Publications 2022

Table
JSON
CSV
XLSX
TXT

703 publications

PubMed DOI Crossref
Small Molecule-mediated Disruption of Ribosome Biogenesis Synergizes With FGFR Inhibitors to Suppress Glioma Cell Growth.
Zisi A, Kanellis DC, Moussaud S, ..., Bartek J, Lindström MS
Neuro-oncology - (-) - [2022-12-30; online 2022-12-30]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Leukocyte DNA methylation in Alzheimer´s disease associated genes: replication of findings from neuronal cells.
Karlsson IK, Ploner A, Wang Y, ..., Pedersen NL, Hägg S
Epigenetics - (-) 1-5 [2022-12-26; online 2022-12-26]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Microfluidic Device for Patient-Centric Multiplexed Assays with Readout in Centralized Laboratories.
Hauser J, Dale M, Beck O, ..., Fredolini C, Roxhed N
Anal. Chem. - (-) - [2022-12-22; online 2022-12-22]
Affinity Proteomics Stockholm [Technology development]
PubMed DOI Crossref
Investigation of the Virome and Characterization of Issyk-Kul Virus from Swedish Myotis brandtii Bats.
Cholleti H, de Jong J, Blomström AL, Berg M
Pathogens 12 (1) - [2022-12-21; online 2022-12-21]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
UROSCAN and UROSCANSEQ: a large-scale multicenter effort towards translation of molecular bladder cancer subtypes into clinical practice - from biobank to RNA-sequencing in real time.
Liedberg F, Abrahamsson J, Bernardo C, ..., Sjödahl G, Eriksson P
Scand J Urol - (-) 1-8 [2022-12-20; online 2022-12-20]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
Loss of Y in leukocytes as a risk factor for critical COVID-19 in men.
Bruhn-Olszewska B, Davies H, Sarkisyan D, ..., Frithiof R, Dumanski JP
Genome Med 14 (1) 139 [2022-12-14; online 2022-12-14]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
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 - (-) - [2022-12-12; online 2022-12-12]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Gene Networks and Pathways Involved in LPS-Induced Proliferative Response of Bovine Endometrial Epithelial Cells.
Najafi M, Guo Y, Andersson G, Humblot P, Bongcam-Rudloff E
Genes 13 (12) - [2022-12-12; online 2022-12-12]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Bayesian model and selection signature analyses reveal risk factors for canine atopic dermatitis.
Tengvall K, Sundström E, Wang C, ..., Andersson G, Lindblad-Toh K
Commun Biol 5 (1) 1348 [2022-12-08; online 2022-12-08]
Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
A third dose of the unmodified COVID-19 mRNA vaccine CVnCoV enhances quality and quantity of immune responses.
Lenart K, Hellgren F, Ols S, ..., Petsch B, Loré K
Mol Ther Methods Clin Dev 27 (-) 309-323 [2022-12-08; online 2022-10-06]
Affinity Proteomics Stockholm [Service] Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
V. cholerae MakA is a cholesterol-binding pore-forming toxin that induces non-canonical autophagy.
Jia X, Knyazeva A, Zhang Y, ..., Corkery DP, Wu YW
J. Cell Biol. 221 (12) - [2022-12-05; online 2022-10-04]
Cryo-EM [Service]
PubMed DOI Crossref
Early fate bias in neuroepithelial progenitors of hippocampal neurogenesis.
von Berlin L, Westholm JO, Ratz M, Frisén J
Hippocampus - (-) - [2022-12-05; online 2022-12-05]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Blue Turns to Gray: Paleogenomic Insights into the Evolutionary History and Extinction of the Blue Antelope (Hippotragus leucophaeus).
Hempel E, Bibi F, Faith JT, ..., Hofreiter M, Westbury MV
Mol. Biol. Evol. 39 (12) - [2022-12-05; online 2022-11-03]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Autoantigenic properties of the aminoacyl tRNA synthetase family in idiopathic inflammatory myopathies.
Preger C, Notarnicola A, Hellström C, ..., Gräslund S, Jakobsson PJ
J. Autoimmun. 134 (-) 102951 [2022-12-02; online 2022-12-02]
Autoimmunity and Serology Profiling [Service] Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
The structure of cellulose nanofibril networks at low concentrations and their stabilizing action on colloidal particles.
