira G, Luis AS, ..., Hansson GC, Martens EC
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Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Spatial Mass Spectrometry [Collaborative]
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Obscurity of chlorophyll tails - Is chlorophyll with farnesyl tail incorporated into PSII complexes?
Graça AT, Lihavainen J, Hussein R, Schröder WP
Physiol Plantarum 176 (4) e14428 [2024-07-10; online 2024-07-10]
Swedish Metabolomics Centre [Service]
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Inverted triplications formed by iterative template switches generate structural variant diversity at genomic disorder loci.
Grochowski CM, Bengtsson JD, Du H, ..., Lupski JR, Carvalho CMB
Cell Genomics 4 (7) 100590 [2024-07-10; online 2024-06-21]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Nucleotide binding to the ATP-cone in anaerobic ribonucleotide reductases allosterically regulates activity by modulating substrate binding
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Elife 12 (-) - [2024-07-05; online 2024-07-05]
Cryo-EM [Service] Structural Proteomics [Service]
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Neonatal microbiota colonization drives maturation of primary and secondary goblet cell mediated protection in the pre-weaning colon.
Johansson Å, Subramani MV, Yilmaz B, ..., Johansson MEV, Birchenough GMH
bioRxiv - (-) - [2024-07-05; online 2024-07-05]
Integrated Microscopy Technologies Gothenburg [Service]
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Evaluating Bacterial Spore Preparation Methods for Scanning Electron Microscopy.
Malyshev D, Lee CC, Andersson M
Microsc Microanal 30 (3) 564-573 [2024-07-04; online 2024-05-03]
Integrated Microscopy Technologies Umeå [Technology development]
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DNA methylation of exercise-responsive genes differs between trained and untrained men.
Geiger C, Needhamsen M, Emanuelsson EB, ..., Reitzner SM, Lindholm ME
BMC Biol. 22 (1) 147 [2024-07-04; online 2024-07-04]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Karlsson L, Öhrnberg I, Sayyab S, ..., Paues J, Lerm M
J. Infect. Dis. - (-) - [2024-07-04; online 2024-07-04]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Mammalian cell display with automated oligo design and library assembly allows for rapid residue level conformational epitope mapping.
Thalén NB, Karlander M, Lundqvist M, ..., Ohlin M, Rockberg J
Commun Biol 7 (1) 805 [2024-07-03; online 2024-07-03]
Drug Discovery and Development [Service]
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Limited Parallelism in Genetic Adaptation to Brackish Water Bodies in European Sprat and Atlantic Herring.
Pettersson ME, Quintela M, Besnier F, ..., Glover KA, Andersson L
Genome Biol Evol 16 (7) - [2024-07-03; online 2024-06-26]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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von Bachmann P, Gedon D, Gustafsson FK, ..., Sundström J, Schön TB
Sci Rep 14 (1) 15273 [2024-07-03; online 2024-07-03]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Comparative Genomic Analysis of the Pattern of Evolution of Male and Female Reproductive Proteins in Seed Beetles.
Papachristos K, Sayadi A, Arnqvist G
Genome Biol Evol 16 (7) - [2024-07-03; online 2024-06-28]
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Porebski B, Christ W, Corman A, ..., Hühn D, Fernandez-Capetillo O
Mol Ther - (-) - [2024-07-02; online 2024-07-02]
Chemical Biology Consortium Sweden [Collaborative]
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CRISPR-Cas9 Knockout Screens Identify DNA Damage Response Pathways and BTK as Essential for Cisplatin Response in Diffuse Large B-Cell Lymphoma.
Issa II, Due H, Brøndum RF, ..., Schmierer B, Dybkær K
Cancers (Basel) 16 (13) 2437 [2024-07-02; online 2024-07-02]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service]
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Unravelling reference bias in ancient DNA datasets.
Dolenz S, van der Valk T, Jin C, ..., Dalén L, Heintzman PD
Bioinformatics 40 (7) - [2024-07-01; online 2024-07-04]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Clinical and genetic factors associated with tumor response to neoadjuvant (chemo)radiotherapy, survival and recurrence risk in rectal cancer.
Hammarström K, Nunes L, Mathot L, ..., Sjöblom T, Glimelius B
Int. J. Cancer 155 (1) 40-53 [2024-07-01; online 2024-02-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Carboxyl-group compounds activate voltage-gated potassium channels via a distinct mechanism.
Rönnelid O, Elinder F
J. Gen. Physiol. 156 (7) - [2024-07-01; online 2024-06-04]
Chemical Biology Consortium Sweden [Service]
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Cancer Core Europe: Leveraging Institutional Synergies to Advance Oncology Research and Care Globally.
Carmona J, Chavarria E, Donoghue K, ..., Zwart W, Tabernero J
Cancer Discov 14 (7) 1147-1153 [2024-07-01; online 2024-06-13]
Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative]
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BirthSeq, a new method to isolate and analyze dated cells in different vertebrates.
Rueda-Alaña E, Grillo M, Vázquez E, ..., Nilsson M, García-Moreno F
Development 151 (13) - [2024-07-01; online 2024-07-10]
In Situ Sequencing [Service]
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Utilising ancient DNA to understand crop population dynamics across a millennium: A case study of archaeological barley (Hordeum vulgare L.) from Gran Canaria, Spain
Hagenblad J, Morales J, Leino MW, ..., Rodríguez-Rodríguez AC, Santana J
Journal of Archaeological Science 167 (-) 106001 [2024-07-00; online 2024-07-00]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Uncommon Variants in FLG2 and NOD2 Are Associated with Atopic Dermatitis in the Ethiopian Population.
Wang S, Elmgren JK, Eisfeldt J, ..., Tapia-Paez I, Bradley M
JID Innov 4 (4) 100284 [2024-07-00; online 2024-04-29]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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The WHO Enhanced Gonococcal Antimicrobial Surveillance Programme (EGASP) identifies high levels of ceftriaxone resistance across Vietnam, 2023.
Lan PT, Nguyen HT, Golparian D, ..., Unemo M, EGASP-Vietnam WGS study group
Lancet Reg Health West Pac 48 (-) 101125 [2024-07-00; online 2024-06-27]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Reduced adipocyte glutaminase activity promotes energy expenditure and metabolic health.
Lecoutre S, Maqdasy S, Rizo-Roca D, ..., Mejhert N, Rydén M
Nat Metab 6 (7) 1329-1346 [2024-07-00; online 2024-07-15]
Swedish Metabolomics Centre [Collaborative]
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Predicting glycan structure from tandem mass spectrometry via deep learning.
Urban J, Jin C, Thomsson KA, ..., Fadda E, Bojar D
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Glycoproteomics and MS Proteomics [Collaborative]
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Orsmark-Pietras C, Lyander A, Ladenvall C, ..., Fioretos T, SciLifeLab Clinical Genomics Platform and Genomic Medicine Sweden
Genes Chromosomes Cancer 63 (7) e23257 [2024-07-00; online 2024-07-20]
Clinical Genomics [Service] Clinical Genomics Lund [Service] Clinical Genomics Stockholm [Service] Clinical Genomics Uppsala [Technology development]
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Manell H, Tsolakis N, Janson C, Malinovschi A, Alving K
Pediatr Allergy Immunol 35 (7) e14187 [2024-07-00; online 2024-07-05]
Affinity Proteomics Uppsala [Service]
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Molecular basis for different substrate-binding sites and chaperone functions of the BRICHOS domain.
Chen G, Wang Y, Zheng Z, ..., Knight SD, Johansson J
Protein Sci. 33 (7) e5063 [2024-07-00; online 2024-06-12]
Cryo-EM [Service]
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LIGHT protein: A novel gingival crevicular fluid biomarker associated with increased probing depth after periodontal surgery.
Esberg A, Kindstedt E, Isehed C, ..., Holmlund A, Lundberg P
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Genomic insights into the evolutionary and demographic histories of the extinct Hoopoe Starling (Fregilupus varius)
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Ibis 166 (3) 1073-1080 [2024-07-00; online 2024-01-03]
Bioinformatics Support for Computational Resources [Service]
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GABA-mediated inhibition of human CD4+ T cell functions is enhanced by insulin but impaired by high glucose levels.
Jin Z, Hammoud H, Bhandage AK, ..., Kamali-Moghaddam M, Birnir B
EBioMedicine 105 (-) 105217 [2024-07-00; online 2024-06-28]
Affinity Proteomics Uppsala [Service] Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] Spatial Mass Spectrometry [Collaborative]
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Münger X, Robin M, Dalén L, Grossen C
Mol. Ecol. 33 (14) e17429 [2024-07-00; online 2024-06-07]
Bioinformatics Support for Computational Resources [Service]
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Drug solubilization in dog intestinal fluids with and without administration of lipid-based formulations.
Parrow A, Kabedev A, Larsson P, ..., Abrahamsson B, Bergström CAS
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Bioinformatics Support for Computational Resources [Service]
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Distinct origin and region-dependent contribution of stromal fibroblasts to fibrosis following traumatic injury in mice.
Holl D, Hau WF, Julien A, ..., Dias DO, Göritz C
Nat. Neurosci. 27 (7) 1285-1298 [2024-07-00; online 2024-06-07]
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Diagnostic patterns of serum inflammatory protein markers in children with Lyme neuroborreliosis.
Fredriksson T, Brudin L, Henningsson AJ, Skogman BH, Tjernberg I
Ticks Tick Borne Dis 15 (4) 102349 [2024-07-00; online 2024-05-08]
Affinity Proteomics Uppsala [Service]
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Diagnosis of external ventricular drainage related infections with real-time 16S PCR and third-generation 16S sequencing.
Widén J, Morén J, Mölling P, ..., Sundqvist M, Westman G
Infect Dis (Lond) 56 (7) 521-530 [2024-07-00; online 2024-03-26]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Nordahl L, Akkuratov EE, Heimgärtner J, ..., Wennmalm S, Brismar H
Biochimica et Biophysica Acta (BBA) - General Subjects 1868 (7) 130619 [2024-07-00; online 2024-04-20]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Box-Behnken design for the synthesis optimization of mesoporous sulfur-doped carbon-based materials from birch waste: Promising candidates for environmental and energy storage application
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Colloids and Surfaces A: Physicochemical and Engineering Aspects 692 (-) 133899 [2024-07-00; online 2024-07-00]
Integrated Microscopy Technologies Umeå [Service]
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Bacterial community characterization by deep learning aided image analysis in soil chips
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Ecological Informatics 81 (-) 102562 [2024-07-00; online 2024-07-00]
Bioinformatics Support for Computational Resources [Service]
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A community effort to track commercial single-cell and spatial 'omic technologies and business trends.
De Jonghe J, Opzoomer JW, Vilas-Zornoza A, ..., Cribbs AP, Taylor-King JP
Nat. Biotechnol. 42 (7) 1017-1023 [2024-07-00; online 2024-07-18]
In Situ Sequencing [Collaborative]
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Myofiber-specific lipidomics unveil differential contributions to insulin sensitivity in individuals of African and European ancestry.
Eurén T, Gower B, Steneberg P, ..., Edlund H, Chorell E
Heliyon 10 (12) e32456 [2024-06-30; online 2024-06-05]
Swedish Metabolomics Centre [Service]
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Commun Biol 7 (1) - [2024-06-29; online 2024-06-29]
Integrated Microscopy Technologies Stockholm [Service]
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The annotation of GBA1 has been concealed by its protein-coding pseudogene GBAP1.
Gustavsson EK, Sethi S, Gao Y, ..., Hardy J, Ryten M
Sci Adv 10 (26) eadk1296 [2024-06-28; online 2024-06-26]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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A combination of long- and short-read genomics reveals frequent p-arm breakpoints within chromosome 21 complex genomic rearrangements.
Schuy J, Sæther KB, Lisfeld J, ..., Eisfeldt J, Lindstrand A
Genetics in Medicine Open 2 (-) 101863 [2024-06-28; online 2024-06-28]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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NOS2-derived low levels of NO drive psoriasis pathogenesis.
Köhler I, Bivik Eding C, Kasic NK, Verma D, Enerbäck C
Cell Death Dis 15 (6) 449 [2024-06-26; online 2024-06-26]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Small molecules dominate organic phosphorus in NaOH-EDTA extracts of soils as determined by 31P NMR.
Haddad L, Vincent AG, Giesler R, Schleucher J
Sci. Total Environ. 931 (-) 172496 [2024-06-25; online 2024-04-16]
Swedish NMR Centre [Collaborative]
PubMed DOI Crossref
Predicting type 2 diabetes via machine learning integration of multiple omics from human pancreatic islets.
Rönn T, Perfilyev A, Oskolkov N, Ling C
Sci Rep 14 (1) 14637 [2024-06-25; online 2024-06-25]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Chromosome-level genome assembly and annotation of the social amoeba Dictyostelium firmibasis.
Edelbroek B, Kjellin J, Jerlström-Hultqvist J, Koskiniemi S, Söderbom F
Sci Data 11 (1) 678 [2024-06-22; online 2024-06-22]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Quantification and Profiling of Early and Late Differentiation Stage T Cells in Mantle Cell Lymphoma Reveals Immunotherapeutic Targets in Subsets of Patients.
Lokhande L, Nilsson D, de Matos Rodrigues J, ..., Jerkeman M, Ek S
Cancers (Basel) 16 (13) - [2024-06-21; online 2024-06-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Metaproteomics reveals parallel utilization of colonic mucin glycans and dietary fibers by the human gut microbiota.
Raba G, Luis AS, Schneider H, ..., Adamberg K, Arike L
iScience 27 (6) 110093 [2024-06-21; online 2024-05-23]
Glycoproteomics and MS Proteomics [Collaborative]
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MOXD1 is a lineage-specific gene and a tumor suppressor in neuroblastoma.
Fredlund E, Andersson S, Hilgert E, ..., van Nes J, Mohlin S
Sci Adv 10 (25) eado1583 [2024-06-21; online 2024-06-21]
Clinical Genomics Lund [Service]
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Cryo-electron microscopy reveals hydrogen positions and water networks in photosystem II.
Hussein R, Graça A, Forsman J, ..., Zouni A, Schröder WP
Science 384 (6702) 1349-1355 [2024-06-21; online 2024-06-20]
Cryo-EM [Collaborative]
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Structures of the Staphylococcus aureus ribosome inhibited by fusidic acid and fusidic acid cyclopentane.
González-López A, Larsson DSD, Koripella RK, ..., Sanyal S, Selmer M
Sci Rep 14 (1) 14253 [2024-06-20; online 2024-06-20]
Cryo-EM [Service]
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Long-range charge transfer mechanism of the III2IV2 mycobacterial supercomplex.
Riepl D, Gamiz-Hernandez AP, Kovalova T, ..., Brzezinski P, Kaila VRI
Nat Commun 15 (1) 5276 [2024-06-20; online 2024-06-20]
Cryo-EM [Service]
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LAPTM4B counteracts ferroptosis via suppressing the ubiquitin-proteasome degradation of SLC7A11 in non-small cell lung cancer.
Yan R, Liu D, Guo H, ..., Blom T, Zhou K
Cell Death Dis 15 (6) 436 [2024-06-20; online 2024-06-20]
Swedish Metabolomics Centre [Service]
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Hearing loss and its association with the proteome of perilymph, cerebrospinal fluid, and tumor tissue in patients with vestibular schwannoma.
Edvardsson Rasmussen J, Li P, Laurell G, Bergquist J, Eriksson PO
Sci Rep 14 (1) 14118 [2024-06-19; online 2024-06-19]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Completed genome and emergence scenario of the multidrug-resistant nosocomial pathogen Staphylococcus epidermidis ST215.
Kellgren T, Dwibedi C, Widerström M, ..., Rydén P, Johansson A
BMC Microbiol. 24 (1) 215 [2024-06-19; online 2024-06-19]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Pyrene Functionalized Norbornadiene-Quadricyclane Fluorescent Photoswitches: Characterization of their Spectral Properties and Application in Imaging of Amyloid Beta Plaques.
Ghasemi S, Shamsabadi M, Olesund A, ..., Dreos A, Moth-Poulsen K
Chemistry 30 (34) e202400322 [2024-06-17; online 2024-05-22]
Integrated Microscopy Technologies Gothenburg [Service]
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From SARS-CoV-2 to Global Preparedness: A Graphical Interface for Standardised High-Throughput Bioinformatics Analysis in Pandemic Scenarios and Surveillance of Drug Resistance.
Cumlin T, Karlsson I, Haars J, ..., Ladenvall C, Kaden R
Int J Mol Sci 25 (12) - [2024-06-17; online 2024-06-17]
Clinical Genomics [Technology development] Clinical Genomics Uppsala [Technology development]
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Convergence and molecular evolution of floral fragrance after independent transitions to self-fertilization.
Woźniak NJ, Sartori K, Kappel C, ..., Kopka J, Sicard A
Curr. Biol. 34 (12) 2702-2711.e6 [2024-06-17; online 2024-05-21]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Metabolomics profiling reveals the detoxification and tolerance behavior of two bread wheat (Triticum aestivum L.) varieties under arsenate stress.
Saeed M, Masood Quraishi U, Mustafa G, ..., Greger M, Naseem Malik R
Food Chem 443 (-) 138612 [2024-06-15; online 2024-01-28]
Swedish Metabolomics Centre [Service]
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Intra-Individual Variations in How Insulin Sensitivity Responds to Long-Term Exercise: Predictions by Machine Learning Based on Large-Scale Serum Proteomics.
Viken JK, Olsen T, Drevon CA, ..., Norheim F, Lee-Ødegård S
Metabolites 14 (6) - [2024-06-15; online 2024-06-15]
Affinity Proteomics Uppsala [Service] NGI Proteomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Exposing kinetic disparities between inflammasome readouts using time-resolved analysis.
Herring M, Persson A, Potter R, ..., Särndahl E, Ejdebäck M
Heliyon 10 (11) e32023 [2024-06-15; online 2024-05-29]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Intestinal Ketogenesis and Permeability.
Casselbrant A, Elias E, Hallersund P, ..., Fändriks L, Wallenius V
Int J Mol Sci 25 (12) - [2024-06-14; online 2024-06-14]
Integrated Microscopy Technologies Gothenburg [Service]
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Comprehensive Genomic Profiling Alters Clinical Diagnoses in a Significant Fraction of Tumors Suspicious of Sarcoma.
Öfverholm I, Wallander K, Haglund C, ..., Lin Y, Haglund de Flon F
Clin. Cancer Res. 30 (12) 2647-2658 [2024-06-14; online 2024-04-04]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Characterization of Limestone Surface Impurities and Resulting Quicklime Quality
Sandström K, Carlborg M, Eriksson M, Broström M
Minerals 14 (6) 608 [2024-06-13; online 2024-06-13]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
descSPIM: an affordable and easy-to-build light-sheet microscope optimized for tissue clearing techniques.
Otomo K, Omura T, Nozawa Y, ..., Brismar H, Susaki EA
Nat Commun 15 (1) 4941 [2024-06-12; online 2024-06-12]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
Integrative transcriptomic and proteomic profiling of the effects of cell confluency on gene expression.
Lobo V, Shcherbinina E, Westholm JO, ..., Anastasakis DG, Sarshad AA
Sci Data 11 (1) 617 [2024-06-12; online 2024-06-12]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Glycoproteomics and MS Proteomics [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Spatially resolved multiomics on the neuronal effects induced by spaceflight in mice.
Masarapu Y, Cekanaviciute E, Andrusivova Z, ..., Costes SV, Giacomello S
Nat Commun 15 (1) 4778 [2024-06-11; online 2024-06-11]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
DOPA-decarboxylase is elevated in CSF, but not plasma, in prodromal and de novo Parkinson's disease.
Appleton E, Khosousi S, Ta M, ..., Iwaki H, Svenningsson P
Transl Neurodegener 13 (1) 31 [2024-06-11; online 2024-06-11]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Climate change induces shifts in coastal Baltic Sea surface water microorganism stress and photosynthesis gene expression.
Seidel L, Broman E, Ståhle M, ..., Ketzer M, Dopson M
Front Microbiol 15 (-) 1393538 [2024-06-07; online 2024-06-07]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
ASXLs binding to the PHD2/3 fingers of MLL4 provides a mechanism for the recruitment of BAP1 to active enhancers.
Zhang Y, Xie G, Lee JE, ..., Ge K, Kutateladze TG
Nat Commun 15 (1) 4883 [2024-06-07; online 2024-06-07]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Taming Molecular Folding: Anion-Templated Foldamers with Tunable Quaternary Structures.
John EA, Riel AMS, Wieske LHE, ..., Bryantsev VS, Berryman OB
J. Am. Chem. Soc. - (-) - [2024-06-06; online 2024-06-06]
Swedish NMR Centre [Collaborative]
DOI Crossref
Structural diversity of Arc oligomers within the excitatory synapse
Damenti M, Coceano G, Mendes Silva M, ..., Jungmann R, Testa I
biorxiv - (-) - [2024-06-06; online 2024-06-06]
Integrated Microscopy Technologies Stockholm [Service]
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MLL4 binds TET3.
Becht DC, Mohid SA, Lee JE, ..., Zhang Y, Kutateladze TG
Structure 32 (6) 706-714.e3 [2024-06-06; online 2024-04-04]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Long-term impact of digital media on brain development in children.
Nivins S, Sauce B, Liebherr M, Judd N, Klingberg T
Sci Rep 14 (1) 13030 [2024-06-06; online 2024-06-06]
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Effect of an endothelial regulatory module on plasma proteomics in exercising horses.
Amiri Roudbar M, Rosengren MK, Mousavi SF, ..., Meadows JRS, Lindgren G
Comp Biochem Physiol Part D Genomics Proteomics 52 (-) 101265 [2024-06-06; online 2024-06-06]
Glycoproteomics and MS Proteomics [Service]
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Deconwolf enables high-performance deconvolution of widefield fluorescence microscopy images.
Wernersson E, Gelali E, Girelli G, ..., Crosetto N, Bienko M
Nat. Methods - (-) - [2024-06-06; online 2024-06-06]
Integrated Microscopy Technologies Stockholm [Technology development] Spatial Proteomics [Service]
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Detection of rare variants among nuclei populating the arbuscular mycorrhizal fungal model species Rhizophagus irregularis DAOM197198.
Manyara D, Sánchez-García M, Montoliu-Nerin M, Rosling A
G3 (Bethesda) 14 (6) - [2024-06-05; online 2024-04-24]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Aβ Oligomer Dissociation Is Catalyzed by Fibril Surfaces.
Dear AJ, Thacker D, Wennmalm S, ..., Linse S, Knowles TPJ
ACS Chem Neurosci 15 (11) 2296-2307 [2024-06-05; online 2024-05-24]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Structure and mechanism of the K+/H+ exchanger KefC.
Gulati A, Kokane S, Perez-Boerema A, ..., Matsuoka R, Drew D
Nat Commun 15 (1) 4751 [2024-06-04; online 2024-06-04]
Cryo-EM [Service]
DOI Crossref
Multimodal Mass Spectrometry Identifies a Conserved Protective Epitope in S. pyogenes Streptolysin O
Tang D, Gueto-Tettay C, Hjortswang E, ..., Malmström L, Malmström J
Anal. Chem. 96 (22) 9060-9068 [2024-06-04; online 2024-05-03]
Structural Proteomics [Technology development]
PubMed DOI Crossref
Ancient Sheep Genomes Reveal Four Millennia of North European Short-Tailed Sheep in the Baltic Sea Region.
Larsson MNA, Morell Miranda P, Pan L, ..., Storå J, Günther T
Genome Biol Evol 16 (6) - [2024-06-04; online 2024-05-25]
Ancient DNA [Service] Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A laboratory-based predictive pathway for the development of Neisseria gonorrhoeae high-level resistance to corallopyronin A, an inhibitor of bacterial RNA polymerase.
Balthazar JT, Golparian D, Unemo M, ..., Vassylyev DG, Shafer WM
Microbiol Spectr 12 (6) e0056024 [2024-06-04; online 2024-04-22]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Chemical signatures delineate heterogeneous amyloid plaque populations across the Alzheimer's disease spectrum.
Koutarapu S, Ge J, Dulewicz M, ..., Schöll M, Hanrieder J
bioRxiv - (-) - [2024-06-03; online 2024-06-03]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Towards identification of new genetic determinants for post-weaning diarrhea in piglets.
Ibragimov E, Eriksen EØ, Nielsen JP, ..., Fredholm M, Karlskov-Mortensen P
Anim Genet 55 (3) 387-395 [2024-06-00; online 2024-02-11]
Swedish Metabolomics Centre [Service]
PubMed DOI Crossref
Structure and interactions of the endogenous human Commander complex.
Laulumaa S, Kumpula EP, Huiskonen JT, Varjosalo M
Nat. Struct. Mol. Biol. 31 (6) 925-938 [2024-06-00; online 2024-03-08]
Cryo-EM [Service]
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Spatial Transcriptomics in a Case of Follicular Thyroid Carcinoma Reveals Clone-Specific Dysregulation of Genes Regulating Extracellular Matrix in the Invading Front.
Condello V, Paulsson JO, Zedenius J, Näsman A, Juhlin CC
Endocr. Pathol. 35 (2) 122-133 [2024-06-00; online 2024-01-27]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Spatial omics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Recognising the importance and impact of Imaging Scientists: Global guidelines for establishing career paths within core facilities.
Wright GD, Thompson KA, Reis Y, ..., Vasconcelos ADS, Keppler A
J Microsc 294 (3) 397-410 [2024-06-00; online 2024-05-01]
Integrated Microscopy Technologies Gothenburg [Service]
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Proteomics of cell-free breast cancer scaffolds identify clinically relevant imprinted proteins and cancer-progressing properties.
Gustafsson A, Jonasson E, Ståhlberg A, Landberg G
Cancer Commun (Lond) 44 (6) 695-699 [2024-06-00; online 2024-04-04]
Glycoproteomics and MS Proteomics [Service]
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Proteomic profiling of polyglucosan bodies associated with glycogenin-1 deficiency in skeletal muscle.
Visuttijai K, Hedberg-Oldfors C, Costello DJ, Bermingham N, Oldfors A
Neuropathol Appl Neurobiol 50 (3) e12995 [2024-06-00; online 2024-06-26]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service]
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Polygenic liability for anxiety in association with comorbid anxiety in multiple sclerosis.
Kowalec K, Harder A, Dolovich C, ..., Wolinsky JS, Marrie RA
Ann Clin Transl Neurol 11 (6) 1393-1404 [2024-06-00; online 2024-05-07]
Bioinformatics Support for Computational Resources [Service]
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Phylogenomic analysis of Stylops reveals the evolutionary history of a Holarctic Strepsiptera radiation parasitizing wild bees.
Lähteenaro M, Benda D, Straka J, Nylander JAA, Bergsten J
Mol. Phylogenet. Evol. 195 (-) 108068 [2024-06-00; online 2024-03-28]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Pericyte-Specific Secretome Profiling in Hypoxia Using TurboID in a Multicellular in Vitro Spheroid Model.
Enström A, Carlsson R, Buizza C, Lewi M, Paul G
Mol. Cell Proteomics 23 (6) 100782 [2024-06-00; online 2024-05-04]
Affinity Proteomics Stockholm [Service] Affinity Proteomics Uppsala [Service]
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Macrophages upregulate mural cell-like markers and support healing of ischemic injury by adopting functions important for vascular support.
Amoedo-Leite C, Parv K, Testini C, ..., Christoffersson G, Phillipson M
Nat Cardiovasc Res 3 (6) 685-700 [2024-06-00; online 2024-06-06]
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Hybrid capture-based next-generation sequencing of new and old world Orthohantavirus strains and wild-type Puumala isolates from humans and bank voles.
Rosenbaum W, Bovinder Ylitalo E, Castel G, ..., Pettersson L, Tuiskunen Bäck A
J. Clin. Virol. 172 (-) 105672 [2024-06-00; online 2024-03-30]
Clinical Genomics [Collaborative] Clinical Genomics Umeå [Collaborative]
PubMed DOI Crossref
Fine-Tuning Amyloid Precursor Protein Expression through Nonsense-Mediated mRNA Decay.
Rahmati M, Chebli J, Kumar Banote R, ..., Zetterberg H, Abramsson A
eNeuro 11 (6) - [2024-06-00; online 2024-06-10]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Expedient Bayesian prediction of subfossil bone protein content using portable ATR-FTIR data
Hixon S, Roberts P, Rodríguez-Varela R, ..., Lagia A, Fernandes R
Quaternary International 694 (-) 1-12 [2024-06-00; online 2024-06-00]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Epigenetic dissection of human blood group genes reveals regulatory elements and detailed characteristics of KEL and four other loci.
Wu PC, McGowan EC, Lee YQ, ..., Hansson J, Olsson ML
Transfusion 64 (6) 1083-1096 [2024-06-00; online 2024-04-21]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Distinct biological signature and modifiable risk factors underlie the comorbidity between major depressive disorder and cardiovascular disease.
Bergstedt J, Pasman JA, Ma Z, ..., Lu Y, Fang F
Nat Cardiovasc Res 3 (6) 754-769 [2024-06-00; online 2024-06-17]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Childhood screening for type 1 diabetes comparing automated multiplex Antibody Detection by Agglutination-PCR (ADAP) with single plex islet autoantibody radiobinding assays.
Lind A, Freyhult E, de Jesus Cortez F, ..., Lernmark Å, Better Diabetes Diagnosis (BDD) study group
EBioMedicine 104 (-) 105144 [2024-06-00; online 2024-05-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
DOI Crossref
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Carbohydrate Polymer Technologies and Applications 7 (-) 100514 [2024-06-00; online 2024-06-00]
Swedish NMR Centre [Service]
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Blood biomarkers of Alzheimer's disease in the community: Variation by chronic diseases and inflammatory status.
Valletta M, Vetrano DL, Rizzuto D, ..., Fratiglioni L, Grande G
Alzheimers Dement 20 (6) 4115-4125 [2024-06-00; online 2024-05-08]
Affinity Proteomics Stockholm [Collaborative]
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Bacterial diversity in semen from stallions in three European countries evaluated by 16S sequencing.
Malaluang P, Niazi A, Guo Y, ..., Aurich C, Morrell JM
Vet Res Commun 48 (3) 1409-1421 [2024-06-00; online 2024-02-02]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
An endothelial regulatory module links blood pressure regulation with elite athletic performance.
Fegraeus K, Rosengren MK, Naboulsi R, ..., Meadows JRS, Lindgren G
PLoS Genet. 20 (6) e1011285 [2024-06-00; online 2024-06-17]
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A monoallelic UXS1 variant associated with short-limbed short stature.
Rustad CF, Backe PH, Jin C, ..., Elgstøen KBP, Holla ØL
Mol Genet Genomic Med 12 (6) e2472 [2024-06-00; online 2024-06-11]
Glycoproteomics and MS Proteomics [Collaborative]
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Tumor-matched and unmatched cancer associated fibroblasts exhibit differential effect on proliferation and FMOD and MMP9 gene expression in head and neck squamous cell carcinoma cells when cocultured in spheroids.
Rademaekers M, Johansson EO, Johansson E, Roberg K, Wiechec E
Cancer Cell Int 24 (1) 190 [2024-05-31; online 2024-05-31]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Tobacco Smoke Exposure in Early Childhood and Later Risk of Inflammatory Bowel Disease: A Scandinavian Birth Cohort Study.
Sigvardsson I, Ludvigsson J, Andersson B, Størdal K, Mårild K
J Crohns Colitis 18 (5) 661-670 [2024-05-31; online 2024-02-08]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Structural conversion of the spidroin C-terminal domain during assembly of spider silk fibers.
De Oliveira DH, Gowda V, Sparrman T, ..., Lendel C, Hedhammar M
Nat Commun 15 (1) 4670 [2024-05-31; online 2024-05-31]
Swedish NMR Centre [Collaborative]
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Sequential drug treatment targeting cell cycle and cell fate regulatory programs blocks non-genetic cancer evolution in acute lymphoblastic leukemia.
Malyukova A, Lahnalampi M, Falqués-Costa T, ..., Heinäniemi M, Sangfelt O
Genome Biol. 25 (1) 143 [2024-05-31; online 2024-05-31]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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PIK3CA mutations in endocrine-resistant breast cancer.
Schagerholm C, Robertson S, Toosi H, Sifakis EG, Hartman J
Sci Rep 14 (1) 12542 [2024-05-31; online 2024-05-31]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Overexpression of the plastidial pseudo-protease AtFtsHi3 enhances drought tolerance while sustaining plant growth.
Mishra LS, Cook SD, Kushwah S, ..., Libby E, Funk C
Physiol Plantarum 176 (3) e14370 [2024-05-31; online 2024-05-31]
Swedish Metabolomics Centre [Service]
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Regulatory and evolutionary impact of DNA methylation in two songbird species and their naturally occurring F1 hybrids.
Boman J, Qvarnström A, Mugal CF
BMC Biol. 22 (1) 124 [2024-05-29; online 2024-05-29]
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NGS method for parallel processing of high quality, damaged or fragmented input material using target enrichment.
Lyander A, Gellerbring A, Hägglund M, Elhami K, Wirta V
PLoS ONE 19 (5) e0304411 [2024-05-29; online 2024-05-29]
Clinical Genomics [Technology development] Clinical Genomics Stockholm [Technology development]
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Evolutionary history of arbuscular mycorrhizal fungi and genomic signatures of obligate symbiosis.
Rosling A, Eshghi Sahraei S, Kalsoom Khan F, ..., Bonito G, Sánchez-García M
BMC Genomics 25 (1) 529 [2024-05-29; online 2024-05-29]
Bioinformatics Support for Computational Resources [Service]
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The structure of the second CysD domain of MUC2 and role in mucin organization by transglutaminase-based cross-linking.
Recktenwald CV, Karlsson G, Garcia-Bonete MJ, ..., Hansson GC, Trillo-Muyo S
Cell Rep 43 (5) 114207 [2024-05-28; online 2024-05-09]
Swedish NMR Centre [Collaborative]
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Distinct Infiltration of T Cell Populations in Bladder Cancer Molecular Subtypes.
Sincic V, Arlenhold KF, Richtmann S, ..., Liedberg F, Lundberg K
Cells 13 (11) - [2024-05-28; online 2024-05-28]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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The Metabolomic Profile of Microscopic Colitis Is Affected by Smoking but Not Histopathological Diagnosis, Clinical Course, Symptoms, or Treatment.
Ström A, Stenlund H, Ohlsson B
Metabolites 14 (6) - [2024-05-27; online 2024-05-27]
Swedish Metabolomics Centre [Collaborative]
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Species-specific dynamics may cause deviations from general biogeographical predictions - evidence from a population genomics study of a New Guinean endemic passerine bird family (Melampittidae).
Müller IA, Thörn F, Rajan S, ..., Jønsson KA, Irestedt M
PLoS ONE 19 (5) e0293715 [2024-05-23; online 2024-05-23]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Quantifying combined effects of colistin and ciprofloxacin against Escherichia coli in an in silico pharmacokinetic-pharmacodynamic model.
Zhao C, Kristoffersson AN, Khan DD, ..., Nielsen EI, Friberg LE
Sci Rep 14 (1) 11706 [2024-05-22; online 2024-05-22]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
The Gly82Ser polymorphism in the receptor for advanced glycation endproducts increases the risk for coronary events in the general population.
Grauen Larsen H, Sun J, Sjögren M, ..., Melander O, Schiopu A
Sci Rep 14 (1) 11567 [2024-05-21; online 2024-05-21]
Affinity Proteomics Uppsala [Service]
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Saccharomyces cerevisiae strains performing similarly during fermentation of lignocellulosic hydrolysates show pronounced differences in transcriptional stress responses.
Cámara E, Mormino M, Siewers V, Nygård Y
Appl. Environ. Microbiol. 90 (5) e0233023 [2024-05-21; online 2024-04-08]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Plastid phylogenomics and cytonuclear discordance in Rubioideae, Rubiaceae.
Thureborn O, Wikström N, Razafimandimbison SG, Rydin C
PLoS ONE 19 (5) e0302365 [2024-05-20; online 2024-05-20]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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MDM2 amplification in rod-shaped chromosomes provides clues to early stages of circularized gene amplification in liposarcoma.
Sydow S, Piccinelli P, Mitra S, ..., Spierings D, Mertens F
Commun Biol 7 (1) 606 [2024-05-20; online 2024-05-20]
Clinical Genomics [Service] Clinical Genomics Lund [Service] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Grommisch D, Wang M, Eenjes E, ..., Giselsson P, Genander M
Dev. Cell 59 (10) 1269-1283.e6 [2024-05-20; online 2024-04-01]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Retron-Eco1 assembles NAD+-hydrolyzing filaments that provide immunity against bacteriophages.
Carabias A, Camara-Wilpert S, Mestre MR, ..., Pinilla-Redondo R, Montoya G
Mol. Cell - (-) - [2024-05-18; online 2024-05-18]
Cryo-EM [Service]
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Prediction models of persistent taxane-induced peripheral neuropathy among breast cancer survivors using whole-exome sequencing.
Engvall K, Uvdal H, Björn N, Åvall-Lundqvist E, Gréen H
NPJ Precis Oncol 8 (1) 102 [2024-05-16; online 2024-05-16]
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Braam S, Tripodi F, Österberg L, ..., Coccetti P, Cvijovic M
Microb Cell 11 (-) 143-154 [2024-05-16; online 2024-05-16]
Integrated Microscopy Technologies Gothenburg [Service]
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Fristedt R, Ruppert V, Trower T, Cooney J, Landberg R
Talanta 272 (-) 125743 [2024-05-15; online 2024-02-03]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
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Sennfält S, Gustavsson P, Malmgren H, ..., Svenningsson P, Paucar M
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Depression proteomic profiling in adolescents with transcriptome analyses in independent cohorts.
Sokolov AV, Lafta MS, Nordberg DOT, Jonsson J, Schiöth HB
Front Psychiatry 15 (-) 1372106 [2024-05-15; online 2024-05-15]
Affinity Proteomics Uppsala [Service]
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Complex genetic architecture of the chicken Growth1 QTL region.
Ou JH, Rönneburg T, Carlborg Ö, ..., Siegel PB, Rubin CJ
PLoS ONE 19 (5) e0295109 [2024-05-13; online 2024-05-13]
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Copy number variation and elevated genetic diversity at immune trait loci in Atlantic and Pacific herring.
Mohamadnejad Sangdehi F, Jamsandekar MS, Enbody ED, Pettersson ME, Andersson L
BMC Genomics 25 (1) 459 [2024-05-10; online 2024-05-10]
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Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Modulation of innate immune response to mRNA vaccination after SARS-CoV-2 infection or sequential vaccination in humans.
Hellgren F, Rosdahl A, Arcoverde Cerveira R, ..., Cajander S, Loré K
JCI Insight 9 (9) - [2024-05-08; online 2024-05-08]
Affinity Proteomics Stockholm [Service] Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service]
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All-photonic kinase inhibitors: light-controlled release-and-report inhibition.
Fleming CL, Benitez-Martin C, Bernson E, ..., Grøtli M, Andréasson J
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Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Longitudinal molecular profiling elucidates immunometabolism dynamics in breast cancer.
Wang K, Zerdes I, Johansson HJ, ..., Matikas A, Foukakis T
Nat Commun 15 (1) 3837 [2024-05-07; online 2024-05-07]
Global Proteomics and Proteogenomics [Collaborative]
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Shi T, Zhang X, Hou Y, ..., Yin T, Wang J
Mol Plant 17 (5) 725-746 [2024-05-06; online 2024-03-13]
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Peona V, Martelossi J, Almojil D, ..., Pecoraro C, Suh A
Mob DNA 15 (1) 10 [2024-05-06; online 2024-05-06]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Colonial-driven extinction of the blue antelope despite genomic adaptation to low population size.
Hempel E, Faith JT, Preick M, ..., Westbury MV, Hofreiter M
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Meiotic drive against chromosome fusions in butterfly hybrids.
Boman J, Wiklund C, Vila R, Backström N
Chromosome Res. 32 (2) 7 [2024-05-04; online 2024-05-04]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic Causes and Genomic Consequences of Breakdown of Distyly in Linum trigynum.
Gutiérrez-Valencia J, Zervakis P, Postel Z, ..., Arroyo J, Slotte T
Mol. Biol. Evol. 41 (5) - [2024-05-03; online 2024-05-06]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Collaborative] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Comparative genomics of Ascetosporea gives new insight into the evolutionary basis for animal parasitism in Rhizaria.
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Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Recent dynamics in Neisseria gonorrhoeae genomic epidemiology in Brazil: antimicrobial resistance and genomic lineages in 2017-20 compared to 2015-16.
Golparian D, Bazzo ML, Ahlstrand J, ..., Unemo M, Brazilian-GASP Network
J. Antimicrob. Chemother. 79 (5) 1081-1092 [2024-05-02; online 2024-03-22]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Pharmacodynamic evaluation of ceftriaxone single-dose therapy (0.125-1 g) to eradicate ceftriaxone-susceptible and ceftriaxone-resistant Neisseria gonorrhoeae strains in a hollow fibre infection model for gonorrhoea.
Unemo M, Golparian D, Oxelbark J, ..., Drusano G, Jacobsson S
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Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Maintenance of caecal homeostasis by diverse adaptive immune cells in the rhesus macaque.
Castro Dopico X, Guryleva M, Mandolesi M, ..., Murrell B, Karlsson Hedestam GB
Clin Transl Immunology 13 (5) e1508 [2024-05-02; online 2024-05-02]
Bioinformatics Support for Computational Resources [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
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Mar. Ecol. Prog. Ser. 735 (-) 63-76 [2024-05-02; online 2024-05-02]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genomic alterations in ovarian endometriosis and subsequently diagnosed ovarian carcinoma.
Linder A, Westbom-Fremer S, Mateoiu C, ..., Hedenfalk I, Sundfeldt K
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Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Clinical Genomics Lund [Service]
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Experimental Evaluation of a Direct Fitness Effect of the De Novo Evolved Mouse Gene Pldi.
Linnenbrink M, Breton G, Misra P, ..., Dutheil JY, Tautz D
Genome Biol Evol 16 (5) - [2024-05-02; online 2024-05-14]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Pottmeier P, Nikolantonaki D, Lanner F, Peuckert C, Jazin E
Front Cell Dev Biol 12 (-) 1341373 [2024-05-01; online 2024-05-01]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Multiple cis-regulatory elements control prox1a expression in distinct lymphatic vascular beds.
Panara V, Yu H, Peng D, ..., Hogan BM, Koltowska K
Development 151 (9) - [2024-05-01; online 2024-05-09]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service]
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Male-transmitted transgenerational effects of the herbicide linuron on DNA methylation profiles in Xenopus tropicalis brain and testis.
Roza M, Eriksson ANM, Svanholm S, Berg C, Karlsson O
Sci. Total Environ. 923 (-) 170949 [2024-05-01; online 2024-02-15]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Bertho M, Caldeira V, Hsu L, ..., Borgius L, Kiehn O
J. Neurosci. 44 (18) - [2024-05-01; online 2024-05-01]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Chromatin accessibility during human first-trimester neurodevelopment.
Mannens CCA, Hu L, Lönnerberg P, ..., Posthuma D, Linnarsson S
Nature - (-) - [2024-05-01; online 2024-05-01]
NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Whole-genome sequencing in prenatally detected congenital malformations: prospective cohort study in clinical setting.
Westenius E, Conner P, Pettersson M, ..., Lindstrand A, Iwarsson E
Ultrasound Obstet Gynecol 63 (5) 658-663 [2024-05-00; online 2024-04-14]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Gustafsson M, Strand Å, Laugen AT, ..., Wrange AL, De Wit P
Evol Appl 17 (5) e13704 [2024-05-00; online 2024-05-20]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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Li X, Hernandez I, Koyuncu S, ..., Vilchez D, Fernandez-Capetillo O
EBioMedicine 103 (-) 105124 [2024-05-00; online 2024-05-02]
Chemical Biology Consortium Sweden [Service]
PubMed DOI Crossref
Ruxolitinib: A new hope for ventilator-induced diaphragm dysfunction.
Addinsall AB, Cacciani N, Moruzzi N, ..., Kirkland JL, Larsson L
Acta Physiol (Oxf) 240 (5) e14128 [2024-05-00; online 2024-03-29]
NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Plasma proteomics for prediction of subclinical coronary artery calcifications in primary prevention.
Royer P, Björnson E, Adiels M, ..., Gummesson A, Bergström G
Am. Heart J. 271 (-) 55-67 [2024-05-00; online 2024-02-05]
Affinity Proteomics Uppsala [Service]
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Novel Associations Between Mid-Pregnancy Cardiovascular Biomarkers and Preeclampsia: An Explorative Nested Case-Control Study.
Callbo PN, Junus K, Gabrysch K, ..., Lager S, Wikström AK
Reprod Sci 31 (5) 1391-1400 [2024-05-00; online 2024-01-22]
Affinity Proteomics Uppsala [Service]
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Low birthweight and overweight during childhood and young adulthood and the risk of type 2 diabetes in men: a population-based cohort study.
Célind J, Bygdell M, Bramsved R, ..., Ohlsson C, Kindblom JM
Diabetologia 67 (5) 874-884 [2024-05-00; online 2024-02-22]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Item response theory analysis of daytime sleepiness as a symptom of obstructive sleep apnea.
Wellhagen GJ, Karlsson MO, Kjellsson MC, ..., Weimann G, Yassen A
CPT Pharmacometrics Syst Pharmacol 13 (5) 880-890 [2024-05-00; online 2024-03-12]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
In situ seasonal patterns of root auxin concentrations and meristem length in an arctic sedge.
Blume-Werry G, Semenchuk P, Ljung K, ..., Olofsson J, Brunoni F
New Phytol. 242 (3) 988-999 [2024-05-00; online 2024-02-20]
Swedish Metabolomics Centre [Service]
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Impact of the neurotoxin β-N-methylamino-L-alanine on the diatom Thalassiosira pseudonana using metabolomics.
Kim SY, Rasmussen U, Rydberg S
Mar Pollut Bull 202 (-) 116299 [2024-05-00; online 2024-04-06]
Swedish Metabolomics Centre [Service]
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Head-to-head comparison of relevant cell sources of small extracellular vesicles for cardiac repair: Superiority of embryonic stem cells.
González-King H, Rodrigues PG, Albery T, ..., Wang QD, Jennbacken K
J Extracell Vesicles 13 (5) e12445 [2024-05-00; online 2024-05-07]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Fluorescently labeled prey surrogates in combination with fluorescence‐activated cell sorting successfully discriminate actively feeding mixotrophs in a lake water sample
Florenza J, Divne A, Bertilsson S
Limnol Oceanogr 69 (5) 1030-1044 [2024-05-00; online 2024-03-13]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Fasting plasma metabolites reflecting meat consumption and their associations with incident type 2 diabetes in two Swedish cohorts.
Noerman S, Johansson A, Shi L, ..., Brunius C, Landberg R
Am. J. Clin. Nutr. 119 (5) 1280-1292 [2024-05-00; online 2024-02-23]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Wellhagen GJ, Yassen A, Garmann D, ..., Kjellsson MC, Karlsson MO
CPT Pharmacometrics Syst Pharmacol 13 (5) 812-822 [2024-05-00; online 2024-03-04]
Bioinformatics Support for Computational Resources [Service]
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Endophytic Beauveria bassiana induces biosynthesis of flavonoids in oilseed rape following both seed inoculation and natural colonization.
Muola A, Birge T, Helander M, ..., Saikkonen K, Fuchs B
Pest Manag Sci 80 (5) 2461-2470 [2024-05-00; online 2023-08-04]
Swedish Metabolomics Centre [Service]
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Ectomycorrhizal fungi are more sensitive to high soil nitrogen levels in forests exposed to nitrogen deposition.
Jörgensen K, Clemmensen KE, Wallander H, Lindahl BD
New Phytol. 242 (4) 1725-1738 [2024-05-00; online 2024-01-11]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Yaka R, Lagerholm VK, Linderholm A, ..., Somel M, Götherström A
BioTechniques 76 (5) 216-223 [2024-05-00; online 2024-03-26]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Golparian D, Cole MJ, Sánchez-Busó L, ..., Unemo M, Euro-GASP study group
Lancet Microbe 5 (5) e478-e488 [2024-05-00; online 2024-04-10]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Metabolomics for early pancreatic cancer detection in plasma samples from a Swedish prospective population-based biobank.
Borgmästars E, Jacobson S, Simm M, ..., Franklin O, Sund M
J Gastrointest Oncol 15 (2) 755-767 [2024-04-30; online 2024-04-28]
Swedish Metabolomics Centre [Service]
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PARKIN is not required to sustain OXPHOS function in adult mammalian tissues.
Filograna R, Gerlach J, Choi H, ..., Svenningsson P, Larsson N
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Local Immune Activation and Age Impact on Humoral Immunity in Mice, with a Focus on IgG Sialylation.