Nordenström M, Benselfelt T, Hollertz R, ..., Söderberg D, Wågberg L
Carbohydr Polym 297 (-) 120046 [2022-12-01; online 2022-09-01]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Genetics of tibia bone properties of crossbred commercial laying hens in different housing systems.
Johnsson M, Wall H, Lopes Pinto FA, ..., Kindmark A, de Koning DJ
G3 (Bethesda) - (-) - [2022-12-01; online 2022-12-01]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The emerging landscape of spatial profiling technologies.
Moffitt JR, Lundberg E, Heyn H
Nat. Rev. Genet. 23 (12) 741-759 [2022-12-00; online 2022-07-20]
Spatial Proteomics [Service]
PubMed DOI Crossref
Screening patients with autoimmune endocrine disorders for cytokine autoantibodies reveals monogenic immune deficiencies.
Sjøgren T, Bratland E, Røyrvik EC, ..., Husebye ES, Wolff ASB
J. Autoimmun. 133 (-) 102917 [2022-12-00; online 2022-09-30]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Long-term ley and manure managements have consistent effects on microbial functional profiles and organic C groups across soils from a latitudinal gradient
Shi A, Nunan N, Figueira J, Herrmann AM, Wetterlind J
Agron. Sustain. Dev. 42 (6) - [2022-12-00; online 2022-11-03]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Isolation and characterization of a main porin from the outer membrane of Salinibacter ruber.
Farci D, Cocco E, Tanas M, ..., Schröder WP, Piano D
J Bioenerg Biomembr 54 (5-6) 273-281 [2022-12-00; online 2022-10-13]
Cryo-EM [Service]
PubMed DOI Crossref
Genome-wide association and Mendelian randomization study of fibroblast growth factor 21 reveals causal associations with hyperlipidemia and possibly NASH.
Larsson SC, Michaëlsson K, Mola-Caminal M, Höijer J, Mantzoros CS
Metabolism 137 (-) 155329 [2022-12-00; online 2022-10-05]
Affinity Proteomics Uppsala [Service] Bioinformatics Compute and Storage [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Fusion transcript analysis reveals slower response kinetics than multiparameter flow cytometry in childhood acute myeloid leukaemia.
Karlsson L, Nyvold CG, Soboli A, ..., Abrahamsson J, Fogelstrand L
Int J Lab Hematol 44 (6) 1094-1101 [2022-12-00; online 2022-08-02]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Effects of conventionally treated and ozonated wastewater on the damselfly larva oxylipidome in response to on-site exposure.
Späth J, Brodin T, Falås P, ..., Fick J, Nording M
Chemosphere 309 (Pt 1) 136604 [2022-12-00; online 2022-09-27]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Cone-setting in spruce is regulated by conserved elements of the age-dependent flowering pathway.
Akhter S, Westrin KJ, Zivi N, ..., Emanuelsson O, Sundström JF
New Phytol. 236 (5) 1951-1963 [2022-12-00; online 2022-09-16]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
<i>Aeromonas salmonicida</i> binds α2-6 linked sialic acid, which is absent among the glycosphingolipid repertoires from skin, gill, stomach, pyloric caecum, and intestine.
Benktander J, Sundh H, Sharba S, Teneberg S, Lindén SK
Virulence 13 (1) 1741-1751 [2022-12-00; online 2022-10-08]
Glycoproteomics [Service]
PubMed DOI Crossref
Dynamic patterns of blood lipids and DNA methylation in response to statin therapy.
Qin X, Wang Y, Pedersen NL, Tang B, Hägg S
Clin Epigenetics 14 (1) 153 [2022-11-28; online 2022-11-28]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Deep mutational scan of a drug efflux pump reveals its structure-function landscape.
Meier G, Thavarasah S, Ehrenbolger K, ..., Barandun J, Seeger MA
Nat. Chem. Biol. - (-) - [2022-11-28; online 2022-11-28]
Cryo-EM [Service]
PubMed DOI Crossref
Anti-citrullinated protein antibody specificities and pulmonary fibrosis in relation to genetic loci in early rheumatoid arthritis.
Brink M, Ljung L, Hansson M, ..., Klareskog L, Rantapää-Dahlqvist S
Rheumatology (Oxford) 61 (12) 4985-4990 [2022-11-28; online 2022-05-10]
Bioinformatics Compute and Storage [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Plasma protein biomarker profiling reveals major differences between acute leukaemia, lymphoma patients and controls.
Abu Sabaa A, Shen Q, Lennmyr EB, ..., Enblad G, Eriksson A
N Biotechnol 71 (-) 21-29 [2022-11-25; online 2022-06-29]
Affinity Proteomics Uppsala [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Endosperm cellularization failure induces a dehydration stress response leading to embryo arrest.
Xu W, Sato H, Bente H, Santos-González J, Köhler C
Plant Cell - (-) - [2022-11-25; online 2022-11-25]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mucosal IgA against SARS-CoV-2 Omicron Infection. Reply.
Åberg M, Smed-Sörensen A, Thålin C
N. Engl. J. Med. 387 (21) e55 [2022-11-24; online 2022-11-24]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
Short and long-term associations between serum proteins linked to cardiovascular disease and particle exposure among constructions workers.
Gliga AR, Grahn K, Gustavsson P, ..., Selander J, Broberg K
Scand J Work Environ Health - (-) - [2022-11-21; online 2022-11-21]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Detection of SARS-CoV-2 antibodies in serum and dried blood spot samples of vaccinated individuals using a sensitive homogeneous proximity extension assay.
Zhao H, Wang M, Muthelo P, ..., Mei YF, Landegren U
N Biotechnol 72 (-) 139-148 [2022-11-21; online 2022-11-21]
Affinity Proteomics Uppsala [Technology development]
PubMed DOI Crossref
Organochemical Characterization of Peat Reveals Decomposition of Specific Hemicellulose Structures as the Main Cause of Organic Matter Loss in the Acrotelm.
Serk H, Nilsson MB, Figueira J, ..., Alewell C, Schleucher J
Environ. Sci. Technol. - (-) - [2022-11-18; online 2022-11-18]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Enantioselective CE-MS analysis of ketamine metabolites in urine.
Sandbaumhüter FA, Aerts JT, Theurillat R, ..., Thormann W, Jansson ET
Electrophoresis - (-) - [2022-11-18; online 2022-11-18]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
A comprehensive characterisation of patients diagnosed with post-COVID-19 condition in Sweden 16 months after the introduction of the ICD-10 diagnosis code (U09.9): a population-based cohort study.
Bygdell M, Leach S, Lundberg L, ..., Gisslén M, Nyberg F
Int J Infect Dis - (-) - [2022-11-18; online 2022-11-18]
Clinical Genomics Gothenburg [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 Gothenburg [Service]
PubMed DOI Crossref
Integration of small RNAs from plasma and cerebrospinal fluid for classification of multiple sclerosis.
Needhamsen M, Khoonsari PE, Zheleznyakova GY, ..., Ekman D, Jagodic M
Front Genet 13 (-) 1042483 [2022-11-17; online 2022-11-17]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Divergent gene expression responses in two Baltic Sea heterotrophic model bacteria to dinoflagellate dissolved organic matter.
Osbeck CMG, Lundin D, Karlsson C, ..., Moran MA, Pinhassi J
PLoS ONE 17 (11) e0243406 [2022-11-17; online 2022-11-17]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Widespread CNS pathology in amyotrophic lateral sclerosis homozygous for the D90A SOD1 mutation
Forsberg KM, Graffmo KS, Stenvall E, ..., Brännström T, Andersen PM
Acta Neuropathol - (-) - [2022-11-16; online 2022-11-16]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Stage-specific transposon activity in the life cycle of the fairy-ring mushroom <i>Marasmius oreades</i>.
Hiltunen M, Ament-Velásquez SL, Ryberg M, Johannesson H
Proc. Natl. Acad. Sci. U.S.A. 119 (46) e2208575119 [2022-11-16; online 2022-11-07]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structure of the reduced microsporidian proteasome bound by PI31-like peptides in dormant spores.
Jespersen N, Ehrenbolger K, Winiger RR, ..., Vossbrinck CR, Barandun J
Nat Commun 13 (1) 6962 [2022-11-15; online 2022-11-15]
Cryo-EM [Service]
PubMed DOI Crossref
Meta-analysis of genome-wide association studies of hoarding symptoms in 27,537 individuals.
Strom NI, Smit DJA, Silzer T, ..., Mataix-Cols D, Cath D
Transl Psychiatry 12 (1) 479 [2022-11-15; online 2022-11-15]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dominantly inherited myosin IIa myopathy caused by aberrant splicing of MYH2.