Gupta P, Sághy T, Bollmann M, ..., Corciulo C, Engdahl C
Vaccines (Basel) 12 (5) - [2024-04-29; online 2024-04-29]
Glycoproteomics and MS Proteomics [Service]
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Biomarker Candidates of Habitual Food Intake in a Swedish Cohort of Pregnant and Lactating Women and Their Infants.
Stråvik M, Hartvigsson O, Noerman S, ..., Barman M, Sandberg AS
Metabolites 14 (5) - [2024-04-29; online 2024-04-29]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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The hinge-engineered IgG1-IgG3 hybrid subclass IgGh47 potently enhances Fc-mediated function of anti-streptococcal and SARS-CoV-2 antibodies.
Izadi A, Karami Y, Bratanis E, ..., Malmström L, Nordenfelt P
Nat Commun 15 (1) 3600 [2024-04-27; online 2024-04-27]
Drug Discovery and Development [Service]
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Population genomic history of the endangered Anatolian and Cyprian mouflons in relation to worldwide wild, feral and domestic sheep lineages.
Atağ G, Kaptan D, Yüncü E, ..., Hadjisterkotis E, Somel M
Genome Biol Evol - (-) - [2024-04-27; online 2024-04-27]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Loss of NEDD8 in cancer cells causes vulnerability to immune checkpoint blockade in triple-negative breast cancer.
Papakyriacou I, Kutkaite G, Rúbies Bedós M, ..., Menden MP, Mao Y
Nat Commun 15 (1) 3581 [2024-04-27; online 2024-04-27]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service]
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Cyanotoxin Occurrence and Diversity in 98 Cyanobacterial Blooms from Swedish Lakes and the Baltic Sea.
Dirks C, Cappelli P, Blomqvist M, ..., Pekar H, Zuberovic Muratovic A
Mar Drugs 22 (5) - [2024-04-27; online 2024-04-27]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Phenotypic characterization and candidate gene analysis of a short kernel and brassinosteroid insensitive mutant from hexaploid oat (Avena sativa).
Tsardakas Renhuldt N, Bentzer J, Ahrén D, Marmon S, Sirijovski N
Front Plant Sci 15 (-) 1358490 [2024-04-26; online 2024-04-26]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Ranji P, Jonasson E, Andersson L, ..., Åman P, Ståhlberg A
J Transl Med 22 (1) 389 [2024-04-26; online 2024-04-26]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Glycoproteomics and MS Proteomics [Service]
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The gut commensal Blautia maintains colonic mucus function under low-fiber consumption through secretion of short-chain fatty acids.
Holmberg SM, Feeney RH, Prasoodanan P K V, ..., Skurk T, Schroeder BO
Nat Commun 15 (1) 3502 [2024-04-25; online 2024-04-25]
Bioinformatics Support for Computational Resources [Service]
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N-glycoproteomic analyses of human intestinal enteroids, varying in histo-blood group geno- and phenotypes, reveal a wide repertoire of fucosylated glycoproteins.
Nilsson J, Rimkute I, Sihlbom C, ..., Estes MK, Larson G
Glycobiology 34 (6) - [2024-04-24; online 2024-04-09]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
High clonal diversity and spatial genetic admixture in early prostate cancer and surrounding normal tissue.
Zhang N, Harbers L, Simonetti M, ..., Bienko M, Crosetto N
Nat Commun 15 (1) 3475 [2024-04-24; online 2024-04-24]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exhaustive identification of genome-wide binding events of transcriptional regulators.
Nordin A, Pagella P, Zambanini G, Cantù C
Nucleic Acids Res. 52 (7) e40 [2024-04-24; online 2024-03-19]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Very short sleep duration reveals a proteomic fingerprint that is selectively associated with incident diabetes mellitus but not with incident coronary heart disease: a cohort study.
Svensson T, Svensson AK, Kitlinski M, ..., Nilsson PM, Melander O
BMC Med 22 (1) 173 [2024-04-23; online 2024-04-23]
Affinity Proteomics Uppsala [Service]
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Engström Ruud L, Font-Gironès F, Zajdel J, ..., Bäckhed F, Ruud J
Cell Rep 43 (4) 113960 [2024-04-23; online 2024-03-19]
Swedish NMR Centre [Service]
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Knyazeva A, Li S, Corkery DP, ..., Waldmann H, Wu YW
Proc. Natl. Acad. Sci. U.S.A. 121 (17) e2317680121 [2024-04-23; online 2024-04-18]
Chemical Proteomics [Collaborative] Cryo-EM [Service]
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Combined Metabolic Activators with Different NAD+ Precursors Improve Metabolic Functions in the Animal Models of Neurodegenerative Diseases.
Altay O, Yang H, Yildirim S, ..., Turkez H, Mardinoglu A
Biomedicines 12 (4) - [2024-04-22; online 2024-04-22]
Bioinformatics Support for Computational Resources [Service]
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TMAO enhances TNF-α mediated fibrosis and release of inflammatory mediators from renal fibroblasts.
Stefania K, Ashok KK, Geena PV, Katarina P, Isak D
Sci Rep 14 (1) 9070 [2024-04-20; online 2024-04-20]
Affinity Proteomics Uppsala [Service]
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Patient-Specific Measurable Residual Disease Markers Predict Outcome in Patients With Myelodysplastic Syndrome and Related Diseases After Hematopoietic Stem-Cell Transplantation.
Tobiasson M, Pandzic T, Illman J, ..., Dybedal I, Hellström-Lindberg E
J Clin Oncol 42 (12) 1378-1390 [2024-04-20; online 2024-01-17]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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HIV-2 mediated effects on target and bystander cells induce plasma proteome remodeling.
Johansson E, Nazziwa J, Freyhult E, ..., Jansson M, SWEGUB CORE group
iScience 27 (4) 109344 [2024-04-19; online 2024-02-28]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Radiolabeled 15-mer peptide internalization is mediated by megalin (LRP2 receptor) in a CRISPR/Cas9-based LRP2 knockout human kidney cell model.
Durinova A, Smutna L, Barta P, ..., Pavek P, Trejtnar F
EJNMMI Radiopharm Chem 9 (1) 32 [2024-04-18; online 2024-04-18]
CRISPR Functional Genomics [Collaborative]
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Long-read sequencing and optical mapping generates near T2T assemblies that resolves a centromeric translocation.
Ten Berk de Boer E, Ameur A, Bunikis I, ..., Eisfeldt J, Lindstrand A
Sci Rep 14 (1) 9000 [2024-04-18; online 2024-04-18]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Collaborative] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Nutrient-deprived growth of streptomycetes reveals a novel growth phenotype with enhanced antimicrobial activity
Söderholm N, Tanner H, Sandblad L
biorxiv - (-) - [2024-04-17; online 2024-04-17]
Integrated Microscopy Technologies Umeå [Collaborative]
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Usefulness of Heart Failure Categories Based on Left Ventricular Ejection Fraction.
Christersson M, Gustafsson S, Lampa E, ..., Arefalk G, Sundström J
J Am Heart Assoc 13 (8) e032257 [2024-04-16; online 2024-04-09]
Bioinformatics Support for Computational Resources [Service]
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Effects of bottom trawling and environmental factors on benthic bacteria, meiofauna and macrofauna communities and benthic ecosystem processes.
Bradshaw C, Iburg S, Morys C, ..., Jonsson P, Nascimento FJA
Sci. Total Environ. 921 (-) 171076 [2024-04-15; online 2024-02-19]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Amperometry and Electron Microscopy show Stress Granules Induce Homotypic Fusion of Catecholamine Vesicles.
Gu H, Gu C, Locker N, Ewing AG
Angew. Chem. Int. Ed. Engl. 63 (16) e202400422 [2024-04-15; online 2024-03-07]
Integrated Microscopy Technologies Gothenburg [Service]
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Growth-regulated co-occupancy of Mediator and Lsm3 at intronic ribosomal protein genes.
Abdel-Fattah WR, Carlsson M, Hu G, ..., Ronne H, Björklund S
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Edelbroek B, Kjellin J, Biryukova I, ..., Friedländer MR, Söderbom F
Nucleic Acids Res. 52 (6) 3121-3136 [2024-04-12; online 2024-02-20]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dual molecule targeting HDAC6 leads to intratumoral CD4+ cytotoxic lymphocytes recruitment through MHC-II upregulation on lung cancer cells.
Ducellier S, Demeules M, Letribot B, ..., Nascimento M, Apcher S
J Immunother Cancer 12 (4) - [2024-04-11; online 2024-04-11]
Chemical Proteomics [Collaborative]
PubMed DOI Crossref
Cellular architecture of evolving neuroinflammatory lesions and multiple sclerosis pathology.
Kukanja P, Langseth CM, Rubio Rodríguez-Kirby LA, ..., Nilsson M, Castelo-Branco G
Cell 187 (8) 1990-2009.e19 [2024-04-11; online 2024-03-20]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support for Computational Resources [Service] In Situ Sequencing [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A time course analysis through diapause reveals dynamic temporal patterns of microRNAs associated with endocrine regulation in the butterfly Pieris napi.
Roberts KT, Steward RA, Süess P, Lehmann P, Wheat CW
Mol. Ecol. - (-) e17348 [2024-04-10; online 2024-04-10]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Molecular patterns of resistance to immune checkpoint blockade in melanoma.
Lauss M, Phung B, Borch TH, ..., Donia M, Jönsson G
Nat Commun 15 (1) 3075 [2024-04-09; online 2024-04-09]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Lund [Service]
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Exploring the short linear motif-mediated protein-protein interactions of CrkL through ProP-PD.
Pagano L, Simonetti L, Pennacchietti V, ..., Ivarsson Y, Gianni S
Biochem. Biophys. Res. Commun. 703 (-) 149658 [2024-04-09; online 2024-02-07]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Deletion of the TMEM30A gene enables leukemic cell evasion of NK cell cytotoxicity.
Kristenson L, Badami C, Ljungberg A, ..., Tang KW, Thorén FB
Proc. Natl. Acad. Sci. U.S.A. 121 (15) e2316447121 [2024-04-09; online 2024-04-01]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service]
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Antibiotic class with potent in vivo activity targeting lipopolysaccharide synthesis in Gram-negative bacteria.
Huseby DL, Cao S, Zamaratski E, ..., Hughes D, Karlén A
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Drug Discovery and Development [Collaborative]
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Fonseca P, Cui W, Struyf N, ..., Östling P, Holmgren L
J. Exp. Clin. Cancer Res. 43 (1) 107 [2024-04-09; online 2024-04-09]
Chemical Biology Consortium Sweden [Collaborative] Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Transcriptomic atlas of midbrain dopamine neurons uncovers differential vulnerability in a Parkinsonism lesion model.
Yaghmaeian Salmani B, Lahti L, Gillberg L, ..., Svenningsson P, Perlmann T
Elife 12 (-) - [2024-04-08; online 2024-04-08]
Bioinformatics Support for Computational Resources [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Tissue-specific nonheritable influences drive endometrial immune system variation.
Bister J, Filipovic I, Sun D, ..., Strunz B, Björkström NK
Sci Immunol 9 (94) eadj7168 [2024-04-05; online 2024-04-05]
Affinity Proteomics Uppsala [Service]
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Functional redundancy revealed by the deletion of the mimivirus GMC-oxidoreductase genes.
Alempic JM, Bisio H, Villalta A, ..., Couté Y, Abergel C
Microlife 5 (-) uqae006 [2024-04-05; online 2024-04-05]
Cryo-EM [Service]
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Adaptive introgression reveals the genetic basis of a sexually selected syndrome in wall lizards.
Feiner N, Yang W, Bunikis I, While GM, Uller T
Sci Adv 10 (14) eadk9315 [2024-04-05; online 2024-04-03]
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 [Collaborative]
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Treatment Monitoring of a Patient with Synchronous Metastatic Angiosarcoma and Breast Cancer Using ctDNA.
Vannas C, Escobar M, Österlund T, ..., Fagman H, Ståhlberg A
Int J Mol Sci 25 (7) - [2024-04-04; online 2024-04-04]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The HLA region in ANCA-associated vasculitis: characterisation of genetic associations in a Scandinavian patient population.
Lundtoft C, Knight A, Meadows JRS, ..., Lindblad-Toh K, Dahlqvist J
RMD Open 10 (2) - [2024-04-04; online 2024-04-04]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Extracellular vesicles isolated from frozen and fresh human melanoma tissue are similar in purity and protein composition
D’Arrigo D, Lässer C, Urzì O, ..., Lötvall J, Crescitelli R
biorxiv - (-) - [2024-04-04; online 2024-04-04]
Integrated Microscopy Technologies Gothenburg [Service]
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Adjusting for covariates and assessing modeling fitness in machine learning using MUVR2.
Yan Y, Schillemans T, Skantze V, Brunius C
Bioinform Adv 4 (1) vbae051 [2024-04-04; online 2024-04-04]
Chalmers Mass Spectrometry Infrastructure [Technology development]
PubMed DOI Crossref
Proteome profiling of home-sampled dried blood spots reveals proteins of SARS-CoV-2 infections.
Fredolini C, Dodig-Crnković T, Bendes A, ..., Roxhed N, Schwenk JM
Commun Med (Lond) 4 (1) 55 [2024-04-02; online 2024-04-02]
Affinity Proteomics Stockholm [Technology development] Autoimmunity and Serology Profiling [Service]
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Proteome of Personalized Tissue-Engineered Veins.
Larsson S, Holmgren S, Jenndahl L, ..., Synnergren J, Ghosheh N
ACS Omega 9 (13) 14805-14817 [2024-04-02; online 2024-03-19]
Global Proteomics and Proteogenomics [Service]
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Ligand-induced protein transition state stabilization switches the binding pathway from conformational selection to induced fit.
Stenström O, Diehl C, Modig K, Akke M
Proc. Natl. Acad. Sci. U.S.A. 121 (14) e2317747121 [2024-04-02; online 2024-03-25]
Swedish NMR Centre [Service]
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Chromosome-scale Genome Assembly of the Rough Periwinkle Littorina saxatilis.
De Jode A, Faria R, Formenti G, ..., Butlin RK, Leder EH
Genome Biol Evol 16 (4) - [2024-04-02; online 2024-04-08]
Bioinformatics Support for Computational Resources [Service]
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Single cell [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Cryo-EM [Service] Integrated Microscopy Technologies Umeå [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Swedish NMR Centre [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Affinity Proteomics Stockholm [Collaborative] Bioinformatics Support for Computational Resources [Service]
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Genome Biol Evol 16 (2) - [2024-02-01; online 2024-02-18]
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Nat Ecol Evol 8 (2) 282-292 [2024-02-00; online 2024-01-15]
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Geng K, Merino LG, Veiga RG, ..., Brinkman EK, Kutter C
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Marking U, Bladh O, Aguilera K, ..., Sheward DJ, Thålin C
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Harish A, Lopes Pinto FA, Eriksson S, Johansson AM
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Three immunizations with Novavax's protein vaccines increase antibody breadth and provide durable protection from SARS-CoV-2.
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Grujčić V, Saarenpää S, Sundh J, ..., Foster RA, Andersson AF
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Remodeling of the human skeletal muscle proteome found after long-term endurance training but not after strength training.
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Clouard C, Nettelblad C
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OMICs Signatures Linking Persistent Organic Pollutants to Cardiovascular Disease in the Swedish Mammography Cohort.
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Affinity Proteomics Uppsala [Service] Chalmers Mass Spectrometry Infrastructure [Collaborative]
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IL32 downregulation lowers triglycerides and type I collagen in di-lineage human primary liver organoids.
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Erythroid Differentiation Enhances RNA Mis-Splicing in SF3B1-Mutant Myelodysplastic Syndromes with Ring Sideroblasts.
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Affinity Proteomics Stockholm [Technology development]
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Mimicking Nonribosomal Peptides from the Marine Actinomycete Streptomyces sp. H-KF8 Leads to Antimicrobial Peptides.
Beyer LI, Schäfer AB, Undabarrena A, ..., Cámara B, Tietze AA
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Differential expression and alternative splicing analyses of multiple tissues reveal albinism-associated genes in the Wels catfish (Silurus glanis).
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Duan T, Sicard A, Glémin S, Lascoux M
Elife 12 (-) - [2024-01-08; online 2024-01-08]
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Holubnycha V, Husak Y, Korniienko V, ..., Ramanavicius A, Pogorielov M
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Cryo-EM [Service] Integrated Microscopy Technologies Umeå [Service]
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Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
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Sex-limited experimental evolution drives transcriptomic divergence in a hermaphrodite.
Cīrulis A, Nordén AK, Churcher AM, ..., Zadesenets KS, Abbott JK
Genome Biol Evol 16 (1) - [2024-01-05; online 2023-12-29]
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Int J Mol Sci 25 (1) - [2024-01-04; online 2024-01-04]
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METTL17 is an Fe-S cluster checkpoint for mitochondrial translation.
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Tissue-specific RNA Polymerase II promoter-proximal pause release and burst kinetics in a Drosophila embryonic patterning network.
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Functional annotation of a divergent genome using sequence and structure-based similarity.
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BMC Genomics 25 (1) 6 [2024-01-02; online 2024-01-02]
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Sci Data 11 (1) 18 [2024-01-02; online 2024-01-02]
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Sjödahl G, Eriksson P, Holmsten K, ..., Ullén A, Liedberg F
Int. J. Cancer 154 (1) 180-190 [2024-01-01; online 2023-09-06]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Global Transcriptome Analysis Reveals Distinct Phases of the Endothelial Response to TNF.
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Integrated Microscopy Technologies Gothenburg [Service]
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Analysis of stabilization mechanisms in β-lactoglobulin-based amorphous solid dispersions by experimental and computational approaches.
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Eur J Pharm Sci 192 (-) 106639 [2024-01-01; online 2023-11-13]
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Wennman M, Pinon AC, Svagan AJ, Hellberg M, Hedenqvist MS
Carbohydr Polym 323 (-) 121430 [2024-01-01; online 2023-09-23]
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pyngoST: fast, simultaneous and accurate multiple sequence typing of Neisseria gonorrhoeae genome collections.
Sánchez-Busó L, Sánchez-Serrano A, Golparian D, Unemo M
Microb Genom 10 (1) - [2024-01-00; online 2024-01-30]
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Whole-genome selective sweep analyses identifies the region and candidate gene associated with white earlobe color in Mediterranean chickens.
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Viral diversity and host associations in microbial electrolysis cells.
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ISME COMMUN. 4 (1) ycae143 [2024-01-00; online 2024-11-15]
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The genetic legacy of the expansion of Bantu-speaking peoples in Africa.
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Nature 625 (7995) 540-547 [2024-01-00; online 2023-11-29]
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Hoyer A, Chakraborty S, Lilienthal I, ..., Katayama S, Söderhäll C
Immun Inflamm Dis 12 (1) e1162 [2024-01-00; online 2024-01-25]
Affinity Proteomics Stockholm [Service] Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Substance P, NPY, CCK and their receptors in five brain regions in major depressive disorder with transcriptomic analysis of locus coeruleus neurons.
Barde S, Aguila J, Zhong W, ..., Hedlund E, Hökfelt T
Eur Neuropsychopharmacol 78 (-) 54-63 [2024-01-00; online 2023-11-04]
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Randomized open-label trial of semaglutide and dapagliflozin in patients with type 2 diabetes of different pathophysiology.
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Nat Metab 6 (1) 50-60 [2024-01-00; online 2024-01-04]
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Prognostic value of hypoxia-responsive gene expression profile in patients diagnosed with head and neck squamous cell carcinoma.
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Transl Oncol 39 (-) 101841 [2024-01-00; online 2023-11-27]
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Population genomics of the muskox' resilience in the near absence of genetic variation.
Pečnerová P, Lord E, Garcia-Erill G, ..., Moltke I, Siegismund HR
Mol. Ecol. 33 (2) e17205 [2024-01-00; online 2023-11-16]
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Thureborn O, Wikström N, Razafimandimbison SG, Rydin C
Ecol Evol 14 (1) e10868 [2024-01-00; online 2024-01-25]
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Kurland S, Saha A, Keehnen N, ..., Ryman N, Laikre L
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Bittner MJ, Bannon CC, Rowland E, ..., Paerl RW, Riemann L
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Molecular blueprints for spinal circuit modules controlling locomotor speed in zebrafish.
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Heat inactivation of foetal bovine serum performed after EV-depletion influences the proteome of cell-derived extracellular vesicles.
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Madsen MTB, Landberg R, Nielsen DS, ..., Lauritzen L, Damsgaard CT
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Distinct molecular targets of ProEGCG from EGCG and superior inhibition of angiogenesis signaling pathways for treatment of endometriosis.
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Diaz-Suarez A, Noreikiene K, Kahar S, ..., Kisand V, Vasemägi A
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Compound heterozygous variants in RAB34 in a rare skeletal ciliopathy syndrome.
Batkovskyte D, Komatsu M, Hammarsjö A, ..., Nishimura G, Yamada T
Clin. Genet. 105 (1) 87-91 [2024-01-00; online 2023-08-24]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Birth Weight, Childhood and Young Adult Overweight, and the Risk of Coronary Heart Disease in Men.
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Arterioscler. Thromb. Vasc. Biol. 44 (1) 314-321 [2024-01-00; online 2023-11-16]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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A conserved graft formation process in Norway spruce and Arabidopsis identifies the PAT gene family as central regulators of wound healing.
Feng M, Zhang A, Nguyen V, ..., Carlsbecker A, Melnyk CW
NPLANTS 10 (1) 53-65 [2024-01-00; online 2024-01-02]
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Visualizing the Microbial N Uptake During Arctic Extreme Winter Warming Events Using Nanosims
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Strategies for Multimodal Image Data Transformation to a Common Format for Cloud Integration and Visualization
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Lu Q, Wang P, Chang J, ..., Höglund J, Zhang Z
Avian Research 15 (-) 100156 [2024-00-00; online 2024-00-00]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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One-pot reductive liquefaction of sawdust to renewables over MoOx–Al2O3 variants: insight into structure–activity relationships
Salam MA, Tran QK, Ho PH, ..., Olsson L, Creaser D
Sustainable Energy Fuels 8 (12) 2668-2681 [2024-00-00; online 2024-00-00]
Swedish NMR Centre [Service]
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Landscape of Epstein-Barr virus gene expression and perturbations in cancer
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Res Sq - (-) - [2024-00-00]
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Ionic liquid strategy for chitosan production from chitin and molecular insights
Dinh VM, Khokarale SG, May PO, ..., Irgum K, Mikkola JP
RSC Sustain. 2 (4) 1154-1164 [2024-00-00; online 2024-00-00]
Swedish NMR Centre [Collaborative]
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A surface passivated fluorinated polymer nanocomposite for carbon monoxide resistant plasmonic hydrogen sensing
Östergren I, Darmadi I, Lerch S, ..., Langhammer C, Müller C
J. Mater. Chem. A 12 (13) 7906-7915 [2024-00-00; online 2024-00-00]
Integrated Microscopy Technologies Gothenburg [Service]
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Proteomic profiles associated with postsurgical progression in non-functioning pituitary adenomas.
Hallén T, Johannsson G, Thorsell A, ..., Bergquist J, Skoglund T
J. Clin. Endocrinol. Metab. - (-) - [2023-12-29; online 2023-12-29]
Glycoproteomics and MS Proteomics [Collaborative]
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Simultaneous detection of membrane contact dynamics and associated Ca2+signals by reversible chemogenetic reporters
Casas PG, Rossini M, Påvénius L, ..., Pizzo P, Filadi R
biorxiv - (-) - [2023-12-28; online 2023-12-28]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Biodistribution of DNA-origami nanostructures in live zebrafish embryos with single-cell resolution
Kolonelou C, Bräutigam L, Edwards S, ..., Andersson O, Teixeira AI
biorxiv - (-) - [2023-12-23; online 2023-12-23]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Impact of the gut microbiome on immunological responses to COVID-19 vaccination in healthy controls and people living with HIV.
Ray S, Narayanan A, Vesterbacka J, ..., Sönnerborg A, Nowak P
NPJ Biofilms Microbiomes 9 (1) 104 [2023-12-20; online 2023-12-20]
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Identification of Quantitative Trait Nucleotides and Development of Diagnostic Markers for Nine Fatty Acids in the Peanut.
Wang J, Chen H, Li Y, ..., Qu C, Shan S
Plants (Basel) 13 (1) - [2023-12-20; online 2023-12-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Effects of environmental translocation and host characteristics on skin microbiomes of sun-basking fish.
Berggren H, Nordahl O, Yıldırım Y, ..., Tibblin P, Forsman A
Proc. Biol. Sci. 290 (2013) 20231608 [2023-12-20; online 2023-12-20]
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Rapid Metabolic Profiling of 1 μL Crude Cerebrospinal Fluid by Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry Imaging Can Differentiate De Novo Parkinson's Disease.
Vallianatou T, Nilsson A, Bjärterot P, ..., Svenningsson P, Andrén PE
Anal. Chem. 95 (50) 18352-18360 [2023-12-19; online 2023-12-07]
Spatial Mass Spectrometry [Technology development]
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Fast volumetric multifocus structured illumination microscopy of subcellular dynamics in living cells
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Optica Open - (-) - [2023-12-19; online 2023-12-19]
Integrated Microscopy Technologies Stockholm [Technology development]
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Blue-shift photoconversion of near-infrared fluorescent proteins for labeling and tracking in living cells and organisms.
Pennacchietti F, Alvelid J, Morales RA, ..., Verkhusha VV, Testa I
Nat Commun 14 (1) 8402 [2023-12-19; online 2023-12-19]
Integrated Microscopy Technologies Stockholm [Service]
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Improved detection of clinically relevant fusion transcripts in cancer by machine learning classification.
Hafstað V, Häkkinen J, Larsson M, ..., Vallon-Christersson J, Persson H
BMC Genomics 24 (1) 783 [2023-12-18; online 2023-12-18]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Giardia intestinalisdeoxyadenosine kinase has a unique tetrameric structure that enables high substrate affinity and makes the parasite sensitive to deoxyadenosine analogues
Ranjbarian F, Rafie K, Shankar K, ..., Carlson LA, Hofer A
biorxiv - (-) - [2023-12-18; online 2023-12-18]
Cryo-EM [Service]
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Dissecting the genetic landscape of GPCR signaling through phenotypic profiling in C. elegans.
Pu L, Wang J, Lu Q, ..., Henriksson J, Chen C
Nat Commun 14 (1) 8410 [2023-12-18; online 2023-12-18]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Molecular dynamics study on micelle-small molecule interactions: developing a strategy for an extensive comparison.
Kabedev A, Bergström CAS, Larsson P
J Comput Aided Mol Des 38 (1) 5 [2023-12-16; online 2023-12-16]
Bioinformatics Support for Computational Resources [Service]
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Using guaiacol as a capping agent in the hydrothermal depolymerisation of kraft lignin
Ahlbom A, Maschietti M, Nielsen R, Hasani M, Theliander H
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Swedish NMR Centre [Service]
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Short- and long-term effects of radiation exposure at low dose and low dose rate in normal human VH10 fibroblasts.
Akuwudike P, López-Riego M, Marczyk M, ..., Wojcik A, Lundholm L
Front Public Health 11 (-) 1297942 [2023-12-15; online 2023-12-15]
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Influenza-A mediated pre-existing immunity levels to SARS-CoV-2 could predict early COVID-19 outbreak dynamics.
Almazán NM, Rahbar A, Carlsson M, ..., Sörensen B, Söderberg-Nauclér C
iScience 26 (12) 108441 [2023-12-15; online 2023-11-14]
Autoimmunity and Serology Profiling [Service] Drug Discovery and Development [Service]
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Effect of anode material and dispersal limitation on the performance and biofilm community in microbial electrolysis cells.
Abadikhah M, Liu M, Persson F, ..., Sun J, Modin O
Biofilm 6 (-) 100161 [2023-12-15; online 2023-10-10]
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Balanced chromosomal rearrangements implicate YIPF5 and SPATC1L in non-obstructive oligoasthenozoospermia and oligozoospermia and of a derivative chromosome 22 in recurrent miscarriage.
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Gene 887 (-) 147737 [2023-12-15; online 2023-08-23]
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Csu pili dependent biofilm formation and virulence of Acinetobacter baumannii.
Ahmad I, Nadeem A, Mushtaq F, ..., Wai SN, Uhlin BE
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Phyloecology of nitrate ammonifiers and their importance relative to denitrifiers in global terrestrial biomes.
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Genes with epigenetic alterations in human pancreatic islets impact mitochondrial function, insulin secretion, and type 2 diabetes
Rönn T, Ofori JK, Perfilyev A, ..., Bacos K, Ling C
Nat Commun 14 (1) 8040 [2023-12-12; online 2023-12-12]
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CENP-A and CENP-B collaborate to create an open centromeric chromatin state.
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Nat Commun 14 (1) 8227 [2023-12-12; online 2023-12-12]
Cryo-EM [Service]
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The formation of the Indo-Pacific montane avifauna.
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Nat Commun 14 (1) 8215 [2023-12-11; online 2023-12-11]
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Haplotype-resolved genome of heterozygous African cassava cultivar TMEB117 (Manihot esculenta).
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Sci Data 10 (1) 887 [2023-12-09; online 2023-12-09]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Morell Miranda P
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Herrmann B, Aaziz R, Kaden R, ..., Sandelin LL, Laroucau K
Microbes Infect 26 (3) 105251 [2023-11-11; online 2023-11-11]
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A Gradual Transition Toward Anaplasia in Wilms Tumor Through Tolerance to Genetic Damage.
Uno K, Rastegar B, Jansson C, ..., Mengelbier LH, Gisselsson D
Mod. Pathol. 37 (1) 100382 [2023-11-10; online 2023-11-10]
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Single-cell transcriptomics of human traumatic brain injury reveals activation of endogenous retroviruses in oligodendroglia.
Garza R, Sharma Y, Atacho DAM, ..., Jakobsson J, Marklund N
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Eurasian back-migration into Northeast Africa was a complex and multifaceted process.
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TGF-β induces matrisome pathological alterations and EMT in patient-derived prostate cancer tumoroids.
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Höjer P, Frick T, Siga H, ..., Martin M, Ahmadian A
Nucleic Acids Res. - (-) - [2023-11-06; online 2023-11-06]
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Antigen-presenting autoreactive B cells activate regulatory T cells and suppress autoimmune arthritis in mice.
Aoun M, Coelho A, Krämer A, ..., Burkhardt H, Holmdahl R
J. Exp. Med. 220 (11) - [2023-11-06; online 2023-09-11]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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LINE-1 retrotransposons drive human neuronal transcriptome complexity and functional diversification.
Garza R, Atacho DAM, Adami A, ..., Douse CH, Jakobsson J
Sci Adv 9 (44) eadh9543 [2023-11-03; online 2023-11-01]
Clinical Genomics [Service] Clinical Genomics Lund [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Development of mesothelioma-specific oncolytic immunotherapy enabled by immunopeptidomics of murine and human mesothelioma tumors.
Chiaro J, Antignani G, Feola S, ..., Lehtiö J, Cerullo V
Nat Commun 14 (1) 7056 [2023-11-03; online 2023-11-03]
Global Proteomics and Proteogenomics [Technology development]
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Liedberg F, Abrahamsson J, Bernardo C, ..., Sjödahl G, Eriksson P
Scandinavian Journal of Urology 57 (1-6) 2-9 [2023-11-02; online 2022-12-20]
Clinical Genomics [Collaborative] Clinical Genomics Lund [Collaborative]
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The development of foliar fungal communities of nursery-grown Pinus sylvestris seedlings
Larsson R, Menkis A, Skogström O, ..., Larsson M, Olson Å
Scandinavian Journal of Forest Research - (-) 1-16 [2023-11-02; online 2023-11-02]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Thuresson A, Brazina J, Akram T, ..., Soussi Zander C, Caldecott KW
Mol Genet Genomic Med - (-) e2295 [2023-11-02; online 2023-11-02]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Cowgill J, Fan C, Haloi N, ..., Howard RJ, Lindahl E
Neuron 111 (21) 3450-3464.e5 [2023-11-01; online 2023-09-01]
Cryo-EM [Service]
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Fracasso I, Zaccone C, Oskolkov N, ..., Ventura M, Borruso L
Sci. Total Environ. 908 (-) 168159 [2023-11-01; online 2023-11-01]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Evidence of Site-Specific and Male-Biased Germline Mutation Rate in a Wild Songbird.
Zhang H, Lundberg M, Tarka M, Hasselquist D, Hansson B
Genome Biol Evol 15 (11) - [2023-11-01; online 2023-10-04]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Morell Miranda P, Soares AER, Günther T
G3 (Bethesda) 13 (11) - [2023-11-01; online 2023-09-07]
Bioinformatics Support for Computational Resources [Service]
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The intracellular helical bundle of human glucose transporter GLUT4 is important for complex formation with ASPL.
Huang P, Åbacka H, Varela D, ..., André I, Lindkvist-Petersson K
FEBS Open Bio 13 (11) 2094-2107 [2023-11-00; online 2023-09-28]
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Targeting oxidation sites on boreal acid sulfate soil macropore surfaces mitigates acid and metal release to recipient water streams
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Applied Geochemistry 158 (-) 105779 [2023-11-00; online 2023-11-00]
Bioinformatics Support for Computational Resources [Service]
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Yeo H, Mehta V, Gulati A, Drew D
Nature 623 (7985) 193-201 [2023-11-00; online 2023-10-25]
Cryo-EM [Service]
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Smoking affects epigenetic ageing of lung bronchoalveolar lavage cells in Multiple Sclerosis.
Klose D, Needhamsen M, Ringh MV, ..., Jagodic M, Kular L
Mult Scler Relat Disord 79 (-) 104991 [2023-11-00; online 2023-09-09]
Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Lancet Infect Dis 23 (11) e462-e463 [2023-11-00; online 2023-09-27]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Akel S, Banote RK, Asztely F, Zelano J
Epilepsy Res 197 (-) 107241 [2023-11-00; online 2023-10-11]
Affinity Proteomics Stockholm [Service]
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Preanalytic handling of clinical blood samples in assessing immunological proteins - Role of storage duration.
Eren F, Schwieler L, Orhan F, ..., Engberg G, Erhardt S
Brain, Behavior, and Immunity 114 (-) 163-164 [2023-11-00; online 2023-08-16]
Affinity Proteomics Stockholm [Service]
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Lerchova T, Östensson M, Sigvardsson I, ..., Mårild K, Ludvigsson J
United European Gastroenterol J 11 (9) 874-883 [2023-11-00; online 2023-10-04]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Nutrient availability and grazing influence the strength of priority effects during freshwater bacterial community coalescence.
Lumpi T, Guo X, Lindström ES
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Long-Term Pollution Does Not Inhibit Denitrification and DNRA by Adapted Benthic Microbial Communities.
Broman E, Abdelgadir M, Bonaglia S, ..., Nascimento FJA, Sjöling S
Microb. Ecol. 86 (4) 2357-2372 [2023-11-00; online 2023-05-24]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Persson Waller K, Lundberg Å, Börjesson S, Nyman AK
J Dairy Sci 106 (11) 7893-7907 [2023-11-00; online 2023-05-18]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Inclusion body myositis with early onset: a population-based study.
Lindgren U, Hedberg-Oldfors C, Pullerits R, Lindberg C, Oldfors A
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Host Phylogeny Structures the Gut Bacterial Community Within Galerucella Leaf Beetles.
An Y, Braga MP, Garcia SL, Grudzinska-Sterno M, Hambäck PA
Microb. Ecol. 86 (4) 2477-2487 [2023-11-00; online 2023-06-14]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Chen X, Pandit S, Shi L, ..., Petranovic D, Mijakovic I
Adv Funct Materials 33 (45) - [2023-11-00; online 2023-07-07]
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Genotypic characterization of Staphylococcus chromogenes and Staphylococcus simulans from Swedish cases of bovine subclinical mastitis.
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Early detection of the emerging SARS-CoV-2 BA.2.86 lineage through integrated genomic surveillance of wastewater and COVID-19 cases in Sweden, weeks 31 to 38 2023.
Espinosa-Gongora C, Berg C, Rehn M, ..., Andersson E, Movert E
Euro Surveill. 28 (46) - [2023-11-00; online 2023-11-17]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Comprehensive analyses of circulating cardiometabolic proteins and objective measures of fat mass.
Titova OE, Brunius C, Warensjö Lemming E, ..., Michaëlsson K, Larsson SC
Int J Obes (Lond) 47 (11) 1043-1049 [2023-11-00; online 2023-08-07]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service]
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CGG toolkit: Software components for computational genomics.
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PLoS Comput. Biol. 19 (11) e1011498 [2023-11-00; online 2023-11-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Body Mass Index and the Risk of Rheumatic Disease: Linear and Nonlinear Mendelian Randomization Analyses.
Karlsson T, Hadizadeh F, Rask-Andersen M, Johansson Å, Ek WE
Arthritis & rheumatology (Hoboken, N.J.) 75 (11) 2027-2035 [2023-11-00; online 2023-09-28]
Bioinformatics Support for Computational Resources [Service]
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Autoantibodies against type I IFNs in humans with alternative NF-κB pathway deficiency.
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Nature 623 (7988) 803-813 [2023-11-00; online 2023-11-08]
Autoimmunity and Serology Profiling [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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An atlas of genetic determinants of forearm fracture.
Nethander M, Movérare-Skrtic S, Kämpe A, ..., Richards JB, Ohlsson C
Nat. Genet. 55 (11) 1820-1830 [2023-11-00; online 2023-11-02]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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ACS Sustainable Chem. Eng. 11 (43) 15506-15512 [2023-10-30; online 2023-09-21]
Swedish NMR Centre [Service]
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Proteomics reveal biomarkers for diagnosis, disease activity and long-term disability outcomes in multiple sclerosis.
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Affinity Proteomics Uppsala [Service] NGI Proteomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Zlatkovic J, Dalmau Gasull A, Hägg D, ..., Anesten F, Jansson JO
J Neuroendocrinol - (-) e13352 [2023-10-26; online 2023-10-26]
Integrated Microscopy Technologies Gothenburg [Service]
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Mucosal and Serum Antibodies 3 Weeks after Symptomatic BA.2.86 Infection.
Bladh O, Greilert-Norin N, Havervall S, ..., Klingström J, Thålin C
N. Engl. J. Med. 389 (17) 1626-1628 [2023-10-26; online 2023-10-27]
Affinity Proteomics Uppsala [Collaborative]
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Aksoylu IS, Martin P, Robert F, ..., Larsson O, Ramesh V
Mol Autism 14 (1) 39 [2023-10-25; online 2023-10-25]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The Release and Spread of Basidiospores of Red-Listed Wood-Decay Fungus Fistulina hepatica in Oak Stands
Marčiulynas A, Menkis A
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NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Ragaller F, Sjule E, Urem YB, ..., Blom H, Sezgin E
biorxiv - (-) - [2023-10-25; online 2023-10-25]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Complete Mitochondrial DNA Genome Variation in the Swedish Population.
Sturk-Andreaggi K, Bodner M, Ring JD, ..., Marshall C, Allen M
Genes 14 (11) - [2023-10-25; online 2023-10-25]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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aMeta: an accurate and memory-efficient ancient metagenomic profiling workflow.
Pochon Z, Bergfeldt N, Kırdök E, ..., Unneberg P, Oskolkov N
Genome Biol. 24 (1) 242 [2023-10-23; online 2023-10-23]
Ancient DNA [Technology development] Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Polymorphic parasitic larvae cooperate to build swimming colonies luring hosts.
Krupenko D, Miroliubov A, Kryukov E, ..., Kastriti ME, Adameyko I
Curr. Biol. 33 (20) 4524-4531.e4 [2023-10-23; online 2023-09-22]
Ancient DNA [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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LPMO-supported saccharification of biomass: effects of continuous aeration of reaction mixtures with variable fractions of water-insoluble solids and cellulolytic enzymes.
Tang C, Gandla ML, Jönsson LJ
Biotechnol Biofuels Bioprod 16 (1) 156 [2023-10-21; online 2023-10-21]
Integrated Microscopy Technologies Umeå [Service] Swedish NMR Centre [Service]
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Structural foundation for the role of enterococcal PrgB in conjugation, biofilm formation, and virulence.
Sun WS, Lassinantti L, Järvå M, ..., Ter Beek J, Berntsson RP
Elife 12 (-) - [2023-10-20; online 2023-10-20]
Cryo-EM [Service]
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Screening for atypical porcine pestivirus in Swedish boar semen used for artificial insemination and a characterisation of the seminal RNA microbiome including the virome.
Stenberg H, Malmberg M, Hayer J
BMC Vet Res 19 (1) 219 [2023-10-20; online 2023-10-20]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Synergistic metabolism of salivary MUC5B in oral commensal bacteria during early biofilm formation.
Robertsson C, Svensäter G, Davies JR, ..., Malmodin D, Wickström C
Microbiol Spectr - (-) e0270423 [2023-10-19; online 2023-10-19]
Swedish NMR Centre [Collaborative]
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Low mutation rate in epaulette sharks is consistent with a slow rate of evolution in sharks.
Sendell-Price AT, Tulenko FJ, Pettersson M, ..., Andersson L, Schartl M
Nat Commun 14 (1) 6628 [2023-10-19; online 2023-10-19]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
FBXL12 degrades FANCD2 to regulate replication recovery and promote cancer cell survival under conditions of replication stress.
Brunner A, Li Q, Fisicaro S, ..., Orre LM, Sangfelt O
Mol. Cell 83 (20) 3720-3739.e8 [2023-10-19; online 2023-08-16]
Global Proteomics and Proteogenomics [Collaborative]
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Autoantibody Profiling and Anti-Kinesin Reactivity in ANCA-Associated Vasculitis.
Mescia F, Bayati S, Brouwer E, ..., Nilsson P, Pin E
Int J Mol Sci 24 (20) - [2023-10-19; online 2023-10-19]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Low Circulating Valine Associate With High Risk of Hip Fractures.
Grahnemo L, Eriksson AL, Nethander M, ..., Pettersson-Kymmer U, Ohlsson C
J. Clin. Endocrinol. Metab. 108 (11) e1384-e1393 [2023-10-18; online 2023-05-14]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Untargeted plasma metabolomics and risk of colorectal cancer-an analysis nested within a large-scale prospective cohort.
Vidman L, Zheng R, Bodén S, ..., Brunius C, Van Guelpen B
Cancer Metab 11 (1) 17 [2023-10-17; online 2023-10-17]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Range-wide and temporal genomic analyses reveal the consequences of near-extinction in Swedish moose.
Dussex N, Kurland S, Olsen RA, ..., Dalén L, Laikre L
Commun Biol 6 (1) 1035 [2023-10-17; online 2023-10-17]
Bioinformatics Support for Computational Resources [Service] NGI Other [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Label-Free Quantitative Thermal Proteome Profiling Reveals Target Transcription Factors with Activities Modulated by MC3R Signaling.
Sandbaumhüter FA, Nezhyva M, Andrén PE, Jansson ET
Anal. Chem. 95 (41) 15400-15408 [2023-10-17; online 2023-10-07]
Spatial Mass Spectrometry [Collaborative]
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Fungi Inhabiting Stem Wounds of Quercus robur following Bark Stripping by Deer Animals
Marčiulynas A, Sirgedaitė-Šėžienė V, Menkis A
Forests 14 (10) 2077 [2023-10-17; online 2023-10-17]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Modified N-acyl-L-homoserine lactone compounds abrogate Las-dependent quorum-sensing response in human pathogen Pseudomonas aeruginosa.
Ballante F, Turkina MV, Ntzouni M, Magnusson KE, Vikström E
Front Mol Biosci 10 (-) 1264773 [2023-10-16; online 2023-10-16]
Chemical Biology Consortium Sweden [Collaborative] Clinical Genomics [Service] Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Endothelial VEGFR2-PLCγ signaling regulates vascular permeability and antitumor immunity through eNOS/Src.
Sjöberg E, Melssen M, Richards M, ..., Dimberg A, Claesson-Welsh L
J. Clin. Invest. 133 (20) - [2023-10-16; online 2023-10-16]
Global Proteomics and Proteogenomics [Service]
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Design, structure and plasma binding of ancestral β-CoV scaffold antigens.
Hueting D, Schriever K, Sun R, ..., Andréll J, Syrén PO
Nat Commun 14 (1) 6527 [2023-10-16; online 2023-10-16]
Cryo-EM [Service] Drug Discovery and Development [Service]
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Associations between the Bacterial Composition of Farm Bulk Milk and the Microbiota in the Resulting Swedish Long-Ripened Cheese.
Sun L, Höjer A, Johansson M, ..., Dicksved J, Lundh Å
Foods 12 (20) - [2023-10-16; online 2023-10-16]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Quantification of membrane fluidity in bacteria using TIR-FCS
Barbotin A, Billaudeau C, Sezgin E, Carballido-López R
biorxiv - (-) - [2023-10-15; online 2023-10-15]
Integrated Microscopy Technologies Stockholm [Service]
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Deficiency of the Heterogeneous Nuclear Ribonucleoprotein U locus leads to delayed hindbrain neurogenesis.
Mastropasqua F, Oksanen M, Soldini C, ..., Bölte S, Tammimies K
Biol Open 12 (10) - [2023-10-15; online 2023-10-10]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Miniature spatial transcriptomics for studying parasite-endosymbiont relationships at the micro scale.
Sounart H, Voronin D, Masarapu Y, ..., Ghedin E, Giacomello S
Nat Commun 14 (1) 6500 [2023-10-14; online 2023-10-14]
Bioinformatics Support for Computational Resources [Service]
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Single-Cell RNA Analysis Reveals Cell-Intrinsic Functions of CAR T Cells Correlating with Response in a Phase II Study of Lymphoma Patients.
Sarén T, Ramachandran M, Gammelgård G, ..., Enblad G, Essand M
Clin. Cancer Res. 29 (20) 4139-4152 [2023-10-13; online 2023-08-04]
Affinity Proteomics Uppsala [Service] Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Rewiring of the promoter-enhancer interactome and regulatory landscape in glioblastoma orchestrates gene expression underlying neurogliomal synaptic communication.
Chakraborty C, Nissen I, Vincent CA, ..., Hörnblad A, Remeseiro S
Nat Commun 14 (1) 6446 [2023-10-13; online 2023-10-13]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Integrated Genomic and Transcriptomic Analysis Improves Disease Classification and Risk Stratification of MDS with Ring Sideroblasts.
Todisco G, Creignou M, Bernard E, ..., Papaemmanuil E, Hellström-Lindberg E
Clin. Cancer Res. 29 (20) 4256-4267 [2023-10-13; online 2023-07-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Genome-wide DNA methylation profiling in Lyme neuroborreliosis reveals altered methylation patterns of HLA genes.
Henningsson AJ, Hellberg S, Lerm M, Sayyab S
J. Infect. Dis. - (-) - [2023-10-12; online 2023-10-12]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Open-source, high-throughput targeted in-situ transcriptomics for developmental biologists
Lee H, Langseth CM, Salas SM, ..., Grillo M, Nilsson M
biorxiv - (-) - [2023-10-11; online 2023-10-11]
In Situ Sequencing [Technology development]
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Multivalent antigen display on nanoparticle immunogens increases B cell clonotype diversity and neutralization breadth to pneumoviruses.
Ols S, Lenart K, Arcoverde Cerveira R, ..., King NP, Loré K
Immunity 56 (10) 2425-2441.e14 [2023-10-10; online 2023-09-08]
Bioinformatics (NBIS) [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Genomic, transcriptomic and epigenomic sequencing data of the B-cell leukemia cell line REH.
Lysenkova Wiklander M, Övernäs E, Lagensjö J, ..., Liljedahl U, Nordlund J
BMC Res Notes 16 (1) 265 [2023-10-10; online 2023-10-10]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Rueda-Alaña E, Grillo M, Vazquez E, ..., Nilsson M, García-Moreno F
biorxiv - (-) - [2023-10-10; online 2023-10-10]
In Situ Sequencing [Service]
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An end-to-end workflow for multiplexed image processing and analysis.
Windhager J, Zanotelli VRT, Schulz D, ..., Bodenmiller B, Eling N
Nat Protoc - (-) - [2023-10-10; online 2023-10-10]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service]
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Transfer of cetirizine/levocetirizine into human breast milk and estimation of drug exposure to infants through breastfeeding - a human lactation study from the ConcePTION project.
Nordeng H, Wegler C, Lindqvist A, ..., Baranczewski P, Spigset O
Basic Clin Pharmacol Toxicol - (-) - [2023-10-09; online 2023-10-09]
Drug Discovery and Development [Collaborative]
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Exploring the differences in serum metabolite profiles after intake of red meat in women with rheumatoid arthritis and a matched control group.