Hedberg-Oldfors C, Elíasdóttir Ó, Geijer M, Lindberg C, Oldfors A
BMC Neurol 22 (1) 428 [2022-11-15; online 2022-11-15]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
A novel cis-regulatory element drives early expression of Nkx3.2 in the gnathostome primary jaw joint.
Leyhr J, Waldmann L, Filipek-Górniok B, ..., Allalou A, Haitina T
Elife 11 (-) - [2022-11-15; online 2022-11-15]
BioImage Informatics [Service]
DOI Crossref
Proteomic Analysis of Pleural Effusions from COVID-19 Deceased Patients: Enhanced Inflammatory Markers
Razaghi A, Szakos A, Alouda M, ..., Björnstedt M, Szekely L
Diagnostics 12 (11) 2789 [2022-11-14; online 2022-11-14]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Early changes in gene expression profiles in AML patients during induction chemotherapy.
Jakobsen I, Sundkvist M, Björn N, Gréen H, Lotfi K
BMC Genomics 23 (1) 752 [2022-11-14; online 2022-11-14]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A multivesicular body-like organelle mediates stimulus-regulated trafficking of olfactory ciliary transduction proteins.
Maurya DK, Berghard A, Bohm S
Nat Commun 13 (1) 6889 [2022-11-12; online 2022-11-12]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Plasma concentrations of gut hormones acyl ghrelin and Peptide YY and subsequent risk of colorectal cancer and molecular tumor subtypes.
Bodén S, Harbs J, Sundkvist A, ..., Harlid S, Van Guelpen B
Cancer Prev Res (Phila) - (-) - [2022-11-11; online 2022-11-11]
Clinical Genomics Umeå [Service]
PubMed DOI Crossref
Dietary restriction and medical therapy drive PPARα-regulated improvements in early diabetic kidney disease in male rats.
Martin WP, Nair M, Chuah YHD, ..., le Roux CW, Docherty NG
Clin Sci (Lond) 136 (21) 1485-1511 [2022-11-11; online 2022-10-20]
Clinical Genomics Gothenburg [Service] Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Genomic trajectories of a near-extinction event in the Chatham Island black robin.
von Seth J, van der Valk T, Lord E, ..., Robertson BC, Dussex N
BMC Genomics 23 (1) 747 [2022-11-10; online 2022-11-10]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Fungal Communities in Leaves and Roots of Healthy-Looking and Diseased Ulmusglabra.
Marčiulynas A, Marčiulynienė D, Lynikienė J, Bakys R, Menkis A
Microorganisms 10 (11) - [2022-11-10; online 2022-11-10]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A new cut&run low volume-urea (LoV-U) protocol optimized for transcriptional co-factors uncovers Wnt/b-catenin tissue-specific genomic targets.
Zambanini G, Nordin A, Jonasson M, Pagella P, Cantù C
Development - (-) - [2022-11-10; online 2022-11-10]
Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Mapping the Landscape of Care Providers' Quality Assurance Approaches for AI in Diagnostic Imaging.
Lundström C, Lindvall M
J Digit Imaging - (-) - [2022-11-09; online 2022-11-09]
AIDA Data Hub [Service]
PubMed DOI Crossref
Whole exome sequencing of FFPE samples-expanding the horizon of forensic molecular autopsies.
Adolfsson E, Kling D, Gunnarsson C, ..., Gréen H, Gréen A
Int J Legal Med - (-) - [2022-11-08; online 2022-11-08]
Clinical Genomics Örebro [Collaborative]
DOI Crossref
Systems Biology in ELIXIR: modelling in the spotlight
Martins dos Santos V, Anton M, Szomolay B, ..., Evelo CT, Hancock JM
F1000Res 11 (-) 1265 [2022-11-07; online 2022-11-07]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Stabilizing Mechanisms of β-Lactoglobulin in Amorphous Solid Dispersions of Indomethacin.
Kabedev A, Zhuo X, Leng D, ..., Bergström CAS, Löbmann K
Mol. Pharm. 19 (11) 3922-3933 [2022-11-07; online 2022-09-22]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Case report: Two sisters with a germline CHEK2 variant and distinct endocrine neoplasias.
Vallera RD, Ding Y, Hatanpaa KJ, ..., Dahia PLM, Ghayee HK
Front Endocrinol (Lausanne) 13 (-) 1024108 [2022-11-07; online 2022-11-07]
Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Migratory behaviour is positively associated with genetic diversity in butterflies.
García-Berro A, Talla V, Vila R, ..., Backström N, Talavera G
Mol. Ecol. - (-) - [2022-11-06; online 2022-11-06]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Insights into the evolution of enzymatic specificity and catalysis: From Asgard archaea to human adenylate kinases.
Verma A, Åberg-Zingmark E, Sparrman T, ..., Sauer-Eriksson E, Wolf-Watz M
Sci Adv 8 (44) eabm4089 [2022-11-04; online 2022-11-04]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Genome Evolution of a Symbiont Population for Pathogen Defense in Honeybees.
Dyrhage K, Garcia-Montaner A, Tamarit D, ..., Webster MT, Andersson SGE
Genome Biol Evol 14 (11) - [2022-11-04; online 2022-10-21]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A genomic snapshot of demographic and cultural dynamism in Upper Mesopotamia during the Neolithic Transition.
Altınışık NE, Kazancı DD, Aydoğan A, ..., Erim Özdoğan A, Somel M
Sci Adv 8 (44) eabo3609 [2022-11-04; online 2022-11-04]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The ESSENCE-Questionnaire in Medical Records Screening for Neurodevelopmental Symptoms/Problems: Utility and Clinical Validity.
Landgren V, Raanan Soltis Z, Svensson E, ..., Landgren M, Knez R
Neuropsychiatr Dis Treat 18 (-) 2559-2574 [2022-11-03; online 2022-11-03]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
The Dynamics of Adaptation to Stress from Standing Genetic Variation and de novo Mutations.
Ament-Velásquez SL, Gilchrist C, Rêgo A, ..., Rafati N, Stelkens R
Mol. Biol. Evol. 39 (11) - [2022-11-03; online 2022-11-06]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [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]
NGI Stockholm (Genomics Applications) [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 Stockholm (Genomics Applications) [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 (SNC) [Collaborative]
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 Gothenburg [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 Compute and Storage [Service] Microbial Single Cell Genomics [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [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 Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Strong Association of Combined Genetic Deficiencies in the Classical Complement Pathway With Risk of Systemic Lupus Erythematosus and Primary Sjögren's Syndrome.
Lundtoft C, Sjöwall C, Rantapää-Dahlqvist S, ..., Leonard D, Rönnblom L
Arthritis & rheumatology (Hoboken, N.J.) 74 (11) 1842-1850 [2022-11-00; online 2022-10-07]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Stroke genetics informs drug discovery and risk prediction across ancestries.
Mishra A, Malik R, Hachiya T, ..., Dichgans M, Debette S
Nature 611 (7934) 115-123 [2022-11-00; online 2022-09-30]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatial genomics maps the structure, nature and evolution of cancer clones.
Lomakin A, Svedlund J, Strell C, ..., Nilsson M, Yates LR
Nature 611 (7936) 594-602 [2022-11-00; online 2022-11-09]
In Situ Sequencing (ISS) [Service]
DOI Crossref
Organic Base-Mediated Carboxylation of (Hetero)aromatic Compounds Using Supercritical Carbon Dioxide (scCO2)
Govender T, Chetty LC, Kruger HG, Arvidsson PI, Naicker T
Synthesis 54 (21) 4827-4833 [2022-11-00; online 2022-08-16]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Multi-transcriptome analysis following an acute skeletal muscle growth stimulus yields tools for discerning global and MYC regulatory networks.
Murach KA, Liu Z, Jude B, ..., Vechetti IJ, von Walden F
J. Biol. Chem. 298 (11) 102515 [2022-11-00; online 2022-09-21]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Mer-tyrosine kinase: a novel susceptibility gene for SLE related end-stage renal disease.
Yavuz S, Pucholt P, Sandling JK, ..., Lindblad-Toh K, Rönnblom L
Lupus Sci Med 9 (1) - [2022-11-00; online 2022-11-05]
Bioinformatics Compute and Storage [Service] NGI SNP genotyping [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome sequencing is a sensitive first-line test to diagnose individuals with intellectual disability.
Lindstrand A, Ek M, Kvarnung M, ..., Pettersson M, Nordgren A
Genet Med 24 (11) 2296-2307 [2022-11-00; online 2022-09-06]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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 [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
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 (SMC) [Service]
DOI Crossref
Chloride binding in Portland composite cements containing metakaolin and silica fume
Babaahmadi A, Machner A, Kunther W, ..., Hemstad P, De Weerdt K
Cement and Concrete Research 161 (-) 106924 [2022-11-00; online 2022-11-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
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 Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Altered expression of the IGF2‑H19 locus and mitochondrial respiratory complexes in adrenocortical carcinoma.