Lindqvist HM, Gjertsson I, Hulander E, Bärebring L, Winkvist A
Eur J Nutr - (-) - [2023-10-09; online 2023-10-09]
Swedish NMR Centre [Service]
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Low mutation load in a supergene underpinning alternative male mating strategies in ruff (Calidris pugnax).
Hill J, Enbody ED, Bi H, ..., Widemo F, Andersson L
Mol. Biol. Evol. 40 (12) msad224 [2023-10-06; online 2023-10-06]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Introgression underlies phylogenetic uncertainty but not parallel plumage evolution in a recent songbird radiation.
Rancilhac L, Enbody ED, Harris R, ..., Andersson L, Alström P
Syst. Biol. - (-) - [2023-10-06; online 2023-10-06]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Mitochondrial heteroplasmic shifts reveal a positive selection of breast cancer.
Li Y, Sundquist K, Vats S, ..., Sundquist J, Memon AA
J Transl Med 21 (1) 696 [2023-10-05; online 2023-10-05]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Proteomic profiling identifies novel inflammation-related plasma proteins associated with ischemic stroke outcome.
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J Neuroinflammation 20 (1) 224 [2023-10-04; online 2023-10-04]
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Metabolomic and transcriptomic analyses identify external conditions and key genes underlying high levels of toxic glycoalkaloids in tubers of stress-sensitive potato cultivars.
Merino I, Guasca AO, Krmela A, ..., Schulzova V, Sitbon F
Front Plant Sci 14 (-) 1210850 [2023-10-04; online 2023-10-04]
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Copy number variations and their effect on the plasma proteome.
Schmitz D, Li Z, Lo Faro V, ..., Rafati N, Johansson Å
Genetics - (-) - [2023-10-04; online 2023-10-04]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Spatial transcriptomic analysis of virtual prostate biopsy reveals confounding effect of tissue heterogeneity on genomic signatures.
Figiel S, Yin W, Doultsinos D, ..., Cussenot O, Lamb AD
Mol. Cancer 22 (1) 162 [2023-10-03; online 2023-10-03]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Photo-physical characterization of high triplet yield brominated fluoresceins by transient state (TRAST) spectroscopy.
Demirbay B, Baryshnikov G, Haraldsson M, ..., Ågren H, Widengren J
Methods Appl. Fluoresc. 11 (4) - [2023-10-03; online 2023-10-03]
Chemical Biology Consortium Sweden [Collaborative] Swedish Metabolomics Centre [Service]
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Clinical Genomics [Service] Clinical Genomics Lund [Service]
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The long non-coding RNA LINC00707 interacts with Smad proteins to regulate TGFβ signaling and cancer cell invasion.
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Cell Commun Signal 21 (1) 271 [2023-10-02; online 2023-10-02]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Nat Cancer - (-) - [2023-10-02; online 2023-10-02]
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Elevated Adipocyte Membrane Phospholipid Saturation Does Not Compromise Insulin Signaling.
Palmgren H, Petkevicius K, Bartesaghi S, ..., Peng XR, Pilon M
Diabetes 72 (10) 1350-1363 [2023-10-01; online 2022-12-30]
Integrated Microscopy Technologies Gothenburg [Service]
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The dynamics of touch-responsive gene expression in cereals.
Darwish E, Ghosh R, Bentzer J, ..., Sirijovski N, Van Aken O
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Biochim Biophys Acta Mol Basis Dis 1869 (7) 166786 [2023-10-00; online 2023-06-10]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Similarity in milk microbiota in replicates.
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Microbiologyopen 12 (5) e1383 [2023-10-00; online 2023-10-25]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Blom K, Fjällström P, Molnár C, ..., Forsell MNE, Johansson AF
Lancet Infect Dis 23 (10) e393-e394 [2023-10-00; online 2023-09-13]
Affinity Proteomics Uppsala [Collaborative]
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Mengal K, Kor G, Siino V, ..., Levander F, Niksirat H
Dev. Comp. Immunol. 147 (-) 104760 [2023-10-00; online 2023-06-16]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Tesi B, Boileau C, Boycott KM, ..., Nordgren A, Lindstrand A
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Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative]
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Edsjö A, Holmquist L, Geoerger B, ..., Siu LL, Stenzinger A
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Global Proteomics and Proteogenomics [Technology development]
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Thorburn DJ, Sagonas K, Binzer-Panchal M, ..., Lenz TL, Eizaguirre C
Mol Ecol Resour 23 (7) 1706-1723 [2023-10-00; online 2023-07-25]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Lowering of Circulating Sclerostin May Increase Risk of Atherosclerosis and Its Risk Factors: Evidence From a Genome-Wide Association Meta-Analysis Followed by Mendelian Randomization.
Zheng J, Wheeler E, Pietzner M, ..., Davey Smith G, Tobias JH
Arthritis & rheumatology (Hoboken, N.J.) 75 (10) 1781-1792 [2023-10-00; online 2023-08-03]
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Fehr A, Arvidsson G, Nordlund J, ..., Stenman G, Andersson MK
Genes Chromosomes Cancer 62 (10) 597-606 [2023-10-00; online 2023-05-23]
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Ichioka Y, Virto L, Nuevo P, ..., Sanz M, Berglundh T
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Edsfeldt A, Gonçalves I, Vigren I, ..., Khan F, Nilsson J
Vascul Pharmacol 152 (-) 107214 [2023-10-00; online 2023-08-25]
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Göteson A, Clements CC, Juréus A, ..., Pålsson E, Landén M
Biol Psychiatry Glob Open Sci 3 (4) 884-892 [2023-10-00; online 2022-12-12]
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APP-BACE1 Interaction and Intracellular Localization Regulate Aβ Production in iPSC-Derived Cortical Neurons.
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Cell Mol Neurobiol 43 (7) 3653-3668 [2023-10-00; online 2023-06-24]
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Nilsson J, Persson A, Vorontsov E, ..., Larson G, Blomqvist M
Glycoconj J 40 (5) 523-540 [2023-10-00; online 2023-07-18]
Glycoproteomics and MS Proteomics [Collaborative]
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Whole genome sequence of the deep-sea sponge Geodia barretti (Metazoa, Porifera, Demospongiae).
Steffen K, Proux-Wéra E, Soler L, ..., Sundh J, Cárdenas P
G3 (Bethesda) 13 (10) - [2023-09-30; online 2023-08-25]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Integrated Microscopy Technologies Gothenburg [Service]
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Clinical Genomics [Service] Clinical Genomics Lund [Service] Structural Proteomics [Collaborative]
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Science 381 (6665) eadf6218 [2023-09-29; online 2023-09-29]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Oral fungal profiling and risk of nasopharyngeal carcinoma: a population-based case-control study.
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EBioMedicine 96 (-) 104813 [2023-09-28; online 2023-09-28]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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The relative impact of parental and current environment on plant transcriptomes depends on type of stress and genotype.
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Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Riihimäki M, Fegraeus K, Nordlund J, ..., Hellman L, Raine A
Sci Rep 13 (1) 16261 [2023-09-27; online 2023-09-27]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Collaborative] NGI Single cell [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Haars J, Palanisamy N, Wallin F, ..., Kaden R, Lennerstrand J
Microorganisms 11 (10) - [2023-09-27; online 2023-09-27]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Exploiting solid-state dynamic nuclear polarization NMR spectroscopy to establish the spatial distribution of polymorphic phases in a solid material.
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Chem. Sci. 14 (37) 10121-10128 [2023-09-27; online 2023-06-23]
Swedish NMR Centre [Technology development]
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CO2 Mineralization by MgO Nanocubes in Nanometric Water Films.
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ACS Appl Mater Interfaces 15 (38) 45055-45063 [2023-09-27; online 2023-09-14]
Integrated Microscopy Technologies Umeå [Service]
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De Geer K, Mascianica K, Naess K, ..., Lindstrand A, Björck E
BMC Ophthalmol 23 (1) 394 [2023-09-26; online 2023-09-26]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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The draft genome of the microscopic Nemertoderma westbladi sheds light on the evolution of Acoelomorpha genomes.
Abalde S, Tellgren-Roth C, Heintz J, Vinnere Pettersson O, Jondelius U
Front Genet 14 (-) 1244493 [2023-09-26; online 2023-09-26]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Single-cell multiomics of human fetal hematopoiesis define a developmental-specific population and a fetal signature.
Sommarin MNE, Olofzon R, Palo S, ..., Karlsson G, Böiers C
Blood Adv 7 (18) 5325-5340 [2023-09-26; online 2023-06-28]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Combined GLUT1 and OXPHOS inhibition eliminates acute myeloid leukemia cells by restraining their metabolic plasticity.
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Blood Adv 7 (18) 5382-5395 [2023-09-26; online 2023-07-28]
Clinical Genomics [Service] Clinical Genomics Lund [Service] Swedish Metabolomics Centre [Service]
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Molecular anatomy of adult mouse leptomeninges.
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Neuron - (-) - [2023-09-25; online 2023-09-25]
Bioinformatics Support for Computational Resources [Service]
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Fast and sensitive validation of fusion transcripts in whole-genome sequencing data.
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BMC Bioinformatics 24 (1) 359 [2023-09-23; online 2023-09-23]
Bioinformatics Support for Computational Resources [Service]
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A subset of type-II collagen-binding antibodies prevents experimental arthritis by inhibiting FCGR3 signaling in neutrophils.
Xu Z, Xu B, Lundström SL, ..., Zubarev RA, Holmdahl R
Nat Commun 14 (1) 5949 [2023-09-23; online 2023-09-23]
Drug Discovery and Development [Collaborative]
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The microbial biodiversity at the archeological site of Tel Megiddo (Israel).
Zhang Y, Ruff SE, Oskolkov N, ..., Mason CE, Elhaik E
Front Microbiol 14 (-) 1253371 [2023-09-22; online 2023-09-22]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Multivalent design of the monoclonal SynO2 antibody improves binding strength to soluble α-Synuclein aggregates.
Petersen I, Ali MI, Petrovic A, ..., Bondza S, Hultqvist G
MAbs 15 (1) 2256668 [2023-09-22; online 2023-09-22]
Drug Discovery and Development [Collaborative]
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Comprehensive proteomics and meta-analysis of COVID-19 host response.
Babačić H, Christ W, Araújo JE, ..., Klingström J, Pernemalm M
Nat Commun 14 (1) 5921 [2023-09-22; online 2023-09-22]
Global Proteomics and Proteogenomics [Collaborative]
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Selected β-glucans act as immune-training agents by improving anti-mycobacterial activity in human macrophages - a pilot study.
Braian C, Karlsson L, Das J, Lerm M
J Innate Immun 15 (1) 751-764 [2023-09-21; online 2023-09-21]
Clinical Genomics [Collaborative] Clinical Genomics Linköping [Collaborative]
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Non-classical HLA-E restricted CMV 15-mer peptides are recognized by adaptive NK cells and induce memory responses.
Martín Almazán N, Sala BM, Sandalova T, ..., Achour A, Sarhan D
Front Immunol 14 (-) 1230718 [2023-09-21; online 2023-09-21]
Global Proteomics and Proteogenomics [Service]
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Imaging of fibrogenesis in the liver by [18F]TZ-Z09591, an Affibody molecule targeting platelet derived growth factor receptor β.
Wegrzyniak O, Zhang B, Rokka J, ..., Eriksson J, Eriksson O
EJNMMI Radiopharm Chem 8 (1) 23 [2023-09-21; online 2023-09-21]
Drug Discovery and Development [Collaborative]
PubMed DOI Crossref
Strict self-isolation did not protect Swedish cancer patients on active treatment from the risk of becoming seropositive for SARS-CoV-2.
Ginman B, Pahnke S, Freyhult E, ..., Enblad G, Glimelius I
Acta Oncol - (-) 1-9 [2023-09-20; online 2023-09-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Identification of Novel Glycans in the Mucus Layer of Shark and Skate Skin.
Bachar-Wikstrom E, Thomsson KA, Sihlbom C, ..., Lindén SK, Wikstrom JD
Int J Mol Sci 24 (18) - [2023-09-20; online 2023-09-20]
Glycoproteomics and MS Proteomics [Collaborative]
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Single-cell sequencing of tumor-associated macrophages in a Drosophila model.
Khalili D, Mohammed M, Kunc M, ..., Ankarklev J, Theopold U
Front Immunol 14 (-) 1243797 [2023-09-19; online 2023-09-19]
Bioinformatics Support for Computational Resources [Service] Microbial Single Cell Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Prosaposin maintains lipid homeostasis in dopamine neurons and counteracts experimental parkinsonism in rodents.
He Y, Kaya I, Shariatgorji R, ..., Andren PE, Svenningsson P
Nat Commun 14 (1) 5804 [2023-09-19; online 2023-09-19]
Spatial Mass Spectrometry [Collaborative]
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Self-Assembly of RGD-Functionalized Recombinant Spider Silk Protein into Microspheres in Physiological Buffer and in the Presence of Hyaluronic Acid.
Ornithopoulou E, Åstrand C, Gustafsson L, Crouzier T, Hedhammar M
ACS Appl Bio Mater 6 (9) 3696-3705 [2023-09-18; online 2023-08-14]
Integrated Microscopy Technologies Umeå [Service]
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Ecogenomics and cultivation reveal distinctive viral-bacterial communities in the surface microlayer of a Baltic Sea slick.
Rahlff J, Wietz M, Giebel HA, ..., Antson A, Holmfeldt K
ISME COMMUN. 3 (1) 97 [2023-09-18; online 2023-09-18]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Novel pathological variants of NHP2 affect N-terminal domain flexibility, protein stability, H/ACA Ribonucleoprotein (RNP) complex formation and telomerase activity.
Maliński B, Vertemara J, Faustini E, ..., Cammenga J, Lottersberger F
Hum. Mol. Genet. 32 (19) 2901-2912 [2023-09-16; online 2023-07-13]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Plasma type I collagen α1 chain in relation to coronary artery disease: findings from a prospective population-based cohort and an acute myocardial infarction prospective cohort in Sweden.
Hammaréus F, Nilsson L, Ong KL, ..., Holm Nielsen S, Jonasson L
BMJ Open 13 (9) e073561 [2023-09-15; online 2023-09-15]
Affinity Proteomics Uppsala [Service]
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Ki67 and prostate specific antigen are prognostic in metastatic hormone naïve prostate cancer.
Spyratou V, Freyhult E, Bergh A, ..., Welén K, Josefsson A
Acta Oncol - (-) 1-9 [2023-09-15; online 2023-09-15]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
In vivo gene expression profile of Haemophilus influenzae during human pneumonia.
Polland L, Rydén H, Su Y, Paulsson M
Microbiol Spectr 11 (5) e0163923 [2023-09-14; online 2023-09-14]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Genetic atlas of hygro-and thermosensory cells in the vinegar fly Drosophila melanogaster.
Corthals K, Andersson V, Churcher A, Reimegård J, Enjin A
Sci Rep 13 (1) 15202 [2023-09-14; online 2023-09-14]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Dissecting the genetic basis of drought responses in common bean using natural variation.
Labastida D, Ingvarsson PK, Rendón-Anaya M
Front Plant Sci 14 (-) 1143873 [2023-09-14; online 2023-09-14]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Identification of motif-based interactions between SARS-CoV-2 protein domains and human peptide ligands pinpoint antiviral targets.
Mihalič F, Benz C, Kassa E, ..., Jemth P, Ivarsson Y
Nat Commun 14 (1) 5636 [2023-09-13; online 2023-09-13]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cerebrospinal Fluid Metabolomics Identified Ongoing Analgesic Medication in Neuropathic Pain Patients.
Bäckryd E, Thordeman K, Gerdle B, Ghafouri B
Biomedicines 11 (9) - [2023-09-13; online 2023-09-13]
Swedish NMR Centre [Service]
PubMed DOI Crossref
Sustained and intermittent hypoxia differentially modulate primary monocyte immunothrombotic responses to IL-1β stimulation.
Wahlund CJE, Çaglayan S, Czarnewski P, Hansen JB, Snir O
Front Immunol 14 (-) 1240597 [2023-09-11; online 2023-09-11]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Impact of estrogen on IgG glycosylation and serum protein glycosylation in a murine model of healthy postmenopause.
Gupta P, Sághy T, Nordqvist J, ..., Henning P, Engdahl C
Front Endocrinol (Lausanne) 14 (-) 1243942 [2023-09-11; online 2023-09-11]
Glycoproteomics and MS Proteomics [Service]
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Ectomycorrhizal fungi integrate nitrogen mobilisation and mineral weathering in boreal forest soil.
Mahmood S, Fahad Z, Bolou-Bi EB, ..., Ekblad A, Finlay RD
New Phytol. - (-) - [2023-09-11; online 2023-09-11]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A novel kleptoplastidic symbiosis revealed in the marine centrohelid Meringosphaera with evidence of genetic integration.
Sørensen MES, Zlatogursky VV, Onuţ-Brännström I, ..., Foster RA, Burki F
Curr. Biol. 33 (17) 3571-3584.e6 [2023-09-11; online 2023-08-02]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Pyrroloquinoline quinone drives ATP synthesis in vitro and in vivo and provides retinal ganglion cell neuroprotection.
Canovai A, Tribble JR, Jöe M, ..., Dal Monte M, Williams PA
Acta Neuropathol Commun 11 (1) 146 [2023-09-08; online 2023-09-08]
Swedish Metabolomics Centre [Service]
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Estrogen receptor activation remodelsTEAD1gene expression to alleviate nonalcoholic fatty liver disease
Sommerauer C, Gallardo-Dodd CJ, Savva C, ..., Williams C, Kutter C
biorxiv - (-) - [2023-09-08; online 2023-09-08]
Integrated Microscopy Technologies Stockholm [Service]
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PLK1 as a cooperating partner for BCL2-mediated antiapoptotic program in leukemia.
Shah K, Nasimian A, Ahmed M, ..., Lock RB, Kazi JU
Blood Cancer J 13 (1) 139 [2023-09-07; online 2023-09-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Epigenetic modifications appear in the human placenta following anxiety and depression during pregnancy.
Martinez CA, Marteinsdottir I, Josefsson A, ..., Theodorsson E, Rodriguez-Martinez H
Placenta 140 (-) 72-79 [2023-09-07; online 2023-08-01]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Transforming growth factor-β2 is associated with atherosclerotic plaque stability and lower risk for cardiovascular events.
Edsfeldt A, Singh P, Matthes F, ..., Sun J, Gonçalves I
Cardiovasc. Res. 119 (11) 2061-2073 [2023-09-05; online 2023-05-18]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Placental growth factor exerts a dual function for cardiomyogenesis and vasculogenesis during heart development.
Witman N, Zhou C, Häneke T, ..., Chien KR, Sahara M
Nat Commun 14 (1) 5435 [2023-09-05; online 2023-09-05]
Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatial multimodal analysis of transcriptomes and metabolomes in tissues.
Vicari M, Mirzazadeh R, Nilsson A, ..., Andrén PE, Lundeberg J
Nat. Biotechnol. - (-) - [2023-09-04; online 2023-09-04]
In Situ Sequencing [Collaborative] Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
Seasonal and age-related changes in sperm quality of farmed arctic charr (Salvelinus alpinus).
Kurta K, Jeuthe H, Naboulsi R, de Koning DJ, Palaiokostas C
BMC Genomics 24 (1) 519 [2023-09-04; online 2023-09-04]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Large-scale proximity extension assay reveals CSF midkine and DOPA decarboxylase as supportive diagnostic biomarkers for Parkinson's disease.
Paslawski W, Khosousi S, Hertz E, ..., Boxer A, Svenningsson P
Transl Neurodegener 12 (1) 42 [2023-09-04; online 2023-09-04]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
The interplay between dietary fatty acids and gut microbiota influences host metabolism and hepatic steatosis.
Schoeler M, Ellero-Simatos S, Birkner T, ..., Burcelin R, Caesar R
Nat Commun 14 (1) 5329 [2023-09-01; online 2023-09-01]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
The Genomic Basis of Adaptation to High Elevations in Africanized Honey Bees.
Everitt T, Wallberg A, Christmas MJ, ..., Neumann P, Webster MT
Genome Biol Evol 15 (9) - [2023-09-01; online 2023-08-26]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Stratified genetic analysis reveals sex differences in MPO-ANCA-associated vasculitis.
Ekman D, Sennblad B, Knight A, ..., Lindblad-Toh K, Dahlqvist J
Rheumatology (Oxford) 62 (9) 3213-3218 [2023-09-01; online 2023-04-03]
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PubMed DOI Crossref
Pseudomonas ability to utilize different carbon substrates and adaptation influenced by protozoan grazing.
Ramasamy KP, Brugel S, Eriksson KIA, Andersson A
Environ. Res. 232 (-) 116419 [2023-09-01; online 2023-06-14]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Inhibiting metabotropic glutamate receptor 5 after stroke restores brain function and connectivity.
Hakon J, Quattromani MJ, Sjölund C, ..., Bauer AQ, Wieloch T
Brain - (-) - [2023-09-01; online 2023-09-01]
Chemical Biology Consortium Sweden [Collaborative]
PubMed DOI Crossref
IBS randomized study: FODMAPs alter bile acids, phenolic- and tryptophan metabolites, while gluten modifies lipids.
Nordin E, Hellström PM, Vuong E, ..., Brunius C, Landberg R
Am. J. Physiol. Regul. Integr. Comp. Physiol. 325 (3) R248-R259 [2023-09-01; online 2023-07-03]
Bioinformatics Support for Computational Resources [Service] Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
Verticillium longisporum phospholipase VlsPLA2 is a virulence factor that targets host nuclei and modulates plant immunity.
Rafiei V, Vélëz H, Piombo E, Dubey M, Tzelepis G
Mol. Plant Pathol. 24 (9) 1078-1092 [2023-09-00; online 2023-05-12]
Global Proteomics and Proteogenomics [Service] Swedish Metabolomics Centre [Service]
DOI Crossref
Tuning of lattice thermal conductivity of amorphous Fe0.85Zr0.15 by nanostructured voids, pressure and temperature
Gürbüz E, Sanyal B
Journal of Non-Crystalline Solids 616 (-) 122430 [2023-09-00; online 2023-09-00]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Trends in invasive bacterial diseases during the first 2 years of the COVID-19 pandemic: analyses of prospective surveillance data from 30 countries and territories in the IRIS Consortium.
Shaw D, Abad R, Amin-Chowdhury Z, ..., Zhou F, Brueggemann AB
Lancet Digit Health 5 (9) e582-e593 [2023-09-00; online 2023-07-27]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Transcriptome network analysis links perinatal Staphylococcus epidermidis infection to microglia reprogramming in the immature hippocampus.
Gravina G, Ardalan M, Chumak T, ..., Ek CJ, Mallard C
Glia 71 (9) 2234-2249 [2023-09-00; online 2023-05-29]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
The role of NLRP3 in regulating gingival epithelial cell responses evoked by Aggregatibacter actinomycetemcomitans.
Jayaprakash Demirel K, Wu R, Neves Guimaraes A, Demirel I
Cytokine 169 (-) 156316 [2023-09-00; online 2023-08-02]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Structure and dynamics of the mitochondrial DNA-compaction factor Abf2 from S. cerevisiae.
Lidman J, Sallova Y, Matečko-Burmann I, Burmann BM
J. Struct. Biol. 215 (3) 108008 [2023-09-00; online 2023-08-03]
Swedish NMR Centre [Service]
PubMed DOI Crossref
Quantification of chondroitin sulfate, hyaluronic acid and N-glycans in synovial fluid - A technical performance study.
Andersson E, Tykesson E, Lohmander LS, ..., Swärd P, Struglics A
Osteoarthr Cartil Open 5 (3) 100380 [2023-09-00; online 2023-06-10]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Mosaic Loss of Chromosome Y Is Associated With Functional Outcome After Ischemic Stroke.
Dorvall M, Pedersen A, Dumanski JP, ..., Stanne TM, Jern C
Stroke 54 (9) 2434-2437 [2023-09-00; online 2023-07-19]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Milder Autumns May Increase Risk for Infection of Crops with Turnip Yellows Virus.
Puthanveed V, Singh K, Poimenopoulou E, ..., Siddique AB, Kvarnheden A
Phytopathology 113 (9) 1788-1798 [2023-09-00; online 2023-11-01]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Methane Producing and Oxidizing Microorganisms Display a High Resilience to Drought in a Swedish Hemi‐Boreal Mire
White JD, Ahrén D, Ström L, ..., Keane B, Parmentier FJW
JGR Biogeosciences 128 (9) - [2023-09-00; online 2023-09-08]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Increased plasma levels of soluble programmed death ligand 1 (sPD-L1) and fibroblast growth factor 23 (FGF-23) in patients with Graves' ophthalmopathy in comparison to hyperthyroid patients without Graves' ophthalmopathy.
Khamisi S, Anders Karlsson F, Ljunggren Ö, Thulin M, Larsson A
Cytokine 169 (-) 156269 [2023-09-00; online 2023-06-10]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Fine-tuning of p-coumaric acid synthesis to increase (2S)-naringenin production in yeast.
Mao J, Mohedano MT, Fu J, ..., Siewers V, Chen Y
Metab. Eng. 79 (-) 192-202 [2023-09-00; online 2023-08-22]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Contrasting genomic consequences of anthropogenic reintroduction and natural recolonization in high-arctic wild reindeer.
Burnett HA, Bieker VC, Le Moullec M, ..., Hansen BB, Martin MD
Evol Appl 16 (9) 1531-1548 [2023-09-00; online 2023-08-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Chromatin accessibility, not 5mC methylation covaries with partial dosage compensation in crows.
Catalán A, Merondun J, Knief U, Wolf JBW
PLoS Genet. 19 (9) e1010901 [2023-09-00; online 2023-09-25]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Breast Milk Oligosaccharides Contain Immunomodulatory Glucuronic Acid and LacdiNAc.
Jin C, Lundstrøm J, Korhonen E, Luis AS, Bojar D
Mol. Cell Proteomics 22 (9) 100635 [2023-09-00; online 2023-08-18]
Glycoproteomics and MS Proteomics [Collaborative]
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Antimicrobial susceptibilities and genomic epidemiology of Neisseria gonorrhoeae in Stockholm, Sweden
Vestberg N, Bhattarai KH, Fang H
Eur J Clin Microbiol Infect Dis 42 (9) 1073-1079 [2023-09-00; online 2023-07-13]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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An mTRAN-mRNA interaction mediates mitochondrial translation initiation in plants.
Tran HC, Schmitt V, Lama S, ..., Delannoy E, Van Aken O
Science 381 (6661) eadg0995 [2023-09-00; online 2023-09-01]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
A metabarcoding analysis of the wrackbed microbiome indicates a phylogeographic break along the North Sea-Baltic Sea transition zone.
Berdan EL, Roger F, Wellenreuther M, ..., Butlin RK, André C
Environ. Microbiol. 25 (9) 1659-1673 [2023-09-00; online 2023-04-09]
Bioinformatics Support for Computational Resources [Service]
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Trunk neural crest gene MOXD1 affects embryonic development
Fredlund E, Andersson S, Ferreira M, Mohlin S
biorxiv - (-) - [2023-08-31; online 2023-08-31]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
The Chlamydia effector CpoS modulates the inclusion microenvironment and restricts the interferon response by acting on Rab35.
Meier K, Jachmann LH, Türköz G, ..., Kroemer G, Sixt BS
MBio 14 (4) e0319022 [2023-08-31; online 2023-08-02]
Chemical Biology Consortium Sweden [Service]
DOI Crossref
De novoassembled single-cell transcriptomes from aquatic phytoflagellates reveal a metabolically distinct cell population
Florenza J, Jeevannavar A, Divne AM, Tamminen M, Bertilsson S
- - (-) - [2023-08-31; online 2023-08-31]
Microbial Single Cell Genomics [Technology development]
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Public and patient involvement: a survey on knowledge, experience and opinions among researchers within a precision oncology European project.
Mosconi P, Colombo C, Paletta P, ..., Brunelli C, CEE_DART Consortium
BMC Cancer 23 (1) 814 [2023-08-30; online 2023-08-30]
Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Apilactobacillus kunkeei releases RNA-associated membrane vesicles and proteinaceous nanoparticles.
Seeger C, Dyrhage K, Näslund K, Andersson SGE
Microlife 4 (-) uqad037 [2023-08-29; online 2023-08-29]
Cryo-EM [Service]
PubMed DOI Crossref
The yeast guanine nucleotide exchange factor Sec7 is a bottleneck in spatial protein quality control and detoxifies neurological disease proteins.
Babazadeh R, Schneider KL, Fischbach A, ..., Liu B, Nystrom T
Sci Rep 13 (1) 14068 [2023-08-28; online 2023-08-28]
Integrated Microscopy Technologies Gothenburg [Service]
DOI Crossref
Kraft cooking of birch wood chips: differences between the dissolved organic material in pore and bulk liquor
Kron L, Marion de Godoy C, Hasani M, Theliander H
- 77 (8) 598-609 [2023-08-28; online 2023-07-07]
Swedish NMR Centre [Service]
PubMed DOI Crossref
Deciphering the Role of p60AmotL2 in Epithelial Extrusion and Cell Detachment.
Cui W, Subramani A, Fonseca P, ..., Lundqvist A, Holmgren L
Cells 12 (17) - [2023-08-28; online 2023-08-28]
Global Proteomics and Proteogenomics [Service]
DOI Crossref
Chemogenetic inhibition of IST1-CHMP1B interaction impairs endosomal recycling and promotes unconventional LC3 lipidation at stalled endosomes
Knyazeva A, Li S, Corkery DP, ..., Waldmann H, Wu YW
biorxiv - (-) - [2023-08-28; online 2023-08-28]
Chemical Proteomics [Collaborative]
PubMed DOI Crossref
O304 ameliorates hyperglycemia in mice by dually promoting muscle glucose effectiveness and preserving β-cell function.
Norlin S, Axelsson J, Ericsson M, Edlund H
Commun Biol 6 (1) 877 [2023-08-25; online 2023-08-25]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Long-read whole-genome analysis of human single cells.
Hård J, Mold JE, Eisfeldt J, ..., Michaëlsson J, Ameur A
Nat Commun 14 (1) 5164 [2023-08-24; online 2023-08-24]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Technology development] NGI Single cell [Technology development] NGI Stockholm (Genomics Applications) [Collaborative] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
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Highly multiplexed targeted sequencing strategy for infectious disease surveillance.
Hernández-Neuta I, Magoulopoulou A, Pineiro F, ..., Gulberg M, Nilsson M
BMC Biotechnol. 23 (1) 31 [2023-08-23; online 2023-08-23]
Bioinformatics (NBIS) [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Atomic-level structure determination of amorphous molecular solids by NMR.
Cordova M, Moutzouri P, Nilsson Lill SO, ..., Schantz S, Emsley L
Nat Commun 14 (1) 5138 [2023-08-23; online 2023-08-23]
Swedish NMR Centre [Collaborative]
DOI Crossref
Mass Transport in “Water-in-Polymer Salt” Electrolytes
Khan Z, Martinelli A, Franco LR, ..., Araujo CM, Crispin X
Chem. Mater. 35 (16) 6382-6395 [2023-08-22; online 2023-07-31]
Swedish NMR Centre [Service]
PubMed DOI Crossref
Inhibition of high level E2F in a RB1 proficient MYCN overexpressing chicken retinoblastoma model normalizes neoplastic behaviour.
Zhang H, Konjusha D, Rafati N, Tararuk T, Hallböök F
Cell Oncol (Dordr) - (-) - [2023-08-22; online 2023-08-22]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Contrasting response of microeukaryotic and bacterial communities to the interplay of seasonality and local stressors in shallow soda lakes.
Márton Z, Csitári B, Felföldi T, ..., Szabó A, Székely AJ
FEMS Microbiol. Ecol. 99 (9) - [2023-08-22; online 2023-08-17]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Loss of CYP2D6 sensitizes hepatocellular carcinomas and neuroblastomas to talazoparib
Sjöblom T, Zhang X, Rameika N, ..., Heim M, Globisch D
res sq - (-) - [2023-08-21; online 2023-08-21]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden [Service]
PubMed DOI Crossref
Insights into cellular behavior and micromolecular communication in urothelial micrografts.
Juul N, Willacy O, Mamand DR, ..., Chamorro CI, Fossum M
Sci Rep 13 (1) 13589 [2023-08-21; online 2023-08-21]
Global Proteomics and Proteogenomics [Service]
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The acute effect of different NAD+ precursors included in the combined metabolic activators.
Li X, Yang H, Jin H, ..., Borén J, Mardinoglu A
Free Radic. Biol. Med. 205 (-) 77-89 [2023-08-20; online 2023-06-02]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Expanding the genetic toolbox of Rhodotorula toruloides by identification and validation of six novel promoters induced or repressed under nitrogen starvation.
Brink DP, Mierke F, Norbeck J, Siewers V, Andlid T
Microb. Cell Fact. 22 (1) 160 [2023-08-19; online 2023-08-19]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Multiplexed Guide RNA Expression Leads to Increased Mutation Frequency in Targeted Window Using a CRISPR-Guided Error-Prone DNA Polymerase in Saccharomyces cerevisiae.
Gossing M, Limeta A, Skrekas C, ..., Siewers V, David F
ACS Synth Biol 12 (8) 2271-2277 [2023-08-18; online 2023-07-24]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Decoding pancreatic endocrine cell differentiation and β cell regeneration in zebrafish.
Mi J, Liu KC, Andersson O
Sci Adv 9 (33) eadf5142 [2023-08-18; online 2023-08-18]
NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Bacterial bioindicators enable biological status classification along the continental Danube river.
Fontaine L, Pin L, Savio D, ..., Farnleitner AH, Eiler A
Commun Biol 6 (1) 862 [2023-08-18; online 2023-08-18]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
An idiosyncratic zonated stroma encapsulates desmoplastic liver metastases and originates from injured liver.
Fernández Moro C, Geyer N, Harrizi S, ..., Bozóky B, Gerling M
Nat Commun 14 (1) 5024 [2023-08-18; online 2023-08-18]
CRISPR Functional Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Sustained Transmission of Neisseria gonorrhoeae Strains with High-Level Azithromycin Resistance (MIC ≥ 256 μg/mL) in Argentina, 2018 to 2022.
Gianecini RA, Poklepovich T, Golparian D, ..., Campos J, Galarza P
Microbiol Spectr 11 (4) e0097023 [2023-08-17; online 2023-06-20]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Environmental effects rather than relatedness determine gut microbiome similarity in a social mammal.
Bensch HM, Lundin D, Tolf C, Waldenström J, Zöttl M
J. Evol. Biol. - (-) - [2023-08-16; online 2023-08-16]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Amyloids of α-Synuclein Promote Chemical Transformations of Neuronal Cell Metabolites.
Horvath I, Mohamed KA, Kumar R, Wittung-Stafshede P
Int J Mol Sci 24 (16) - [2023-08-16; online 2023-08-16]
Swedish Metabolomics Centre [Service]
PubMed DOI Crossref
Transcriptional maintenance of cortical somatostatin interneuron subtype identity during migration.
Munguba H, Nikouei K, Hochgerner H, ..., Linnarsson S, Hjerling-Leffler J
Neuron - (-) - [2023-08-15; online 2023-08-15]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome sequencing of 2000 canids by the Dog10K consortium advances the understanding of demography, genome function and architecture.
Meadows JRS, Kidd JM, Wang G, ..., Zhang Y, Ostrander EA
Genome Biol. 24 (1) 187 [2023-08-15; online 2023-08-15]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Integrating a Polygenic Risk Score into a clinical setting would impact risk predictions in familial breast cancer.
Baliakas P, Munters AR, Kämpe A, ..., Ladenvall C, Eriksson D
J. Med. Genet. - (-) - [2023-08-14; online 2023-08-14]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
DOI Crossref
Inbreeding or outbreeding depression? How to manage an endangered and locally adapted population of red grouseLagopus scotica
Walsh G, McMahon BJ, Thörn F, ..., Irestedt M, Höglund J
biorxiv - (-) - [2023-08-14; online 2023-08-14]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
GATA2 mitotic bookmarking is required for definitive haematopoiesis.
Silvério-Alves R, Kurochkin I, Rydström A, ..., Martin-Gonzalez J, Pereira CF
Nat Commun 14 (1) 4645 [2023-08-14; online 2023-08-14]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Feasibility to use whole-genome sequencing as a sole diagnostic method to detect genomic aberrations in pediatric B-cell acute lymphoblastic leukemia.
Rezayee F, Eisfeldt J, Skaftason A, ..., Rosenquist R, Barbany G
Front Oncol 13 (-) 1217712 [2023-08-14; online 2023-08-14]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] Clinical Genomics Stockholm [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Phage T3 overcomes the BREX defense through SAM cleavage and inhibition of SAM synthesis by SAM lyase.
Andriianov A, Trigüis S, Drobiazko A, ..., Severinov K, Isaev A
Cell Rep 42 (8) 112972 [2023-08-13; online 2023-08-13]
Cryo-EM [Service]
PubMed DOI Crossref
Molecular and spatial landmarks of early mouse skin development.
Jacob T, Annusver K, Czarnewski P, ..., Björklund ÅK, Kasper M
Dev. Cell - (-) - [2023-08-13; online 2023-08-13]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Enhanced mitochondrial G-quadruplex formation impedes replication fork progression leading to mtDNA loss in human cells.
Doimo M, Chaudhari N, Abrahamsson S, ..., Chorell E, Wanrooij S
Nucleic Acids Res. 51 (14) 7392-7408 [2023-08-11; online 2023-06-23]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Complementarity-determining region clustering may cause CAR-T cell dysfunction.
Sarén T, Saronio G, Marti Torrell P, ..., Yu D, Essand M
Nat Commun 14 (1) 4732 [2023-08-10; online 2023-08-10]
Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development [Collaborative] Global Proteomics and Proteogenomics [Service]
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Cinnamic acid and p-coumaric acid are metabolized to 4-hydroxybenzoic acid by Yarrowia lipolytica.
Konzock O, Tous-Mohedano M, Cibin I, Chen Y, Norbeck J
AMB Express 13 (1) 84 [2023-08-10; online 2023-08-10]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Limited genetic changes observed during in situ and ex situ conservation in Nordic populations of red clover (Trifolium pratense).
Hagenblad J, Aloisi K, Marum P, ..., Asdal Å, Palmé A
Front Plant Sci 14 (-) 1233838 [2023-08-09; online 2023-08-09]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic continuity, isolation, and gene flow in Stone Age Central and Eastern Europe.
Mattila TM, Svensson EM, Juras A, ..., Malmström H, Jakobsson M
Commun Biol 6 (1) 793 [2023-08-09; online 2023-08-09]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Water Film-Driven Brucite Nanosheet Growth and Stacking.
Luong NT, Boily JF
Langmuir 39 (31) 11090-11098 [2023-08-08; online 2023-07-24]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Graded expression of the chemokine receptor CX3CR1 marks differentiation states of human and murine T cells and enables cross-species interpretation.
Zwijnenburg AJ, Pokharel J, Varnaitė R, ..., Eidsmo L, Gerlach C
Immunity 56 (8) 1955-1974.e10 [2023-08-08; online 2023-07-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
DNA Methylation Signatures of Multiple Sclerosis Occur Independently of Known Genetic Risk and Are Primarily Attributed to B Cells and Monocytes.
Xavier A, Maltby VE, Ewing E, ..., Lea RA, Lechner-Scott J
Int J Mol Sci 24 (16) - [2023-08-08; online 2023-08-08]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A novel quantitative targeted analysis of X-chromosome inactivation (XCI) using nanopore sequencing.
Johansson J, Lidéus S, Höijer I, ..., Bondeson ML, Wilbe M
Sci Rep 13 (1) 12856 [2023-08-08; online 2023-08-08]
NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Megafaunal extinctions, not climate change, may explain Holocene genetic diversity declines in Numenius shorebirds.
Tan HZ, Jansen JJFJ, Allport GA, ..., Gwee CY, Rheindt FE
Elife 12 (-) - [2023-08-07; online 2023-08-07]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Biogeography of Fungal Communities Associated with Pinus sylvestris L. and Picea abies (L.) H. Karst. along the Latitudinal Gradient in Europe.
Mishcherikova V, Lynikienė J, Marčiulynas A, ..., Marčiulynienė D, Menkis A
JoF 9 (8) - [2023-08-06; online 2023-08-06]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Altered gut microbiota community structure and correlated immune system changes in dibutyl phthalate exposed mice.
Almamoun R, Pierozan P, Manoharan L, Karlsson O
Ecotoxicol Environ Saf 262 (-) 115321 [2023-08-05; online 2023-08-05]
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The structure of immature tick-borne encephalitis virus
Anastasina M, Füzik T, Domanska A, ..., Plevka P, Butcher SJ
biorxiv - (-) - [2023-08-04; online 2023-08-04]
Cryo-EM [Service]
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Y-Linked Copy Number Polymorphism of Target of Rapamycin Is Associated with Sexual Size Dimorphism in Seed Beetles.
Kaufmann P, Wiberg RAW, Papachristos K, ..., Tellgren-Roth C, Immonen E
Mol. Biol. Evol. 40 (8) - [2023-08-03; online 2023-07-22]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Comparison of plastid proteomes points towards a higher plastidial redox turnover in vascular tissues than in mesophyll cells.
Boussardon C, Carrie C, Keech O
J. Exp. Bot. 74 (14) 4110-4124 [2023-08-03; online 2023-04-08]
Global Proteomics and Proteogenomics [Service] Integrated Microscopy Technologies Umeå [Service]
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The development of blood protein profiles in extremely preterm infants follows a stereotypic evolution pattern.
Zhong W, Danielsson H, Brusselaers N, ..., Uhlén M, Hellström A
Commun Med (Lond) 3 (1) 107 [2023-08-02; online 2023-08-02]
Affinity Proteomics Stockholm [Service]
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Relation between HLA and copy number variation of steroid 21-hydroxylase in a Swedish cohort of patients with autoimmune Addison's disease.
Lundtoft C, Eriksson D, Bianchi M, ..., Rönnblom L, Kämpe O
Eur. J. Endocrinol. 189 (2) 235-241 [2023-08-02; online 2023-08-09]
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Multiphoton characterization and live cell imaging using fluorescent adenine analogue 2CNqA.
Nilsson JR, Benitez-Martin C, Sansom HG, ..., Magennis SW, Wilhelmsson LM
Phys Chem Chem Phys 25 (30) 20218-20224 [2023-08-02; online 2023-08-02]
Integrated Microscopy Technologies Gothenburg [Service]
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Genomic surveillance and antimicrobial resistance determinants in Neisseria gonorrhoeae isolates from Uganda, Malawi and South Africa, 2015-20.
Kakooza F, Golparian D, Matoga M, ..., Wi T, Unemo M
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Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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van de Vegte YJ, Eppinga RN, van der Ende MY, ..., Verweij N, van der Harst P
Nat Commun 14 (1) 4646 [2023-08-02; online 2023-08-02]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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F1000Res 12 (-) 926 [2023-08-02; online 2023-08-02]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Alternating L4 loop architecture of the bacterial polysaccharide co-polymerase WzzE.
Wiseman B, Widmalm G, Högbom M
Commun Biol 6 (1) 802 [2023-08-02; online 2023-08-02]
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Somatic Exonic Deletions in RUNX1 Constitutes a Novel Recurrent Genomic Abnormality in Acute Myeloid Leukemia.
Eriksson A, Engvall M, Mathot L, ..., Ladenvall C, Baliakas P
Clin. Cancer Res. 29 (15) 2826-2834 [2023-08-01; online 2023-04-07]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Patrilocality and hunter-gatherer-related ancestry of populations in East-Central Europe during the Middle Bronze Age.
Chyleński M, Makarowicz P, Juras A, ..., Jakobsson M, Malmström H
Nat Commun 14 (1) 4395 [2023-08-01; online 2023-08-01]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Longitudinal metabolomics analysis reveals the acute effect of cysteine and NAC included in the combined metabolic activators.
Yang H, Li X, Jin H, ..., Borén J, Mardinoglu A
Free Radic. Biol. Med. 204 (-) 347-358 [2023-08-01; online 2023-05-26]
Bioinformatics Support for Computational Resources [Service]
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Insights into Enzymatic Catalysis from Binding and Hydrolysis of Diadenosine Tetraphosphate by E. coli Adenylate Kinase.
Tischlik S, Oelker M, Rogne P, ..., Drescher M, Wolf-Watz M
Biochemistry 62 (15) 2238-2243 [2023-08-01; online 2023-07-07]
Swedish NMR Centre [Service]
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Base Composition, Codon Usage, and Patterns of Gene Sequence Evolution in Butterflies.
Näsvall K, Boman J, Talla V, Backström N
Genome Biol Evol 15 (8) - [2023-08-01; online 2023-08-11]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Two different isoforms of osteopontin modulate myelination and axonal integrity.
Nilsson G, Mottahedin A, Zelco A, ..., Leavenworth JW, Wang X
FASEB Bioadv 5 (8) 336-353 [2023-08-00; online 2023-06-17]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Integrated Microscopy Technologies Gothenburg [Service]
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Synergy and oxygen adaptation for development of next-generation probiotics.
Khan MT, Dwibedi C, Sundh D, ..., Lorentzon M, Bäckhed F
Nature 620 (7973) 381-385 [2023-08-00; online 2023-08-02]
Bioinformatics Support for Computational Resources [Service]
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Surface decontamination of explanted peri-implantitis-affected implants.
Ichioka Y, Derks J, Larsson L, Berglundh T
J Clin Periodontol 50 (8) 1113-1122 [2023-08-00; online 2023-06-04]
Integrated Microscopy Technologies Gothenburg [Service]
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Solid-phase capture and profiling of open chromatin by spatial ATAC.
Llorens-Bobadilla E, Zamboni M, Marklund M, ..., Frisén J, Ståhl PL
Nat. Biotechnol. 41 (8) 1085-1088 [2023-08-00; online 2023-01-05]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Spatial omics NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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STE20-type kinases MST3 and MST4 promote the progression of hepatocellular carcinoma: Evidence from human cell culture and expression profiling of liver biopsies.
Caputo M, Xia Y, Anand SK, ..., Peter A, Mahlapuu M
FASEB J. 37 (8) e23105 [2023-08-00; online 2023-07-25]
Glycoproteomics and MS Proteomics [Service]
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SARS-CoV-2 Antibodies in Commercial Immunoglobulin Products Show Markedly Reduced Cross-reactivities Against Omicron Variants.
Lindahl H, Chen P, Åberg M, ..., Smith CIE, Bergman P
J Clin Immunol 43 (6) 1075-1082 [2023-08-00; online 2023-04-14]
Affinity Proteomics Uppsala [Collaborative]
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Ribonuclease inhibitor 1 (RNH1) deficiency cause congenital cataracts and global developmental delay with infection-induced psychomotor regression and anemia.
Hedberg-Oldfors C, Mitra S, Molinaro A, ..., Sterky FH, Darin N
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Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Chen P, Bergman P, Blennow O, ..., Aleman S, Ljunggren H
EBioMedicine 94 (-) 104700 [2023-08-00; online 2023-07-13]
Affinity Proteomics Uppsala [Collaborative]
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Swedish NMR Centre [Service]
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Nascent evolution of recombination rate differences as a consequence of chromosomal rearrangements.
Näsvall K, Boman J, Höök L, ..., Wiklund C, Backström N
PLoS Genet. 19 (8) e1010717 [2023-08-00; online 2023-08-07]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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N-terminal proteoforms may engage in different protein complexes.
Bogaert A, Fijalkowska D, Staes A, ..., Calderwood MA, Gevaert K
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Spatial Proteomics [Collaborative]
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Mucosal IgA protects against BQ.1 and BQ.1.1 infection.
Marking U, Bladh O, Havervall S, ..., Klingström J, Thålin C
Lancet Infect Dis 23 (8) e272-e273 [2023-08-00; online 2023-07-12]
Affinity Proteomics Uppsala [Collaborative]
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Methylation of lysine 36 on histone H3 is required to control transposon activities in somatic cells.
Lindehell H, Schwartz YB, Larsson J
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mapping the Human Chondroitin Sulfate Glycoproteome Reveals an Unexpected Correlation Between Glycan Sulfation and Attachment Site Characteristics.
Noborn F, Nilsson J, Sihlbom C, ..., Kjellén L, Larson G
Mol. Cell Proteomics 22 (8) 100617 [2023-08-00; online 2023-07-14]
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Low-grade intestinal inflammation two decades after pelvic radiotherapy.
Devarakonda S, Thorsell A, Hedenström P, ..., Steineck G, Bull C
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Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Glycoproteomics and MS Proteomics [Collaborative]
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Local and Systemic Immunity During Five Vaccinations Against SARS-CoV-2 in Zanubrutinib-Treated Patients With Chronic Lymphocytic Leukemia.
Andersson M, Wu J, Wullimann D, ..., Ingelman-Sundberg HM, Osterborg A
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Affinity Proteomics Uppsala [Service]
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Large-scale benchmarking of circRNA detection tools reveals large differences in sensitivity but not in precision.