Scicluna P, Caramuta S, Kjellin H, ..., Lui WO, Larsson C
Int. J. Oncol. 61 (5) - [2022-11-00; online 2022-09-28]
Global Proteomics and Proteogenomics [Service]
DOI Crossref
A protein signature associated with active tuberculosis identified by plasma profiling and network-based analysis
Mousavian Z, Folkesson E, Fröberg G, ..., Källenius G, Sundling C
iScience - (-) 105652 [2022-11-00; online 2022-11-00]
Affinity Proteomics Stockholm [Service]
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 [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 Örebro [Collaborative]
PubMed DOI Crossref
Clinically relevant treatment of PDX models reveals patterns of neuroblastoma chemoresistance.
Mañas A, Aaltonen K, Andersson N, ..., Gisselsson D, Bexell D
Sci Adv 8 (43) eabq4617 [2022-10-28; online 2022-10-28]
Clinical Genomics Lund [Service]
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]
PubMed DOI Crossref
Next-Generation Sequencing Analysis of CpG Methylation of a Tumor Suppressor Gene SHP-1 Promoter in Stable Cell Lines and HCV-Positive Patients.
Devi P, Engdahl K, Punga T, Bergqvist A
Viruses 14 (11) - [2022-10-26; online 2022-10-26]
Clinical Genomics Uppsala [Service]
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 (SNC) [Service]
PubMed DOI Crossref
Rare predicted loss-of-function variants of type I IFN immunity genes are associated with life-threatening COVID-19.
Matuozzo D, Talouarn E, Marchal A, ..., Abel L, Cobat A
medRxiv - (-) - [2022-10-25; online 2022-10-25]
Clinical Genomics Stockholm [Service]
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 Compute and Storage [Service] 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 Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Single-cell sequencing deconvolutes cellular responses to exercise in human skeletal muscle.
Lovrić A, Rassolie A, Alam S, ..., Gustafsson T, Rullman E
Commun Biol 5 (1) 1121 [2022-10-22; online 2022-10-22]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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
Architecture of the chikungunya virus replication organelle.
Laurent T, Kumar P, Liese S, ..., Carlson A, Carlson LA
Elife 11 (-) - [2022-10-19; online 2022-10-19]
Cryo-EM [Service]
PubMed DOI Crossref
SARS-CoV-2 variants of concern and spike protein mutational dynamics in a Swedish cohort during 2021, studied by Nanopore sequencing.
Mannsverk S, Bergholm J, Palanisamy N, ..., Lindh J, Lennerstrand J
Virol J 19 (1) 164 [2022-10-18; online 2022-10-18]
Bioinformatics Compute and Storage [Service] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Assessment of the genetic and clinical determinants of hip fracture risk: Genome-wide association and Mendelian randomization study.
Nethander M, Coward E, Reimann E, ..., Hveem K, Ohlsson C
Cell Reports Medicine 3 (10) 100776 [2022-10-18; online 2022-10-20]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
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]
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 [2022-10-17; online 2022-10-17]
Clinical Genomics Stockholm [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 - (-) - [2022-10-17; online 2022-10-17]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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]
PubMed DOI Crossref
Comparative genome analysis of mycobacteria focusing on tRNA and non-coding RNA.
Behra PRK, Pettersson BMF, Ramesh M, ..., Dasgupta S, Kirsebom LA
BMC Genomics 23 (1) 704 [2022-10-15; online 2022-10-15]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
TLCD1 and TLCD2 regulate cellular phosphatidylethanolamine composition and promote the progression of non-alcoholic steatohepatitis.
Petkevicius K, Palmgren H, Glover MS, ..., Maresca M, Peng XR
Nat Commun 13 (1) 6020 [2022-10-14; online 2022-10-14]
Swedish Metabolomics Centre (SMC) [Service]
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 Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
IPT9, a cis-zeatin cytokinin biosynthesis gene, promotes root growth.
Antoniadi I, Mateo-Bonmatí E, Pernisová M, ..., Ljung K, Novák O
Front Plant Sci 13 (-) 932008 [2022-10-14; online 2022-10-14]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
The Expression of the Immunoproteasome Subunit PSMB9 Is Related to Distinct Molecular Subtypes of Uterine Leiomyosarcoma.