Vromman M, Anckaert J, Bortoluzzi S, ..., Vandesompele J, Volders PJ
Nat. Methods 20 (8) 1159-1169 [2023-08-00; online 2023-07-13]
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Historical RNA expression profiles from the extinct Tasmanian tiger.
Mármol-Sánchez E, Fromm B, Oskolkov N, ..., Dalén L, Friedländer MR
Genome Res. 33 (8) 1299-1316 [2023-08-00; online 2023-07-18]
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Sevelsted A, Pedersen CT, Gürdeniz G, ..., Chawes B, Bisgaard H
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Exposomics [Collaborative]
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Examining neurodevelopmental problems in 15q11.2 (BP1-BP2) copy number variation carriers at ages 9/12 and 18 in a Swedish twin sample.
Jonsson L, Martin J, Lichtenstein P, ..., Westberg L, Tammimies K
Mol Genet Genomic Med 11 (8) e2191 [2023-08-00; online 2023-05-08]
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Evaluation of genetic demultiplexing of single-cell sequencing data from model species.
Cardiello JF, Joven Araus A, Giatrellis S, ..., Simon A, Leigh ND
Life Sci. Alliance 6 (8) e202301979 [2023-08-00; online 2023-05-17]
NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Engineering of layered iron vanadate nanostructure for electrocatalysis: Simultaneous detection of methotrexate and folinic acid in blood serum
Adeniyi KO, Osmanaj B, Manavalan G, ..., Boily JF, Tesfalidet S
Electrochimica Acta 458 (-) 142538 [2023-08-00; online 2023-08-00]
Integrated Microscopy Technologies Umeå [Service]
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Direct additive genetics and maternal effect contribute to the risk of Tourette disorder.
Mahjani B, Klei L, Buxbaum Grice AS, ..., Buxbaum JD, Grice DE
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Bioinformatics Support for Computational Resources [Service]
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Differential DNA Methylation of MicroRNA-Encoding Genes in Psoriatic Epidermis Highlights the Wnt Pathway.
Verma D, Kasic NK, Jeppsson F, ..., Das J, Enerbäck C
J. Invest. Dermatol. 143 (8) 1594-1597.e14 [2023-08-00; online 2023-02-27]
Clinical Genomics [Collaborative] Clinical Genomics Linköping [Collaborative]
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Clones on the run: The genomics of a recently expanded partially clonal species.
Pereyra RT, Rafajlović M, De Wit P, ..., Töpel M, Johannesson K
Mol. Ecol. 32 (15) 4209-4223 [2023-08-00; online 2023-05-18]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Characterisation of a low methane emission rice cultivar suitable for cultivation in high latitude light and temperature conditions.
Hu J, Bettembourg M, Moreno S, ..., Sundström J, Jin Y
Environ Sci Pollut Res 30 (40) 92950-92962 [2023-08-00; online 2023-07-27]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A genomic platform for surveillance and antigen discovery in Plasmodium spp. using long-read amplicon sequencing
Plaza DF, Zerebinski J, Broumou I, ..., Sundling C, Färnert A
Cell Reports Methods - (-) 100574 [2023-08-00; online 2023-08-00]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Observation of defect density dependent elastic modulus of graphene
Li H, Gürbüz E, Haldar S, ..., Sanyal B, Leifer K
- 123 (5) - [2023-07-31; online 2023-08-02]
Bioinformatics Support for Computational Resources [Service]
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Transposable element insertions in 1000 Swedish individuals.
Bilgrav Saether K, Nilsson D, Thonberg H, ..., Eisfeldt J, Lindstrand A
PLoS ONE 18 (7) e0289346 [2023-07-28; online 2023-07-28]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Register-based and genetic studies of Prader-Willi syndrome show a high frequency of gonadal tumors and a possible mechanism for tumorigenesis through imprinting relaxation.
Maya-González C, Wessman S, Lagerstedt-Robinson K, ..., Skarin Nordenvall A, Nordgren A
Front Med (Lausanne) 10 (-) 1172565 [2023-07-28; online 2023-07-28]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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scDual-Seq of Toxoplasma gondii-infected mouse BMDCs reveals heterogeneity and differential infection dynamics.
Hildebrandt F, Mohammed M, Dziedziech A, ..., Henriksson J, Ankarklev J
Front Immunol 14 (-) 1224591 [2023-07-27; online 2023-07-27]
Bioinformatics Support for Computational Resources [Service] Microbial Single Cell Genomics [Technology development] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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PVT1 interacts with polycomb repressive complex 2 to suppress genomic regions with pro-apoptotic and tumour suppressor functions in multiple myeloma.
Nylund P, Garrido-Zabala B, Párraga AA, ..., Kalushkova A, Wiklund HJ
Haematologica - (-) - [2023-07-27; online 2023-07-27]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Nucleobase catalysts for the enzymatic activation of 8-oxoguanine DNA glycosylase 1
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chemrxiv - (-) - [2023-07-27; online 2023-07-27]
Chemical Biology Consortium Sweden [Service]
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Spatial lipidomics reveals brain region-specific changes of sulfatides in an experimental MPTP Parkinson's disease primate model.
Kaya I, Nilsson A, Luptáková D, ..., Bezard E, Andrén PE
NPJ Parkinsons Dis 9 (1) 118 [2023-07-26; online 2023-07-26]
Spatial Mass Spectrometry [Technology development]
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Cutaneous squamous cell carcinoma-derived extracellular vesicles exert an oncogenic role by activating cancer-associated fibroblasts.
Li C, Sun C, Lohcharoenkal W, ..., Sonkoly E, Pivarcsi A
Cell Death Discov 9 (1) 260 [2023-07-26; online 2023-07-26]
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Ciclopirox Ethanolamine Preserves the Immature State of Human HSCs by Mediating Intracellular Iron Content.
Safaee Talkhoncheh M, Baudet A, Ek F, ..., Will B, Larsson J
Blood Adv - (-) - [2023-07-24; online 2023-07-24]
Chemical Biology Consortium Sweden [Collaborative]
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An Okinawan-Based Nordic Diet Leads to Profound Effects on Gut Microbiota and Plasma Metabolites Linked to Glucose and Lipid Metabolism.
Manoharan L, Roth B, Bang C, Stenlund H, Ohlsson B
Nutrients 15 (14) - [2023-07-24; online 2023-07-24]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Swedish Metabolomics Centre [Collaborative]
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Multiyear analysis uncovers coordinated seasonality in stocks and composition of the planktonic food web in the Baltic Sea proper.
Fridolfsson E, Bunse C, Lindehoff E, ..., Legrand C, Hylander S
Sci Rep 13 (1) 11865 [2023-07-22; online 2023-07-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Vegetation, topography, and soil depth drive microbial community structure in two Swedish grasslands.
Guasconi D, Juhanson J, Clemmensen KE, ..., Roth N, Fransson P
FEMS Microbiol. Ecol. 99 (8) - [2023-07-21; online 2023-07-21]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Transplantation of gut microbiota from old mice into young healthy mice reduces lean mass but not bone mass.
Lawenius L, Cowardin C, Grahnemo L, ..., Sjögren K, Ohlsson C
Gut Microbes 15 (1) 2236755 [2023-07-21; online 2023-07-21]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Thumb-domain dynamics modulate the functional repertoire of DNA-Polymerase IV (DinB).
Okeke DC, Lidman J, Matečko-Burmann I, Burmann BM
Nucleic Acids Res. 51 (13) 7036-7052 [2023-07-21; online 2023-06-01]
Swedish NMR Centre [Service]
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Survivin prevents the polycomb repressor complex 2 from methylating histone 3 lysine 27.
Jensen M, Chandrasekaran V, García-Bonete MJ, ..., Bokarewa I M, Katona G
iScience 26 (7) 106976 [2023-07-21; online 2023-05-29]
Swedish NMR Centre [Collaborative]
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Proteomics identifies lipocalin-2 in neonatal inflammation associated with cerebrovascular alteration in mice and preterm infants.
Gravina G, Ardalan M, Chumak T, ..., Hellström A, Mallard C
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Iron age genomic data from Althiburos - Tunisia renew the debate on the origins of African taurine cattle.
Ginja C, Guimarães S, da Fonseca RR, ..., Pires AE, Valenzuela-Lamas S
iScience 26 (7) 107196 [2023-07-21; online 2023-06-24]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A machine learning based approach to identify carotid subclinical atherosclerosis endotypes.
Chen QS, Bergman O, Ziegler L, ..., Gigante B, IMPROVE study group
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Affinity Proteomics Uppsala [Service]
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FAVIS: Fast and versatile protocol for non-destructive metabarcoding of bulk insect samples.
Iwaszkiewicz-Eggebrecht E, Łukasik P, Buczek M, ..., Ronquist F, Miraldo A
PLoS ONE 18 (7) e0286272 [2023-07-19; online 2023-07-19]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Salicylic acid metabolism and signalling coordinate senescence initiation in aspen in nature.
Lihavainen J, Šimura J, Bag P, ..., Ljung K, Jansson S
Nat Commun 14 (1) 4288 [2023-07-18; online 2023-07-18]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre [Service]
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ReprogrammingYarrowia lipolyticametabolism for efficient synthesis of itaconic acid from flask to semi-pilot scale
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biorxiv - (-) - [2023-07-18; online 2023-07-18]
Chalmers Mass Spectrometry Infrastructure [Service]
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Exposomics [Technology development]
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Next generation pan-cancer blood proteome profiling using proximity extension assay.
Álvez MB, Edfors F, von Feilitzen K, ..., Fagerberg L, Uhlén M
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Affinity Proteomics Uppsala [Collaborative] Bioinformatics Support for Computational Resources [Service] NGI Proteomics [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Comparative transcriptome profiling provides insights into the growth promotion activity of Pseudomonas fluorescens strain SLU99 in tomato and potato plants.
Hanifah NASB, Ghadamgahi F, Ghosh S, ..., Vetukuri RR, Kalyandurg PB
Front Plant Sci 14 (-) 1141692 [2023-07-18; online 2023-07-18]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Serum proteome profiles in patients treated with targeted temperature management after out-of-hospital cardiac arrest.
Lileikyte G, Bakochi A, Ali A, ..., Malmström J, Nielsen N
Intensive Care Med Exp 11 (1) 43 [2023-07-17; online 2023-07-17]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Impact of xylan on field productivity and wood saccharification properties in aspen.
Derba-Maceluch M, Sivan P, Donev EN, ..., Jönsson LJ, Mellerowicz EJ
Front Plant Sci 14 (-) 1218302 [2023-07-17; online 2023-07-17]
Swedish Metabolomics Centre [Service]
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Biosensor-Assisted Laboratory Evolution of Malonyl-CoA production inSaccharomyces cerevisiae
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biorxiv - (-) - [2023-07-17; online 2023-07-17]
Chalmers Mass Spectrometry Infrastructure [Service]
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Restoring tumor immunogenicity with dendritic cell reprogramming.
Zimmermannova O, Ferreira AG, Ascic E, ..., Svane IM, Pereira CF
Sci Immunol 8 (85) eadd4817 [2023-07-14; online 2023-07-07]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Resolving the Pathogenesis of Anaplastic Wilms Tumors through Spatial Mapping of Cancer Cell Evolution.
Rastegar B, Andersson N, Petersson A, ..., Holmquist Mengelbier L, Gisselsson D
Clin. Cancer Res. 29 (14) 2668-2677 [2023-07-14; online 2023-05-04]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Absence of gut microbiota reduces neonatal survival and exacerbates liver disease in Cyp2c70-deficient mice with a human-like bile acid composition.
Sjöland W, Wahlström A, Makki K, ..., Bäckhed F, Marschall HU
Clin Sci (Lond) 137 (13) 995-1011 [2023-07-14; online 2023-06-29]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Irradiation and lithium treatment alter the global DNA methylation pattern and gene expression underlying a shift from gliogenesis towards neurogenesis in human neural progenitors.
Neofytou C, Backlund A, Blomgren K, Hermanson O
Transl Psychiatry 13 (1) 258 [2023-07-13; online 2023-07-13]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Quantitative Nanoscale Secondary Ion Mass Spectrometry (NanoSIMS) Imaging of Individual Vesicles to Investigate the Relation between Fraction of Chemical Release and Vesicle Size.
Nguyen TDK, Rabasco S, Lork AA, Toit AD, Ewing AG
Angew. Chem. Int. Ed. Engl. 62 (28) e202304098 [2023-07-10; online 2023-06-05]
Integrated Microscopy Technologies Gothenburg [Technology development]
DOI Crossref
Giant spin-splitting and tunable spin-momentum locked transport in room temperature collinear antiferromagnetic semimetallic CrO monolayer
Chen X, Wang D, Li L, Sanyal B
- 123 (2) - [2023-07-10; online 2023-07-11]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Autologous hematopoietic stem cell transplantation significantly alters circulating ceramides in peripheral blood of relapsing-remitting multiple sclerosis patients.
Vaivade A, Wiberg A, Khoonsari PE, ..., Burman J, Kultima K
Lipids Health Dis 22 (1) 97 [2023-07-07; online 2023-07-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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A new G-quadruplex-specific photosensitizer inducing genome instability in cancer cells by triggering oxidative DNA damage and impeding replication fork progression.
Deiana M, Andrés Castán JM, Josse P, ..., Cabanetos C, Sabouri N
Nucleic Acids Res. 51 (12) 6264-6285 [2023-07-07; online 2023-05-16]
Swedish NMR Centre [Service]
PubMed DOI Crossref
High-level in vitro resistance to gentamicin acquired in a stepwise manner in Neisseria gonorrhoeae.
Golparian D, Jacobsson S, Holley CL, Shafer WM, Unemo M
J. Antimicrob. Chemother. 78 (7) 1769-1778 [2023-07-05; online 2023-05-30]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Effects of FODMAPs and Gluten on Gut Microbiota and Their Association with the Metabolome in Irritable Bowel Syndrome: A Double-Blind, Randomized, Cross-Over Intervention Study.
Nordin E, Hellström PM, Dicksved J, ..., Landberg R, Brunius C
Nutrients 15 (13) - [2023-07-05; online 2023-07-05]
Bioinformatics Support for Computational Resources [Service] Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
Breeze 2.0: an interactive web-tool for visual analysis and comparison of drug response data.
Potdar S, Ianevski F, Ianevski A, ..., Aittokallio T, Saarela J
Nucleic Acids Res. 51 (W1) W57-W61 [2023-07-05; online 2023-05-14]
Chemical Biology Consortium Sweden [Collaborative]
PubMed DOI Crossref
A chromosome-level genome assembly for the Rock Ptarmigan (Lagopus muta).
Squires TE, Rödin-Mörch P, Formenti G, ..., Höglund J, Magnússon KP
G3 (Bethesda) 13 (7) - [2023-07-05; online 2023-05-04]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Vascular endothelial growth factor-D plasma levels and VEGFD genetic variants are independently associated with outcomes in patients with cardiovascular disease.
Davidsson P, Eketjäll S, Eriksson N, ..., White H, Wallentin L
Cardiovasc. Res. 119 (7) 1596-1605 [2023-07-04; online 2023-03-05]
Affinity Proteomics Uppsala [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Cardiomyocyte-specific PCSK9 deficiency compromises mitochondrial bioenergetics and heart function.
Laudette M, Lindbom M, Arif M, ..., Levin MC, Borén J
Cardiovasc. Res. 119 (7) 1537-1552 [2023-07-04; online 2023-03-08]
Integrated Microscopy Technologies Gothenburg [Service]
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Bone mineral density loci specific to the skull portray potential pleiotropic effects on craniosynostosis.
Medina-Gomez C, Mullin BH, Chesi A, ..., Kague E, Rivadeneira F
Commun Biol 6 (1) 691 [2023-07-04; online 2023-07-04]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Physical Activity, Sedentary Behavior, and Type 2 Diabetes: Mendelian Randomization Analysis.
Yuan S, Li X, Liu Q, ..., Burgess S, Larsson SC
J Endocr Soc 7 (8) bvad090 [2023-07-03; online 2023-06-26]
Affinity Proteomics Uppsala [Service]
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Loss of ctnnd2b affects neuronal differentiation and behavior in zebrafish.
Vaz R, Edwards S, Dueñas-Rey A, Hofmeister W, Lindstrand A
Front. Neurosci. 17 (-) 1205653 [2023-07-03; online 2023-07-03]
Integrated Microscopy Technologies Stockholm [Service]
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Incidence and Characteristics in Children with Post-COVID-19 Condition in Sweden.
Bygdell M, Kindblom JM, Martikainen J, Li H, Nyberg F
JAMA Netw Open 6 (7) e2324246 [2023-07-03; online 2023-07-03]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Domain landscapes of somatic NF1 mutations in pheochromocytoma and paraganglioma.
Tabebi M, Frikha F, Volpe M, Gimm O, Söderkvist P
Gene 872 (-) 147432 [2023-07-01; online 2023-04-14]
Clinical Genomics [Collaborative] Clinical Genomics Linköping [Collaborative]
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Arabinoxylan supplemented bread: From extraction of fibers to effect of baking, digestion, and fermentation.
Zhang D, Rudjito RC, Pietiäinen S, ..., Vilaplana F, Jiménez-Quero A
Food Chem 413 (-) 135660 [2023-07-01; online 2023-02-10]
Swedish NMR Centre [Service]
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Whole exome sequencing of FFPE samples-expanding the horizon of forensic molecular autopsies.
Adolfsson E, Kling D, Gunnarsson C, ..., Gréen H, Gréen A
Int J Legal Med 137 (4) 1215-1234 [2023-07-00; online 2022-11-08]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Urodrill - a novel MRI-guided endoscopic biopsy technique to sample and molecularly classify muscle-invasive bladder cancer without fractionating the specimen during transurethral resection.
Eriksson P, Berg J, Bernardo C, ..., Zackrisson S, Liedberg F
Eur Urol Open Sci 53 (-) 78-82 [2023-07-00; online 2023-06-02]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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The organization of double-stranded RNA in the chikungunya virus replication organelle.
Laurent T, Carlson L
PLoS Negl Trop Dis 17 (7) e0011404 [2023-07-00; online 2023-07-05]
Cryo-EM [Service]
DOI Crossref
The influence of the capping ligands on the optoelectronic performance, morphology, and ion liberation of CsPbBr3 perovskite quantum dots
Liu Y, Tang S, Gao Z, ..., Edman L, Wang J
Nano Res. 16 (7) 10626-10633 [2023-07-00; online 2023-04-19]
Integrated Microscopy Technologies Umeå [Service]
DOI Crossref
Role of the supports during phosphorus poisoning of diesel oxidation catalysts
Ho PH, Shao J, Yao D, ..., Creaser D, Olsson L
Chemical Engineering Journal 468 (-) 143548 [2023-07-00; online 2023-07-00]
Swedish NMR Centre [Service]
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Proteomic and transcriptomic screening demonstrates increased mast cell-derived CCL23 in systemic mastocytosis.
Söderlund S, Boey D, van Midden W, ..., Dahlin JS, Ungerstedt J
J. Allergy Clin. Immunol. 152 (1) 205-213 [2023-07-00; online 2023-02-21]
NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Plasma levels of per- and polyfluoroalkyl substances (PFAS) are associated with altered levels of proteins previously linked to inflammation, metabolism and cardiovascular disease.
Dunder L, Salihovic S, Lind PM, Elmståhl S, Lind L
Environ Int 177 (-) 107979 [2023-07-00; online 2023-05-24]
Affinity Proteomics Uppsala [Service]
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N-Arylation of primary and tertiary sulfonimidamides (SIAs) with benzyne precursors under transition metal-free conditions
Ambala S, Govender KB, Rajbongshi KK, ..., Naicker T, Arvidsson PI
Tetrahedron Letters 124 (-) 154583 [2023-07-00; online 2023-07-00]
Drug Discovery and Development [Technology development]
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Multiplex protein analysis and ensemble machine learning methods of fine needle aspirates from prostate cancer patients reveal potential diagnostic signatures associated with tumour grade.
Röbeck P, Franzén B, Cantera-Ahlman R, ..., Häggman M, Ladjevardi S
Cytopathology 34 (4) 286-294 [2023-07-00; online 2023-03-20]
Affinity Proteomics Uppsala [Service]
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Mucosal immune responses following a fourth SARS-CoV-2 vaccine dose.
Bladh O, Marking U, Havervall S, ..., Klingström J, Thålin C
Lancet Microbe 4 (7) e488 [2023-07-00; online 2023-04-20]
Affinity Proteomics Uppsala [Collaborative]
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Metabolic profiles reflect weight loss maintenance and the composition of diet after very-low-energy diet.
Näätänen M, Kårlund A, Mikkonen S, ..., Hanhineva K, Kolehmainen M
Clin Nutr 42 (7) 1126-1141 [2023-07-00; online 2023-05-17]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Individualised human phenotype ontology gene panels improve clinical whole exome and genome sequencing analytical efficacy in a cohort of developmental and epileptic encephalopathies.
Henry OJ, Stödberg T, Båtelson S, ..., Stranneheim H, Wedell A
Mol Genet Genomic Med 11 (7) e2167 [2023-07-00; online 2023-03-26]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Immunological protein profiling of first-episode psychosis patients identifies CSF and blood biomarkers correlating with disease severity.
Eren F, Schwieler L, Orhan F, ..., Engberg G, Erhardt S
Brain, Behavior, and Immunity 111 (-) 376-385 [2023-07-00; online 2023-05-04]
Affinity Proteomics Stockholm [Service]
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Human resident liver myeloid cells protect against metabolic stress in obesity.
Barreby E, Strunz B, Nock S, ..., Chen P, Aouadi M
Nat Metab 5 (7) 1188-1203 [2023-07-00; online 2023-07-06]
Spatial Proteomics [Service]
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High temperature interactions between K-rich biomass ash and MgO-based refractories
Wagri NK, Carlborg M, Eriksson M, ..., Broström M, Andersson BM
Journal of the European Ceramic Society 43 (8) 3770-3777 [2023-07-00; online 2023-07-00]
Integrated Microscopy Technologies Umeå [Service]
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Forest Fire Influence on Tomicus piniperda-Associated Fungal Communities and Phloem Nutrient Availability of Colonized Pinus sylvestris.
Kluting K, Strid Y, Six D, Rosling A
Microb. Ecol. 86 (1) 224-239 [2023-07-00; online 2022-07-13]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Forensic prediction of sex, age, height, body mass index, hip-to-waist ratio, smoking status and lipid lowering drugs using epigenetic markers and plasma proteins.
Llobet MO, Johansson Å, Gyllensten U, Allen M, Enroth S
Forensic Sci Int Genet 65 (-) 102871 [2023-07-00; online 2023-04-07]
Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Expanding the phenotype of Seckel syndrome associated with biallelic loss-of-function variants in CEP63.
Pekkola Pacheco N, Pettersson M, Lindstrand A, Grigelioniene G
Am. J. Med. Genet. A 191 (7) 1929-1934 [2023-07-00; online 2023-04-05]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Esr1+ hypothalamic-habenula neurons shape aversive states.
Calvigioni D, Fuzik J, Le Merre P, ..., Carlén M, Meletis K
Nat. Neurosci. 26 (7) 1245-1255 [2023-07-00; online 2023-06-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Environmental stress during larval development induces DNA methylation shifts in the migratory painted lady butterfly (Vanessa cardui).
Boman J, Zhu Y, Höök L, ..., Talavera G, Backström N
Mol. Ecol. 32 (13) 3513-3523 [2023-07-00; online 2023-04-23]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Core genome multilocus sequence typing (cgMLST) confirms systemic spread of avian pathogenic Escherichia coli (APEC) in broilers with cellulitis.
Jonare L, Östlund E, Söderlund R, ..., Aspán A, Jansson DS
Vet. Microbiol. 282 (-) 109755 [2023-07-00; online 2023-04-24]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Complex life cycles drive community assembly through immigration and adaptive diversification.
Saltini M, Vasconcelos P, Rueffler C
Ecol. Lett. 26 (7) 1084-1094 [2023-07-00; online 2023-05-01]
Bioinformatics Support for Computational Resources [Service]
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Actionable cancer vulnerability due to translational arrest, p53 aggregation and ribosome biogenesis stress evoked by the disulfiram metabolite CuET.
Kanellis DC, Zisi A, Skrott Z, ..., Lindström MS, Bartek J
Cell Death Differ. 30 (7) 1666-1678 [2023-07-00; online 2023-05-04]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A phase I prospective, non-randomized trial of autologous dendritic cell-based cryoimmunotherapy in patients with metastatic castration-resistant prostate cancer.
Thomsen LCV, Honoré A, Reisæter LAR, ..., Kalland KH, Beisland C
Cancer Immunol. Immunother. 72 (7) 2357-2373 [2023-07-00; online 2023-03-20]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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A model of photosynthetic CO2 assimilation in C3 leaves accounting for respiration and energy recycling by the plastidial oxidative pentose phosphate pathway.
Wieloch T, Augusti A, Schleucher J
New Phytol. 239 (2) 518-532 [2023-07-00; online 2023-05-23]
Swedish NMR Centre [Collaborative]
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Transport Properties of Protic Ionic Liquids Based on Triazolium and Imidazolium: Development of an Air-Free Conductivity Setup.
Morais EM, Idström A, Evenäs L, Martinelli A
Molecules 28 (13) - [2023-06-30; online 2023-06-30]
Swedish NMR Centre [Service]
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Single cell-resolutionin situsequencing elucidates spatial dynamics of multiple sclerosis lesion and disease evolution
Langseth CM, Kukanja P, Rubio Rodríguez-Kirby LA, ..., Nilsson M, Castelo-Branco G
biorxiv - (-) - [2023-06-30; online 2023-06-30]
Bioinformatics Support for Computational Resources [Service] In Situ Sequencing [Service]
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Elevated levels of MMP12 sourced from macrophages are associated with poor prognosis in urothelial bladder cancer.
Kerzeli IK, Kostakis A, Türker P, ..., Lord M, Mangsbo SM
BMC Cancer 23 (1) 605 [2023-06-30; online 2023-06-30]
Affinity Proteomics Uppsala [Service]
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Combined effects of isolation temperature and pH on functionality and beany flavor of pea protein isolates for meat analogue applications.
Sajib M, Forghani B, Kumar Vate N, Abdollahi M
Food Chem 412 (-) 135585 [2023-06-30; online 2023-01-27]
Chalmers Mass Spectrometry Infrastructure [Service]
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Screening autism-associated environmental factors in differentiating human neural progenitors with fractional factorial design-based transcriptomics.
Arora A, Becker M, Marques C, ..., Lanekoff I, Tammimies K
Sci Rep 13 (1) 10519 [2023-06-29; online 2023-06-29]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Quantification of metabolic niche occupancy dynamics in a Baltic Sea bacterial community.
Massing JC, Fahimipour AK, Bunse C, Pinhassi J, Gross T
mSystems 8 (3) e0002823 [2023-06-29; online 2023-05-31]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genetic markers associated with bone composition in Rhode Island Red laying hens.
Sallam M, Wilson PW, Andersson B, ..., De Koning DJ, Johnsson M
Genet. Sel. Evol. 55 (1) 44 [2023-06-29; online 2023-06-29]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Restricting Promiscuity of Plant Flavonoid 3'-Hydroxylase and 4'-O-Methyltransferase Improves the Biosynthesis of (2S)-Hesperetin in E. coli.
Liu J, Xiao Z, Zhang S, ..., Chen Y, Shan Y
J. Agric. Food Chem. 71 (25) 9826-9835 [2023-06-28; online 2023-06-13]
Chalmers Mass Spectrometry Infrastructure [Service]
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BTK and PLCG2 remain unmutated in one-third of patients with CLL relapsing on ibrutinib.
Bonfiglio S, Sutton LA, Ljungström V, ..., Rosenquist R, Ghia P
Blood Adv 7 (12) 2794-2806 [2023-06-27; online 2023-01-26]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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A Highly Substituted Ring-Fused 2-Pyridone Compound Targeting PrfA and the Efflux Regulator BrtA in Listeria monocytogenes.
Tükenmez H, Singh P, Sarkar S, ..., Almqvist F, Johansson J
MBio 14 (3) e0044923 [2023-06-27; online 2023-04-25]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Identification of potential biomarkers in active Lyme borreliosis.
Tjernberg I, Lager M, Furset Jensen G, ..., Brudin L, Henningsson AJ
PLoS ONE 18 (6) e0287586 [2023-06-26; online 2023-06-26]
Affinity Proteomics Uppsala [Service]
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Fluorometric Quantification of Total Cell-Free DNA as a Prognostic Biomarker in Non-Small-Cell Lung Cancer Patients Treated with Immune Checkpoint Blockade.
Oliver J, Onieva JL, Garrido-Barros M, ..., Rueda-Domínguez A, Barragán I
Cancers (Basel) 15 (13) - [2023-06-26; online 2023-06-26]
Bioinformatics Support for Computational Resources [Service]
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Ancient Sheep Genomes reveal four Millennia of North European Short-Tailed Sheep in the Baltic Sea region
Larsson MN, Miranda PM, Pan L, ..., Storå J, Günther T
bioRxiv - (-) - [2023-06-26; online 2023-06-26]
Ancient DNA [Service] Bioinformatics Support for Computational Resources [Service]
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MgO nanocube hydroxylation by nanometric water films.
Luong NT, Holmboe M, Boily JF
Nanoscale 15 (24) 10286-10294 [2023-06-23; online 2023-06-23]
Integrated Microscopy Technologies Umeå [Service]
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Case report: Extending the spectrum of clinical and molecular findings in FOXC1 haploinsufficiency syndrome.
Garza Flores A, Nordgren I, Pettersson M, ..., Nishimura G, Grigelioniene G
Front Genet 14 (-) 1174046 [2023-06-23; online 2023-06-23]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Unmodified rabies mRNA vaccine elicits high cross-neutralizing antibody titers and diverse B cell memory responses.
Hellgren F, Cagigi A, Arcoverde Cerveira R, ..., Petsch B, Loré K
Nat Commun 14 (1) 3713 [2023-06-22; online 2023-06-22]
Bioinformatics (NBIS) [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Thiobacillus as a key player for biofilm formation in oligotrophic groundwaters of the Fennoscandian Shield.
Lopez-Fernandez M, Westmeijer G, Turner S, ..., Bertilsson S, Dopson M
NPJ Biofilms Microbiomes 9 (1) 41 [2023-06-22; online 2023-06-22]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Dietary biomarkers and food records indicate compliance to study diets in the ADIRA (Anti-inflammatory Diet In Rheumatoid Arthritis) trial.
Wadell AT, Bärebring L, Hulander E, ..., Lindqvist H, Winkvist A
Front Nutr 10 (-) 1209787 [2023-06-22; online 2023-06-22]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Expanding the stdpopsim species catalog, and lessons learned for realistic genome simulations.
Lauterbur ME, Cavassim MIA, Gladstein AL, ..., Schrider DR, Gronau I
Elife 12 (-) - [2023-06-21; online 2023-06-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Microbial Profiling of Amniotic Fluid, Umbilical Blood and Placenta of the Foaling Mare.
Hemberg E, Niazi A, Guo Y, ..., Morrell JM, Kútvölgyi G
Animals (Basel) 13 (12) - [2023-06-18; online 2023-06-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Rapid Construction of a Chloromethyl-Substituted Duocarmycin-like Prodrug.
Bengtsson C, Gravenfors Y
Molecules 28 (12) - [2023-06-16; online 2023-06-16]
Drug Discovery and Development [Collaborative]
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Disease phenotype prediction in multiple sclerosis.
Herman S, Arvidsson McShane S, Zjukovskaja C, ..., Spjuth O, Kultima K
iScience 26 (6) 106906 [2023-06-16; online 2023-05-19]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Investigation of cellulose dissolution in morpholinium-based solvents: impact of solvent structural features on cellulose dissolution.
Naserifar S, Koschella A, Heinze T, Bernin D, Hasani M
RSC Adv. 13 (27) 18639-18650 [2023-06-15; online 2023-06-20]
Swedish NMR Centre [Service]
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Gene expression of S100a8/a9 predicts Staphylococcus aureus-induced septic arthritis in mice.
Deshmukh M, Subhash S, Hu Z, ..., Jin T, Kopparapu PK
Front Microbiol 14 (-) 1146694 [2023-06-15; online 2023-06-15]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Deciphering the contribution of microbial biomass to the properties of dissolved and particulate organic matter in anaerobic digestates.
Fernández-Domínguez D, Yekta SS, Hedenström M, Patureau D, Jimenez J
Sci. Total Environ. 877 (-) 162882 [2023-06-15; online 2023-03-17]
Swedish NMR Centre [Collaborative]
PubMed DOI Crossref
Human skin-resident CD8+ T cells require RUNX2 and RUNX3 for induction of cytotoxicity and expression of the integrin CD49a.
Zitti B, Hoffer E, Zheng W, ..., Eidsmo L, Bryceson YT
Immunity 56 (6) 1285-1302.e7 [2023-06-13; online 2023-06-02]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A Base‐Free, Low Temperature Click and Release Reaction for the In Situ Generation of Diazomethane
Schembri LS, Olaniran E, Söderström M, Skillinghaug B, Odell LR
Adv. Synth. Catal. 365 (11) 1839-1845 [2023-06-13; online 2023-05-23]
Spatial Mass Spectrometry [Service]
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Tailoring vascular phenotype through AAV therapy promotes anti-tumor immunity in glioma.
Ramachandran M, Vaccaro A, van de Walle T, ..., Essand M, Dimberg A
Cancer Cell 41 (6) 1134-1151.e10 [2023-06-12; online 2023-05-11]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service]
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Scalablein-vitroimmunostimulation of human blood for in-depth profiling of acute immune response effects
Reitzner SM, Brodin P, Mikeš J
biorxiv - (-) - [2023-06-11; online 2023-06-11]
Cellular Immunomonitoring [Collaborative]
DOI Crossref
Production and Characterization of Poly(3-hydroxybutyrate) from Halomonas boliviensis LC1 Cultivated in Hydrolysates of Quinoa Stalks
Miranda DA, Marín K, Sundman O, ..., Carrasco C, Martín C
Fermentation 9 (6) 556 [2023-06-10; online 2023-06-10]
Integrated Microscopy Technologies Umeå [Service] Swedish NMR Centre [Collaborative]
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Mutations in the CYP27B1 gene cause vitamin D dependent rickets in pugs.
Rohdin C, Wang C, Brander G, ..., Ljungvall I, Lindblad-Toh K
J. Vet. Intern. Med. 37 (4) 1507-1513 [2023-06-09; online 2023-06-09]
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Adipokines and risk of rheumatoid arthritis: A two-sample multivariable Mendelian randomisation study.
Vasileiadis GK, Sayols S, Zhao SS, Fatima T, Maglio C
PLoS ONE 18 (6) e0286981 [2023-06-09; online 2023-06-09]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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The clinical picture of ERCC6L2 disease: from bone marrow failure to acute leukemia.
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Blood 141 (23) 2853-2866 [2023-06-08; online 2023-03-24]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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biorxiv - (-) - [2023-06-08; online 2023-06-08]
Cellular Immunomonitoring [Collaborative]
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Epidemiology, validation, and clinical characteristics of inflammatory bowel disease: the ABIS birth cohort study.
Östensson M, Björkqvist O, Guo A, ..., Mårild K, Ludvigsson J
BMC Gastroenterol 23 (1) 199 [2023-06-08; online 2023-06-08]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Engineering Yeast to Improve Heterologous Abscisic Acid Production
Otto M, Gossing M, David F, Siewers V
biorxiv - (-) - [2023-06-08; online 2023-06-08]
Chalmers Mass Spectrometry Infrastructure [Service]
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Absence of changes in the milk microbiota during Escherichia coli endotoxin induced experimental bovine mastitis.
Dahlberg J, Johnzon CF, Sun L, ..., Östensson K, Dicksved J
Vet Res 54 (1) 46 [2023-06-08; online 2023-06-08]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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One, Two Three - Phosphaalkene Decoration Tailoring Solubility and Electronic Properties of Truxene-Based Electron Acceptors.
Shameem MA, Wells JAL, Gupta AK, Orthaber A
Chemistry 29 (32) e202300563 [2023-06-07; online 2023-04-25]
Bioinformatics Support for Computational Resources [Service]
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Mating modifies the expression of crucial oxidative-reductive transcripts in the pig oviductal sperm reservoir: is the female ensuring sperm survival?
Álvarez-Rodríguez M, Roca J, Martínez EA, Rodríguez-Martínez H
Front Endocrinol (Lausanne) 14 (-) 1042176 [2023-06-07; online 2023-06-07]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Challenges in supplying empirical proof for predictions derived from Species Distribution Models (SDMs): the case of an invasive cyanobacterium.
Meriggi C, Mehrshad M, Johnson RK, Laugen AT, Drakare S
ISME COMMUN. 3 (1) 56 [2023-06-06; online 2023-06-06]
Bioinformatics Support for Computational Resources [Service]
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Ablation of ZC3H11A causes early embryonic lethality and dysregulation of metabolic processes.
Younis S, Jouneau A, Larsson M, ..., Brochard V, Andersson L
Proc. Natl. Acad. Sci. U.S.A. 120 (23) e2216799120 [2023-06-06; online 2023-05-30]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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RegiSTORM: channel registration for multi-color stochastic optical reconstruction microscopy.
Øvrebø Ø, Ojansivu M, Kartasalo K, ..., Holme MN, Stevens MM
BMC Bioinformatics 24 (1) 237 [2023-06-05; online 2023-06-05]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Dysregulated peripheral proteome reveals NASH-specific signatures identifying patient subgroups with distinct liver biology.
Stiglund N, Hagström H, Stål P, Cornillet M, Björkström NK
Front Immunol 14 (-) 1186097 [2023-06-05; online 2023-06-05]
Affinity Proteomics Uppsala [Service]
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Haldrup J, Weiss S, Schmidt L, Sørensen KD
Sci Rep 13 (1) 9043 [2023-06-03; online 2023-06-03]
CRISPR Functional Genomics [Service]
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Flavodiiron-mediated O2 photoreduction at photosystem I acceptor-side provides photoprotection to conifer thylakoids in early spring.
Bag P, Shutova T, Shevela D, ..., Messinger J, Jansson S
Nat Commun 14 (1) 3210 [2023-06-03; online 2023-06-03]
Swedish Metabolomics Centre [Service]
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Small molecule-mediated disruption of ribosome biogenesis synergizes with FGFR inhibitors to suppress glioma cell growth
Zisi A, Kanellis DC, Moussaud S, ..., Bartek J, Lindström MS
Neuro-oncology 25 (6) 1058-1072 [2023-06-02; online 2022-12-30]
Chemical Biology Consortium Sweden [Collaborative]
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Creation of distinctive Bax-lipid complexes at mitochondrial membrane surfaces drives pore formation to initiate apoptosis.
Clifton LA, Wacklin-Knecht HP, Ådén J, ..., Sparrman T, Gröbner G
Sci Adv 9 (22) eadg7940 [2023-06-02; online 2023-06-02]
Swedish NMR Centre [Collaborative]
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Role of myeloid cells in system-level immunometabolic dysregulation during prolonged successful HIV-1 treatment.
Svensson Akusjärvi S, Krishnan S, Ambikan AT, ..., Sönnerborg A, Neogi U
AIDS 37 (7) 1023-1033 [2023-06-01; online 2023-03-21]
Swedish Metabolomics Centre [Service]
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Sci. Total Environ. 875 (-) 162604 [2023-06-01; online 2023-03-05]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Gomez-Garrido J, Cruz F, Alioto TS, ..., Otalora Acevedo KE, Baldo L
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NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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An annotated chromosome-scale reference genome for Eastern black-eared wheatear (Oenanthe melanoleuca).
Peona V, Palacios-Gimenez OM, Lutgen D, ..., Suh A, Burri R
G3 (Bethesda) 13 (6) - [2023-06-01; online 2023-04-25]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Transcriptome and metabolome profiling identify factors potentially involved in pro-vitamin A accumulation in cassava landraces.
Olayide P, Alexandersson E, Tzfadia O, ..., Gisel A, Stavolone L
Plant Physiol Biochem 199 (-) 107713 [2023-06-00; online 2023-04-24]
Swedish Metabolomics Centre [Service]
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The genomic basis and environmental correlates of local adaptation in the Atlantic horse mackerel (Trachurus trachurus).
Fuentes-Pardo AP, Farrell ED, Pettersson ME, Sprehn CG, Andersson L
Evol Appl 16 (6) 1201-1219 [2023-06-00; online 2023-06-06]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The evolutionary maintenance of ancient recombining sex chromosomes in the ostrich.
Yazdi HP, Olito C, Kawakami T, ..., Hansson B, Cornwallis CK
PLoS Genet. 19 (6) e1010801 [2023-06-00; online 2023-06-30]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The BioLymph study - implementing precision medicine approaches in lymphoma diagnostics, treatment and follow-up: feasibility and first results.
Smedby KE, Wästerlid T, Tham E, ..., Sonnevi K, Rosenquist R
Acta Oncol 62 (6) 560-564 [2023-06-00; online 2023-07-06]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Retention of essential fatty acids in fish differs by species, habitat use and nutritional quality of prey.
Bandara T, Brugel S, Andersson A, Lau DCP
Ecol Evol 13 (6) e10158 [2023-06-00; online 2023-06-01]
Swedish Metabolomics Centre [Service]
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Rehydration Post-orientation: Investigating Field-Induced Structural Changes via Computational Rehydration.
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Protein J 42 (3) 205-218 [2023-06-00; online 2023-04-08]
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Proteomic analysis reveals microvesicles containing NAMPT as mediators of radioresistance in glioma.
Panizza E, Regalado BD, Wang F, ..., Cerione RA, Antonyak MA
Life Sci. Alliance 6 (6) - [2023-06-00; online 2023-04-10]
Global Proteomics and Proteogenomics [Service]
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Science of The Total Environment 878 (-) 162741 [2023-06-00; online 2023-06-00]
Affinity Proteomics Stockholm [Service]
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Pathogenic antibody response to glucose-6-phosphate isomerase targets a modified epitope uniquely exposed on joint cartilage.
Li T, Ge C, Krämer A, ..., Gjertsson I, Holmdahl R
Ann. Rheum. Dis. 82 (6) 799-808 [2023-06-00; online 2023-03-01]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Northwest African Neolithic initiated by migrants from Iberia and Levant.
Simões LG, Günther T, Martínez-Sánchez RM, ..., Valdiosera C, Jakobsson M
Nature 618 (7965) 550-556 [2023-06-00; online 2023-06-07]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Multimodal chromatin profiling using nanobody-based single-cell CUT&Tag.
Bartosovic M, Castelo-Branco G
Nat. Biotechnol. 41 (6) 794-805 [2023-06-00; online 2022-12-19]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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High temperature interactions between coal ash and MgO-based refractories in lime kiln conditions
Wagri NK, Carlborg M, Eriksson M, ..., Broström M, Andersson BM
Fuel 342 (-) 127711 [2023-06-00; online 2023-06-00]
Integrated Microscopy Technologies Umeå [Service]
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Genome-wide association study and functional characterization identifies candidate genes for insulin-stimulated glucose uptake.
Williamson A, Norris DM, Yin X, ..., Fazakerley DJ, Langenberg C
Nat. Genet. 55 (6) 973-983 [2023-06-00; online 2023-06-08]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Diagnostic Yield From a Nationwide Implementation of Precision Medicine for all Children With Cancer.
Wadensten E, Wessman S, Abel F, ..., Gisselsson D, Genomic Medicine Sweden Childhood Cancer Working Group
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service] NGI Short read [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
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Koutarapu S, Ge J, Jha D, ..., Michno W, Hanrieder J
Brain Connect 13 (5) 297-306 [2023-06-00; online 2022-10-07]
Integrated Microscopy Technologies Gothenburg [Service]
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Contrasting plant-soil-microbial feedbacks stabilize vegetation types and uncouple topsoil C and N stocks across a subarctic-alpine landscape.
Castaño C, Hallin S, Egelkraut D, ..., Olofsson J, Clemmensen KE
New Phytol. 238 (6) 2621-2633 [2023-06-00; online 2022-12-29]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Climate change-related warming reduces thermal sensitivity and modifies metabolic activity of coastal benthic bacterial communities.
Seidel L, Broman E, Nilsson E, ..., Forsman A, Dopson M
ISME J 17 (6) 855-869 [2023-06-00; online 2023-03-28]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Di W, Ho PH, Achour A, ..., Olsson L, Creaser D
Journal of CO2 Utilization 72 (-) 102512 [2023-06-00; online 2023-06-00]
Swedish NMR Centre [Service]
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Atlas of mRNA translation and decay for bacteria.
Huch S, Nersisyan L, Ropat M, ..., Engstrand L, Pelechano V
Nat Microbiol 8 (6) 1123-1136 [2023-06-00; online 2023-05-22]
Bioinformatics Support for Computational Resources [Service]
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AdipoR2 recruits protein interactors to promote fatty acid elongation and membrane fluidity.
Ruiz M, Devkota R, Kaper D, ..., Borén J, Pilon M
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Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service]
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Accurate structure models and absolute configuration determination using dynamical effects in continuous-rotation 3D electron diffraction data.
Klar PB, Krysiak Y, Xu H, ..., Zou X, Palatinus L
Nat Chem 15 (6) 848-855 [2023-06-00; online 2023-04-20]
Cryo-EM [Service]
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Lees WD, Christley S, Peres A, ..., Busse CE, AIRR Community
Immunoinformatics (Amst) 10 (-) - [2023-06-00; online 2023-02-19]
Drug Discovery and Development [Service]
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A highly selective cell-based fluorescent biosensor for genistein detection
Chao LFI, Liu D, Siewers V
Engineering Microbiology 3 (2) 100078 [2023-06-00; online 2023-06-00]
Chalmers Mass Spectrometry Infrastructure [Service]
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Triazole fungicides induce adipogenesis and repress osteoblastogenesis in zebrafish.
Thrikawala S, Mesmar F, Bhattacharya B, ..., Williams C, Bondesson M
Toxicol. Sci. 193 (2) 119-130 [2023-05-31; online 2023-03-24]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Izadi A, Bahnan W, Ohlin M, Nordenfelt P
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Drug Discovery and Development [Service]
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Regulatory elements coordinating initiation of chromosome replication to the Escherichia coli cell cycle.
Knöppel A, Broström O, Gras K, Elf J, Fange D
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Bioinformatics Support for Computational Resources [Service]
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Discovery of non-reference processed pseudogenes in the Swedish population.
Ten Berk de Boer E, Bilgrav Saether K, Eisfeldt J
Front Genet 14 (-) 1176626 [2023-05-30; online 2023-05-30]
Bioinformatics Support for Computational Resources [Service]
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Unraveling effects of electron correlation in two-dimensional FenGeTe2 (n = 3, 4, 5) by dynamical mean field theory
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npj Comput Mater 9 (1) - [2023-05-29; online 2023-05-29]
Bioinformatics Support for Computational Resources [Service]
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Reduced cone photoreceptor function and subtle systemic manifestations in two siblings with loss of SCLT1.
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Ophthalmic Genet - (-) 1-8 [2023-05-29; online 2023-05-29]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Directionality of developing skeletal muscles is set by mechanical forces.
Sunadome K, Erickson AG, Kah D, ..., Fried K, Adameyko I
Nat Commun 14 (1) 3060 [2023-05-27; online 2023-05-27]
Integrated Microscopy Technologies Stockholm [Service]
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Large-scale phylogenomics of aquatic bacteria reveal molecular mechanisms for adaptation to salinity.
Jurdzinski KT, Mehrshad M, Delgado LF, ..., Bertilsson S, Andersson AF
Sci Adv 9 (21) eadg2059 [2023-05-26; online 2023-05-26]
Bioinformatics Support for Computational Resources [Service]
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Circular RNAs arising from synaptic host genes during human neuronal differentiation are modulated by SFPQ RNA-binding protein.
Watts ME, Oksanen M, Lejerkrans S, ..., Gorospe M, Tammimies K
BMC Biol. 21 (1) 127 [2023-05-26; online 2023-05-26]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Balancing selection on the complement system of a wild rodent.
Nandakumar M, Lundberg M, Carlsson F, Råberg L
BMC Ecol Evol 23 (1) 21 [2023-05-25; online 2023-05-25]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The Swedish childhood tumor biobank: systematic collection and molecular characterization of all pediatric CNS and other solid tumors in Sweden.
Díaz de Ståhl T, Shamikh A, Mayrhofer M, ..., Sandgren J, Nistér M
J Transl Med 21 (1) 342 [2023-05-23; online 2023-05-23]
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Hedberg P, Lau DCP, Albert S, Winder M
Limnol Oceanogr Letters - (-) - [2023-05-22; online 2023-05-22]
Swedish Metabolomics Centre [Service]
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Sequence enrichment profiles enable target-agnostic antibody generation for a broad range of antigens.
Mattsson J, Ljungars A, Carlsson A, ..., Ohlin M, Frendéus B
Cell Reports Methods 3 (5) 100475 [2023-05-22; online 2023-05-09]
Drug Discovery and Development [Service]
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RNA interactome capture in Escherichia coli globally identifies RNA-binding proteins.
Stenum TS, Kumar AD, Sandbaumhüter FA, ..., Jansson ET, Holmqvist E
Nucleic Acids Res. 51 (9) 4572-4587 [2023-05-22; online 2023-03-30]
Spatial Mass Spectrometry [Collaborative]
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Genome-encoded ABCF factors implicated in intrinsic antibiotic resistance in Gram-positive bacteria: VmlR2, Ard1 and CplR.
Obana N, Takada H, Crowe-McAuliffe C, ..., Wilson DN, Hauryliuk V
Nucleic Acids Res. 51 (9) 4536-4554 [2023-05-22; online 2023-03-24]
Cryo-EM [Service]
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Cisplatin toxicity is counteracted by the activation of the p38/ATF-7 signaling pathway in post-mitotic C. elegans.
Raj D, Kraish B, Martikainen J, ..., Kao G, Naredi P
Nat Commun 14 (1) 2886 [2023-05-20; online 2023-05-20]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service]
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Phase identification and discovery of hidden crystal forms in a polycrystalline pharmaceutical sample using high-throughput 3D electron diffraction
Lightowler M, Li S, Ou X, ..., Lu M, Xu H
chemrxiv - (-) - [2023-05-19; online 2023-05-19]
Cryo-EM [Technology development]
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Detoxified synthetic bacterial membrane vesicles as a vaccine platform against bacteria and SARS-CoV-2.
Park KS, Svennerholm K, Crescitelli R, ..., Farewell A, Lötvall J
J Nanobiotechnology 21 (1) 156 [2023-05-19; online 2023-05-19]
Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service]
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Cross-reactive EBNA1 immunity targets alpha-crystallin B and is associated with multiple sclerosis.
Thomas OG, Bronge M, Tengvall K, ..., Olsson T, Kockum I
Sci Adv 9 (20) eadg3032 [2023-05-19; online 2023-05-17]
Autoimmunity and Serology Profiling [Service]
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Sense and Screen-ability: Development of tuneable, biosensor-based screening platforms for abscisic acid
Otto M, Dabirian Y, David F, Siewers V
biorxiv - (-) - [2023-05-18; online 2023-05-18]
Chalmers Mass Spectrometry Infrastructure [Service]
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Multiple rearrangements and low inter- and intra-species mitogenome sequence variation in the Heterobasidion annosum s.l. species complex.
Himmelstrand K, Brandström Durling M, Karlsson M, Stenlid J, Olson Å
Front Microbiol 14 (-) 1159811 [2023-05-18; online 2023-05-18]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Exchange of Carbapenem-Resistant Escherichia coli Sequence Type 38 Intercontinentally and among Wild Bird, Human, and Environmental Niches.
Ahlstrom CA, Woksepp H, Sandegren L, Ramey AM, Bonnedahl J
Appl. Environ. Microbiol. - (-) e0031923 [2023-05-17; online 2023-05-17]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Disulfide-Bond-Induced Structural Frustration and Dynamic Disorder in a Peroxiredoxin from MAS NMR.
Troussicot L, Vallet A, Molin M, Burmann BM, Schanda P
J. Am. Chem. Soc. 145 (19) 10700-10711 [2023-05-17; online 2023-05-04]
Swedish NMR Centre [Service]
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The single-cell transcriptional landscape of innate and adaptive lymphocytes in pediatric-onset colitis.
Kokkinou E, Soini T, Pandey RV, ..., Rolandsdotter H, Mjösberg J
Cell Reports Medicine 4 (5) 101038 [2023-05-16; online 2023-05-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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DNA methylation variations and epigenetic aging in telomere biology disorders.
Carlund O, Norberg A, Osterman P, ..., Degerman S, Hultdin M
Sci Rep 13 (1) 7955 [2023-05-16; online 2023-05-16]
Clinical Genomics [Service] Clinical Genomics Umeå [Service]
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Soluble CD14 and osteoprotegerin associate with ankle-brachial index as a measure of arterial stiffness in patients with mild to moderate chronic kidney disease in a five-year prospective study.
Sendic S, Mansouri L, Hong M, ..., Lundahl J, Jacobson SH
Cardiorenal Med - (-) 1 [2023-05-15; online 2023-05-15]
Affinity Proteomics Stockholm [Collaborative]
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Metagenomic sequencing of human cardiac tissue reveals Microbial RNA which correlates with Toll-like receptor-associated inflammation in patients with heart disease.
Sandstedt J, Vukusic K, Dellgren G, ..., Mattsson Hultén L, Rotter Sopasakis V
Sci Rep 13 (1) 7884 [2023-05-15; online 2023-05-15]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Development of a machine learning framework for radiation biomarker discovery and absorbed dose prediction.
Andersson B, Langen B, Liu P, Dávila López M
Front Oncol 13 (-) 1156009 [2023-05-15; online 2023-05-15]
Clinical Genomics [Technology development] Clinical Genomics Gothenburg [Technology development]
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Complement C3a treatment accelerates recovery after stroke via modulation of astrocyte reactivity and cortical connectivity.
Stokowska A, Aswendt M, Zucha D, ..., Pekny M, Pekna M
J. Clin. Invest. 133 (10) - [2023-05-15; online 2023-05-15]
Integrated Microscopy Technologies Gothenburg [Service]
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Biomarkers of seafood intake during pregnancy - Pollutants versus fatty acids and micronutrients.
Stråvik M, Gustin K, Barman M, ..., Kippler M, Vahter M
Environ. Res. 225 (-) 115576 [2023-05-15; online 2023-03-05]
Chalmers Mass Spectrometry Infrastructure [Service]
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Can molecular dynamics be used to simulate biomolecular recognition?
Lüking M, van der Spoel D, Elf J, Tribello GA
J Chem Phys 158 (18) - [2023-05-14; online 2023-05-09]
Bioinformatics Support for Computational Resources [Service]
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The impact of immunomodulating treatment on the immunogenicity of COVID-19 vaccines in patients with immune-mediated inflammatory rheumatic diseases compared to healthy controls. A Swedish nationwide study (COVID19-REUMA).
Frodlund M, Nived P, Chatzidionysiou A, ..., Klareskog L, Kapetanovic MC
Vaccine 41 (20) 3247-3257 [2023-05-11; online 2023-04-04]
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Structural Proteomics [Collaborative]
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Díez-Del-Molino D, Dehasque M, Chacón-Duque JC, ..., van der Valk T, Dalén L
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Int J Mol Sci 24 (9) - [2023-05-08; online 2023-05-08]
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Lancet Reg Health Eur 30 (-) 100646 [2023-05-06; online 2023-05-06]
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Genome Biol Evol 15 (5) - [2023-05-05; online 2023-04-30]
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Parasit Vectors 16 (1) 156 [2023-05-01; online 2023-05-01]
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Dreos A, Ge J, Najera F, ..., Zetterberg H, Hanrieder J
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Kirilenko BM, Munegowda C, Osipova E, ..., Zoonomia Consortium‡ , Hiller M
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Osmanski AB, Paulat NS, Korstian J, ..., Lindblad-Toh K, Ray DA
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Christmas MJ, Kaplow IM, Genereux DP, ..., Lindblad-Toh K, Karlsson EK
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Science 380 (6643) eabl8189 [2023-04-28; online 2023-04-28]
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Sci Rep 13 (1) 6777 [2023-04-25; online 2023-04-25]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre [Service]
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Cryo-EM [Service] Global Proteomics and Proteogenomics [Service]
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Torinsson Naluai Å, Östensson M, Fowler PC, ..., Harandi AM, Bende M
Sci Rep 13 (1) 6592 [2023-04-21; online 2023-04-21]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Optimizing yeast for high-level production of kaempferol and quercetin.
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Chalmers Mass Spectrometry Infrastructure [Service]
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Identification of three bacterial species associated with increased appendicular lean mass: the HUNT study.
Grahnemo L, Nethander M, Coward E, ..., Hveem K, Ohlsson C
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Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Koskela von Sydow A, Lindqvist CM, Asghar N, ..., Mölling P, Stenmark B
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Clinical Genomics [Technology development] Clinical Genomics Örebro [Technology development]
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Colorectal cancer-derived small extracellular vesicles induce TGFβ1-mediated epithelial to mesenchymal transition of hepatocytes.
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Integrated Microscopy Technologies Gothenburg [Service]
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Characterization of the Mitochondrial Genetic Landscape in Abdominal Aortic Aneurysm.
Vats S, Sundquist K, Li Y, ..., Gottsäter A, Memon AA
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Affinity Proteomics Uppsala [Service] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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T-RHEX-RNAseq - a tagmentation-based, rRNA blocked, random hexamer primed RNAseq method for generating stranded RNAseq libraries directly from very low numbers of lysed cells.
Gustafsson C, Hauenstein J, Frengen N, ..., Luc S, Månsson R
BMC Genomics 24 (1) 205 [2023-04-17; online 2023-04-17]
Bioinformatics Support for Computational Resources [Service]
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Oxf Open Immunol 4 (1) iqad003 [2023-04-17; online 2023-04-17]
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Yu M, Charles A, Cagigi A, ..., Loré K, Smed-Sörensen A
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Animals (Basel) 13 (8) - [2023-04-14; online 2023-04-14]
Chalmers Mass Spectrometry Infrastructure [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Alzheimers Dement - (-) - [2023-04-12; online 2023-04-12]
Affinity Proteomics Stockholm [Collaborative]
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von Palffy S, Thorsson H, Peña-Martínez P, ..., Lilljebjörn H, Fioretos T
Blood Adv 7 (7) 1204-1218 [2023-04-11; online 2022-11-17]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Izadi A, Hailu A, Godzwon M, ..., Bahnan W, Nordenfelt P
Proc. Natl. Acad. Sci. U.S.A. 120 (15) e2217590120 [2023-04-11; online 2023-04-03]
Drug Discovery and Development [Service]
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SHP-1 localization to the activating immune synapse promotes NK cell tolerance in MHC class I deficiency.
Schmied L, Luu TT, Søndergaard JN, ..., Saeed MB, Höglund P
Sci Signal 16 (780) eabq0752 [2023-04-11; online 2023-04-11]
Integrated Microscopy Technologies Stockholm [Service]
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Nat Commun 14 (1) - [2023-04-10; online 2023-04-10]
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biorxiv - (-) - [2023-04-10; online 2023-04-10]
Bioinformatics Support for Computational Resources [Service]
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Chachaj A, Dudka I, Jeziorek M, ..., Adaszyńska A, Szuba A
Front Physiol 14 (-) 1099555 [2023-04-10; online 2023-04-10]
Swedish NMR Centre [Collaborative]
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Tang B, Li X, Wang Y, ..., Pedersen NL, Hägg S
Geroscience - (-) - [2023-04-10; online 2023-04-10]
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Diversity 15 (4) 539 [2023-04-09; online 2023-04-09]
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Nat Commun 14 (1) 1969 [2023-04-08; online 2023-04-08]
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Fraenkel CJ, Starlander G, Tano E, Sütterlin S, Melhus Å
Microorganisms 11 (4) - [2023-04-08; online 2023-04-08]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Cedeno M, Murillo-Saich J, Coras R, ..., Martinez-Morillo M, Guma M
Metabolomics 19 (4) 37 [2023-04-06; online 2023-04-06]
Swedish NMR Centre [Collaborative]
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Maitusong B, Laguzzi F, Strawbridge RJ, ..., Leander K, IMPROVE Study group†
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genome Med 15 (1) - [2023-04-05; online 2023-04-05]
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Magoulopoulou A, Salas SM, Tiklová K, ..., Hilscher MM, Nilsson M
Annu Rev Genomics Hum Genet - (-) - [2023-04-05; online 2023-04-05]
In Situ Sequencing [Collaborative]
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Zenlander R, Fredolini C, Schwenk JM, ..., Eggertsen G, Stål P
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Affinity Proteomics Stockholm [Collaborative]
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BMC Genomics 24 (1) 169 [2023-04-04; online 2023-04-04]
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Volpe M, Das J
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Red clover root-associated microbiota is shaped by geographic location and choice of farming system.
Jambagi S, Hodén KP, Öhlund L, Dixelius C
J Appl Microbiol 134 (4) - [2023-04-03; online 2023-04-04]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Immune-interacting lymphatic endothelial subtype at capillary terminals drives lymphatic malformation.
Petkova M, Kraft M, Stritt S, ..., Betsholtz C, Mäkinen T
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Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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J. Cell Biol. 222 (4) - [2023-04-03; online 2023-02-02]
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Nat Commun 14 (1) 1833 [2023-04-01; online 2023-04-01]
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Metabolomics 19 (4) 33 [2023-04-01; online 2023-04-01]
Swedish NMR Centre [Service]
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Evol Appl 16 (4) 797-813 [2023-04-00; online 2023-02-27]
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Hensvold A, Horuluoglu B, Sahlström P, ..., Malmström V, Grönwall C
J. Autoimmun. 136 (-) 103022 [2023-04-00; online 2023-03-29]
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Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Atherosclerosis 371 (-) 41-53 [2023-04-00; online 2023-03-22]
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Pediatr Allergy Immunol 34 (4) e13952 [2023-04-00; online 2023-04-27]
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Boström AED, Jamshidi E, Manu DM, ..., Åsberg M, Jokinen J
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Ghaffari R, Almqvist H, Idström A, ..., Lawoko M, Larsson A
Cellulose 30 (6) 3685-3698 [2023-04-00; online 2023-02-28]
Swedish NMR Centre [Service]
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Glycoproteomics and MS Proteomics [Service]
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Zhao B, Ngaloy R, Ghosh S, ..., Sanyal B, Dash SP
Adv Mater 35 (16) e2209113 [2023-04-00; online 2023-03-08]
Bioinformatics Support for Computational Resources [Service]
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Edfeldt G, Kaldhusdal V, Czarnewski P, ..., Kwon DS, Broliden K
Microbiome 11 (1) 67 [2023-03-31; online 2023-03-31]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Vono M, Mastelic-Gavillet B, Mohr E, ..., Lambert P, Siegrist C
Front Immunol 14 (-) 1155200 [2023-03-31; online 2023-03-31]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Lindberg FA, Nordenankar K, Forsberg EC, Fredriksson R
Genes 14 (4) - [2023-03-30; online 2023-03-30]
NGI Short read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre [Service]
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Zhang J, Abdollahi M, Ström A, Undeland I
Food Chem X 17 (-) 100592 [2023-03-30; online 2023-02-04]
Chalmers Mass Spectrometry Infrastructure [Service]
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Rönnberg E, Ravindran A, Mazzurana L, ..., Mjösberg J, Nilsson G
Front Immunol 14 (-) 1151754 [2023-03-30; online 2023-03-30]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Novel Insights into the Molecular Mechanisms Underlying Robustness and Stability in Probiotic Bifidobacteria.
Schöpping M, Goel A, Jensen K, ..., Franzén CJ, Zeidan AA
Appl. Environ. Microbiol. 89 (3) e0008223 [2023-03-29; online 2023-02-21]
Chalmers Mass Spectrometry Infrastructure [Service]
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Seidel L, Sachpazidou V, Ketzer M, ..., Forsman A, Dopson M
Front Microbiol 14 (-) 1099445 [2023-03-29; online 2023-03-29]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Swedish NMR Centre [Service]
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Trimethylamine N-Oxide (TMAO) Mediates Increased Inflammation and Colonization of Bladder Epithelial Cells during a Uropathogenic E. coli Infection In Vitro.
Wu R, Kumawat AK, Demirel I
Pathogens 12 (4) - [2023-03-27; online 2023-03-27]
Affinity Proteomics Uppsala [Service]
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Preselection of QTL markers enhances accuracy of genomic selection in Norway spruce.
Chen ZQ, Klingberg A, Hallingbäck HR, Wu HX
BMC Genomics 24 (1) 147 [2023-03-27; online 2023-03-27]
Bioinformatics (NBIS) [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Rodríguez-Gijón A, Buck M, Andersson AF, ..., Nascimento FJA, Garcia SL
ISME COMMUN. 3 (1) 25 [2023-03-27; online 2023-03-27]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Riddell A, Hynynen J, Baena-Moreno F, ..., Parkås J, Bernin D
ACS Sustainable Chem. Eng. 11 (12) 4850-4859 [2023-03-27; online 2023-03-15]
Swedish NMR Centre [Service]
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Deep learning-based segmentation and quantification of podocyte foot process morphology suggests differential patterns of foot process effacement across kidney pathologies.
Unnersjö-Jess D, Butt L, Höhne M, ..., Bozek K, Benzing T
Kidney Int. - (-) - [2023-03-27; online 2023-03-27]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Wehrli PM, Ge J, Michno W, ..., Blennow K, Hanrieder J
JACS Au 3 (3) 762-774 [2023-03-27; online 2023-03-07]
Integrated Microscopy Technologies Gothenburg [Service]
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Subramanian E, Elewa A, Brito G, ..., Andersson O, Simon A
Dev. Cell 58 (6) 450-460.e6 [2023-03-27; online 2023-03-08]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Simultaneous Ultra-Sensitive Detection of Structural and Single Nucleotide Variants Using Multiplex Droplet Digital PCR in Liquid Biopsies from Children with Medulloblastoma.
Arthur C, Jylhä C, de Ståhl TD, ..., Sandvik U, Tham E
Cancers (Basel) 15 (7) - [2023-03-25; online 2023-03-25]
Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Clonal origin and development of high hyperdiploidy in childhood acute lymphoblastic leukaemia.
Woodward EL, Yang M, Moura-Castro LH, ..., Foijer F, Paulsson K
Nat Commun 14 (1) 1658 [2023-03-25; online 2023-03-25]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Piombo E, Kelbessa BG, Sundararajan P, ..., Vetukuri RR, Dubey M
Front Microbiol 14 (-) 1076522 [2023-03-24; online 2023-03-24]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Prediction model for drug response of acute myeloid leukemia patients.
Trac QT, Pawitan Y, Mou T, ..., Kallioniemi O, Vu TN
NPJ Precis Oncol 7 (1) 32 [2023-03-24; online 2023-03-24]
Bioinformatics Support for Computational Resources [Service]
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Intranasal trimeric sherpabody inhibits SARS-CoV-2 including recent immunoevasive Omicron subvariants.
Mäkelä AR, Uğurlu H, Hannula L, ..., Rissanen I, Saksela K
Nat Commun 14 (1) 1637 [2023-03-24; online 2023-03-24]
Cryo-EM [Service]
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New Dual Inhibitors of Bacterial Topoisomerases with Broad-Spectrum Antibacterial Activity and In Vivo Efficacy against Vancomycin-Intermediate Staphylococcus aureus.
Durcik M, Cotman AE, Toplak Ž, ..., Tomašič T, Peterlin Mašič L
J. Med. Chem. 66 (6) 3968-3994 [2023-03-23; online 2023-03-06]
Drug Discovery and Development [Service]
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Neutralizing Carbapenem Resistance by Co-Administering Meropenem with Novel β-Lactam-Metallo-β-Lactamase Inhibitors.
Reddy N, Girdhari L, Shungube M, ..., Govender T, Naicker T
Antibiotics (Basel) 12 (4) - [2023-03-23; online 2023-03-23]
Drug Discovery and Development [Collaborative]
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Micro-scale spatial preference and temporal cyclicity linked to foraging in harbour porpoises
Stedt J, Wahlberg M, Carlström J, ..., Oskolkov N, Carlsson P
Mar. Ecol. Prog. Ser. 708 (-) 143-161 [2023-03-23; online 2023-03-23]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Exposure to nonanoic acid alters small intestinal neuroendocrine tumor phenotype.
Almobarak B, Amlani V, Inge L, ..., Arvidsson Y, Elias E
BMC Cancer 23 (1) 267 [2023-03-23; online 2023-03-23]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
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Evidence for a single, ancient origin of a genus-wide alternative life history strategy.
Tunström K, Woronik A, Hanly JJ, ..., Martin A, Wheat CW
Sci Adv 9 (12) eabq3713 [2023-03-22; online 2023-03-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Correlates of protection and viral load trajectories in omicron breakthrough infections in triple vaccinated healthcare workers.
Marking U, Havervall S, Norin NG, ..., Klingström J, Thålin C
Nat Commun 14 (1) 1577 [2023-03-22; online 2023-03-22]
Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
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Serum immuno-oncology markers carry independent prognostic information in patients with newly diagnosed metastatic breast cancer, from a prospective observational study.
Gunnarsdottir FB, Bendahl PO, Johansson A, ..., Bergenfelz C, Larsson AM
Breast Cancer Res. 25 (1) 29 [2023-03-21; online 2023-03-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
DOI Crossref
Motor nerves direct the development of the sympathetic nervous system
Erickson A, Motta A, Kastriti ME, ..., Bonanomi D, Adameyko I
biorxiv - (-) - [2023-03-18; online 2023-03-18]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Complete Reference Genome Sequence of the Clinical Neisseria gonorrhoeae Strain H035, with Resistance to the Novel Antimicrobial Zoliflodacin, Identified in Japan in 2000.
Golparian D, Jacobsson S, Ohnishi M, Unemo M
Microbiol Resour Announc 12 (3) e0113022 [2023-03-16; online 2023-02-28]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Rapid and accurate determination of protein content in North Atlantic seaweed by NIR and FTIR spectroscopies.
Niemi C, Mortensen AM, Rautenberger R, ..., Gorzsás A, Gentili FG
Food Chem 404 (Pt B) 134700 [2023-03-15; online 2022-10-19]
Swedish Metabolomics Centre [Service]
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Autoantibodies against PIP4K2B and AKT3 Are Associated with Skin and Lung Fibrosis in Patients with Systemic Sclerosis.
Geroldinger-Simić M, Bayati S, Pohjanen E, ..., Nilsson P, Pin E
Int J Mol Sci 24 (6) - [2023-03-15; online 2023-03-15]
Autoimmunity and Serology Profiling [Collaborative]
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An integrated single cell and spatial transcriptomic map of human white adipose tissue.
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Nat Commun 14 (1) 1438 [2023-03-15; online 2023-03-15]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A proinsulin-dependent interaction between ENPL-1 and ASNA-1 in neurons is required to maintain insulin secretion in C. elegans.
Podraza-Farhanieh A, Raj D, Kao G, Naredi P
Development 150 (6) - [2023-03-15; online 2023-03-20]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service]
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Integrated Microscopy Technologies Gothenburg [Service]
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A MITE insertion abolishes the AP3-3 self-maintenance regulatory loop in apetalous flowers of Nigella damascena.
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NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Real-time single-molecule 3D tracking in E. coli based on cross-entropy minimization.
Amselem E, Broadwater B, Hävermark T, Johansson M, Elf J
Nat Commun 14 (1) 1336 [2023-03-11; online 2023-03-11]
Bioinformatics Support for Computational Resources [Service]
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Proteome integral solubility alteration high-throughput proteomics assay identifies Collectin-12 as a non-apoptotic microglial caspase-3 substrate.
Grabert K, Engskog-Vlachos P, Škandík M, ..., Joseph B, Cheray M
Cell Death Dis 14 (3) 192 [2023-03-11; online 2023-03-11]
Chemical Proteomics [Collaborative]
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In Vitro and In Vivo Development of a β-Lactam-Metallo-β-Lactamase Inhibitor: Targeting Carbapenem-Resistant Enterobacterales.
Peters BK, Reddy N, Shungube M, ..., Naicker T, Govender T
ACS Infect Dis 9 (3) 486-496 [2023-03-10; online 2023-02-14]
Drug Discovery and Development [Collaborative]
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Enhanced glycerol assimilation and lipid production in Rhodotorula toruloides CBS14 upon addition of hemicellulose primarily correlates with early transcription of energy-metabolism-related genes.
Martín-Hernández GC, Chmielarz M, Müller B, ..., Hölzer M, Passoth V
Biotechnol Biofuels Bioprod 16 (1) 42 [2023-03-10; online 2023-03-10]
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Tast Lahti E, Karamehmedovic N, Riedel H, ..., Zajac M, Jernberg C
Front Public Health 11 (-) 1129083 [2023-03-08; online 2023-03-08]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Comprehensive transcriptome analysis of different potato cultivars provides insight into early blight disease caused by Alternaria solani.
Sajeevan RS, Abdelmeguid I, Saripella GV, Lenman M, Alexandersson E
BMC Plant Biol. 23 (1) 130 [2023-03-08; online 2023-03-08]
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Melatonin Prescription in Children and Adolescents in Relation to Body Weight and Age.
Kimland EE, Dahlén E, Martikainen J, Célind J, Kindblom JM
Pharmaceuticals (Basel) 16 (3) - [2023-03-06; online 2023-03-06]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Identification of phenotypically, functionally, and anatomically distinct stromal niche populations in human bone marrow based on single-cell RNA sequencing.
Li H, Bräunig S, Dhapolar P, ..., Lang S, Scheding S
Elife 12 (-) - [2023-03-06; online 2023-03-06]
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Venetoclax-Resistant T-ALL Cells Display Distinct Cancer Stem Cell Signatures and Enrichment of Cytokine Signaling.
Shah K, Al Ashiri L, Nasimian A, Ahmed M, Kazi JU
Int J Mol Sci 24 (5) - [2023-03-05; online 2023-03-05]
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miRNome and Proteome Profiling of Human Keratinocytes and Adipose Derived Stem Cells Proposed miRNA-Mediated Regulations of Epidermal Growth Factor and Interleukin 1-Alpha.
Shahin H, Abdallah S, Das J, ..., Elmasry M, El-Serafi AT
Int J Mol Sci 24 (5) - [2023-03-04; online 2023-03-04]
Clinical Genomics [Collaborative] Clinical Genomics Linköping [Collaborative]
PubMed DOI Crossref
A highly efficient transcriptome-based biosynthesis of non-ethanol chemicals in Crabtree negative Saccharomyces cerevisiae.
Yao Z, Guo Y, Wang H, ..., Nielsen J, Dai Z
Biotechnol Biofuels Bioprod 16 (1) 37 [2023-03-04; online 2023-03-04]
Chalmers Mass Spectrometry Infrastructure [Service]
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Short term starvation potentiates the efficacy of chemotherapy in triple negative breast cancer via metabolic reprogramming.
Pateras IS, Williams C, Gianniou DD, ..., Gilthorpe JD, Frisan T
J Transl Med 21 (1) 169 [2023-03-03; online 2023-03-03]
Swedish Metabolomics Centre [Service]
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Rickettsia felis DNA recovered from a child who lived in southern Africa 2000 years ago.
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Commun Biol 6 (1) 240 [2023-03-03; online 2023-03-03]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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ARF suppression by MYC but not MYCN confers increased malignancy of aggressive pediatric brain tumors.
Mainwaring OJ, Weishaupt H, Zhao M, ..., Hutter S, Swartling FJ
Nat Commun 14 (1) 1221 [2023-03-03; online 2023-03-03]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A Mitosome With Distinct Metabolism in the Uncultured Protist Parasite Paramikrocytos canceri (Rhizaria, Ascetosporea).
Onuț-Brännström I, Stairs CW, Campos KIA, ..., Bass D, Burki F
Genome Biol Evol 15 (3) - [2023-03-03; online 2023-02-16]
Bioinformatics Support for Computational Resources [Service]
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Genome-wide analysis identifies genetic effects on reproductive success and ongoing natural selection at the FADS locus.
Mathieson I, Day FR, Barban N, ..., Mills MC, Perry JRB
Nat Hum Behav - (-) - [2023-03-02; online 2023-03-02]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Pushparaj P, Nicoletto A, Dopico XC, ..., Corcoran M, Karlsson Hedestam GB
Front Virol 3 (-) 1128253 [2023-03-01; online 2023-04-13]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Clonal relationships of memory B cell subsets in autoimmune mice.
Aranburu A, Engström E, Gerasimcik N, ..., Grimsholm O, Mårtensson IL
Front Immunol 14 (-) 1129234 [2023-03-01; online 2023-03-01]
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Subtyping of cardiac amyloidosis by mass spectrometry-based proteomics of endomyocardial biopsies.
Noborn F, Thomsen C, Vorontsov E, ..., Oldfors A, Larson G
Amyloid 30 (1) 96-108 [2023-03-00; online 2022-10-09]
Glycoproteomics and MS Proteomics [Collaborative]
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Structural basis of mitochondrial membrane bending by the I-II-III2-IV2 supercomplex.
Mühleip A, Flygaard RK, Baradaran R, ..., Sharma V, Amunts A
Nature 615 (7954) 934-938 [2023-03-00; online 2023-03-22]
Cryo-EM [Service]
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Striking membrane defects in AdipoR-deficient cells.
Ruiz M, Panagaki D, Höög JL, Pilon M
J. Lipid Res. 64 (3) 100335 [2023-03-00; online 2023-01-20]
Integrated Microscopy Technologies Gothenburg [Service]
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Serum metabolites associated with wholegrain consumption using nontargeted metabolic profiling: a discovery and reproducibility study.
Noerman S, Virtanen JK, Lehtonen M, Brunius C, Hanhineva K
Eur J Nutr 62 (2) 713-726 [2023-03-00; online 2022-10-06]
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Rapid adaptations of Legionella pneumophila to the human host.
Leenheer D, Moreno AB, Paranjape K, ..., Ginevra C, Guy L
Microb Genom 9 (3) - [2023-03-00; online 2023-03-23]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Stratmann S, Vesterlund M, Umer HM, ..., Lehtiö J, Holmfeldt L
Leukemia 37 (3) 550-559 [2023-03-00; online 2022-12-26]
Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Collaborative]
PubMed DOI Crossref
Population structure and hybridisation in a population of Hawaiian feral chickens.
Martin Cerezo ML, López S, van Dorp L, ..., Henriksen R, Wright D
Heredity (Edinb) 130 (3) 154-162 [2023-03-00; online 2023-02-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Occupational inhalable agents constitute major risk factors for rheumatoid arthritis, particularly in the context of genetic predisposition and smoking.
Tang B, Liu Q, Ilar A, ..., Alfredsson L, Jiang X
Ann. Rheum. Dis. 82 (3) 316-323 [2023-03-00; online 2022-12-06]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Multiple introgressions shape mitochondrial evolutionary history in Drosophila paulistorum and the Drosophila willistoni group.
Baião GC, Schneider DI, Miller WJ, Klasson L
Mol. Phylogenet. Evol. 180 (-) 107683 [2023-03-00; online 2022-12-24]
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Golparian D, Vestberg N, Södersten W, ..., Bhattarai KH, Unemo M
Euro Surveill. 28 (10) - [2023-03-00; online 2023-03-10]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Multi-ancestry genome-wide association analyses improve resolution of genes and pathways influencing lung function and chronic obstructive pulmonary disease risk.
Shrine N, Izquierdo AG, Chen J, ..., Hall IP, Tobin MD
Nat. Genet. 55 (3) 410-422 [2023-03-00; online 2023-03-13]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Membrane permeability based on mesh analysis
Stenqvist B, Ericson MB, Gregoire S, ..., Engblom J, Sparr E
Journal of Colloid and Interface Science 633 (-) 526-535 [2023-03-00; online 2023-03-00]
Integrated Microscopy Technologies Gothenburg [Service]
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Isobaric labeling-based quantitative proteomics of FACS-purified immune cells and epithelial cells from the intestine of Crohn's disease patients reveals proteome changes of potential importance in disease pathogenesis.
Alfredsson J, Fabrik I, Gorreja F, ..., Lindskog EB, Wick MJ
Proteomics 23 (5) e2200366 [2023-03-00; online 2022-12-25]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Increasing Complexity of the N-Glycome During Caenorhabditis Development.
Wilson IBH, Yan S, Jin C, ..., Schnabel R, Paschinger K
Mol. Cell Proteomics 22 (3) 100505 [2023-03-00; online 2023-01-28]
Glycoproteomics and MS Proteomics [Collaborative]
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Fate of phosphorus in pulverized fuel co-combustion of sewage sludge and agricultural residues
Häggström G, Karl Hannl T, Holmgren P, ..., Skoglund N, Öhman M
Fuel 335 (-) 127059 [2023-03-00; online 2023-03-00]
Integrated Microscopy Technologies Umeå [Service]
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Fast three-dimensional image generation for healthy brain aging using diffeomorphic registration.
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AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Ectomycorrhizal fungi with hydrophobic mycelia and rhizomorphs dominate in young pine trees surviving experimental drought stress
Castaño C, Suarez-Vidal E, Zas R, ..., Oliva J, Sampedro L
Soil Biology and Biochemistry 178 (-) 108932 [2023-03-00; online 2023-03-00]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Comprehensive characterization of complex glycosphingolipids in human pancreatic cancer tissues.
Hořejší K, Jin C, Vaňková Z, ..., Teneberg S, Holčapek M
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Glycoproteomics and MS Proteomics [Collaborative]
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Cardiovascular disease-linked plasma proteins are mainly associated with lung volume.
Rydell A, Nerpin E, Zhou X, ..., Ärnlöv J, Malinovschi A
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Affinity Proteomics Uppsala [Service]
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NCF1-dependent production of ROS protects against lupus by regulating plasmacytoid dendritic cell development and functions.
Luo H, Urbonaviciute V, Saei AA, ..., Zubarev RA, Holmdahl R
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Chemical Proteomics [Collaborative]
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Muc2-dependent microbial colonization of the jejunal mucus layer is diet sensitive and confers local resistance to enteric pathogen infection.
Birchenough GMH, Schroeder BO, Sharba S, ..., Bäckhed F, Hansson GC
Cell Rep 42 (2) 112084 [2023-02-28; online 2023-02-06]
Integrated Microscopy Technologies Gothenburg [Service]
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Insights into the structure-function relationship of the NorQ/NorD chaperones from Paracoccus denitrificans reveal shared principles of interacting MoxR AAA+/VWA domain proteins.
Kahle M, Appelgren S, Elofsson A, Carroni M, Ädelroth P
BMC Biol. 21 (1) 47 [2023-02-28; online 2023-02-28]
Cryo-EM [Service]
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Chitosan-Modified Polyethyleneimine Nanoparticles for Enhancing the Carboxylation Reaction and Plants' CO2 Uptake.
Routier C, Vallan L, Daguerre Y, ..., Pavlopoulou E, Stavrinidou E
ACS Nano 17 (4) 3430-3441 [2023-02-28; online 2023-02-16]
Swedish Metabolomics Centre [Collaborative]
PubMed DOI Crossref
Structure and mechanism of a tripartite ATP-independent periplasmic TRAP transporter.
Davies JS, Currie MJ, North RA, ..., Mace PD, Dobson RCJ
Nat Commun 14 (1) 1120 [2023-02-27; online 2023-02-27]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Single-Cell Transcriptomics To Define Plasmodium falciparum Stage Transition in the Mosquito Midgut.
Mohammed M, Dziedziech A, Sekar V, ..., Vega-Rodriguez J, Ankarklev J
Microbiol Spectr 11 (2) e0367122 [2023-02-27; online 2023-02-27]
Bioinformatics Support for Computational Resources [Service] Microbial Single Cell Genomics [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Targeted plasma proteomics reveals signatures discriminating COVID-19 from sepsis with pneumonia.
Palma Medina LM, Babačić H, Dzidic M, ..., Strålin K, Norrby-Teglund A
Respir. Res. 24 (1) 62 [2023-02-24; online 2023-02-24]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Reproducing extracellular matrix adverse remodelling of non-ST myocardial infarction in a large animal model.
Contessotto P, Spelat R, Ferro F, ..., Pandit A, Da Costa M
Nat Commun 14 (1) 995 [2023-02-22; online 2023-02-22]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Reconstructing clonal tree for phylo-phenotypic characterization of cancer using single-cell transcriptomics.
Jun S, Toosi H, Mold J, ..., Roth A, Lagergren J
Nat Commun 14 (1) 982 [2023-02-22; online 2023-02-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Metagenomic and single-cell RNA-Seq survey of the Helicobacter pylori-infected stomach in asymptomatic individuals.
Sorini C, Tripathi KP, Wu S, ..., Du J, Villablanca EJ
JCI Insight 8 (4) - [2023-02-22; online 2023-02-22]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Accelerated epigenetic aging in women with emotionally unstable personality disorder and a history of suicide attempts.
Boström ADE, Andersson P, Jamshidi E, ..., Åsberg M, Jokinen J
Transl Psychiatry 13 (1) 66 [2023-02-22; online 2023-02-22]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Targeting the gut-lung axis by synbiotic feeding to infants in a randomized controlled trial.
Sjödin KS, Sjödin A, Ruszczyński M, ..., Szajewska H, West CE
BMC Biol. 21 (1) 38 [2023-02-20; online 2023-02-20]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre [Service]
PubMed DOI Crossref
Endosperm cellularization failure induces a dehydration-stress response leading to embryo arrest.
Xu W, Sato H, Bente H, Santos-González J, Köhler C
Plant Cell 35 (2) 874-888 [2023-02-20; online 2022-11-26]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre [Service]
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Multi-organ single-cell analysis reveals an on/off switch system with potential for personalized treatment of immunological diseases.
Lilja S, Li X, Smelik M, ..., Wang H, Benson M
Cell Reports Medicine - (-) 100956 [2023-02-17; online 2023-02-17]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Differential regulation of mRNA stability modulates transcriptional memory and facilitates environmental adaptation.
Li B, Zeis P, Zhang Y, ..., Steinmetz LM, Pelechano V
Nat Commun 14 (1) 910 [2023-02-17; online 2023-02-17]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Antibiotic thermorubin tethers ribosomal subunits and impedes A-site interactions to perturb protein synthesis in bacteria.
Parajuli NP, Emmerich A, Mandava CS, Pavlov MY, Sanyal S
Nat Commun 14 (1) 918 [2023-02-17; online 2023-02-17]
Cryo-EM [Service]
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Abolishing storage lipids induces protein misfolding and stress responses in Yarrowia lipolytica.
Zaghen S, Konzock O, Fu J, Kerkhoven EJ
J Ind Microbiol Biotechnol 50 (1) - [2023-02-17; online 2023-09-24]
Bioinformatics Support for Computational Resources [Service] Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Cryo-EM structure and function of S. pombe complex IV with bound respiratory supercomplex factor.
Moe A, Ädelroth P, Brzezinski P, Näsvik Öjemyr L
Commun Chem 6 (1) 32 [2023-02-16; online 2023-02-16]
Cryo-EM [Service]
PubMed DOI Crossref
Conformational Dynamics of Phytoglobin BvPgb1.2 from Beta vulgaris ssp. vulgaris.
Christensen S, Stenström O, Akke M, Bülow L
Int J Mol Sci 24 (4) - [2023-02-16; online 2023-02-16]
Swedish NMR Centre [Service]
PubMed DOI Crossref
Boron-Mediated Regioselective Aromatic C-H Functionalization via an Aryl BF2 Complex.
Shinde GH, Sundén H
Chemistry 29 (10) e202203505 [2023-02-16; online 2022-12-23]
Swedish NMR Centre [Service]
PubMed DOI Crossref
Prognostic importance of biomarkers associated with haemostatic, vascular and endothelial disturbances in acute coronary syndrome patients in relation to kidney function.
Mörtberg J, Salzinger B, Lundwall K, ..., Lindahl B, Spaak J
Int. J. Cardiol. 373 (-) 64-71 [2023-02-15; online 2022-12-05]
Affinity Proteomics Uppsala [Service]
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Associations of DNA Methylation With Behavioral Problems, Gray Matter Volumes, and Negative Life Events Across Adolescence: Evidence From the Longitudinal IMAGEN Study.
Sun Y, Jia T, Barker ED, ..., Schumann G, Desrivières S
Biol. Psychiatry 93 (4) 342-351 [2023-02-15; online 2022-06-22]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A Novel and Functionally Diverse Class of Acetylcholine-Gated Ion Channels.
Hardege I, Morud J, Courtney A, Schafer WR
J. Neurosci. 43 (7) 1111-1124 [2023-02-15; online 2023-01-05]
Integrated Microscopy Technologies Gothenburg [Service]
DOI Crossref
Optimizing Xenium In Situ data utility by quality assessment and best practice analysis workflows
Salas SM, Czarnewski P, Kuemmerle LB, ..., Ishaque N, Nilsson M
biorxiv - (-) - [2023-02-14; online 2023-02-14]
In Situ Sequencing [Technology development]
PubMed DOI Crossref
Array-Based Multiplex and High-Throughput Serology Assays.
Olofsson J, Hellström C, Andersson E, ..., Nilsson P, Pin E
Methods Mol. Biol. 2628 (-) 535-553 [2023-02-14; online 2023-02-14]
Autoimmunity and Serology Profiling [Technology development]
PubMed DOI Crossref
Prevalence and persistence of Neisseria meningitidis carriage in Swedish university students.
Olof S, Lorraine E, Berhane A I, ..., Paula M, Susanne J
Epidemiol. Infect. 151 (-) e25 [2023-02-13; online 2023-02-13]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Sensitive Detection of Cell-Free Tumour DNA Using Optimised Targeted Sequencing Can Predict Prognosis in Gastro-Oesophageal Cancer.
Wallander K, Haider Z, Jeggari A, ..., Lindblad M, Tham E
Cancers (Basel) 15 (4) - [2023-02-11; online 2023-02-11]
Clinical Genomics [Collaborative] Clinical Genomics Stockholm [Collaborative]
PubMed DOI Crossref
DNA methylation changes and increased mRNA expression of coagulation proteins, factor V and thrombomodulin in Fuchs endothelial corneal dystrophy.
Westin IM, Landfors M, Giannopoulos A, ..., Degerman S, Golovleva I
Cell. Mol. Life Sci. 80 (3) 62 [2023-02-11; online 2023-02-11]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Gut Micro- and Mycobiota in Preeclampsia: Bacterial Composition Differences Suggest Role in Pathophysiology.
Meijer S, Pasquinelli E, Renzi S, ..., Cavalieri D, Hansson SR
Biomolecules 13 (2) - [2023-02-10; online 2023-02-10]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Genomic architecture of migration timing in a long-distance migratory songbird.
de Greef E, Suh A, Thorstensen MJ, Delmore KE, Fraser KC
Sci Rep 13 (1) 2437 [2023-02-10; online 2023-02-10]
Bioinformatics Support for Computational Resources [Service] NGI Other [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure
PubMed DOI Crossref
Bacteroidetes to Firmicutes: captivity changes the gut microbiota composition and diversity in a social subterranean rodent.
Bensch HM, Tolf C, Waldenström J, Lundin D, Zöttl M
Anim Microbiome 5 (1) 9 [2023-02-10; online 2023-02-10]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Responses of carbapenemase-producing and non-producing carbapenem-resistant Pseudomonas aeruginosa strains to meropenem revealed by quantitative tandem mass spectrometry proteomics.
Salvà-Serra F, Jaén-Luchoro D, Marathe NP, ..., Moore ERB, Karlsson R
Front Microbiol 13 (-) 1089140 [2023-02-09; online 2023-02-09]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Combinatory analysis of immune cell subsets and tumor-specific genetic variants predict clinical response to PD-1 blockade in patients with non-small cell lung cancer.
Dutta N, Rohlin A, Eklund EA, ..., Hallqvist A, Raghavan S
Front Oncol 12 (-) 1073457 [2023-02-09; online 2023-02-09]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Primary Structure of Glycans by NMR Spectroscopy.
Fontana C, Widmalm G
Chem. Rev. 123 (3) 1040-1102 [2023-02-08; online 2023-01-09]
Swedish NMR Centre [Service]
PubMed DOI Crossref
A human monoclonal antibody bivalently binding two different epitopes in streptococcal M protein mediates immune function.
Bahnan W, Happonen L, Khakzad H, ..., Malmström J, Nordenfelt P
EMBO Mol Med 15 (2) e16208 [2023-02-08; online 2022-12-12]
Structural Proteomics [Collaborative]
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Microneedle Patch for Painless Intradermal Collection of Interstitial Fluid Enabling Multi-analyte Measurement of Small Molecules, SARS-CoV-2 Antibodies, and Protein Profiling.
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Curr Protoc 3 (2) e673 [2023-02-00; online 2023-02-18]
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Inactivation of RB1, CDKN2A, and TP53 have distinct effects on genomic stability at side-by-side comparison in karyotypically normal cells.
Andersson N, Saba KH, Magnusson L, ..., Nord KH, Gisselsson D
Genes Chromosomes Cancer 62 (2) 93-100 [2023-02-00; online 2022-09-30]
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High-density linkage maps and chromosome level genome assemblies unveil direction and frequency of extensive structural rearrangements in wood white butterflies (Leptidea spp.).
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Chromosome Res. 31 (1) 2 [2023-01-20; online 2023-01-20]
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High cardiomyocyte diversity in human early prenatal heart development.
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iScience 26 (1) 105857 [2023-01-20; online 2022-12-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Single-cell analysis of myeloid cells in HPV+ tonsillar cancer.
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MOXD1 is a gate-keeper of organ homeostasis and functions as a tumor-suppressor in neuroblastoma
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Highly differentiated loci resolve phylogenetic relationships in the Bean Goose complex.
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BMC Ecol Evol 23 (1) 2 [2023-01-19; online 2023-01-19]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Fluorogenic properties of 4-dimethylaminocinnamaldehyde (DMACA) enable high resolution imaging of cell-wall-bound proanthocyanidins in plant root tissues.
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Front Plant Sci 13 (-) 1060804 [2023-01-16; online 2023-01-16]
Swedish Metabolomics Centre [Service]
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Microbial communities mediating net methylmercury formation along a trophic gradient in a peatland chronosequence.
Wang B, Hu H, Bishop K, ..., Bertilsson S, Bravo AG
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Methylmercury formation in biofilms of Geobacter sulfurreducens.
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Integrated Microscopy Technologies Umeå [Service]
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PIK3CA is recurrently mutated in canine mammary tumors, similarly to in human mammary neoplasia.
Arendt ML, Sakthikumar S, Melin M, ..., Rönnberg H, Lindblad-Toh K
Sci Rep 13 (1) 632 [2023-01-12; online 2023-01-12]
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HGG Adv 4 (1) 100148 [2023-01-12; online 2022-10-04]
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Stem Cell Reports 18 (1) 337-353 [2023-01-10; online 2022-11-17]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Persistence of salivary antibody responses after COVID-19 vaccination is associated with oral microbiome variation in both healthy and people living with HIV.
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Front Immunol 13 (-) 1079995 [2023-01-10; online 2023-01-10]
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Longitudinal single-cell analysis of SARS-CoV-2-reactive B cells uncovers persistence of early-formed, antigen-specific clones.
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JCI Insight 8 (1) - [2023-01-10; online 2023-01-10]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Immunoglobulin germline gene polymorphisms influence the function of SARS-CoV-2 neutralizing antibodies.
Pushparaj P, Nicoletto A, Sheward DJ, ..., Corcoran M, Karlsson Hedestam GB
Immunity 56 (1) 193-206.e7 [2023-01-10; online 2022-12-12]
Structural Proteomics [Collaborative]
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Case Report: Whole genome sequencing identifies CCDC88C as a novel JAK2 fusion partner in pediatric T-cell acute lymphoblastic leukemia.
Krstic A, Rezayee F, Saft L, ..., Svenberg P, Barbany G
Front Pediatr 10 (-) 1082986 [2023-01-10; online 2023-01-10]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Antibiotic perseverance increases the risk of resistance development.
Brandis G, Larsson J, Elf J
Proc. Natl. Acad. Sci. U.S.A. 120 (2) e2216216120 [2023-01-10; online 2023-01-03]
Bioinformatics Support for Computational Resources [Service]
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Spatial and temporal heterogeneity in human mobility patterns in Holocene Southwest Asia and the East Mediterranean.
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Curr. Biol. 33 (1) 41-57.e15 [2023-01-09; online 2022-12-08]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Arve-Butler S, Mossberg A, Kahn F, ..., Månsson B, Kahn R
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High-fat diet and estrogen modulate the gut microbiota in a sex-dependent manner in mice.
Hases L, Stepanauskaite L, Birgersson M, ..., Engstrand L, Williams C
Commun Biol 6 (1) 20 [2023-01-09; online 2023-01-09]
Bioinformatics Support for Computational Resources [Service]
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The effect of side chain variations on quinazoline-pyrimidine G-quadruplex DNA ligands.
Bhuma N, Chand K, Andréasson M, ..., Öhlund D, Chorell E
Eur J Med Chem 248 (-) 115103 [2023-01-08; online 2023-01-08]
Swedish NMR Centre [Service]
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Early response evaluation by single cell signaling profiling in acute myeloid leukemia.
Tislevoll BS, Hellesøy M, Fagerholt OHE, ..., Blaser N, Gjertsen BT
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Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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Deep Learning on Ultrasound Images Visualizes the Femoral Nerve with Good Precision.
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AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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GotEnzymes: an extensive database of enzyme parameter predictions.
Li F, Chen Y, Anton M, Nielsen J
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The genetic history of Scandinavia from the Roman Iron Age to the present.
Rodríguez-Varela R, Moore KHS, Ebenesersdóttir SS, ..., Helgason A, Götherström A
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Novel cancer gene discovery using a forward genetic screen in RCAS-PDGFB-driven gliomas.
Weishaupt H, Čančer M, Rosén G, ..., Ameur A, Swartling FJ
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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ASV portal: an interface to DNA-based biodiversity data in the Living Atlas.
Prager M, Lundin D, Ronquist F, Andersson AF
BMC Bioinformatics 24 (1) 6 [2023-01-05; online 2023-01-05]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Methylation in MAD1L1 is associated with the severity of suicide attempt and phenotypes of depression.
Sokolov AV, Manu DM, Nordberg DOT, ..., Jokinen J, Schiöth HB
Clin Epigenetics 15 (1) 1 [2023-01-04; online 2023-01-04]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Identification of Novel Small Molecule Ligands for JAK2 Pseudokinase Domain.
Virtanen AT, Haikarainen T, Sampathkumar P, ..., Hubbard SR, Silvennoinen O
Pharmaceuticals (Basel) 16 (1) - [2023-01-04; online 2023-01-04]
Drug Discovery and Development [Service]
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Experimental Life History Evolution Results in Sex-specific Evolution of Gene Expression in Seed Beetles.
Immonen E, Sayadi A, Stojković B, ..., Wiberg RAW, Arnqvist G
Genome Biol Evol 15 (1) - [2023-01-04; online 2022-12-22]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A Phylogenomic Assessment of Processes Underpinning Convergent Evolution in Open-Habitat Chats.
Alaei Kakhki N, Schweizer M, Lutgen D, ..., Schielzeth H, Burri R
Mol. Biol. Evol. 40 (1) - [2023-01-04; online 2022-12-30]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Optimization of N-Piperidinyl-Benzimidazolone Derivatives as Potent and Selective Inhibitors of 8-Oxo-Guanine DNA Glycosylase 1.
Wallner O, Cázares-Körner A, Scaletti ER, ..., Helleday T, Michel M
ChemMedChem 18 (1) e202200310 [2023-01-03; online 2022-10-13]
Chemical Biology Consortium Sweden [Collaborative]
PubMed DOI Crossref
Extracellular Galectin 4 Drives Immune Evasion and Promotes T-cell Apoptosis in Pancreatic Cancer.
Lidström T, Cumming J, Gaur R, ..., Patthey C, Öhlund D
Cancer Immunol Res 11 (1) 72-92 [2023-01-03; online 2022-12-09]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Umeå [Service]
PubMed DOI Crossref
Breast cancer patient-derived whole-tumor cell culture model for efficient drug profiling and treatment response prediction.
Chen X, Sifakis EG, Robertson S, ..., Ma R, Hartman J
Proc. Natl. Acad. Sci. U.S.A. 120 (1) e2209856120 [2023-01-03; online 2022-12-27]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden [Service]
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Discovery of drug-omics associations in type 2 diabetes with generative deep-learning models.
Allesøe RL, Lundgaard AT, Hernández Medina R, ..., Brunak S, IMI DIRECT Consortium
Nat. Biotechnol. - (-) - [2023-01-02; online 2023-01-02]
Affinity Proteomics Stockholm [Collaborative]
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Cytokinin signaling regulates two-stage inflorescence arrest in Arabidopsis.
Walker CH, Ware A, Šimura J, ..., Wilson Z, Bennett T
Plant Physiol. 191 (1) 479-495 [2023-01-02; online 2022-11-05]
Swedish Metabolomics Centre [Service]
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The path to immortalization of cells starts by managing stress through gene duplications.
Lewerentz J, Johansson AM, Stenberg P
Exp. Cell Res. 422 (1) 113431 [2023-01-01; online 2022-11-21]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The injury-induced transcription factor SOX9 alters the expression of LBR, HMGA2, and HIPK3 in the human kidney.
Kha M, Krawczyk K, Choong OK, ..., Swärd K, Johansson ME
Am. J. Physiol. Renal Physiol. 324 (1) F75-F90 [2023-01-01; online 2022-12-01]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Nuclear and mitochondrial DNA alterations in pheochromocytomas and paragangliomas, and their potential treatment.
Tabebi M, Söderkvist P, Gimm O
Endocr. Relat. Cancer 30 (1) - [2023-01-01; online 2022-12-08]
Clinical Genomics [Collaborative] Clinical Genomics Linköping [Collaborative]
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Associations of PFAS-related plasma metabolites with cholesterol and triglyceride concentrations.
Schillemans T, Bergdahl IA, Hanhineva K, ..., Åkesson A, Brunius C
Environ. Res. 216 (Pt 2) 114570 [2023-01-01; online 2022-10-13]
Bioinformatics Support for Computational Resources [Service] Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Widespread CNS pathology in amyotrophic lateral sclerosis homozygous for the D90A SOD1 mutation
Forsberg KM, Graffmo KS, Stenvall E, ..., Brännström T, Andersen PM
Acta Neuropathol 145 (1) 13-28 [2023-01-00; online 2022-11-16]
Integrated Microscopy Technologies Umeå [Service]
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Three Adult Cases of STAT1 Gain-of-Function with Chronic Mucocutaneous Candidiasis Treated with JAK Inhibitors.
Borgström EW, Edvinsson M, Pérez LP, ..., Brodin P, Bergman P
J Clin Immunol 43 (1) 136-150 [2023-01-00; online 2022-09-02]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Collaborative] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Rare tandem repeat expansions associate with genes involved in synaptic and neuronal signaling functions in schizophrenia.
Wen J, Trost B, Engchuan W, ..., Yuen RKC, Szatkiewicz JP
Mol. Psychiatry 28 (1) 475-482 [2023-01-00; online 2022-11-16]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Palmoplantar keratoderma and digital clubbing in 2 sisters with hypertrophic osteoarthropathy.
Eriksson D, Gyll D, Virtanen M, ..., Klar J, Stattin EL
JAAD Case Rep 31 (-) 133-136 [2023-01-00; online 2022-12-01]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
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NMR spectrum reconstruction as a pattern recognition problem.
Jahangiri A, Han X, Lesovoy D, ..., Achour A, Orekhov V
J Magn Reson 346 (-) 107342 [2023-01-00; online 2022-11-24]
Swedish NMR Centre [Technology development]
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Multienzyme deep learning models improve peptide de novo sequencing by mass spectrometry proteomics.
Gueto-Tettay C, Tang D, Happonen L, ..., Malmström J, Malmström L
PLoS Comput. Biol. 19 (1) e1010457 [2023-01-00; online 2023-01-20]
Structural Proteomics [Technology development]
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Graphene oxide elicits microbiome-dependent type 2 immune responses via the aryl hydrocarbon receptor.
Peng G, Sinkko HM, Alenius H, ..., Bräutigam L, Fadeel B
Nat Nanotechnol 18 (1) 42-48 [2023-01-00; online 2022-12-12]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genotype-first approach to identify associations between CDH1 germline variants and cancer phenotypes: a multicentre study by the European Reference Network on Genetic Tumour Risk Syndromes.
Garcia-Pelaez J, Barbosa-Matos R, Lobo S, ..., Hoogerbrugge N, Oliveira C
Lancet Oncol 24 (1) 91-106 [2023-01-00; online 2022-11-24]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Gene gain facilitated endosymbiotic evolution of Chlamydiae.
Dharamshi JE, Köstlbacher S, Schön ME, ..., Ettema TJG, Horn M
Nat Microbiol 8 (1) 40-54 [2023-01-00; online 2023-01-05]
Bioinformatics Support for Computational Resources [Service]
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Enantioselective CE-MS analysis of ketamine metabolites in urine.
Sandbaumhüter FA, Aerts JT, Theurillat R, ..., Thormann W, Jansson ET
Electrophoresis 44 (1-2) 125-134 [2023-01-00; online 2022-12-09]
Spatial Mass Spectrometry [Collaborative]
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Cerebral small vessel disease: Recent advances and future directions.
Markus HS, de Leeuw FE
Int J Stroke 18 (1) 4-14 [2023-01-00; online 2022-12-29]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Bayesian mixed model analysis uncovered 21 risk loci for chronic kidney disease in boxer dogs.
Lingaas F, Tengvall K, Jansen JH, ..., Lindblad-Toh K, Wang C
PLoS Genet. 19 (1) e1010599 [2023-01-00; online 2023-01-24]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Automatic Time-Resolved Cardiovascular Segmentation of 4D Flow MRI Using Deep Learning.
Bustamante M, Viola F, Engvall J, Carlhäll CJ, Ebbers T
J Magn Reson Imaging 57 (1) 191-203 [2023-01-00; online 2022-05-04]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Aerosol-based deposition of broadband antireflective silica coating with closed mesoporous structure
Zäll E, Järn M, Karlsson S, ..., Sundin M, Wågberg T
Solar Energy Materials and Solar Cells 250 (-) 112078 [2023-01-00; online 2023-01-00]
Integrated Microscopy Technologies Umeå [Service]
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A comprehensive characterization of patients diagnosed with post-COVID-19 condition in Sweden 16 months after the introduction of the International Classification of Diseases Tenth Revision diagnosis code (U09.9): a population-based cohort study.
Bygdell M, Leach S, Lundberg L, ..., Gisslén M, Nyberg F
Int J Infect Dis 126 (-) 104-113 [2023-01-00; online 2022-11-21]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Visualization and quality control tools for large-scale multiplex tissue analysis in TissUUmaps3
Behanova A, Avenel C, Andersson A, ..., Östman A, Wählby C
Biol. Imaging 3 (-) - [2023-00-00; online 2023-02-20]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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Systematics of the avian family Alaudidae using multilocus and genomic data
Alström P, Mohammadi Z, Enbody ED, ..., Donald PF, Stervander M
Avian Research 14 (-) 100095 [2023-00-00; online 2023-00-00]
Bioinformatics Support for Computational Resources [Service]
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Sequential extraction of hemicelluloses by subcritical water improves saccharification of hybrid aspen wood grown in greenhouse and field conditions
Sivan P, Heinonen E, Latha Gandla M, ..., Mellerowicz EJ, Vilaplana F
Green Chem. 25 (14) 5634-5646 [2023-00-00; online 2023-00-00]
Integrated Microscopy Technologies Umeå [Service]
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On the understanding of bio-oil formation from the hydrothermal liquefaction of organosolv lignin isolated from softwood and hardwood sawdust
Paulsen Thoresen P, Fahrni J, Lange H, ..., Christakopoulos P, Matsakas L
Sustainable Energy Fuels 7 (22) 5361-5373 [2023-00-00; online 2023-00-00]
Swedish NMR Centre [Service]
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Metabolomics-based analysis in Daphnia magna after exposure to low environmental concentrations of polystyrene nanoparticles
Kelpsiene E, Cedervall T, Malmendal A
Environ. Sci.: Nano 10 (7) 1858-1866 [2023-00-00; online 2023-00-00]
Swedish NMR Centre [Service]
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Fluorescent carbon dots from birch leaves for sustainable electroluminescent devices
Tang S, Liu Y, Opoku H, ..., Edman L, Wang J
Green Chem. 25 (23) 9884-9895 [2023-00-00; online 2023-00-00]
Integrated Microscopy Technologies Umeå [Service]
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Exploring the impact of select anchor groups for norbornadiene/quadricyclane single-molecule switches
Ghasemi S, Ornago L, Liasi Z, ..., Lara-Avila S, Moth-Poulsen K
J. Mater. Chem. C 11 (44) 15412-15418 [2023-00-00; online 2023-00-00]
Swedish NMR Centre [Service]
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Drug repurposing screens identify compounds that inhibit α-synuclein oligomers' membrane disruption and block antibody interactions
Somavarapu AK, Kleijwegt G, Nagaraj M, ..., Nielsen J, Otzen DE
Chem. Sci. 14 (11) 3030-3047 [2023-00-00; online 2023-00-00]
Chemical Biology Consortium Sweden [Service]
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Building a precision medicine infrastructure at a national level: The Swedish experience
Edsjö A, Lindstrand A, Gisselsson D, ..., Fioretos T, Rosenquist R
Camb. prisms Precis. med. 1 (-) - [2023-00-00; online 2023-02-27]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Branched polyesters from radical ring-opening polymerization of cyclic ketene acetals: synthesis, chemical hydrolysis and biodegradation
Mousa M, Jonsson M, Wilson O, ..., Larsson Kron A, Malmström E
Polym. Chem. 14 (47) 5154-5165 [2023-00-00; online 2023-00-00]
Drug Discovery and Development [Collaborative]
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Affinity-Purification Combined with Crosslinking Mass Spectrometry for Identification and Structural Modeling of Host–Pathogen Protein–Protein Complexes
Happonen LJ
Methods Mol. Biol. 2674 (-) 181-200 [2023-00-00; online 2023-06-01]
Structural Proteomics [Technology development]
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A novel biorefinery concept based on marginally used halophyte biomass
Monção M, Thoresen PP, Wretborn T, ..., Christakopoulos P, Matsakas L
Sustainable Energy Fuels 7 (16) 3902-3918 [2023-00-00; online 2023-00-00]
Swedish NMR Centre [Service]
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A crowd-sourced genomic project to assess hybrid content in a rare avian vagrant (Azure Tit Cyanistes cyanus (Pallas, 1770))
Irestedt M, Thörn F, Ericson PGP, ..., Johansson F, Nylander JAA
Avian Research 14 (-) 100130 [2023-00-00; online 2023-00-00]
Bioinformatics Support for Computational Resources [Service]
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Metataxonomic and metaproteomic profiling of the oral microbiome in oral lichen planus - a pilot study.
Bankvall M, Carda-Diéguez M, Mira A, ..., Karlsson R, Robledo-Sierra J
Journal of Oral Microbiology 15 (1) 2161726 [2022-12-28; online 2022-12-28]
Glycoproteomics and MS Proteomics [Service]
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Implicating genes, pleiotropy, and sexual dimorphism at blood lipid loci through multi-ancestry meta-analysis
Kanoni S, Graham SE, Wang Y, ..., Assimes TL, Peloso GM
Genome Biol. 23 (1) 268 [2022-12-27; online 2022-12-27]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Developmental cues license megakaryocyte priming in murine hematopoietic stem cells.
Kristiansen TA, Zhang Q, Vergani S, ..., Ungerbäck J, Yuan J
Blood Adv 6 (24) 6228-6241 [2022-12-27; online 2022-05-19]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Leukocyte DNA methylation in Alzheimer´s disease associated genes: replication of findings from neuronal cells.
Karlsson IK, Ploner A, Wang Y, ..., Pedersen NL, Hägg S
Epigenetics - (-) 1-5 [2022-12-26; online 2022-12-26]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Microfluidic Device for Patient-Centric Multiplexed Assays with Readout in Centralized Laboratories.
Hauser J, Dale M, Beck O, ..., Fredolini C, Roxhed N
Anal. Chem. - (-) - [2022-12-22; online 2022-12-22]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Matched Analyses of Brain Metastases versus Primary Non-Small Cell Lung Cancer Reveal a Unique microRNA Signature.
Tsakonas G, Koulouris A, Kazmierczak D, ..., Hydbring P, Ekman S
Int J Mol Sci 24 (1) - [2022-12-22; online 2022-12-22]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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A protein signature associated with active tuberculosis identified by plasma profiling and network-based analysis.
Mousavian Z, Folkesson E, Fröberg G, ..., Källenius G, Sundling C
iScience 25 (12) 105652 [2022-12-22; online 2022-11-22]
Affinity Proteomics Stockholm [Service]
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Investigation of the Virome and Characterization of Issyk-Kul Virus from Swedish Myotis brandtii Bats.
Cholleti H, de Jong J, Blomström AL, Berg M
Pathogens 12 (1) - [2022-12-21; online 2022-12-21]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Exhaled phospholipid transfer protein and hepatocyte growth factor receptor in lung adenocarcinoma.
Andreasson J, Bodén E, Fakhro M, ..., Hallgren O, Lindstedt S
Respir. Res. 23 (1) 369 [2022-12-21; online 2022-12-21]
Affinity Proteomics Uppsala [Service]
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An investigation of metabolome in blood in patients with chronic peripheral, posttraumatic/postsurgical neuropathic pain.
Ghafouri B, Thordeman K, Hadjikani R, ..., Gerdle B, Bäckryd E
Sci Rep 12 (1) 21714 [2022-12-15; online 2022-12-15]
Swedish NMR Centre [Collaborative]
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Loss of Y in leukocytes as a risk factor for critical COVID-19 in men
Bruhn-Olszewska B, Davies H, Sarkisyan D, ..., Frithiof R, Dumanski JP
Genome Med 14 (1) 139 [2022-12-14; online 2022-12-14]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Upper gut heat shock proteins HSP70 and GRP78 promote insulin resistance, hyperglycemia, and non-alcoholic steatohepatitis.
Angelini G, Castagneto-Gissey L, Salinari S, ..., Tremaroli V, Mingrone G
Nat Commun 13 (1) 7715 [2022-12-13; online 2022-12-13]
Bioinformatics Support for Computational Resources [Service]
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Metabolic reprogramming and membrane glycan remodeling as potential drivers of zebrafish heart regeneration.
Spelat R, Ferro F, Contessotto P, ..., Kilcoyne M, Pandit A
Commun Biol 5 (1) 1365 [2022-12-13; online 2022-12-13]
In Situ Sequencing [Service]
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Structural mechanism of signal transduction in a phytochrome histidine kinase.
Wahlgren WY, Claesson E, Tuure I, ..., Takala H, Westenhoff S
Nat Commun 13 (1) 7673 [2022-12-12; online 2022-12-12]
Cryo-EM [Service]
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Gene Networks and Pathways Involved in LPS-Induced Proliferative Response of Bovine Endometrial Epithelial Cells.
Najafi M, Guo Y, Andersson G, Humblot P, Bongcam-Rudloff E
Genes 13 (12) - [2022-12-12; online 2022-12-12]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Plasma Concentrations of Short-Chain Fatty Acids in Active and Recovered Anorexia Nervosa.
Xu J, Landberg R, Lavebratt C, ..., Landén M, Nilsson IAK
Nutrients 14 (24) - [2022-12-09; online 2022-12-09]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Monitoring drug-target interactions through target engagement-mediated amplification on arrays and in situ.
Al-Amin RA, Johansson L, Abdurakhmanov E, ..., Lundbäck T, Landegren U
Nucleic Acids Res. 50 (22) e129 [2022-12-09; online 2022-10-04]
Autoimmunity and Serology Profiling [Service] Chemical Biology Consortium Sweden [Collaborative] Drug Discovery and Development [Collaborative]
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Endoreplication mediates cell size control via mechanochemical signaling from cell wall.
Ma Y, Jonsson K, Aryal B, ..., Hamant O, Bhalerao RP
Sci Adv 8 (49) eabq2047 [2022-12-09; online 2022-12-09]
Cryo-EM [Service]
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Conformational Change of Transcription Factors from Search to Specific Binding: A lac Repressor Case Study.
Lüking M, Elf J, Levy Y
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Bioinformatics Support for Computational Resources [Service]
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Bayesian model and selection signature analyses reveal risk factors for canine atopic dermatitis.
Tengvall K, Sundström E, Wang C, ..., Andersson G, Lindblad-Toh K
Commun Biol 5 (1) 1348 [2022-12-08; online 2022-12-08]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
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A third dose of the unmodified COVID-19 mRNA vaccine CVnCoV enhances quality and quantity of immune responses.
Lenart K, Hellgren F, Ols S, ..., Petsch B, Loré K
Mol Ther Methods Clin Dev 27 (-) 309-323 [2022-12-08; online 2022-10-06]
Affinity Proteomics Stockholm [Service] Affinity Proteomics Uppsala [Service]
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Fecal Luminal Factors from Patients with Gastrointestinal Diseases Alter Gene Expression Profiles in Caco-2 Cells and Colonoids.
Holst LM, Iribarren C, Sapnara M, ..., Magnusson MK, Öhman L
Int J Mol Sci 23 (24) - [2022-12-07; online 2022-12-07]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Adopting transfer learning for neuroimaging: a comparative analysis with a custom 3D convolution neural network model.
Soliman A, Chang JR, Etminani K, ..., Alzheimer’s Disease Neuroimaging Initiative , Ochoa-Figueroa M
BMC Med Inform Decis Mak 22 (Suppl 6) 318 [2022-12-07; online 2022-12-07]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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V. cholerae MakA is a cholesterol-binding pore-forming toxin that induces non-canonical autophagy.
Jia X, Knyazeva A, Zhang Y, ..., Corkery DP, Wu YW
J. Cell Biol. 221 (12) - [2022-12-05; online 2022-10-04]
Cryo-EM [Service]
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Early fate bias in neuroepithelial progenitors of hippocampal neurogenesis.
von Berlin L, Westholm JO, Ratz M, Frisén J
Hippocampus - (-) - [2022-12-05; online 2022-12-05]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Blue Turns to Gray: Paleogenomic Insights into the Evolutionary History and Extinction of the Blue Antelope (Hippotragus leucophaeus).
Hempel E, Bibi F, Faith JT, ..., Hofreiter M, Westbury MV
Mol. Biol. Evol. 39 (12) - [2022-12-05; online 2022-11-03]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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An extension to the NK fitness landscape model to study pleiotropy, epistasis, and ruggedness independently
Mehra P, Hintze A
IEEE xPlore - (-) - [2022-12-04; online 2022-12-04]
Bioinformatics Support for Computational Resources [Service]
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Autoantigenic properties of the aminoacyl tRNA synthetase family in idiopathic inflammatory myopathies.
Preger C, Notarnicola A, Hellström C, ..., Gräslund S, Jakobsson P
J. Autoimmun. 134 (-) 102951 [2022-12-02; online 2022-12-02]
Autoimmunity and Serology Profiling [Service] Drug Discovery and Development [Collaborative]
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The structure of cellulose nanofibril networks at low concentrations and their stabilizing action on colloidal particles.
Nordenström M, Benselfelt T, Hollertz R, ..., Söderberg D, Wågberg L
Carbohydr Polym 297 (-) 120046 [2022-12-01; online 2022-09-01]
Integrated Microscopy Technologies Stockholm [Collaborative]
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The genetic diagnosis of rare endocrine disorders of sex development and maturation: a survey among Endo-ERN centres.
Persani L, Cools M, Ioakim S, ..., Vezzoli V, Rossetti R
Endocr Connect 11 (12) - [2022-12-01; online 2022-11-14]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Genetics of tibia bone properties of crossbred commercial laying hens in different housing systems.
Johnsson M, Wall H, Lopes Pinto FA, ..., Kindmark A, de Koning DJ
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Gallionella and Sulfuricella populations are dominant during the transition of boreal potential to actual acid sulfate soils
Högfors-Rönnholm E, Lundin D, Brambilla D, ..., Österholm P, Dopson M
Commun Earth Environ 3 (1) - [2022-12-01; online 2022-12-01]
Bioinformatics Support for Computational Resources [Service]
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Functional responses of key marine bacteria to environmental change - toward genetic counselling for coastal waters.
Pinhassi J, Farnelid H, García SM, ..., Labrenz M, Riemann L
Front Microbiol 13 (-) 869093 [2022-12-01; online 2022-12-01]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Extracellular vesicle DNA from human melanoma tissues contains cancer-specific mutations.
Crescitelli R, Filges S, Karimi N, ..., Lässer C, Olofsson Bagge R
Front Cell Dev Biol 10 (-) 1028854 [2022-12-01; online 2022-12-01]
Integrated Microscopy Technologies Gothenburg [Service]
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The role of inputs of marine wrack and carrion in sandy-beach ecosystems: a global review.
Hyndes GA, Berdan EL, Duarte C, ..., Olds A, Schlacher TA
Biol Rev Camb Philos Soc 97 (6) 2127-2161 [2022-12-00; online 2022-08-11]
Bioinformatics Support for Computational Resources [Service]
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The landscape of tumor cell states and spatial organization in H3-K27M mutant diffuse midline glioma across age and location.
Liu I, Jiang L, Samuelsson ER, ..., Nilsson M, Filbin MG
Nat. Genet. 54 (12) 1881-1894 [2022-12-00; online 2022-12-05]
In Situ Sequencing [Collaborative]
PubMed DOI Crossref
The emerging landscape of spatial profiling technologies.
Moffitt JR, Lundberg E, Heyn H
Nat. Rev. Genet. 23 (12) 741-759 [2022-12-00; online 2022-07-20]
Spatial Proteomics [Service]
PubMed DOI Crossref
Species composition of shoreline wolf spider communities vary with salinity, but their diets vary with wrack inflow.
Hambäck PA, Cirtwill AR, Grudzinska-Sterno M, ..., Langbak M, Åhlén D
Ecol Evol 12 (12) e9701 [2022-12-00; online 2022-12-28]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatial and temporal heterogeneity in the lineage progression of fine oligodendrocyte subtypes
Hilscher MM, Langseth CM, Kukanja P, ..., Nilsson M, Castelo-Branco G
BMC Biol. 20 (1) 122 [2022-12-00; online 2022-05-25]
In Situ Sequencing [Collaborative]
PubMed DOI Crossref
Seroprevalence of SARS-CoV-2 antibodies among public transport workers in Sweden.
Sjörs Dahlman A, Anund A
Journal of Transport & Health 27 (-) 101508 [2022-12-00; online 2022-09-28]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
Sequence-based genotyping of extra-intestinal pathogenic Escherichia coli isolates from patients with suspected community-onset sepsis, Sweden.
Tilevik D, Pernestig AK, Fagerlind M, ..., Johansson M, Enroth H
Microb Pathog 173 (Pt A) 105836 [2022-12-00; online 2022-10-17]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Screening patients with autoimmune endocrine disorders for cytokine autoantibodies reveals monogenic immune deficiencies.
Sjøgren T, Bratland E, Røyrvik EC, ..., Husebye ES, Wolff ASB
J. Autoimmun. 133 (-) 102917 [2022-12-00; online 2022-09-30]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Resistance of subarctic soil fungal and invertebrate communities to disruption of below‐ground carbon supply
Parker TC, Chomel M, Clemmensen KE, ..., Subke J, Wookey PA
J Ecol 110 (12) 2883-2897 [2022-12-00; online 2022-10-17]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Quantitative image analysis of protein foam microstructure and its correlation with rheological properties: Egg white foam
Bonilla JC, Sørensen JL, Warming AS, Clausen MP
Food Hydrocolloids 133 (-) 108010 [2022-12-00; online 2022-12-00]
Integrated Microscopy Technologies Gothenburg [Collaborative]
PubMed DOI Crossref
Lower plasma concentrations of short-chain fatty acids (SCFAs) in patients with ADHD.
Yang LL, Stiernborg M, Skott E, ..., Giacobini M, Lavebratt C
J Psychiatr Res 156 (-) 36-43 [2022-12-00; online 2022-09-28]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
DOI Crossref
Long-term ley and manure managements have consistent effects on microbial functional profiles and organic C groups across soils from a latitudinal gradient
Shi A, Nunan N, Figueira J, Herrmann AM, Wetterlind J
Agron. Sustain. Dev. 42 (6) - [2022-12-00; online 2022-11-03]
Swedish NMR Centre [Collaborative]
PubMed DOI Crossref
Isolation and characterization of a main porin from the outer membrane of Salinibacter ruber.
Farci D, Cocco E, Tanas M, ..., Schröder WP, Piano D
J Bioenerg Biomembr 54 (5-6) 273-281 [2022-12-00; online 2022-10-13]
Cryo-EM [Service]
PubMed DOI Crossref
Genomic Profiling Identifies Putative Pathogenic Alterations in NSCLC Brain Metastases.
Nicoś M, Harbers L, Patrucco E, ..., Ambrogio C, Crosetto N
JTO Clin Res Rep 3 (12) 100435 [2022-12-00; online 2022-11-11]
Spatial Proteomics [Service]
PubMed DOI Crossref
Genome-wide association and Mendelian randomization study of fibroblast growth factor 21 reveals causal associations with hyperlipidemia and possibly NASH.
Larsson SC, Michaëlsson K, Mola-Caminal M, Höijer J, Mantzoros CS
Metabolism 137 (-) 155329 [2022-12-00; online 2022-10-05]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Fusion transcript analysis reveals slower response kinetics than multiparameter flow cytometry in childhood acute myeloid leukaemia.
Karlsson L, Nyvold CG, Soboli A, ..., Abrahamsson J, Fogelstrand L
Int J Lab Hematol 44 (6) 1094-1101 [2022-12-00; online 2022-08-02]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Effects of conventionally treated and ozonated wastewater on the damselfly larva oxylipidome in response to on-site exposure.
Späth J, Brodin T, Falås P, ..., Fick J, Nording M
Chemosphere 309 (Pt 1) 136604 [2022-12-00; online 2022-09-27]
Swedish Metabolomics Centre [Service]
PubMed DOI Crossref
Cone-setting in spruce is regulated by conserved elements of the age-dependent flowering pathway.
Akhter S, Westrin KJ, Zivi N, ..., Emanuelsson O, Sundström JF
New Phytol. 236 (5) 1951-1963 [2022-12-00; online 2022-09-16]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Comparison of ROS1-rearrangement detection methods in a cohort of surgically resected non-small cell lung carcinomas.
Thurfjell V, Micke P, Yu H, ..., Goldmann T, Mattsson JSM
Transl Lung Cancer Res 11 (12) 2477-2494 [2022-12-00; online 2023-01-14]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Characterization of a Clostridioides difficile outbreak caused by PCR ribotype 046, associated with increased mortality.
Magnusson C, Mernelius S, Bengnér M, ..., Forshell S, Matussek A
Emerg Microbes Infect 11 (1) 850-859 [2022-12-00; online 2022-03-05]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
An overlooked subset of Cx3cr1wt/wt microglia in the Cx3cr1CreER-Eyfp/wt mouse has a repopulation advantage over Cx3cr1CreER-Eyfp/wt microglia following microglial depletion
Zhou K, Han J, Lund H, ..., Harris RA, Blomgren K
J Neuroinflammation 19 (1) 20 [2022-12-00; online 2022-01-21]
Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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<i>Aeromonas salmonicida</i> binds α2-6 linked sialic acid, which is absent among the glycosphingolipid repertoires from skin, gill, stomach, pyloric caecum, and intestine.
Benktander J, Sundh H, Sharba S, Teneberg S, Lindén SK
Virulence 13 (1) 1741-1751 [2022-12-00; online 2022-10-08]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Dynamic patterns of blood lipids and DNA methylation in response to statin therapy.
Qin X, Wang Y, Pedersen NL, Tang B, Hägg S
Clin Epigenetics 14 (1) 153 [2022-11-28; online 2022-11-28]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Deep mutational scan of a drug efflux pump reveals its structure-function landscape.
Meier G, Thavarasah S, Ehrenbolger K, ..., Barandun J, Seeger MA
Nat. Chem. Biol. - (-) - [2022-11-28; online 2022-11-28]
Cryo-EM [Service]
PubMed DOI Crossref
Anti-citrullinated protein antibody specificities and pulmonary fibrosis in relation to genetic loci in early rheumatoid arthritis.
Brink M, Ljung L, Hansson M, ..., Klareskog L, Rantapää-Dahlqvist S
Rheumatology (Oxford) 61 (12) 4985-4990 [2022-11-28; online 2022-05-10]
Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Plasma protein biomarker profiling reveals major differences between acute leukaemia, lymphoma patients and controls.
Abu Sabaa A, Shen Q, Lennmyr EB, ..., Enblad G, Eriksson A
N Biotechnol 71 (-) 21-29 [2022-11-25; online 2022-06-29]
Affinity Proteomics Uppsala [Service] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Mucosal IgA against SARS-CoV-2 Omicron Infection. Reply.
Åberg M, Smed-Sörensen A, Thålin C
N. Engl. J. Med. 387 (21) e55 [2022-11-24; online 2022-11-24]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
The mechanical regulation of RNA binding protein hnRNPC in the failing heart.
Martino F, Varadarajan NM, Perestrelo AR, ..., Pagliari S, Forte G
Sci Transl Med 14 (672) eabo5715 [2022-11-23; online 2022-11-23]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Choice of High-Throughput Proteomics Method Affects Data Integration with Transcriptomics and the Potential Use in Biomarker Discovery.
Mosquim Junior S, Siino V, Rydén L, Vallon-Christersson J, Levander F
Cancers (Basel) 14 (23) - [2022-11-23; online 2022-11-23]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Sphingosine 1-phosphate mediates adiponectin receptor signaling essential for lipid homeostasis and embryogenesis.
Ruiz M, Devkota R, Panagaki D, ..., Borén J, Pilon M
Nat Commun 13 (1) 7162 [2022-11-22; online 2022-11-22]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Short and long-term associations between serum proteins linked to cardiovascular disease and particle exposure among constructions workers.
Gliga AR, Grahn K, Gustavsson P, ..., Selander J, Broberg K
Scand J Work Environ Health - (-) - [2022-11-21; online 2022-11-21]
Affinity Proteomics Uppsala [Service]
DOI Crossref
Macrophages support healing of ischemic injury by transdifferentiating towards mural cells and adopting functions important for vascular support
Parv K, Hidalgo CH, Xu F, ..., Christoffersson G, Phillipson M
res sq - (-) - [2022-11-21; online 2022-11-21]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Detection of SARS-CoV-2 antibodies in serum and dried blood spot samples of vaccinated individuals using a sensitive homogeneous proximity extension assay.
Zhao H, Wang M, Muthelo P, ..., Mei YF, Landegren U
N Biotechnol 72 (-) 139-148 [2022-11-21; online 2022-11-21]
Affinity Proteomics Uppsala [Technology development]
PubMed DOI Crossref
Plasma proteins from several components of the immune system differentiate chronic widespread pain patients from healthy controls - an exploratory case-control study combining targeted and non-targeted protein identification.
Gerdle B, Wåhlén K, Gordh T, ..., Carlsson A, Ghafouri B
Medicine 101 (46) e31013 [2022-11-18; online 2022-11-20]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Organochemical Characterization of Peat Reveals Decomposition of Specific Hemicellulose Structures as the Main Cause of Organic Matter Loss in the Acrotelm.
Serk H, Nilsson MB, Figueira J, ..., Alewell C, Schleucher J
Environ. Sci. Technol. - (-) - [2022-11-18; online 2022-11-18]
Swedish NMR Centre [Collaborative]
PubMed DOI Crossref
Hyaluronan nanoscale clustering and Hyaluronan synthase 2 expression are linked to the invasion of child fibroblasts and infantile fibrosarcoma in vitro and in vivo.
Tonge JJ, Notley SV, Dunning MJ, ..., Panoutsos G, Gad AKB
Sci Rep 12 (1) 19835 [2022-11-18; online 2022-11-18]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Self-reported symptom severity, general health, and impairment in post-acute phases of COVID-19: retrospective cohort study of Swedish public employees.
Larsson SB, von Feilitzen GS, Andersson ME, ..., Nilsson S, Sigström R
Sci Rep 12 (1) 19818 [2022-11-17; online 2022-11-17]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Integration of small RNAs from plasma and cerebrospinal fluid for classification of multiple sclerosis.
Needhamsen M, Khoonsari PE, Zheleznyakova GY, ..., Ekman D, Jagodic M
Front Genet 13 (-) 1042483 [2022-11-17; online 2022-11-17]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Divergent gene expression responses in two Baltic Sea heterotrophic model bacteria to dinoflagellate dissolved organic matter.
Osbeck CMG, Lundin D, Karlsson C, ..., Moran MA, Pinhassi J
PLoS ONE 17 (11) e0243406 [2022-11-17; online 2022-11-17]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Stage-specific transposon activity in the life cycle of the fairy-ring mushroom <i>Marasmius oreades</i>.
Hiltunen M, Ament-Velásquez SL, Ryberg M, Johannesson H
Proc. Natl. Acad. Sci. U.S.A. 119 (46) e2208575119 [2022-11-16; online 2022-11-07]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structure of the reduced microsporidian proteasome bound by PI31-like peptides in dormant spores.
Jespersen N, Ehrenbolger K, Winiger RR, ..., Vossbrinck CR, Barandun J
Nat Commun 13 (1) 6962 [2022-11-15; online 2022-11-15]
Cryo-EM [Service]
PubMed DOI Crossref
Meta-analysis of genome-wide association studies of hoarding symptoms in 27,537 individuals.
Strom NI, Smit DJA, Silzer T, ..., Mataix-Cols D, Cath D
Transl Psychiatry 12 (1) 479 [2022-11-15; online 2022-11-15]
Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
ID1 and CEBPA coordinate epidermal progenitor cell differentiation.
Kantzer CG, Yang W, Grommisch D, ..., Shirokova V, Genander M
Development 149 (22) - [2022-11-15; online 2022-11-16]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Genomic Consequences of Fragmentation in the Endangered Fennoscandian Arctic Fox (Vulpes lagopus).
Cockerill CA, Hasselgren M, Dussex N, ..., Sokolova N, Norén K
Genes 13 (11) - [2022-11-15; online 2022-11-15]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dominantly inherited myosin IIa myopathy caused by aberrant splicing of MYH2.
Hedberg-Oldfors C, Elíasdóttir Ó, Geijer M, Lindberg C, Oldfors A
BMC Neurol 22 (1) 428 [2022-11-15; online 2022-11-15]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
DOI Crossref
Abstract A007: Pancreatic cancer comprises co-existing transcriptional states regulated by distinct master regulator programs
Laise P, Turunen M, Maurer HC, ..., Olive KPP, Califano A
Cancer Res. 82 (22_Supplement) A007-A007 [2022-11-15; online 2022-11-15]
CRISPR Functional Genomics [Service]
PubMed DOI Crossref
A novel cis-regulatory element drives early expression of Nkx3.2 in the gnathostome primary jaw joint.
Leyhr J, Waldmann L, Filipek-Górniok B, ..., Allalou A, Haitina T
Elife 11 (-) - [2022-11-15; online 2022-11-15]
BioImage Informatics [Service] Bioinformatics (NBIS) [Service]
PubMed DOI Crossref
Proteomic Analysis of Pleural Effusions from COVID-19 Deceased Patients: Enhanced Inflammatory Markers.
Razaghi A, Szakos A, Alouda M, ..., Björnstedt M, Szekely L
Diagnostics 12 (11) 2789 [2022-11-14; online 2022-11-14]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Early changes in gene expression profiles in AML patients during induction chemotherapy.
Jakobsen I, Sundkvist M, Björn N, Gréen H, Lotfi K
BMC Genomics 23 (1) 752 [2022-11-14; online 2022-11-14]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A multivesicular body-like organelle mediates stimulus-regulated trafficking of olfactory ciliary transduction proteins.
Maurya DK, Berghard A, Bohm S
Nat Commun 13 (1) 6889 [2022-11-12; online 2022-11-12]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Genetic regulation of serum IgA levels and susceptibility to common immune, infectious, kidney, and cardio-metabolic traits.
Liu L, Khan A, Sanchez-Rodriguez E, ..., Gharavi AG, Kiryluk K
Nat Commun 13 (1) 6859 [2022-11-11; online 2022-11-11]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dietary restriction and medical therapy drive PPARα-regulated improvements in early diabetic kidney disease in male rats.
Martin WP, Nair M, Chuah YHD, ..., le Roux CW, Docherty NG
Clin Sci (Lond) 136 (21) 1485-1511 [2022-11-11; online 2022-10-20]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] Swedish NMR Centre [Collaborative]
PubMed DOI Crossref
Genomic trajectories of a near-extinction event in the Chatham Island black robin.
von Seth J, van der Valk T, Lord E, ..., Robertson BC, Dussex N
BMC Genomics 23 (1) 747 [2022-11-10; online 2022-11-10]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Fungal Communities in Leaves and Roots of Healthy-Looking and Diseased Ulmusglabra.
Marčiulynas A, Marčiulynienė D, Lynikienė J, Bakys R, Menkis A
Microorganisms 10 (11) - [2022-11-10; online 2022-11-10]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A new cut&run low volume-urea (LoV-U) protocol optimized for transcriptional co-factors uncovers Wnt/b-catenin tissue-specific genomic targets.
Zambanini G, Nordin A, Jonasson M, Pagella P, Cantù C
Development - (-) - [2022-11-10; online 2022-11-10]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Mapping the Landscape of Care Providers' Quality Assurance Approaches for AI in Diagnostic Imaging.
Lundström C, Lindvall M
J Digit Imaging - (-) - [2022-11-09; online 2022-11-09]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
PubMed DOI Crossref
Systems Biology in ELIXIR: modelling in the spotlight.
Martins Dos Santos V, Anton M, Szomolay B, ..., Evelo CT, Hancock JM
F1000Res 11 (-) 1265 [2022-11-07; online 2022-11-07]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Stabilizing Mechanisms of β-Lactoglobulin in Amorphous Solid Dispersions of Indomethacin.
Kabedev A, Zhuo X, Leng D, ..., Bergström CAS, Löbmann K
Mol. Pharm. 19 (11) 3922-3933 [2022-11-07; online 2022-09-22]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Read-Based Phasing and Analysis of Phased Variants with WhatsHap.
Martin M, Ebert P, Marschall T
Methods Mol. Biol. 2590 (-) 127-138 [2022-11-07; online 2022-11-07]
Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Case report: Two sisters with a germline CHEK2 variant and distinct endocrine neoplasias.
Vallera RD, Ding Y, Hatanpaa KJ, ..., Dahia PLM, Ghayee HK
Front Endocrinol (Lausanne) 13 (-) 1024108 [2022-11-07; online 2022-11-07]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
PubMed DOI Crossref
FRET-FISH probes chromatin compaction at individual genomic loci in single cells.
Mota A, Berezicki S, Wernersson E, ..., Crosetto N, Bienko M
Nat Commun 13 (1) 6680 [2022-11-05; online 2022-11-05]
Spatial Proteomics [Collaborative]
PubMed DOI Crossref
Insights into the evolution of enzymatic specificity and catalysis: From Asgard archaea to human adenylate kinases.
Verma A, Åberg-Zingmark E, Sparrman T, ..., Sauer-Eriksson E, Wolf-Watz M
Sci Adv 8 (44) eabm4089 [2022-11-04; online 2022-11-04]
Swedish NMR Centre [Collaborative]
PubMed DOI Crossref
Genome Evolution of a Symbiont Population for Pathogen Defense in Honeybees.
Dyrhage K, Garcia-Montaner A, Tamarit D, ..., Webster MT, Andersson SGE
Genome Biol Evol 14 (11) - [2022-11-04; online 2022-10-21]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A genomic snapshot of demographic and cultural dynamism in Upper Mesopotamia during the Neolithic Transition.
Altınışık NE, Kazancı DD, Aydoğan A, ..., Erim Özdoğan A, Somel M
Sci Adv 8 (44) eabo3609 [2022-11-04; online 2022-11-04]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The ESSENCE-Questionnaire in Medical Records Screening for Neurodevelopmental Symptoms/Problems: Utility and Clinical Validity.
Landgren V, Raanan Soltis Z, Svensson E, ..., Landgren M, Knez R
Neuropsychiatr Dis Treat 18 (-) 2559-2574 [2022-11-03; online 2022-11-03]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
The Dynamics of Adaptation to Stress from Standing Genetic Variation and de novo Mutations.
Ament-Velásquez SL, Gilchrist C, Rêgo A, ..., Rafati N, Stelkens R
Mol. Biol. Evol. 39 (11) - [2022-11-03; online 2022-11-06]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Population dynamics and demographic history of Eurasian collared lemmings.
Lord E, Marangoni A, Baca M, ..., Fedorov VB, Dalén L
BMC Ecol Evol 22 (1) 126 [2022-11-03; online 2022-11-03]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mountain- and brown hare genetic polymorphisms to survey local adaptations and conservation status of the heath hare (Lepus timidus sylvaticus, Nilsson 1831).
Michell CT, Pohjoismäki JLO, Spong G, Thulin CG
Sci Data 9 (1) 667 [2022-11-03; online 2022-11-03]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Domain-specific insight into the recognition of BH3-death motifs by the pro-survival Bcl-2 protein.
Mushtaq AU, Ådén J, Ali K, Gröbner G
Biophysical Journal - (-) - [2022-11-02; online 2022-11-02]
Swedish NMR Centre [Collaborative]
PubMed DOI Crossref
DAR 16-II Primes Endothelial Cells for Angiogenesis Improving Bone Ingrowth in 3D-Printed BCP Scaffolds and Regeneration of Critically Sized Bone Defects.
Alfayez E, Veschini L, Dettin M, ..., Coward T, Di Silvio L
Biomolecules 12 (11) 1619 [2022-11-02; online 2022-11-02]
Chemical Proteomics [Collaborative]
PubMed DOI Crossref
Proteomics-Compatible Fourier Transform Isotopic Ratio Mass Spectrometry of Polypeptides.
Gharibi H, Chernobrovkin AL, Saei AA, ..., Makarov AA, Zubarev RA
Anal. Chem. 94 (43) 15048-15056 [2022-11-01; online 2022-10-17]
Chemical Proteomics [Technology development]
PubMed DOI Crossref
Novel TPR::ROS1 Fusion Gene Activates MAPK, PI3K and JAK/STAT Signaling in an Infant-type Pediatric Glioma.
Deland L, Keane S, Bontell TO, ..., Sabel M, Abel F
Cancer Genomics Proteomics 19 (6) 711-726 [2022-11-01; online 2022-11-01]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Ydj1 interaction at nucleotide-binding-domain of yeast Ssa1 impacts Hsp90 collaboration and client maturation.
Gaur D, Kumar N, Ghosh A, ..., Nystrom T, Sharma D
PLoS Genet. 18 (11) e1010442 [2022-11-00; online 2022-11-09]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Whole genome analyses based on single, field collected spores of the arbuscular mycorrhizal fungus Funneliformis geosporum.
Sahraei SE, Sánchez-García M, Montoliu-Nerin M, ..., Rosendahl S, Rosling A
Mycorrhiza 32 (5-6) 361-371 [2022-11-00; online 2022-09-26]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] Microbial Single Cell Genomics [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Using reporters of different misfolded proteins reveals differential strategies in processing protein aggregates.
Schneider KL, Ahmadpour D, Keuenhof KS, ..., Nyström T, Widlund PO
J. Biol. Chem. 298 (11) 102476 [2022-11-00; online 2022-09-09]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Translatome profiling in fatal familial insomnia implicates TOR signaling in somatostatin neurons.
Bauer S, Dittrich L, Kaczmarczyk L, ..., Benfeitas R, Jackson WS
Life Sci. Alliance 5 (11) - [2022-11-00; online 2022-10-03]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Strong Association of Combined Genetic Deficiencies in the Classical Complement Pathway With Risk of Systemic Lupus Erythematosus and Primary Sjögren's Syndrome.
Lundtoft C, Sjöwall C, Rantapää-Dahlqvist S, ..., Leonard D, Rönnblom L
Arthritis & rheumatology (Hoboken, N.J.) 74 (11) 1842-1850 [2022-11-00; online 2022-10-07]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Mishra A, Malik R, Hachiya T, ..., Dichgans M, Debette S
Nature 611 (7934) 115-123 [2022-11-00; online 2022-09-30]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Spatial genomics maps the structure, nature and evolution of cancer clones.
Lomakin A, Svedlund J, Strell C, ..., Nilsson M, Yates LR
Nature 611 (7936) 594-602 [2022-11-00; online 2022-11-09]
In Situ Sequencing [Service]
DOI Crossref
Organic Base-Mediated Carboxylation of (Hetero)aromatic Compounds Using Supercritical Carbon Dioxide (scCO2)
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Synthesis 54 (21) 4827-4833 [2022-11-00; online 2022-08-16]
Drug Discovery and Development [Collaborative]
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Omicron sublineage BA.2.75.2 exhibits extensive escape from neutralising antibodies.
Sheward DJ, Kim C, Fischbach J, ..., Peacock TP, Murrell B
Lancet Infect Dis 22 (11) 1538-1540 [2022-11-00; online 2022-10-14]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Murach KA, Liu Z, Jude B, ..., Vechetti IJ, von Walden F
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Metabolite Pattern Derived from Lactiplantibacillus plantarum-Fermented Rye Foods and In Vitro Gut Fermentation Synergistically Inhibits Bacterial Growth.
Koistinen VM, Hedberg M, Shi L, ..., Hanhineva K, Landberg R
Mol Nutr Food Res 66 (21) e2101096 [2022-11-00; online 2022-08-19]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Yavuz S, Pucholt P, Sandling JK, ..., Lindblad-Toh K, Rönnblom L
Lupus Sci Med 9 (1) - [2022-11-00; online 2022-11-05]
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Linkage mapping and genome annotation give novel insights into gene family expansions and regional recombination rate variation in the painted lady (Vanessa cardui) butterfly.
Shipilina D, Näsvall K, Höök L, ..., Talavera G, Backström N
Genomics 114 (6) 110481 [2022-11-00; online 2022-09-14]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genome sequencing is a sensitive first-line test to diagnose individuals with intellectual disability.
Lindstrand A, Ek M, Kvarnung M, ..., Pettersson M, Nordgren A
Genet Med 24 (11) 2296-2307 [2022-11-00; online 2022-09-06]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Genetic and immunologic evaluation of children with inborn errors of immunity and severe or critical COVID-19.
Abolhassani H, Delavari S, Landegren N, ..., Hammarström L, Pan-Hammarström Q
J. Allergy Clin. Immunol. 150 (5) 1059-1073 [2022-11-00; online 2022-09-13]
Autoimmunity and Serology Profiling [Service]
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Exome-wide association study to identify rare variants influencing COVID-19 outcomes: Results from the Host Genetics Initiative.
Butler-Laporte G, Povysil G, Kosmicki JA, ..., Ferreira MAR, Richards JB
PLoS Genet. 18 (11) e1010367 [2022-11-00; online 2022-11-03]
NGI Short read [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
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Enzymatically dissociated muscle fibers display rapid dedifferentiation and impaired mitochondrial calcium control
Gineste C, Youhanna S, Vorrink SU, ..., Lauschke VM, Westerblad H
iScience - (-) 105654 [2022-11-00; online 2022-11-00]
Integrated Microscopy Technologies Umeå [Collaborative]
DOI Crossref
Circum‐Arctic distribution of chemical anti‐herbivore compounds suggests biome‐wide trade‐off in defence strategies in Arctic shrubs
Lindén E, te Beest M, Abreu IN, ..., Zimmermann H, Olofsson J
Ecography 2022 (11) - [2022-11-00; online 2022-08-30]
Swedish Metabolomics Centre [Service]
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Chloride binding in Portland composite cements containing metakaolin and silica fume
Babaahmadi A, Machner A, Kunther W, ..., Hemstad P, De Weerdt K
Cement and Concrete Research 161 (-) 106924 [2022-11-00; online 2022-11-00]
Swedish NMR Centre [Collaborative]
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Chemical traits of cerebral amyloid angiopathy in familial British-, Danish-, and non-Alzheimer's dementias.
Michno W, Koutarapu S, Camacho R, ..., Lashley T, Hanrieder J
J. Neurochem. 163 (3) 233-246 [2022-11-00; online 2022-09-25]
Integrated Microscopy Technologies Gothenburg [Collaborative]
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Characterizing single extracellular vesicles by droplet barcode sequencing for protein analysis.
Banijamali M, Höjer P, Nagy A, ..., Viktorsson K, Ahmadian A
J Extracell Vesicles 11 (11) e12277 [2022-11-00; online 2022-11-05]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Altered expression of the IGF2‑H19 locus and mitochondrial respiratory complexes in adrenocortical carcinoma.
Scicluna P, Caramuta S, Kjellin H, ..., Lui WO, Larsson C
Int. J. Oncol. 61 (5) - [2022-11-00; online 2022-09-28]
Global Proteomics and Proteogenomics [Collaborative]
PubMed DOI Crossref
A Complex Connection Between the Diversity of Human Gastric Mucin O-Glycans, Helicobacter pylori Binding, Helicobacter Infection and Fucosylation.
Chahal G, Padra M, Erhardsson M, ..., Karlsson NG, Lindén SK
Mol. Cell Proteomics 21 (11) 100421 [2022-11-00; online 2022-09-29]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Structural Consequences of Deproteinating the 50S Ribosome.
Larsson DSD, Kanchugal P S, Selmer M
Biomolecules 12 (11) - [2022-10-31; online 2022-10-31]
Cryo-EM [Service]
PubMed DOI Crossref
GyrB in silico mining in 27 151 global gonococcal genomes from 1928-2021 combined with zoliflodacin in vitro testing of 71 international gonococcal isolates with different GyrB, ParC and ParE substitutions confirms high susceptibility.
Golparian D, Jacobsson S, Sánchez-Busó L, ..., Ohnishi M, Unemo M
J. Antimicrob. Chemother. - (-) - [2022-10-29; online 2022-10-29]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Clinically relevant treatment of PDX models reveals patterns of neuroblastoma chemoresistance.
Mañas A, Aaltonen K, Andersson N, ..., Gisselsson D, Bexell D
Sci Adv 8 (43) eabq4617 [2022-10-28; online 2022-10-28]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Structural Insights into Common and Host-Specific Receptor-Binding Mechanisms in Algal Picorna-like Viruses.
Wang H, Munke A, Li S, Tomaru Y, Okamoto K
Viruses 14 (11) - [2022-10-27; online 2022-10-27]
Cryo-EM [Service]
DOI Crossref
Changes in Chemical Properties and Fungal Communities of Mineral Soil after Clear-Cutting and Reforestation of Scots Pine (Pinus sylvestris L.) Sites
Povilaitienė A, Gedminas A, Varnagirytė-Kabašinskienė I, ..., Mishcherikova V, Menkis A
Forests 13 (11) 1780 [2022-10-27; online 2022-10-27]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Next-Generation Sequencing Analysis of CpG Methylation of a Tumor Suppressor Gene SHP-1 Promoter in Stable Cell Lines and HCV-Positive Patients.
Devi P, Engdahl K, Punga T, Bergqvist A
Viruses 14 (11) - [2022-10-26; online 2022-10-26]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service]
PubMed DOI Crossref
Going Viral: An Investigation into the Chameleonic Behavior or Antiviral Compounds.
Wieske LHE, Atilaw Y, Poongavanam V, Erdélyi M, Kihlberg J
Chemistry - (-) - [2022-10-26; online 2022-10-26]
Swedish NMR Centre [Service]
PubMed DOI Crossref
ZEB2 haploinsufficient Mowat-Wilson syndrome induced pluripotent stem cells show disrupted GABAergic transcriptional regulation and function.
Schuster J, Klar J, Khalfallah A, ..., Birnir B, Dahl N
Front Mol Neurosci 15 (-) 988993 [2022-10-24; online 2022-10-24]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genomic analyses of the Linum distyly supergene reveal convergent evolution at the molecular level.
Gutiérrez-Valencia J, Fracassetti M, Berdan EL, ..., Arroyo J, Slotte T
Curr. Biol. 32 (20) 4360-4371.e6 [2022-10-24; online 2022-09-09]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Single-cell sequencing deconvolutes cellular responses to exercise in human skeletal muscle.
Lovrić A, Rassolie A, Alam S, ..., Gustafsson T, Rullman E
Commun Biol 5 (1) 1121 [2022-10-22; online 2022-10-22]
Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Principal Drivers of Fungal Communities Associated with Needles, Shoots, Roots and Adjacent Soil of Pinus sylvestris.
Marčiulynienė D, Marčiulynas A, Mischerikova V, ..., Franic I, Menkis A
JoF 8 (10) - [2022-10-21; online 2022-10-21]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Do ectomycorrhizal exploration types reflect mycelial foraging strategies?
Jörgensen K, Clemmensen KE, Wallander H, Lindahl BD
New Phytol. - (-) - [2022-10-21; online 2022-10-21]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Rapid antibiotic susceptibility testing and species identification for mixed samples.
Kandavalli V, Karempudi P, Larsson J, Elf J
Nat Commun 13 (1) 6215 [2022-10-20; online 2022-10-20]
Bioinformatics Support for Computational Resources [Service]
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Proteogenomics refines the molecular classification of chronic lymphocytic leukemia
Herbst SA, Vesterlund M, Helmboldt AJ, ..., Lehtiö J, Dietrich S
Nat Commun 13 (1) 6226 [2022-10-20; online 2022-10-20]
Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Architecture of the chikungunya virus replication organelle.
Laurent T, Kumar P, Liese S, ..., Carlson A, Carlson LA
Elife 11 (-) - [2022-10-19; online 2022-10-19]
Cryo-EM [Service]
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SARS-CoV-2 variants of concern and spike protein mutational dynamics in a Swedish cohort during 2021, studied by Nanopore sequencing.
Mannsverk S, Bergholm J, Palanisamy N, ..., Lindh J, Lennerstrand J
Virol J 19 (1) 164 [2022-10-18; online 2022-10-18]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Global microRNA and protein expression in human term placenta.
Östling H, Lodefalk M, Backman H, Kruse R
Front Med (Lausanne) 9 (-) 952827 [2022-10-18; online 2022-10-18]
Glycoproteomics and MS Proteomics [Service]
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Assessment of the genetic and clinical determinants of hip fracture risk: Genome-wide association and Mendelian randomization study.
Nethander M, Coward E, Reimann E, ..., Hveem K, Ohlsson C
Cell Reports Medicine 3 (10) 100776 [2022-10-18; online 2022-10-20]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Structure of a mitochondrial ribosome with fragmented rRNA in complex with membrane-targeting elements.
Tobiasson V, Berzina I, Amunts A
Nat Commun 13 (1) 6132 [2022-10-17; online 2022-10-17]
Cryo-EM [Service]
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Targeting Myd88 using peptide-loaded mesenchymal stem cell membrane-derived synthetic vesicles to treat systemic inflammation.
Park KS, Bergqvist M, Lässer C, Lötvall J
J Nanobiotechnology 20 (1) 451 [2022-10-15; online 2022-10-15]
Glycoproteomics and MS Proteomics [Service]
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Glucocorticoids and glucolipotoxicity alter the DNA methylome and function of human EndoC-βH1 cells.
Dos Santos C, Karagiannopoulos A, Rafacho A, ..., Ling C, Bacos K
Life Sciences 307 (-) 120854 [2022-10-15; online 2022-07-30]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Comparative genome analysis of mycobacteria focusing on tRNA and non-coding RNA.
Behra PRK, Pettersson BMF, Ramesh M, ..., Dasgupta S, Kirsebom LA
BMC Genomics 23 (1) 704 [2022-10-15; online 2022-10-15]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Cellulose interactions with CO2 in NaOH(aq): The (un)expected coagulation creates potential in cellulose technology.
Kozlowski AM, Hasani M
Carbohydr Polym 294 (-) 119771 [2022-10-15; online 2022-06-26]
Swedish NMR Centre [Service]
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TLCD1 and TLCD2 regulate cellular phosphatidylethanolamine composition and promote the progression of non-alcoholic steatohepatitis
Petkevicius K, Palmgren H, Glover MS, ..., Maresca M, Peng XR
Nat Commun 13 (1) 6020 [2022-10-14; online 2022-10-14]
Swedish Metabolomics Centre [Service]
PubMed DOI Crossref
Soil Microbiome Influences on Seedling Establishment and Growth of Prosopis chilensis and Prosopis tamarugo from Northern Chile.
Castro D, Concha C, Jamett F, Ibáñez C, Hurry V
Plants (Basel) 11 (20) - [2022-10-14; online 2022-10-14]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
IPT9, a cis-zeatin cytokinin biosynthesis gene, promotes root growth.
Antoniadi I, Mateo-Bonmatí E, Pernisová M, ..., Ljung K, Novák O
Front Plant Sci 13 (-) 932008 [2022-10-14; online 2022-10-14]
Swedish Metabolomics Centre [Service]
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The Expression of the Immunoproteasome Subunit PSMB9 Is Related to Distinct Molecular Subtypes of Uterine Leiomyosarcoma.
Maia Falcão R, Kokaraki G, De Wispelaere W, ..., Carlson JW, Petta TB
Cancers (Basel) 14 (20) - [2022-10-13; online 2022-10-13]
Global Proteomics and Proteogenomics [Service]
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Tackling the translational challenges of multi-omics research in the realm of European personalised medicine: A workshop report.
Oldoni E, Saunders G, Bietrix F, ..., Andreu AL, van Gool AJ
Front Mol Biosci 9 (-) 974799 [2022-10-13; online 2022-10-13]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Spatiotemporal variations in retrovirus-host interactions among Darwin's finches.
Hill J, Lillie M, Pettersson ME, ..., Andersson L, Jern P
Nat Commun 13 (1) 6033 [2022-10-13; online 2022-10-13]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Pax3 loss of function delays tumour progression in kRAS-induced zebrafish rhabdomyosarcoma models.
Kahsay A, Rodriguez-Marquez E, López-Pérez A, Hörnblad A, von Hofsten J
Sci Rep 12 (1) 17149 [2022-10-13; online 2022-10-13]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Manganese-driven CoQ deficiency.
Diessl J, Berndtsson J, Broeskamp F, ..., Ott M, Büttner S
Nat Commun 13 (1) 6061 [2022-10-13; online 2022-10-13]
Global Proteomics and Proteogenomics [Service]
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Engineering human mini-bones for the standardized modeling of healthy hematopoiesis, leukemia, and solid tumor metastasis.
Grigoryan A, Zacharaki D, Balhuizen A, ..., Bexell D, Bourgine PE
Sci Transl Med 14 (666) eabm6391 [2022-10-12; online 2022-10-12]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
SPACA9 is a lumenal protein of human ciliary singlet and doublet microtubules.
Gui M, Croft JT, Zabeo D, ..., Höög JL, Brown A
Proc. Natl. Acad. Sci. U.S.A. 119 (41) e2207605119 [2022-10-11; online 2022-10-03]
Cryo-EM [Service]
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Dormant SOX9-positive cells facilitate MYC-driven recurrence of medulloblastoma.
Borgenvik A, Holmberg KO, Bolin S, ..., Weishaupt H, Swartling FJ
Cancer Res. - (-) - [2022-10-11; online 2022-10-11]
Bioinformatics Support for Computational Resources [Service] NGI Single cell [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Membrane-assisted assembly and selective secretory autophagy of enteroviruses.
Dahmane S, Kerviel A, Morado DR, ..., Altan-Bonnet N, Carlson LA
Nat Commun 13 (1) 5986 [2022-10-10; online 2022-10-10]
Cryo-EM [Service]
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DNA promoter hypermethylation of melanocyte lineage genes determines melanoma phenotype.
Sanna A, Phung B, Mitra S, ..., Pietras K, Jönsson G
JCI Insight 7 (19) - [2022-10-10; online 2022-10-10]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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Liver Graft Proteomics Reveals Potential Incipient Mechanisms behind Early Renal Dysfunction after Liver Transplantation.
Norén Å, Oltean M, Friman S, ..., Herlenius G, Thorsell A
Int J Mol Sci 23 (19) - [2022-10-08; online 2022-10-08]
Glycoproteomics and MS Proteomics [Collaborative]
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Differences in Metabolite Composition of Aloe barbadensis Mill. Extracts Lead to Differential Effects on Human Blood T Cell Activity In Vitro.
Ahluwalia B, Magnusson MK, Larsson F, ..., Ross AB, Öhman L
Molecules 27 (19) - [2022-10-06; online 2022-10-06]
Chalmers Mass Spectrometry Infrastructure [Service]
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Calcium and magnesium in drinking water and risk of myocardial infarction and stroke-a population-based cohort study.
Helte E, Säve-Söderbergh M, Larsson SC, Åkesson A
Am. J. Clin. Nutr. 116 (4) 1091-1100 [2022-10-06; online 2022-07-12]
Bioinformatics Support for Computational Resources [Service]
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Anti-Spike Mucosal IgA Protection against SARS-CoV-2 Omicron Infection.
Havervall S, Marking U, Svensson J, ..., Smed-Sörensen A, Thålin C
N. Engl. J. Med. 387 (14) 1333-1336 [2022-10-06; online 2022-09-14]
Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
DOI Crossref
House crickets (Othroptera: Gryllidae: <i>Acheta domesticus</i>) reared in small-scale laboratory conditions harbour limited viral flora
Cholleti H, Vaga M, Jansson A, Blomström AL, Berg M
Journal of Insects as Food and Feed 8 (10) 1149-1155 [2022-10-04; online 2022-10-04]
Bioinformatics Support for Computational Resources [Service]
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Absence of oxygen effect on microbial structure and methane production during drying and rewetting events.
Liu T, Li X, Yekta SS, ..., Schnürer A, Enrich-Prast A
Sci Rep 12 (1) 16570 [2022-10-04; online 2022-10-04]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Biomarkers of demyelination and axonal damage are decreased after autologous hematopoietic stem cell transplantation for multiple sclerosis.
Zjukovskaja C, Larsson A, Cherif H, Kultima K, Burman J
Mult Scler Relat Disord 68 (-) 104210 [2022-10-03; online 2022-10-03]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
The oncogenic transcription factor FOXQ1 is a differential regulator of Wnt target genes.
Pizzolato G, Moparthi L, Söderholm S, Cantù C, Koch S
J. Cell. Sci. 135 (19) - [2022-10-01; online 2022-10-10]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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The effects of pH on the production of volatile fatty acids and microbial dynamics in long-term reactor operation.
Atasoy M, Cetecioglu Z
J Environ Manage 319 (-) 115700 [2022-10-01; online 2022-07-20]
Bioinformatics Support for Computational Resources [Service]
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Proteome Integral Solubility Alteration (PISA) for High-Throughput Ligand Target Deconvolution with Increased Statistical Significance and Reduced Sample Amount.
Gaetani M, Zubarev RA
Methods Mol. Biol. 2554 (-) 91-106 [2022-10-01; online 2022-10-01]
Chemical Proteomics [Technology development]
DOI Crossref
Mycobiota Associated with Symptomatic and Asymptomatic Fraxinus excelsior in Post-Dieback Forest Stands
Bakys R, Pliūra A, Bajerkevičienė G, ..., Lynikienė J, Menkis A
Forests 13 (10) 1609 [2022-10-01; online 2022-10-01]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Modest Conformity Between Self-Reporting of Bristol Stool Form and Fecal Consistency Measured by Stool Water Content in Irritable Bowel Syndrome and a FODMAP and Gluten Trial.
Nordin E, Hellström PM, Brunius C, Landberg R
Am J Gastroenterol 117 (10) 1668-1674 [2022-10-01; online 2022-08-12]
Bioinformatics Support for Computational Resources [Service] Chalmers Mass Spectrometry Infrastructure [Collaborative]
DOI Crossref
iP &amp; OEIP – Cytokinin Micro Application Modulates Root Development with High Spatial Resolution
Pařízková B, Antoniadi I, Poxson DJ, ..., Novák O, Ljung K
Adv Materials Technologies 7 (10) 2101664 [2022-10-00; online 2022-04-28]
Swedish Metabolomics Centre [Service]
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The dark side of foetal bovine serum in extracellular vesicle studies.
Urzì O, Bagge RO, Crescitelli R
J Extracell Vesicles 11 (10) e12271 [2022-10-00; online 2022-10-11]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Target-enriched nanopore sequencing and de novo assembly reveals co-occurrences of complex on-target genomic rearrangements induced by CRISPR-Cas9 in human cells.
Geng K, Merino LG, Wedemann L, ..., White RJ, Kutter C
Genome Res. 32 (10) 1876-1891 [2022-10-00; online 2022-09-30]
Bioinformatics Support for Computational Resources [Service]
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Salinity induces discontinuous protoxylem via a DELLA-dependent mechanism promoting salt tolerance in Arabidopsis seedlings.
Augstein F, Carlsbecker A
New Phytol. 236 (1) 195-209 [2022-10-00; online 2022-07-12]
Bioinformatics Support for Computational Resources [Service]
DOI Crossref
Reproductive homing and fine‐scaled genetic structuring of anadromous Baltic Sea perch ( <i>Perca fluviatilis</i> )
Hall M, Koch‐Schmidt P, Larsson P, ..., Yıldırım Y, Sunde J
Fisheries Management Eco 29 (5) 586-596 [2022-10-00; online 2022-03-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Rapid bacterioplankton transcription cascades regulate organic matter utilization during phytoplankton bloom progression in a coastal upwelling system.
Pontiller B, Martínez-García S, Joglar V, ..., Teira E, Pinhassi J
ISME J 16 (10) 2360-2372 [2022-10-00; online 2022-07-08]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Prostate cancer disease recurrence after radical prostatectomy is associated with HLA type and local cytomegalovirus immunity.
Classon J, Zamboni M, Engblom C, ..., Mold J, Frisén J
Mol Oncol 16 (19) 3452-3464 [2022-10-00; online 2022-08-31]
Bioinformatics Support for Computational Resources [Service]
PubMed
Pediatric Hip Disease Increases the Risk for Opioid Use in Adulthood: Long-term Burden of Pain and Depression.
Wadström MG, Hailer YD
Pain Physician 25 (7) E1153-E1160 [2022-10-00; online 2022-10-27]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
DOI Crossref
Patterns of community composition and diversity in latent fungi of living Quercus serrata trunks across a range of oak wilt prevalence and climate variables in Japan
Fukasawa Y, Matsukura K, Stephan JG, ..., Yamashita S, Ushio M
Fungal Ecology 59 (-) 101095 [2022-10-00; online 2022-10-00]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Parvimonas micra is associated with tumour immune profiles in molecular subtypes of colorectal cancer.
Löwenmark T, Li X, Löfgren-Burström A, ..., Edin S, Palmqvist R
Cancer Immunol. Immunother. 71 (10) 2565-2575 [2022-10-00; online 2022-03-17]
Affinity Proteomics Uppsala [Service] Clinical Genomics [Service] Clinical Genomics Umeå [Service]
PubMed DOI Crossref
Osteoclasts directly influence castration-resistant prostate cancer cells.
Huang J, Freyhult E, Buckland R, ..., Damber JE, Welén K
Clin Exp Metastasis 39 (5) 801-814 [2022-10-00; online 2022-08-16]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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New regulators of the tetracycline‐inducible gene expression system identified by chemical and genetic screens
Colicchia V, Häggblad M, Sirozh O, ..., Hühn D, Fernandez‐Capetillo O
FEBS Open Bio 12 (10) 1896-1908 [2022-10-00; online 2022-09-11]
CRISPR Functional Genomics [Service] Chemical Biology Consortium Sweden [Service]
PubMed DOI Crossref
Laccaria bicolor pectin methylesterases are involved in ectomycorrhiza development with Populus tremula × Populus tremuloides.
Chowdhury J, Kemppainen M, Delhomme N, ..., Pardo AG, Lundberg-Felten J
New Phytol. 236 (2) 639-655 [2022-10-00; online 2022-07-27]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Implementing precision medicine in a regionally organized healthcare system in Sweden.
Fioretos T, Wirta V, Cavelier L, ..., Edsjö A, Rosenquist R
Nat. Med. 28 (10) 1980-1982 [2022-10-00; online 2022-09-20]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] Clinical Genomics Linköping [Service] Clinical Genomics Stockholm [Collaborative] Clinical Genomics Umeå [Service] Clinical Genomics Uppsala [Collaborative]
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Global patterns and rates of habitat transitions across the eukaryotic tree of life.
Jamy M, Biwer C, Vaulot D, ..., Massana R, Burki F
Nat Ecol Evol 6 (10) 1458-1470 [2022-10-00; online 2022-08-04]
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Genome-wide association study of liver enzyme elevation in an extended cohort of rheumatoid arthritis patients starting low-dose methotrexate.
Cavalli M, Eriksson N, Sundbaum JK, ..., Hallberg P, Wadelius M
Pharmacogenomics 23 (15) 813-820 [2022-10-00; online 2022-09-07]
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Generation of Human iPSC-Derived Astrocytes with a mature star-shaped phenotype for CNS modeling.
Voulgaris D, Nikolakopoulou P, Herland A
Stem Cell Rev Rep 18 (7) 2494-2512 [2022-10-00; online 2022-04-30]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Fecal luminal factors from patients with irritable bowel syndrome induce distinct gene expression of colonoids.
Iribarren C, Nordlander S, Sundin J, ..., Simrén M, Öhman L
Neurogastroenterol. Motil. 34 (10) e14390 [2022-10-00; online 2022-04-29]
Chalmers Mass Spectrometry Infrastructure [Service] Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Familial platelet disorder due to germline exonic deletions in RUNX1: a diagnostic challenge with distinct alterations of the transcript isoform equilibrium.
Engvall M, Karlsson Y, Kuchinskaya E, ..., Cammenga J, Baliakas P
Leuk. Lymphoma 63 (10) 2311-2320 [2022-10-00; online 2022-05-09]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
DOI Crossref
Endophytes dominate fungal communities in six-year-old veteranisation wounds in living oak trunks
Menkis A, Redr D, Bengtsson V, ..., Nordén B, Dahlberg A
Fungal Ecology 59 (-) 101020 [2022-10-00; online 2022-10-00]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Elevation and plant species identity jointly shape a diverse arbuscular mycorrhizal fungal community in the High Arctic.
Rasmussen PU, Abrego N, Roslin T, ..., Hugerth LW, Tack AJM
New Phytol. 236 (2) 671-683 [2022-10-00; online 2022-07-15]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Duplex Sequencing Uncovers Recurrent Low-frequency Cancer-associated Mutations in Infant and Childhood KMT2A-rearranged Acute Leukemia.
Pilheden M, Ahlgren L, Hyrenius-Wittsten A, ..., Gawad C, Hagström-Andersson AK
Hemasphere 6 (10) e785 [2022-10-00; online 2022-09-30]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Cytokine responses to LPS in reprogrammed monocytes are associated with the transcription factor PU.1.
Tuerxun K, Midtbö K, Särndahl E, ..., Eklund D, X-HiDE Consortium
J Leukoc Biol 112 (4) 679-692 [2022-10-00; online 2022-03-13]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Bacteraemia and infective endocarditis with Streptococcus bovis-Streptococcus equinus-complex: a retrospective cohort study.
Öberg J, Nilson B, Gilje P, Rasmussen M, Inghammar M
Infect Dis (Lond) 54 (10) 760-765 [2022-10-00; online 2022-06-22]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Assignment of IVL-Methyl side chain of the ligand-free monomeric human MALT1 paracaspase-IgL3 domain in solution.
Han X, Levkovets M, Lesovoy D, ..., Agback P, Orekhov VY
Biomol NMR Assign 16 (2) 363-371 [2022-10-00; online 2022-09-12]
Swedish NMR Centre [Collaborative]
PubMed DOI Crossref
A saturated map of common genetic variants associated with human height.
Yengo L, Vedantam S, Marouli E, ..., Visscher PM, Hirschhorn JN
Nature 610 (7933) 704-712 [2022-10-00; online 2022-10-12]
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PubMed DOI Crossref
A possible genomic footprint of polygenic adaptation on population divergence in seed beetles?
Arnqvist G, Sayadi A
Ecol Evol 12 (10) e9440 [2022-10-00; online 2022-10-27]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Insight into the pulmonary molecular toxicity of heated tobacco products using human bronchial and alveolar mucosa models at air-liquid interface.
Rahman M, Irmler M, Introna M, ..., Upadhyay S, Ganguly K
Sci Rep 12 (1) 16396 [2022-09-30; online 2022-09-30]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Early Mid-pregnancy Blood-Based Proteins as Possible Biomarkers of Increased Infant Birth Size in Sex-Stratified Analyses.
Lindberger E, Ahlsson F, Junus K, ..., Wikström AK, Sundström Poromaa I
Reprod Sci - (-) 1-11 [2022-09-30; online 2022-09-30]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Discovery of druggable cancer-specific pathways with application in acute myeloid leukemia.
Trac QT, Zhou T, Pawitan Y, Vu TN
Gigascience 11 (-) - [2022-09-29; online 2022-09-30]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Proteome profiling of whole plasma and plasma-derived extracellular vesicles facilitates the detection of tissue biomarkers in the non-obese diabetic mouse.
Diaz Lozano IM, Sork H, Stone VM, ..., Gabrielsson S, Flodström-Tullberg M
Front Endocrinol (Lausanne) 13 (-) 971313 [2022-09-28; online 2022-09-28]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Loss of SNAI1 induces cellular plasticity in invasive triple-negative breast cancer cells.
Tsirigoti C, Ali MM, Maturi V, Heldin CH, Moustakas A
Cell Death Dis 13 (9) 832 [2022-09-28; online 2022-09-28]
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PubMed DOI Crossref
Parasitic strongyle nemabiome communities in wild ruminants in Sweden.
Halvarsson P, Baltrušis P, Kjellander P, Höglund J
Parasit Vectors 15 (1) 341 [2022-09-27; online 2022-09-27]
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Natural alleles of the abscisic acid catabolism gene ZmAbh4 modulate water use efficiency and carbon isotope discrimination in maize.
Blankenagel S, Eggels S, Frey M, ..., Schön CC, Avramova V
Plant Cell 34 (10) 3860-3872 [2022-09-27; online 2022-07-07]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of Single and Combined Serum Metabolites Associated with Food Intake.
Karlsson T, Winkvist A, Rådjursöga M, ..., Pedersen A, Lindqvist HM
Metabolites 12 (10) - [2022-09-27; online 2022-09-27]
Swedish NMR Centre [Collaborative]
PubMed DOI Crossref
A novel neo-sex chromosome in Sylvietta brachyura (Macrosphenidae) adds to the extraordinary avian sex chromosome diversity among Sylvioidea songbirds.
Sigeman H, Zhang H, Ali Abed S, Hansson B
J. Evol. Biol. - (-) - [2022-09-26; online 2022-09-26]
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Untargeted Metabolomics Based on Liquid Chromatography-Mass Spectrometry for the Analysis of Plasma and Erythrocyte Samples in Childhood Obesity.
González-Domínguez Á, Armeni M, Savolainen O, ..., Landberg R, González-Domínguez R
Methods Mol. Biol. 2571 (-) 115-122 [2022-09-25; online 2022-09-25]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
A chromosome-scale reference genome for Spironucleus salmonicida.
Xu F, Jiménez-González A, Kurt Z, ..., Andersson JO, Svärd SG
Sci Data 9 (1) 585 [2022-09-24; online 2022-09-24]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Meiotic drive is associated with sexual incompatibility in Neurospora.
Vogan AA, Svedberg J, Grudzinska-Sterno M, Johannesson H
Evolution - (-) - [2022-09-23; online 2022-09-23]
Bioinformatics Support for Computational Resources [Service]
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Hybrid immunity in immunocompromised patients with CLL after SARS-CoV-2 infection followed by booster mRNA vaccination.
Lisa B, Gao Y, Wullimann D, ..., Hansson L, Osterborg A
Blood - (-) - [2022-09-23; online 2022-09-23]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Inflation of test accuracy due to data leakage in deep learning-based classification of OCT images.
Tampu IE, Eklund A, Haj-Hosseini N
Sci Data 9 (1) 580 [2022-09-22; online 2022-09-22]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
PubMed DOI Crossref
Truncated lubricin glycans in osteoarthritis stimulate the synoviocyte secretion of VEGFA, IL-8, and MIP-1α: Interplay between O-linked glycosylation and inflammatory cytokines.
Huang S, Thomsson KA, Jin C, ..., Krawetz R, Karlsson NG
Front Mol Biosci 9 (-) 942406 [2022-09-21; online 2022-09-21]
Glycoproteomics and MS Proteomics [Collaborative]
DOI Crossref
Silicone Foam for Passive Sampling and Nontarget Analysis of Air
Papazian S, Fornaroli C, Bonnefille B, ..., Xie H, Martin JW
Environ Sci Technol Lett - (-) - [2022-09-21; online 2022-09-21]
Exposomics [Technology development]
PubMed DOI Crossref
To Modify or Not to Modify: Allele-Specific Effects of 3'UTR-KCNQ1 Single Nucleotide Polymorphisms on Clinical Phenotype in a Long QT 1 Founder Population Segregating a Dominant-Negative Mutation.
Winbo A, Diamant UB, Persson J, Jensen SM, Rydberg A
J Am Heart Assoc 11 (18) e025981 [2022-09-20; online 2022-09-14]
Clinical Genomics [Service] Clinical Genomics Umeå [Service]
PubMed DOI Crossref
Synergistic Effects of Sanglifehrin-Based Cyclophilin Inhibitor NV651 with Cisplatin in Hepatocellular Carcinoma.
Simón Serrano S, Tavecchio M, Mallik J, ..., Hansson MJ, Massoumi R
Cancers (Basel) 14 (19) 4553 [2022-09-20; online 2022-09-20]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Expression Levels of hgcAB Genes and Mercury Availability Jointly Explain Methylmercury Formation in Stratified Brackish Waters.
Capo E, Feng C, Bravo AG, ..., Hawkes J, Björn E
Environ. Sci. Technol. 56 (18) 13119-13130 [2022-09-20; online 2022-09-07]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Clearance of small intestinal crypts involves goblet cell mucus secretion by intracellular granule rupture and enterocyte ion transport.
Dolan B, Ermund A, Martinez-Abad B, Johansson MEV, Hansson GC
Sci Signal 15 (752) eabl5848 [2022-09-20; online 2022-09-20]
Integrated Microscopy Technologies Gothenburg [Service]
DOI Crossref
The genomic basis of hybrid male sterility in <i>Ficedula</i> flycatchers
Segami JC, Mugal CF, Cunha C, ..., Semon M, Qvarnström A
biorxiv - (-) - [2022-09-19; online 2022-09-19]
Microbial Single Cell Genomics [Service]
PubMed DOI Crossref
Multifocal Neuroblastoma and Central Hypoventilation in An Infant with Germline ALK F1174I Mutation.
Djos A, Treis D, Fransson S, ..., Kogner P, Martinsson T
Diagnostics 12 (9) - [2022-09-19; online 2022-09-19]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Spatio-temporal analysis of prostate tumors in situ suggests pre-existence of treatment-resistant clones.
Marklund M, Schultz N, Friedrich S, ..., Sonnhammer E, Lundeberg J
Nat Commun 13 (1) 5475 [2022-09-17; online 2022-09-17]
NGI Short read [Service] NGI Spatial omics NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Congenital tremor and splay leg in piglets - insights into the virome, local cytokine response, and histology.
Stenberg H, Hellman S, Lindström L, ..., Hayer J, Malmberg M
BMC Vet Res 18 (1) 348 [2022-09-16; online 2022-09-16]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Treatment of periprosthetic joint infections guided by minimum biofilm eradication concentration (MBEC) in addition to minimum inhibitory concentration (MIC): protocol for a prospective randomised clinical trial.
Tillander JAN, Rilby K, Svensson Malchau K, ..., Rolfson O, Trobos M
BMJ Open 12 (9) e058168 [2022-09-15; online 2022-09-15]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Modification of xylan via an oxidation-reduction reaction.
Palasingh C, Nakayama K, Abik F, ..., Ström A, Nypelö T
Carbohydr Polym 292 (-) 119660 [2022-09-15; online 2022-05-27]
Swedish NMR Centre
PubMed DOI Crossref
Complete Reference Genome Sequence of the Extensively Drug-Resistant Strain Neisseria gonorrhoeae AT159, with Ceftriaxone Resistance and High-Level Azithromycin Resistance, Using Nanopore Q20+ Chemistry and Illumina Sequencing.
Golparian D, Pleininger S, Jacobsson S, Indra A, Unemo M
Microbiol Resour Announc 11 (9) e0074422 [2022-09-15; online 2022-08-25]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Anosmia, mild cognitive impairment, and biomarkers of brain aging in older adults.
Dong Y, Li Y, Liu K, ..., Du Y, Qiu C
Alzheimers Dement - (-) - [2022-09-15; online 2022-09-15]
Affinity Proteomics Stockholm [Service]
DOI Crossref
Nanobody engineering for SARS-CoV-2 neutralization and detection
Hannula L, Kuivanen S, Lasham J, ..., Huiskonen JT, Rissanen I
biorxiv - (-) - [2022-09-14; online 2022-09-14]
Cryo-EM [Service]
PubMed DOI Crossref
Distinct subcellular autophagy impairments in induced neurons from patients with Huntington's disease.
Pircs K, Drouin-Ouellet J, Horváth V, ..., Barker RA, Jakobsson J
Brain 145 (9) 3035-3057 [2022-09-14; online 2021-12-23]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Linked-read whole-genome sequencing resolves common and private structural variants in multiple myeloma.
Peña-Pérez L, Frengen N, Hauenstein J, ..., Lindstrand A, Månsson R
Blood Adv 6 (17) 5009-5023 [2022-09-13; online 2022-06-09]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Immunodeficiency syndromes differentially impact the functional profile of SARS-CoV-2-specific T cells elicited by mRNA vaccination.
Gao Y, Cai C, Wullimann D, ..., Aleman S, Buggert M
Immunity 55 (9) 1732-1746.e5 [2022-09-13; online 2022-07-19]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Autoantibodies targeting malondialdehyde-modifications in rheumatoid arthritis regulate osteoclasts via inducing glycolysis and lipid biosynthesis.
Sakuraba K, Krishnamurthy A, Sun J, ..., Catrina AI, Réthi B
J. Autoimmun. 133 (-) 102903 [2022-09-13; online 2022-09-13]
Swedish Metabolomics Centre [Service]
PubMed DOI Crossref
How broad is the selfing syndrome? Insights from convergent evolution of gene expression across species and tissues in the Capsella genus.
Zhang Z, Kryvokhyzha D, Orsucci M, ..., Milesi P, Lascoux M
New Phytol. - (-) - [2022-09-12; online 2022-09-12]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Expansion of nickel binding- and histidine-rich proteins during gastric adaptation of Helicobacter species.
Fischer F, Vorontsov E, Turlin E, ..., Vinella D, De Reuse H
Metallomics 14 (9) - [2022-09-12; online 2022-08-25]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Sialic Acid and Fucose Residues on the SARS-CoV-2 Receptor-Binding Domain Modulate IgG Antibody Reactivity.
Samuelsson E, Mirgorodskaya E, Nyström K, ..., Liljeqvist JÅ, Nordén R
ACS Infect Dis 8 (9) 1883-1893 [2022-09-09; online 2022-08-18]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Distinctive exercise-induced inflammatory response and exerkine induction in skeletal muscle of people with type 2 diabetes.
Pillon NJ, Smith JAB, Alm PS, ..., Krook A, Zierath JR
Sci Adv 8 (36) eabo3192 [2022-09-09; online 2022-09-07]
Spatial Proteomics [Service]
PubMed DOI Crossref
Target capture data resolve recalcitrant relationships in the coffee family (Rubioideae, Rubiaceae).
Thureborn O, Razafimandimbison SG, Wikström N, Rydin C
Front Plant Sci 13 (-) 967456 [2022-09-08; online 2022-09-08]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Colitis Induces Sex-Specific Intestinal Transcriptomic Responses in Mice.
Hases L, Birgersson M, Indukuri R, Archer A, Williams C
Int J Mol Sci 23 (18) - [2022-09-08; online 2022-09-08]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
ATP6V0C variants impair vacuolar V-ATPase causing a neurodevelopmental disorder often associated with epilepsy.
Mattison KA, Tossing G, Mulroe F, ..., Campeau PM, Escayg A
Brain - (-) - [2022-09-08; online 2022-09-08]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
AI-based prostate analysis system trained without human supervision to predict patient outcome from tissue samples.
Walhagen P, Bengtsson E, Lennartz M, Sauter G, Busch C
J Pathol Inform 13 (-) 100137 [2022-09-08; online 2022-09-08]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
PubMed DOI Crossref
Human CD38 regulates B cell antigen receptor dynamic organization in normal and malignant B cells.
Camponeschi A, Kläsener K, Sundell T, ..., Reth M, Mårtensson IL
J. Exp. Med. 219 (9) - [2022-09-05; online 2022-07-12]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Schwann cell precursors represent a neural crest-like state with biased multipotency.
Kastriti ME, Faure L, Von Ahsen D, ..., Fried K, Adameyko I
EMBO J. 41 (17) e108780 [2022-09-01; online 2022-07-11]
NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Distinct metabolic hallmarks of WHO classified adult glioma subtypes.
Björkblom B, Wibom C, Eriksson M, ..., Sandström M, Melin B
Neuro-oncology 24 (9) 1454-1468 [2022-09-01; online 2022-02-15]
Swedish Metabolomics Centre [Service]
PubMed DOI Crossref
An induced pluripotent stem cell t(7;12)(q36;p13) acute myeloid leukemia model shows high expression of MNX1 and a block in differentiation of the erythroid and megakaryocytic lineages.
Nilsson T, Waraky A, Östlund A, ..., Abrahamsson J, Palmqvist L
Int. J. Cancer 151 (5) 770-782 [2022-09-01; online 2022-06-03]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Technology development] Clinical Genomics Gothenburg [Technology development]
PubMed DOI Crossref
A small molecule screen for paqr-2 suppressors identifies Tyloxapol as a membrane fluidizer for C. elegans and mammalian cells.
Ruiz M, Svensk E, Einarsson E, Grahn EP, Pilon M
Biochimica et Biophysica Acta (BBA) - Biomembranes 1864 (9) 183959 [2022-09-01; online 2022-05-17]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Valorization of hydrolysis lignin from a spruce-based biorefinery by applying γ-valerolactone treatment.
Momayez F, Hedenström M, Stagge S, Jönsson LJ, Martín C
Bioresour. Technol. 359 (-) 127466 [2022-09-00; online 2022-06-13]
Swedish NMR Centre [Collaborative]
PubMed DOI Crossref
The role of Gdf5 in the development of the zebrafish fin endoskeleton.
Waldmann L, Leyhr J, Zhang H, ..., Öhman-Mägi C, Haitina T
Dev. Dyn. 251 (9) 1535-1549 [2022-09-00; online 2021-07-29]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Temporal brain transcriptome analysis reveals key pathological events after germinal matrix hemorrhage in neonatal rats.
Song J, Nilsson G, Xu Y, ..., Zhu C, Wang X
J. Cereb. Blood Flow Metab. 42 (9) 1632-1649 [2022-09-00; online 2022-05-01]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Sir2 and Reb1 antagonistically regulate nucleosome occupancy in subtelomeric X-elements and repress TERRAs by distinct mechanisms.
Bauer SL, Grochalski TNT, Smialowska A, Åström SU
PLoS Genet. 18 (9) e1010419 [2022-09-00; online 2022-09-22]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Quantitative Proteomics Identifies Proteins Enriched in Large and Small Extracellular Vesicles.
Lischnig A, Bergqvist M, Ochiya T, Lässer C
Mol. Cell Proteomics 21 (9) 100273 [2022-09-00; online 2022-07-30]
Glycoproteomics and MS Proteomics [Service]
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Pupil size and pupillary light reflex in early infancy: heritability and link to genetic liability to schizophrenia.
Portugal AM, Taylor MJ, Viktorsson C, ..., Ronald A, Falck-Ytter T
J Child Psychol Psychiatry 63 (9) 1068-1077 [2022-09-00; online 2021-12-23]
Bioinformatics Support for Computational Resources [Service]
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Proteins associated with future suicide attempts in bipolar disorder: A large-scale biomarker discovery study.
Sandberg JV, Hansson C, Göteson A, ..., Pålsson E, Landén M
Mol. Psychiatry 27 (9) 3857-3863 [2022-09-00; online 2022-06-13]
Affinity Proteomics Uppsala [Service]
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Plasma proteome profiling of healthy individuals across the life span in a Sicilian cohort with long-lived individuals.
Siino V, Ali A, Accardi G, ..., Levander F, Vasto S
Aging Cell 21 (9) e13684 [2022-09-00; online 2022-08-06]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Bioinformatics Support for Computational Resources [Service]
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Bakovic V, Höglund A, Martin Cerezo ML, Henriksen R, Wright D
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Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Zhao C, Biondic S, Vandal K, ..., Reik W, Petropoulos S
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Spain O, Funk C
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Cryo-EM [Service] Integrated Microscopy Technologies Umeå [Service] Swedish Metabolomics Centre [Service]
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NGI Long read [Technology development] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
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Ageing desexualizes the Drosophila brain transcriptome.
Malacrinò A, Brengdahl MI, Kimber CM, ..., Mirabello C, Friberg U
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Bioinformatics Support for Computational Resources [Service]
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Integrated Microscopy Technologies Umeå [Service]
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Clinical Genomics [Service] Clinical Genomics Lund [Service]
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NGI Long read [Technology development] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
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Rosenhahn E, O'Brien TJ, Zaki MS, ..., Maroofian R, Platzer K
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Swedish Metabolomics Centre [Collaborative]
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Pavliuk MV, Lorenzi M, Morado DR, ..., Berggren G, Tian H
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Cryo-EM [Collaborative]
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Rheumatology (Oxford) 61 (8) 3461-3470 [2022-08-03; online 2021-12-11]
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Tunstrom K, Wheat CW, Parmesan C, Singer MC, Mikheyev AS
Genome Biol Evol 14 (8) - [2022-08-03; online 2022-07-26]
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Bioinformatics Support for Computational Resources [Service]
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Recessive inborn errors of type I IFN immunity in children with COVID-19 pneumonia.
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Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Metabolic control of arginine and ornithine levels paces the progression of leaf senescence.
Liebsch D, Juvany M, Li Z, ..., Guo H, Keech O
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Swedish Metabolomics Centre [Technology development]
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Modin O, Fuad N, Abadikhah M, ..., Persson F, Wilén BM
Water Res X 16 (-) 100146 [2022-08-01; online 2022-06-16]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Westerdahl H, Mellinger S, Sigeman H, ..., Wolf JBW, Strandh M
Mol Ecol Resour 22 (6) 2379-2395 [2022-08-00; online 2022-04-11]
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TCF4 trinucleotide repeat expansion in Swedish cases with Fuchs' endothelial corneal dystrophy.
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Clinical Genomics [Service] Clinical Genomics Umeå [Service]
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Sulfated glycan recognition by carbohydrate sulfatases of the human gut microbiota.
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Glycoproteomics and MS Proteomics [Collaborative]
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Spatially resolved clonal copy number alterations in benign and malignant tissue.
Erickson A, He M, Berglund E, ..., Lamb AD, Lundeberg J
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NGI Short read [Service] NGI Spatial omics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Simple and rapid quantification of cetirizine, venlafaxine, and O-desmethylvenlafaxine in human breast milk, and metformin in human milk and plasma with UHPLC-MS/MS
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Gupta A, Sabirsh A, Wahlby C, Sintorn IM
IEEE J Biomed Health Inform 26 (8) 4079-4089 [2022-08-00; online 2022-08-11]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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Latz MAC, Grujcic V, Brugel S, ..., Andersson A, Andersson AF
Mol Ecol Resour 22 (6) 2304-2318 [2022-08-00; online 2022-05-06]
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Bandara T, Brugel S, Andersson A, Lau DCP
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Swedish Metabolomics Centre [Service]
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Avella A, Idström A, Mincheva R, ..., Raquez JM, Lo Re G
Composites Part A: Applied Science and Manufacturing - (-) 107166 [2022-08-00; online 2022-08-00]
Swedish NMR Centre [Service]
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Biochimie 199 (-) 81-91 [2022-08-00; online 2022-04-20]
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Berdan EL, Blanckaert A, Butlin RK, ..., Slotte T, Wielstra B
Philos. Trans. R. Soc. Lond., B, Biol. Sci. 377 (1856) 20210199 [2022-08-00; online 2022-06-13]
Bioinformatics Support for Computational Resources [Service]
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Muurinen M, Taylan F, Tournis S, ..., Mäkitie O, Costantini A
JBMR Plus 6 (8) e10660 [2022-08-00; online 2022-07-05]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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De Loma J, Vicente M, Tirado N, ..., Schlebusch CM, Broberg K
Chemosphere 301 (-) 134764 [2022-08-00; online 2022-04-28]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Long read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Redondo MA, Oliva J, Elfstrand M, ..., Karlsson B, Berlin A
Environ. Microbiol. 24 (8) 3640-3654 [2022-08-00; online 2022-03-22]
Bioinformatics Support for Computational Resources [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Pandzic T, Ladenvall C, Engvall M, ..., Ljungström V, Baliakas P
Hemasphere 6 (8) e761 [2022-08-00; online 2022-08-02]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Anugwom I, Lahtela V, Hedenström M, ..., Kärki T, Kallioinen-Mänttäri M
Glob Chall 6 (8) 2100137 [2022-08-00; online 2022-06-11]
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Mielke LA, Ekblad A, Finlay RD, ..., Lindahl BD, Clemmensen KE
J Ecol 110 (8) 1928-1941 [2022-08-00; online 2022-06-15]
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Mund A, Coscia F, Kriston A, ..., Horvath P, Mann M
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Marco Salas S, Yuan X, Sylven C, ..., Wählby C, Partel G
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Lundtoft C, Pucholt P, Martin M, ..., Svenungsson E, Rönnblom L
Arthritis & rheumatology (Hoboken, N.J.) 74 (8) 1440-1450 [2022-08-00; online 2022-06-27]
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Lundgren E, Romero-Severson E, Albert J, Leitner T
PLoS Comput. Biol. 18 (8) e1009741 [2022-08-00; online 2022-08-26]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Gramlich S, Liu X, Favre A, Buerkle CA, Karrenberg S
New Phytol. 235 (4) 1641-1652 [2022-08-00; online 2022-06-23]
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Ramdas S, Judd J, Graham SE, ..., Zhu X, Brown CD
The American Journal of Human Genetics 109 (8) 1366-1387 [2022-08-00; online 2022-08-00]
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Papapavlou Lingehed G, Hellberg S, Huang J, ..., Olsson T, Ernerudh J
Front Immunol 13 (-) 930947 [2022-07-29; online 2022-07-29]
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Golparian D, Kittiyaowamarn R, Paopang P, ..., Wi T, Unemo M
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Cholleti H, de Jong J, Blomström AL, Berg M
Viruses 14 (8) - [2022-07-28; online 2022-07-28]
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Li P, Hendricks AL, Wang Y, ..., Wang K, Gourdon P
Nat Commun 13 (1) 4339 [2022-07-27; online 2022-07-27]
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Petkov S, Herrera C, Else L, ..., Fox J, Chiodi F
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Rodríguez J, Andersson A, Björn E, ..., Skrobonja A, Rowe O
Front Microbiol 13 (-) 809166 [2022-07-27; online 2022-07-27]
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Khatri B, Tessneer KL, Rasmussen A, ..., Nordmark G, Lessard CJ
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Zhigulev A, Sahlén P
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Costa Svedman F, Das I, Tuominen R, ..., Höiom V, Egyhazi Brage S
Cancers (Basel) 14 (15) - [2022-07-22; online 2022-07-22]
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Klinke N, Meyer H, Ratnavadivel S, ..., Milting H, Paululat A
Cell. Mol. Life Sci. 79 (8) 444 [2022-07-22; online 2022-07-22]
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Richards M, Nwadozi E, Pal S, ..., Nordling S, Claesson-Welsh L
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Pol T, Hijazi Z, Lindbäck J, ..., Siegbahn A, Wallentin L
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Slazak B, Jędrzejska A, Badyra B, ..., Andrén PE, Göransson U
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Khan F, Gonçalves I, Shore AC, ..., Kozakova M, Nilsson J
Cell Reports Medicine 3 (7) 100676 [2022-07-19; online 2022-07-21]
Affinity Proteomics Uppsala [Service]
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Schaal W, Ameur A, Olsson-Strömberg U, ..., Cavelier L, Spjuth O
Cancer Inform 21 (-) 11769351221110872 [2022-07-15; online 2022-07-15]
NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Lipoxins reduce obesity-induced adipose tissue inflammation in 3D-cultured human adipocytes and explant cultures.
Soták M, Rajan MR, Clark M, ..., Lange S, Börgeson E
iScience 25 (7) 104602 [2022-07-15; online 2022-06-11]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Kim SY, Rasmussen U, Rydberg S
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Swedish Metabolomics Centre [Service]
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Kuhl H, Du K, Schartl M, ..., Stöck M, Lamatsch DK
Nat Commun 13 (1) 4092 [2022-07-14; online 2022-07-14]
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Haase R, Fazeli E, Legland D, ..., Klemm A, Tischer C
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BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Selvin T, Fasterius E, Jarvius M, ..., Larsson R, Andersson CR
Sci Rep 12 (1) 11960 [2022-07-13; online 2022-07-13]
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Hardt U, Carlberg K, Af Klint E, ..., Ståhl PL, Malmström V
Sci Rep 12 (1) 11876 [2022-07-13; online 2022-07-13]
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Marčiulynas A, Marčiulynienė D, Mishcherikova V, ..., Gedminas A, Menkis A
Forests 13 (7) 1103 [2022-07-13; online 2022-07-13]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Chen L, Eriksson A, Weström S, ..., Cavelier L, Landegren U
Nat Commun 13 (1) 4033 [2022-07-12; online 2022-07-12]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Piombo E, Vetukuri RR, Sundararajan P, ..., Karlsson M, Dubey M
Appl. Environ. Microbiol. 88 (13) e0064322 [2022-07-12; online 2022-06-13]
Bioinformatics Support for Computational Resources [Service]
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Ballarino R, Bouwman BAM, Agostini F, ..., Bienko M, Crosetto N
Sci Data 9 (1) 400 [2022-07-12; online 2022-07-12]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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André D, Marcon A, Lee KC, ..., Schmid M, Nilsson O
Curr. Biol. 32 (13) 2988-2996.e4 [2022-07-11; online 2022-06-03]
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Hoffman T, Sjödin A, Öhrman C, ..., Lundkvist Å, Olsen B
Microorganisms 10 (7) 1393 [2022-07-11; online 2022-07-11]
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Rubin CJ, Enbody ED, Dobreva MP, ..., Grant PR, Andersson L
Sci Adv 8 (27) eabm5982 [2022-07-08; online 2022-07-08]
Bioinformatics Support for Computational Resources [Service]
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Genetically controlled mtDNA deletions prevent ROS damage by arresting oxidative phosphorylation.
Stenberg S, Li J, Gjuvsland AB, ..., Omholt SW, Warringer J
Elife 11 (-) - [2022-07-08; online 2022-07-08]
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Asplund Högelin K, Ruffin N, Pin E, ..., Piehl F, Al Nimer F
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Autoimmunity and Serology Profiling [Collaborative]
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Kobialka P, Sabata H, Vilalta O, ..., Castillo SD, Graupera M
EMBO Mol Med 14 (7) e15619 [2022-07-07; online 2022-06-13]
Bioinformatics Support for Computational Resources [Service]
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Quantifying the ion coordination strength in polymer electrolytes.
Andersson R, Hernández G, Mindemark J
Phys Chem Chem Phys 24 (26) 16343-16352 [2022-07-06; online 2022-07-06]
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Varg JE, Outomuro D, Kunce W, ..., Svanbäck R, Johansson F
Environ Microbiome 17 (1) 36 [2022-07-06; online 2022-07-06]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Petitpré C, Faure L, Uhl P, ..., Hadjab S, Lallemend F
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Seasonal Dynamics in Carbon Cycling of Marine Bacterioplankton Are Lifestyle Dependent.
Martínez-García S, Bunse C, Pontiller B, ..., Legrand C, Pinhassi J
Front Microbiol 13 (-) 834675 [2022-07-05; online 2022-07-05]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Patient-Specific Assays Based on Whole-Genome Sequencing Data to Measure Residual Disease in Children With Acute Lymphoblastic Leukemia: A Proof of Concept Study.
Arthur C, Rezayee F, Mogensen N, ..., Tham E, Barbany G
Front Oncol 12 (-) 899325 [2022-07-05; online 2022-07-05]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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In vivo Characterization of Endogenous Protein Interactomes in Drosophila Larval Brain, Using a CRISPR/Cas9-based Strategy and BioID-based Proximity Labeling.
Uçkun E, Wolfstetter G, Fuchs J, Palmer RH
BIO-PROTOCOL 12 (13) - [2022-07-05; online 2022-07-05]
Glycoproteomics and MS Proteomics [Collaborative]
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Campbell TM, Liu Z, Zhang Q, ..., Meyts I, Bryceson YT
J. Exp. Med. 219 (7) - [2022-07-04; online 2022-06-07]
Clinical Genomics [Service] Clinical Genomics Stockholm [Service]
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Oskolkov N, Santel M, Parikh HM, ..., Pääbo S, Hansson O
Skelet Muscle 12 (1) 16 [2022-07-02; online 2022-07-02]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Korduner J, Holm H, Jujic A, ..., Olsen MH, Magnusson M
Cardiovasc Diabetol 21 (1) 125 [2022-07-02; online 2022-07-02]
Affinity Proteomics Uppsala [Service]
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Taskinen MR, Matikainen N, Björnson E, ..., Packard CJ, Borén J
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Glycoproteomics and MS Proteomics [Service]
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Hafstað V, Søkilde R, Häkkinen J, ..., Rovira C, Persson H
Int. J. Cancer 151 (1) 95-106 [2022-07-01; online 2022-02-26]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Videla Rodriguez EA, Pértille F, Guerrero-Bosagna C, ..., Jensen P, Smith VA
BMC Bioinformatics 23 (1) 261 [2022-07-01; online 2022-07-01]
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Weak population genetic structure in Eurasian spruce bark beetle over large regional scales in Sweden.
Ellerstrand SJ, Choudhury S, Svensson K, ..., Hansson B, Runemark A
Ecol Evol 12 (7) e9078 [2022-07-00; online 2022-07-06]
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Suppressors of amyloid-β toxicity improve recombinant protein production in yeast by reducing oxidative stress and tuning cellular metabolism.
Chen X, Li X, Ji B, ..., Siewers V, Engqvist MKM
Metab. Eng. 72 (-) 311-324 [2022-07-00; online 2022-05-01]
Glycoproteomics and MS Proteomics [Service]
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Regnell O, Tesson SVM, Oskolkov N, Nerentorp M
Water Air Soil Pollut 233 (7) - [2022-07-00; online 2022-06-20]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Longitudinal assessment of inflammatory markers in the peripartum period by depressive symptom trajectory groups.
Bränn E, Skalkidou A, Schwarz J, ..., Sundström Poromaa I, Fransson E
Brain Behav Immun Health 22 (-) 100468 [2022-07-00; online 2022-05-02]
Affinity Proteomics Stockholm [Service]
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Inactivation of the entire Arabidopsis group II GH3s confers tolerance to salinity and water deficit.
Casanova-Sáez R, Mateo-Bonmatí E, Šimura J, ..., Staswick P, Ljung K
New Phytol. 235 (1) 263-275 [2022-07-00; online 2022-04-16]
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Zacharaki V, Ponnu J, Crepin N, ..., Rolland F, Schmid M
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Higher levels of Bifidobacteria and tumor necrosis factor in children with drug-resistant epilepsy are associated with anti-seizure response to the ketogenic diet.
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Do cold weather temperatures affect the efficacy of skin decontamination?
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Comparative structural analysis provides new insights into the function of R2-like ligand-binding oxidase.
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Ancient DNA from a 2700-year-old goitered gazelle (Gazella subgutturosa) supports gazelle hunting in Iron Age Central Asia.
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A breathing mask attenuates acute airway responses to exercise in sub-zero environment in healthy subjects.
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An empirical evaluation of genotype imputation of ancient DNA.
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Sorafenib and nitazoxanide disrupt mitochondrial function and inhibit regrowth capacity in three-dimensional models of hepatocellular and colorectal carcinoma.
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Nitrogen represses haustoria formation through abscisic acid in the parasitic plant Phtheirospermum japonicum.
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The long noncoding RNA ADIPINT regulates human adipocyte metabolism via pyruvate carboxylase.
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Genome-wide association meta-analysis identifies 48 risk variants and highlights the role of the stria vascularis in hearing loss.
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Association between systemic inflammation and experimental pain sensitivity in subjects with pain and painless neuropathy after traumatic nerve injuries.
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A randomized controlled trial of the effects of whole grains versus refined grains diets on the microbiome in pregnancy.
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A Fatty Diet Induces a Jejunal Ketogenesis Which Inhibits Local SGLT1-Based Glucose Transport via an Acetylation Mechanism-Results from a Randomized Cross-Over Study between Iso-Caloric High-Fat versus High-Carbohydrate Diets in Healthy Volunteers.
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"ON THE IMPORTANCE OF VARIATION OF ALKALISATION CONDITIONS ON CELLULOSE ETHER SYNTHESIS"
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The outcome of targeted NGS screening in patients with syndromic forms of sagittal and pansynostosis - IL11RA is an emerging core-gene for pansynostosis.
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Re: Chen Dong, Sung-Lang Chen, and Wen-Wei Sung's Letter to the Editor re: Karin Welén, Ebba Rosendal, Magnus Gisslén, et al. A Phase 2 Trial of the Effect of Antiandrogen Therapy on COVID-19 Outcome: No Evidence of Benefit, Supported by Epidemiology and In Vitro Data. Eur Urol. 2022;81:285-93.
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Global Proteomics and Proteogenomics [Service]
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Swedish Metabolomics Centre [Service]
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Evolution, geographic spreading, and demographic distribution of Enterovirus D68.
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Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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RpuS/R Is a Novel Two-Component Signal Transduction System That Regulates the Expression of the Pyruvate Symporter MctP in Sinorhizobium fredii NGR234.
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Bronge M, Högelin KA, Thomas OG, ..., Olsson T, Grönlund H
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Insects 13 (5) 403 [2022-04-22; online 2022-04-22]
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Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Early Detection of Oral Potentially Malignant Disorders: A Review on Prospective Screening Methods with Regard to Global Challenges
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AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Jacobsson S, Golparian D, Oxelbark J, ..., Drusano G, Unemo M
Front Pharmacol 13 (-) 874176 [2022-04-14; online 2022-04-14]
Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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HPA-axis dysregulation is not associated with accelerated epigenetic aging in patients with hypersexual disorder.
Boström ADE, Andersson P, Chatzittofis A, ..., Arver S, Jokinen J
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Drug Discovery and Development [Service]
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Peripheral blood CD4+CCR6+ compartment differentiates HIV-1 infected or seropositive elite controllers from long-term successfully treated individuals.
Svensson Akusjärvi S, Krishnan S, Jütte BB, ..., Sönnerborg A, Neogi U
Commun Biol 5 (1) 357 [2022-04-13; online 2022-04-13]
Affinity Proteomics Uppsala [Service]
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Dehasque M, Pečnerová P, Kempe Lagerholm V, ..., Vartanyan S, Dalén L
Genes 13 (4) - [2022-04-13; online 2022-04-13]
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Spatial Mass Spectrometry [Technology development]
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Syst. Biol. - (-) - [2022-04-12; online 2022-04-12]
Bioinformatics Support for Computational Resources [Service]
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Molecular Organisation of Tick-Borne Encephalitis Virus.
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Viruses 14 (4) - [2022-04-11; online 2022-04-11]
Cryo-EM [Service]
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BMC Genomics 23 (1) 276 [2022-04-07; online 2022-04-07]
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Raine A, Lundmark A, Annett A, ..., Bergin C, Nordlund J
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Direct measurements of mRNA translation kinetics in living cells.
Metelev M, Lundin E, Volkov IL, ..., Elf J, Johansson M
Nat Commun 13 (1) 1852 [2022-04-06; online 2022-04-06]
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SLC38A10 Regulate Glutamate Homeostasis and Modulate the AKT/TSC2/mTOR Pathway in Mouse Primary Cortex Cells.
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Autoimmunity and Serology Profiling [Service] Swedish Metabolomics Centre [Service]
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Well-Plate μFASP for Proteomic Analysis of Single Pancreatic Islets.
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Spatial Mass Spectrometry [Collaborative]
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Uterine fluid microRNAs are dysregulated in women with recurrent implantation failure.
von Grothusen C, Frisendahl C, Modhukur V, ..., Boggavarapu NR, Gemzell-Danielsson K
Hum. Reprod. 37 (4) 734-746 [2022-04-01; online 2022-02-12]
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Induction of Mitochondrial Fragmentation and Mitophagy after Neonatal Hypoxia-Ischemia.
Nair S, Leverin AL, Rocha-Ferreira E, ..., Mallard C, Hagberg H
Cells 11 (7) - [2022-04-01; online 2022-04-01]
Integrated Microscopy Technologies Gothenburg [Service]
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Glycoproteomic and Phenotypic Elucidation of B4GALNT2 Expression Variants in the SID Histo-Blood Group System.
Stenfelt L, Nilsson J, Hellberg Å, ..., Larson G, Olsson ML
Int J Mol Sci 23 (7) - [2022-04-01; online 2022-04-01]
Glycoproteomics and MS Proteomics [Collaborative]
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Two structural types of dithiocarbamato-chlorido complexes of mercury(II): Preparation, supramolecular self-assembly, solid-state 13C and 15N NMR characterisation and thermal behaviour of pseudo-polymeric compounds of [Hg2(S2CNBu2)2Cl2] and [Hg4(S2CNiBu2)6][Hg2Cl6]
Loseva OV, Rodina TA, Shah FU, ..., Antzutkin ON, Ivanov AV
Inorganica Chimica Acta 533 (-) 120786 [2022-04-00; online 2022-04-00]
Swedish NMR Centre [Service]
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Timing is everything - obtaining accurate measures of plant uptake of amino acids.
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Swedish Metabolomics Centre [Service]
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Target sequence capture of Barnadesioideae (Compositae) demonstrates the utility of low coverage loci in phylogenomic analyses.
Ferreira PdL, Batista R, Andermann T, ..., Bacon CD, Antonelli A
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Multiomics Analysis Reveals the Impact of Microbiota on Host Metabolism in Hepatic Steatosis.
Zeybel M, Arif M, Li X, ..., Borén J, Mardinoglu A
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Affinity Proteomics Stockholm [Service]
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Multidisciplinary investigation reveals an individual of West African origin buried in a Portuguese Mesolithic shell midden four centuries ago
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Metabolism is a major driver of hydrogen isotope fractionation recorded in tree-ring glucose of Pinus nigra.
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Long-term SARS-CoV-2-specific and cross-reactive cellular immune responses correlate with humoral responses, disease severity, and symptomatology.
Laurén I, Havervall S, Ng H, ..., Thålin C, Mangsbo S
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Autoimmunity and Serology Profiling [Collaborative]
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Long-Term Follow-Up of Newborns with 22q11 Deletion Syndrome and Low TRECs
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Clinical Genomics [Service] Clinical Genomics Umeå [Service]
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Inherited IFNAR1 Deficiency in a Child with Both Critical COVID-19 Pneumonia and Multisystem Inflammatory Syndrome
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BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Mateus Brandão LE, Espes D, Westholm JO, ..., Benedict C, Cedernaes J
J Sleep Res 31 (2) e13472 [2022-04-00; online 2021-09-02]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Bioinformatics Support for Computational Resources [Service]
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Sci Rep 12 (1) 5260 [2022-03-28; online 2022-03-28]
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Bioinformatics Support for Computational Resources [Service]
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Yau ACY, Globisch MA, Onyeogaziri FC, ..., Dejana E, Magnusson PU
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Affinity Proteomics Uppsala [Service]
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Autoimmunity and Serology Profiling [Collaborative]
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The respiratory supercomplex from C. glutamicum.
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Structure 30 (3) 338-349.e3 [2022-03-03; online 2021-12-14]
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Swedish NMR Centre [Service]
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Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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Cell Rep 38 (9) 110440 [2022-03-01; online 2022-03-03]
Bioinformatics Support for Computational Resources [Service] Integrated Microscopy Technologies Stockholm [Collaborative] NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Whole-genome resequencing of temporally stratified samples reveals substantial loss of haplotype diversity in the highly inbred Scandinavian wolf population.
Viluma A, Flagstad Ø, Åkesson M, ..., Wabakken P, Ellegren H
Genome Res. 32 (3) 449-458 [2022-03-00; online 2022-02-08]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Heredity (Edinb) 128 (3) 159-168 [2022-03-00; online 2022-01-26]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Formenti G, Theissinger K, Fernandes C, ..., Bálint M, European Reference Genome Atlas (ERGA) Consortium
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NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Swedish Metabolomics Centre [Service]
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Mahjani B, Klei L, Mattheisen M, ..., Devlin B, Grice DE
Am J Psychiatry 179 (3) 216-225 [2022-03-00; online 2021-11-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Stsiapanava A, Xu C, Nishio S, ..., Wu B, Jovine L
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Cryo-EM [Collaborative]
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Guzzi N, Muthukumar S, Cieśla M, ..., Dimitriou M, Bellodi C
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Structural Proteomics [Collaborative]
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Ljungström V, Mattisson J, Halvardson J, ..., Baliakas P, Forsberg LA
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Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Uppsala [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Local selection signals in the genome of blue tits emphasize regulatory and neuronal evolution.
Mueller JC, Botero-Delgadillo E, Espíndola-Hernández P, ..., Gruselius J, Kempenaers B
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NGI Short read [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Hypoxia induces radioresistance, epithelial‑mesenchymal transition, cancer stem cell‑like phenotype and changes in genes possessing multiple biological functions in head and neck squamous cell carcinoma.
Wiechec E, Matic N, Ali A, Roberg K
Oncol. Rep. 47 (3) - [2022-03-00; online 2022-01-21]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Genomic divergence and a lack of recent introgression between commercial and wild bumblebees (Bombus terrestris).
Kardum Hjort C, Paris JR, Olsson P, ..., Dudaniec RY, Smith HG
Evol Appl 15 (3) 365-382 [2022-03-00; online 2022-03-14]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Effects of operational taxonomic unit inference methods on soil microeukaryote community analysis using long-read metabarcoding.
Eshghi Sahraei S, Furneaux B, Kluting K, ..., Hytteborn H, Rosling A
Ecol Evol 12 (3) e8676 [2022-03-00; online 2022-03-08]
Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Clonal relations in the mouse brain revealed by single-cell and spatial transcriptomics.
Ratz M, von Berlin L, Larsson L, ..., Lundeberg J, Frisén J
Nat. Neurosci. 25 (3) 285-294 [2022-03-00; online 2022-02-24]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Single cell [Service] NGI Spatial omics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Blood protein profiles related to preterm birth and retinopathy of prematurity.
Danielsson H, Tebani A, Zhong W, ..., Uhlén M, Hellström A
Pediatr. Res. 91 (4) 937-946 [2022-03-00; online 2021-04-24]
Affinity Proteomics Stockholm [Service]
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Bioproduction of (Z,E)-9,12-tetradecadienyl acetate (ZETA), the major pheromone component of Plodia, Ephestia, and Spodoptera species in yeast.
Ding BJ, Wang HL, Al-Saleh MA, Löfstedt C, Antony B
Pest Manag Sci 78 (3) 1048-1059 [2022-03-00; online 2021-12-06]
Bioinformatics Support for Computational Resources [Service]
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Associations between biomarkers of multimorbidity burden and mortality risk among patients with acute dyspnea.
Wessman T, Tofik R, Ruge T, Melander O
Intern Emerg Med 17 (2) 559-567 [2022-03-00; online 2021-08-20]
Affinity Proteomics Uppsala [Service]
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ADAR1- and ADAR2-mediated regulation of maturation and targeting of miR-376b to modulate GABA neurotransmitter catabolism.
Widmark A, Sagredo EA, Karlström V, ..., Daniel C, Öhman M
J. Biol. Chem. 298 (3) 101682 [2022-03-00; online 2022-02-03]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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In-Flight Transmission of a SARS-CoV-2 Lineage B.1.617.2 Harbouring the Rare S:E484Q Immune Escape Mutation.
Martinell M, Andersson T, Mannsverk SS, ..., Lindh J, Kaden R
Viruses 14 (3) - [2022-02-28; online 2022-02-28]
Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]
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Salivary biomarkers in children with juvenile idiopathic arthritis and healthy age-matched controls: a prospective observational study.
Collin M, Ernberg M, Christidis N, Hedenberg-Magnusson B
Sci Rep 12 (1) 3240 [2022-02-25; online 2022-02-25]
Affinity Proteomics Stockholm [Service]
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Molecular Epidemiology and Transmission Dynamics of the HIV-1 Epidemic in Ethiopia: Epidemic Decline Coincided With Behavioral Interventions Before ART Scale-Up.
Arimide DA, Esquivel-Gómez LR, Kebede Y, ..., Kühnert D, Medstrand P
Front Microbiol 13 (-) 821006 [2022-02-25; online 2022-02-25]
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Marking U, Havervall S, Greilert-Norin N, ..., Åberg M, Thålin C
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Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
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Börjesson V, Martinez-Monleon A, Fransson S, ..., Milosevic J, López MD
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Fungal Genetics Reports 66 (1) - [2022-02-18; online 2022-02-18]
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Sturk-Andreaggi K, Ring JD, Ameur A, ..., Marshall C, Allen M
Int J Mol Sci 23 (4) - [2022-02-17; online 2022-02-17]
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Parigi SM, Larsson L, Das S, ..., Lundeberg J, Villablanca EJ
Nat Commun 13 (1) 828 [2022-02-11; online 2022-02-11]
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Acta Orthop 93 (-) 317-326 [2022-02-08; online 2022-02-08]
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Palica K, Vorácová M, Skagseth S, ..., Andersson H, Erdélyi M
ACS Omega 7 (5) 4550-4562 [2022-02-08; online 2022-01-25]
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Hou XQ, Zhang DD, Powell D, ..., Andersson MN, Löfstedt C
BMC Biol. 20 (1) 34 [2022-02-07; online 2022-02-07]
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Front Genet 12 (-) 803683 [2022-02-04; online 2022-02-04]
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Sci Adv 8 (5) eabl6496 [2022-02-04; online 2022-02-04]
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A Sparse Model-Inspired Deep Thresholding Network for Exponential Signal Reconstruction--Application in Fast Biological Spectroscopy.
Wang Z, Guo D, Tu Z, ..., Orekhov V, Qu X
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The miRNome function transitions from regulating developmental genes to transposable elements during pollen maturation.
Oliver C, Annacondia ML, Wang Z, ..., Köhler C, Martinez G
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Oburoglu L, Mansell E, Canals I, ..., Soneji S, Woods NB
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Metabolites 12 (2) 139 [2022-02-02; online 2022-02-22]
Swedish NMR Centre [Collaborative]
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Chalmers Mass Spectrometry Infrastructure [Collaborative]
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Rush JS, Parajuli P, Ruda A, ..., Widmalm G, Korotkova N
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Matsuoka R, Fudim R, Jung S, ..., Beckstein O, Drew D
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Bioinformatics Support for Computational Resources [Service]
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NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Substrate-bound and substrate-free outward-facing structures of a multidrug ABC exporter.
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BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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Sequence specificity in DNA binding is mainly governed by association.
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Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development [Collaborative]
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Medications Activating Tubular Fatty Acid Oxidation Enhance the Protective Effects of Roux-en-Y Gastric Bypass Surgery in a Rat Model of Early Diabetic Kidney Disease.
Martin WP, Chuah YHD, Abdelaal M, ..., le Roux CW, Docherty NG
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Standards recommendations for the Earth BioGenome Project.
Lawniczak MKN, Durbin R, Flicek P, ..., Lewin HA, Richards S
Proc. Natl. Acad. Sci. U.S.A. 119 (4) - [2022-01-25; online 2022-01-20]
NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Occasional paternal inheritance of the germline-restricted chromosome in songbirds.
Pei Y, Forstmeier W, Ruiz-Ruano FJ, ..., Suh A, Kempenaers B
Proc. Natl. Acad. Sci. U.S.A. 119 (4) - [2022-01-25; online 2022-01-22]
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Method To Visualize the Intratumor Distribution and Impact of Gemcitabine in Pancreatic Ductal Adenocarcinoma by Multimodal Imaging.
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Anal. Chem. 94 (3) 1795-1803 [2022-01-25; online 2022-01-10]
Spatial Mass Spectrometry [Collaborative]
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Massive genome inversion drives coexistence of divergent morphs in common quails.
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Curr. Biol. 32 (2) 462-469.e6 [2022-01-24; online 2021-11-29]
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Single-Cell Transcriptomics reveals relaxed evolutionary constraint of spermatogenesis in two passerine birds as compared to mammals
Segami JC, Semon M, Cunha C, ..., Mugal CF, Qvarnström A
biorxiv - (-) - [2022-01-23; online 2022-01-23]
Microbial Single Cell Genomics [Technology development]
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Region-Specific and Age-Dependent Multitarget Effects of Acetylcholinesterase Inhibitor Tacrine on Comprehensive Neurotransmitter Systems.
Fridjonsdottir E, Vallianatou T, Mantas I, ..., Svenningsson P, Andrén PE
ACS Chem. Biol. 17 (1) 147-158 [2022-01-21; online 2021-12-21]
Spatial Mass Spectrometry [Technology development]
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Integrative proteo-transcriptomic and immunophenotyping signatures of HIV-1 elite control phenotype: A cross-talk between glycolysis and HIF signaling.
Akusjärvi SS, Ambikan AT, Krishnan S, ..., Sönnerborg A, Neogi U
iScience 25 (1) 103607 [2022-01-21; online 2021-12-10]
Bioinformatics Support for Computational Resources [Service]
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Fish Skin Microbiomes Are Highly Variable Among Individuals and Populations but Not Within Individuals.
Berggren H, Tibblin P, Yıldırım Y, ..., Lundin D, Forsman A
Front Microbiol 12 (-) 767770 [2022-01-21; online 2022-01-21]
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Overexpression of the SARS-CoV-2 receptor angiotensin converting enzyme 2 in cardiomyocytes of failing hearts.
Vukusic K, Thorsell A, Muslimovic A, ..., Sandstedt J, Hammarsten O
Sci Rep 12 (1) 965 [2022-01-19; online 2022-01-19]
Glycoproteomics and MS Proteomics [Collaborative]
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Identification of driver genes for critical forms of COVID-19 in a deeply phenotyped young patient cohort
Carapito R, Li R, Helms J, ..., Chittenden TW, Bahram S
Sci. Transl. Med. 14 (628) eabj7521 [2022-01-19; online 2022-01-19]
Autoimmunity and Serology Profiling [Service]
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An Image-Analysis-Based Method for the Prediction of Recombinant Protein Fiber Tensile Strength.
Bäcklund FG, Schmuck B, Miranda GHB, ..., Rydén J, Rising A
Materials (Basel) 15 (3) - [2022-01-18; online 2022-01-18]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]
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Cold case: The disappearance of Egypt bee virus, a fourth distinct master strain of deformed wing virus linked to honeybee mortality in 1970's Egypt.
de Miranda JR, Brettell LE, Chejanovsky N, ..., Martin SJ, Ball BV
Virol J 19 (1) 12 [2022-01-15; online 2022-01-15]
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Transcriptome Analysis of an Aedes albopictus Cell Line Single- and Dual-Infected with Lammi Virus and WNV.
Öhlund P, Delhomme N, Hayer J, Hesson JC, Blomström AL
Int J Mol Sci 23 (2) - [2022-01-14; online 2022-01-14]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Plant Growth-Promoting Activity of Pseudomonas aeruginosa FG106 and Its Ability to Act as a Biocontrol Agent against Potato, Tomato and Taro Pathogens.
Ghadamgahi F, Tarighi S, Taheri P, ..., Ortiz R, Vetukuri RR
Biology (Basel) 11 (1) - [2022-01-14; online 2022-01-14]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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3D Microvascularized Tissue Models by Laser-Based Cavitation Molding of Collagen.
Enrico A, Voulgaris D, Östmans R, ..., Herland A, Stemme G
Adv Mater - (-) e2109823 [2022-01-14; online 2022-01-14]
Integrated Microscopy Technologies Stockholm [Service]
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First National Genomic Epidemiological Study of Neisseria gonorrhoeae Strains Spreading Across Sweden in 2016.
Hadad R, Golparian D, Velicko I, ..., Engstrand L, Unemo M
Front Microbiol 12 (-) 820998 [2022-01-13; online 2022-01-13]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Örebro [Collaborative]
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Circulating proteins reveal prior use of menopausal hormonal therapy and increased risk of breast cancer.
Thomas CE, Dahl L, Byström S, ..., Schwenk JM, Gabrielson M
Transl Oncol 17 (-) 101339 [2022-01-13; online 2022-01-13]
Affinity Proteomics Stockholm [Service]
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The formation of avian montane diversity across barriers and along elevational gradients.
Pujolar JM, Blom MPK, Reeve AH, ..., Irestedt M, Jønsson KA
Nat Commun 13 (1) 268 [2022-01-12; online 2022-01-12]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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SARS-CoV-2 induces a durable and antigen specific humoral immunity after asymptomatic to mild COVID-19 infection.
Havervall S, Jernbom Falk A, Klingström J, ..., Nilsson P, Thålin C
PLoS ONE 17 (1) e0262169 [2022-01-12; online 2022-01-12]
Autoimmunity and Serology Profiling [Collaborative]
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Developmental origins of cell heterogeneity in the human lung
Sountoulidis A, Salas SM, Braun E, ..., Nilsson M, Samakovlis C
biorxiv - (-) - [2022-01-12; online 2022-01-12]
In Situ Sequencing [Service]
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Anaplerotic flux into the Calvin-Benson cycle: hydrogen isotope evidence for in vivo occurrence in C3 metabolism.
Wieloch T, Augusti A, Schleucher J
New Phytol. - (-) - [2022-01-12; online 2022-01-12]
Swedish NMR Centre [Collaborative]
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Transcriptomic analysis reveals proinflammatory signatures associated with acute myeloid leukemia progression.
Stratmann S, Yones SA, Garbulowski M, ..., Komorowski J, Holmfeldt L
Blood Adv 6 (1) 152-164 [2022-01-11; online 2021-10-08]
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Trans cohort metabolic reprogramming towards glutaminolysis in long-term successfully treated HIV-infection.
Mikaeloff F, Svensson Akusjärvi S, Ikomey GM, ..., Benfeitas R, Neogi U
Commun Biol 5 (1) 27 [2022-01-11; online 2022-01-11]
Swedish Metabolomics Centre [Service]
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Connectivity of Fennoscandian Shield terrestrial deep biosphere microbiomes with surface communities.
Westmeijer G, Mehrshad M, Turner S, ..., Bertilsson S, Dopson M
Commun Biol 5 (1) 37 [2022-01-11; online 2022-01-11]
Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Canonical WNT signaling-dependent gating of MYC requires a noncanonical CTCF function at a distal binding site.
Chachoua I, Tzelepis I, Dai H, ..., Mehmood R, Göndör A
Nat Commun 13 (1) 204 [2022-01-11; online 2022-01-11]
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Characterization of surface markers on extracellular vesicles isolated from lymphatic exudate from patients with breast cancer.
Ekström K, Crescitelli R, Pétursson HI, ..., Lässer C, Olofsson Bagge R
BMC Cancer 22 (1) 50 [2022-01-10; online 2022-01-10]
Integrated Microscopy Technologies Gothenburg [Service]
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Fungal Perspective of Pine and Oak Colonization in Mediterranean Degraded Ecosystems
Adamo I, Dashevskaya S, Alday JG
Forests 13 (1) 88 [2022-01-08; online 2022-01-08]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Vegan Diet Is Associated With Favorable Effects on the Metabolic Performance of Intestinal Microbiota: A Cross-Sectional Multi-Omics Study.
Prochazkova M, Budinska E, Kuzma M, ..., Gojda J, Cahova M
Front Nutr 8 (-) 783302 [2022-01-07; online 2022-01-07]
Chalmers Mass Spectrometry Infrastructure [Service]
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Genomic Signatures of Sexual Selection on Pollen-Expressed Genes in Arabis alpina.
Gutiérrez-Valencia J, Fracassetti M, Horvath R, ..., Kolář F, Slotte T
Mol. Biol. Evol. 39 (1) - [2022-01-07; online 2021-12-09]
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MYC assembles and stimulates topoisomerases 1 and 2 in a "topoisome".
Das SK, Kuzin V, Cameron DP, ..., Levens D, Baranello L
Mol. Cell 82 (1) 140-158.e12 [2022-01-06; online 2021-12-09]
CRISPR Functional Genomics [Service]
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Land-use intensification differentially affects bacterial, fungal and protist communities and decreases microbiome network complexity.
Romdhane S, Spor A, Banerjee S, ..., Saghai A, Philippot L
Environ Microbiome 17 (1) 1 [2022-01-06; online 2022-01-06]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genetic Alterations in Mitochondrial DNA Are Complementary to Nuclear DNA Mutations in Pheochromocytomas.
Tabebi M, Łysiak M, Dutta RK, ..., Gimm O, Söderkvist P
Cancers (Basel) 14 (2) - [2022-01-06; online 2022-01-06]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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A cis-acting structural variation at the ZNF558 locus controls a gene regulatory network in human brain development.
Johansson PA, Brattås PL, Douse CH, ..., Eichler EE, Jakobsson J
Cell Stem Cell 29 (1) 52-69.e8 [2022-01-06; online 2021-10-07]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service]
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TRAPing Ghrelin-Activated Circuits: A Novel Tool to Identify, Target and Control Hormone-Responsive Populations in TRAP2 Mice.
Stoltenborg I, Peris-Sampedro F, Schéle E, ..., Adan RAH, Dickson SL
Int J Mol Sci 23 (1) - [2022-01-05; online 2022-01-05]
Integrated Microscopy Technologies Gothenburg [Service]
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Metabolic resistance to the inhibition of mitochondrial transcription revealed by CRISPR-Cas9 screen.
Mennuni M, Filograna R, Felser A, ..., Lytovchenko O, Larsson N
EMBO Rep. 23 (1) e53054 [2022-01-05; online 2021-11-15]
CRISPR Functional Genomics [Service] NGI Short read [Service] National Genomics Infrastructure [Service]
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Loss of SDHB Induces a Metabolic Switch in the hPheo1 Cell Line toward Enhanced OXPHOS.
Tabebi M, Kumar Dutta R, Skoglund C, Söderkvist P, Gimm O
Int J Mol Sci 23 (1) - [2022-01-05; online 2022-01-05]
Clinical Genomics [Service] Clinical Genomics Linköping [Service]
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Backbone chemical shift assignment and dynamics of the N-terminal domain of ClpB from Francisella tularensis type VI secretion system.
Mushtaq AU, Ådén J, Alam A, Sjöstedt A, Gröbner G
Biomol NMR Assign - (-) - [2022-01-05; online 2022-01-05]
Swedish NMR Centre [Collaborative]
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Risk of Revision After Arthroplasty Associated with Specific Gene Loci: A Genomewide Association Study of Single-Nucleotide Polymorphisms in 1,130 Twins Treated with Arthroplasty.
Brüggemann A, Eriksson N, Michaëlsson K, Hailer NP
J Bone Joint Surg Am 104 (7) 610-620 [2022-01-04; online 2022-01-04]
Bioinformatics Support for Computational Resources [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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In Silico-Based Experiments on Mechanistic Interactions between Several Intestinal Permeation Enhancers with a Lipid Bilayer Model.
Kneiszl R, Hossain S, Larsson P
Mol. Pharm. 19 (1) 124-137 [2022-01-03; online 2021-12-16]
Bioinformatics Support for Computational Resources [Service]
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CRISPR/Cas9-Induced DNA Damage Enriches for Mutations in a p53-Linked Interactome: Implications for CRISPR-Based Therapies.
Jiang L, Ingelshed K, Shen Y, ..., Lane DP, Wermeling F
Cancer Res. 82 (1) 36-45 [2022-01-01; online 2021-11-18]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Whole-genome resequencing confirms reproductive isolation between sympatric demes of brown trout (Salmo trutta) detected with allozymes.
Saha A, Andersson A, Kurland S, ..., Ryman N, Laikre L
Mol. Ecol. 31 (2) 498-511 [2022-01-00; online 2021-11-15]
Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Transcriptome sequencing of archived lymphoma specimens is feasible and clinically relevant using exome capture technology.
Skaftason A, Qu Y, Abdulla M, ..., Rosenquist R, Mansouri L
Genes Chromosomes Cancer 61 (1) 27-36 [2022-01-00; online 2021-10-23]
Clinical Genomics [Service] Clinical Genomics Uppsala [Service] NGI Short read [Technology development] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]
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The Sulawesi Thrush ( <i>Cataponera turdoides</i> ; Aves: Passeriformes) belongs to the genus <i>Turdus</i>
Reeve AH, Blom MPK, Zahl Marki P, ..., Irestedt M, Jønsson KA
Zool Scr 51 (1) 32-40 [2022-01-00; online 2021-11-04]
Bioinformatics Support for Computational Resources [Service]
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Sustained Response to Entrectinib in an Infant With a Germline ALKAL2 Variant and Refractory Metastatic Neuroblastoma With Chromosomal 2p Gain and Anaplastic Lymphoma Kinase and Tropomyosin Receptor Kinase Activation.
Treis D, Umapathy G, Fransson S, ..., Martinsson T, Kogner P
JCO Precision Oncology 6 (6) e2100271 [2022-01-00; online 2022-01-28]
Clinical Genomics [Service] Clinical Genomics Gothenburg [Service] Clinical Genomics Stockholm [Service]
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Super-Resolution Imaging of the Filtration Barrier Suggests a Role for Podocin R229Q in Genetic Predisposition to Glomerular Disease.
Butt L, Unnersjö-Jess D, Höhne M, ..., Schermer B, Benzing T
J. Am. Soc. Nephrol. 33 (1) 138-154 [2022-01-00; online 2021-12-01]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Salivary IgG to SARS-CoV-2 indicates seroconversion and correlates to serum neutralization in mRNA-vaccinated immunocompromised individuals
Healy K, Pin E, Chen P, ..., Aleman S, Chen MS
Med - (-) - [2022-01-00; online 2022-01-00]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Robust humoral and cellular immune responses and low risk for reinfection at least 8 months following asymptomatic to mild COVID-19.
Havervall S, Ng H, Jernbom Falk A, ..., Hober S, Thålin C
J. Intern. Med. 291 (1) 72-80 [2022-01-00; online 2021-09-27]
Affinity Proteomics Uppsala [Service] Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Proteome-scale mapping of binding sites in the unstructured regions of the human proteome.
Benz C, Ali M, Krystkowiak I, ..., Davey NE, Ivarsson Y
Mol. Syst. Biol. 18 (1) e10584 [2022-01-00; online 2022-01-20]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Prolonged estrogen deprivation triggers a broad immunosuppressive phenotype in breast cancer cells
Hühn D, Martí‐Rodrigo P, Mouron S, ..., Carreras‐Puigvert J, Fernandez‐Capetillo O
Mol Oncol 16 (1) 148-165 [2022-01-00; online 2021-08-29]
Chemical Biology Consortium Sweden [Service]
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Phytophthora infestans Ago1-associated miRNA promotes potato late blight disease.
Hu X, Persson Hodén K, Liao Z, Åsman A, Dixelius C
New Phytol. 233 (1) 443-457 [2022-01-00; online 2021-10-27]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Oxygen‐deficient water zones in the Baltic Sea promote uncharacterized Hg methylating microorganisms in underlying sediments
Capo E, Broman E, Bonaglia S, ..., Nascimento FJA, Björn E
Limnol Oceanogr 67 (1) 135-146 [2022-01-00; online 2021-11-18]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Novel loss-of-function variant in DENND5A impedes melanosomal cargo transport and predisposes to familial cutaneous melanoma.
Yang M, Johnsson P, Bräutigam L, ..., Cao Y, Höiom V
Genet Med 24 (1) 157-169 [2022-01-00; online 2021-11-30]
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PubMed DOI Crossref
Metabolomics reveals changes in metabolite profiles due to growth and metamorphosis during the ontogeny of the northern damselfly.
Späth J, Brodin T, McCallum E, ..., Fick J, Nording ML
J Insect Physiol 136 (-) 104341 [2022-01-00; online 2021-11-27]
Swedish Metabolomics Centre [Service]
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Influence of lipid extraction and processing conditions on hydrothermal conversion of microalgae feedstocks – Effect on hydrochar composition, secondary char formation and phytotoxicity
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Chemical Engineering Journal 428 (-) 129559 [2022-01-00; online 2022-01-00]
Swedish Metabolomics Centre [Service]
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Improved breast cancer histological grading using deep learning.
Wang Y, Acs B, Robertson S, ..., Hartman J, Rantalainen M
Ann. Oncol. 33 (1) 89-98 [2022-01-00; online 2021-09-29]
BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Imitation of β-lactam binding enables broad-spectrum metallo-β-lactamase inhibitors.
Brem J, Panduwawala T, Hansen JU, ..., Walsh TR, Schofield CJ
Nat Chem 14 (1) 15-24 [2022-01-00; online 2021-12-13]
Drug Discovery and Development [Service]
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Gut microbiome alterations in the crustacean Pacifastacus leniusculus exposed to environmental concentrations of antibiotics and effects on susceptibility to bacteria challenges.
Hernández-Pérez A, Zamora-Briseño JA, Söderhäll K, Söderhäll I
Dev. Comp. Immunol. 126 (-) 104181 [2022-01-00; online 2021-06-24]
Bioinformatics Support for Computational Resources [Service]
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Genes from oxidative phosphorylation complexes II-V and two dual-function subunits of complex I are transcribed in Viscum album despite absence of the entire mitochondrial holo-complex I.
Petersen G, Shyama Prasad Rao R, Anderson B, ..., Rasmusson AG, Max Møller I
Mitochondrion 62 (-) 1-12 [2022-01-00; online 2021-11-02]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Fibroblast growth factor 23 is associated with risk of intracerebral hemorrhage.
Svensson EH, Söderholm M
Eur. J. Neurol. 29 (1) 114-120 [2022-01-00; online 2021-08-31]
Affinity Proteomics Uppsala [Service]
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Exploiting low-grade waste heat to produce electricity through supercapacitor containing carbon electrodes and ionic liquid electrolytes
Haque M, Abdurrokhman I, Idström A, ..., Lundgren P, Enoksson P
Electrochimica Acta 403 (-) 139640 [2022-01-00; online 2022-01-00]
Swedish NMR Centre [Service]
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Common, low-frequency, rare, and ultra-rare coding variants contribute to COVID-19 severity.
Fallerini C, Picchiotti N, Baldassarri M, ..., Renieri A, Furini S
Hum. Genet. 141 (1) 147-173 [2022-01-00; online 2021-12-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Cell type-specific analysis by single-cell profiling identifies a stable mammalian tRNA-mRNA interface and increased translation efficiency in neurons.
Gao W, Gallardo-Dodd CJ, Kutter C
Genome Res. 32 (1) 97-110 [2022-01-00; online 2021-12-02]
Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
Amplification of ERBB2 (HER2) in embryonal rhabdomyosarcoma: A potential treatment target in rare cases?
Mitra S, Sydow S, Magnusson L, ..., Gisselsson D, Mertens F
Genes Chromosomes Cancer 61 (1) 5-9 [2022-01-00; online 2021-09-01]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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A genome-wide scan to locate regions associated with familial vesicoureteral reflux.
Bartik Z, Sillén U, Östensson M, ..., Sjöberg R, Martinsson T
Exp Ther Med 23 (1) 92 [2022-01-00; online 2021-11-28]
Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]
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A 3D deep learning model to predict the diagnosis of dementia with Lewy bodies, Alzheimer's disease, and mild cognitive impairment using brain 18F-FDG PET.
Etminani K, Soliman A, Davidsson A, ..., Garibotto V, Ochoa-Figueroa M
Eur J Nucl Med Mol Imaging 49 (2) 563-584 [2022-01-00; online 2021-07-30]
AIDA Data Hub [Service] Bioinformatics (NBIS) [Service]
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Vacancy assisted growth of copper tantalum sulfide nanocrystals
Haque A, Ershadrad S, Chonamada TD, ..., Sanyal B, Santra PK
J. Mater. Chem. A 10 (37) 19925-19934 [2022-00-00; online 2022-00-00]
Bioinformatics Support for Computational Resources [Service]
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Proteome Integral Solubility Alteration (PISA) Assay in Mammalian Cells for Deep, High-Confidence, and High-Throughput Target Deconvolution
Zhang X, Lytovchenko O, Lundström S, Zubarev R, Gaetani M
BIO-PROTOCOL 12 (22) - [2022-00-00; online 2022-00-00]
Chemical Proteomics [Technology development]
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Metabolomics analysis of cerebrospinal fluid suggests citric acid cycle aberrations in bipolar disorder
Smedler E, Salehi AM, Pelanis A, ..., Sparding T, Landén M
Neuroscience Applied 1 (-) 100108 [2022-00-00; online 2022-00-00]
Swedish NMR Centre [Service]
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Design of a green chemoenzymatic cascade for scalable synthesis of bio-based styrene alternatives
Petermeier P, Bittner JP, Müller S, Byström E, Kara S
Green Chem. - (-) - [2022-00-00; online 2022-00-00]
Swedish NMR Centre [Service]
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Batch Processing Methods in ImageJ
Klemm A, Miura K
Springer - (-) 7-27 [2022-00-00; online 2022-09-29]
BioImage Informatics [Technology development] Bioinformatics (NBIS) [Technology development]
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Alfa-Synuclein-induced deformation of small unilamellar vesicles
Makasewicz K, Wennmalm S, Linse S, Sparr E
QRB Discovery 3 (-) - [2022-00-00; online 2022-07-25]
Integrated Microscopy Technologies Stockholm [Collaborative]
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<i>Streptococcus bovis</i>-bacteremia: subspecies distribution and association with colorectal cancer: a retrospective cohort study
Öberg J, Rasmussen M, Buchwald P, Nilson B, Inghammar M
Epidemiol. Infect. 150 (-) - [2022-00-00; online 2021-11-26]
Clinical Genomics [Service] Clinical Genomics Lund [Service]
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<i>In situ</i> monitoring of cellulose etherification in solution: probing the impact of solvent composition on the synthesis of 3-allyloxy-2-hydroxypropyl-cellulose in aqueous hydroxide systems
Naserifar S, Kuijpers PF, Wojno S, ..., Bernin D, Hasani M
Polym. Chem. 13 (28) 4111-4123 [2022-00-00; online 2022-00-00]
Swedish NMR Centre [Service]
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