Maia Falcão R, Kokaraki G, De Wispelaere W, ..., Carlson JW, Petta TB
Cancers (Basel) 14 (20) - [2022-10-13; online 2022-10-13]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Tackling the translational challenges of multi-omics research in the realm of European personalised medicine: A workshop report.
Oldoni E, Saunders G, Bietrix F, ..., Andreu AL, van Gool AJ
Front Mol Biosci 9 (-) 974799 [2022-10-13; online 2022-10-13]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Spatiotemporal variations in retrovirus-host interactions among Darwin's finches.
Hill J, Lillie M, Pettersson ME, ..., Andersson L, Jern P
Nat Commun 13 (1) 6033 [2022-10-13; online 2022-10-13]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Pax3 loss of function delays tumour progression in kRAS-induced zebrafish rhabdomyosarcoma models.
Kahsay A, Rodriguez-Marquez E, López-Pérez A, Hörnblad A, von Hofsten J
Sci Rep 12 (1) 17149 [2022-10-13; online 2022-10-13]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [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]
PubMed DOI Crossref
Engineering human mini-bones for the standardized modeling of healthy hematopoiesis, leukemia, and solid tumor metastasis.
Grigoryan A, Zacharaki D, Balhuizen A, ..., Bexell D, Bourgine PE
Sci Transl Med 14 (666) eabm6391 [2022-10-12; online 2022-10-12]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
SPACA9 is a lumenal protein of human ciliary singlet and doublet microtubules.
Gui M, Croft JT, Zabeo D, ..., Höög JL, Brown A
Proc. Natl. Acad. Sci. U.S.A. 119 (41) e2207605119 [2022-10-11; online 2022-10-03]
Cryo-EM [Service]
PubMed DOI Crossref
Dormant SOX9-positive cells facilitate MYC-driven recurrence of medulloblastoma.
Borgenvik A, Holmberg KO, Bolin S, ..., Weishaupt H, Swartling FJ
Cancer Res. - (-) - [2022-10-11; online 2022-10-11]
Bioinformatics Compute and Storage [Service] NGI Single cell [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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]
DOI Crossref
Drug repurposing screens identifies compounds that inhibit α-synuclein oligomers’ membrane disruption and block antibody interactions
Somavarapu AK, Kleijwegt G, Nagaraj M, ..., Nielsen J, Otzen D
- - (-) - [2022-10-07; online 2022-10-07]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
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]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Calcium and magnesium in drinking water and risk of myocardial infarction and stroke-a population-based cohort study.
Helte E, Säve-Söderbergh M, Larsson SC, Åkesson A
Am. J. Clin. Nutr. 116 (4) 1091-1100 [2022-10-06; online 2022-07-12]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Anti-Spike Mucosal IgA Protection against SARS-CoV-2 Omicron Infection.
Havervall S, Marking U, Svensson J, ..., Smed-Sörensen A, Thålin C
N. Engl. J. Med. 387 (14) 1333-1336 [2022-10-06; online 2022-09-14]
Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
DOI Crossref
House crickets (Othroptera: Gryllidae: <i>Acheta domesticus</i>) reared in small-scale laboratory conditions harbour limited viral flora
Cholleti H, Vaga M, Jansson A, Blomström AL, Berg M
Journal of Insects as Food and Feed 8 (10) 1149-1155 [2022-10-04; online 2022-10-04]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Absence of oxygen effect on microbial structure and methane production during drying and rewetting events.
Liu T, Li X, Yekta SS, ..., Schnürer A, Enrich-Prast A
Sci Rep 12 (1) 16570 [2022-10-04; online 2022-10-04]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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. - (-) - [2022-10-03; online 2022-10-03]
Autoimmunity and Serology Profiling [Service] Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Biomarkers of demyelination and axonal damage are decreased after autologous hematopoietic stem cell transplantation for multiple sclerosis.
Zjukovskaja C, Larsson A, Cherif H, Kultima K, Burman J
Mult Scler Relat Disord 68 (-) 104210 [2022-10-03; online 2022-10-03]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
The oncogenic transcription factor FOXQ1 is a differential regulator of Wnt target genes.
Pizzolato G, Moparthi L, Söderholm S, Cantù C, Koch S
J. Cell. Sci. 135 (19) - [2022-10-01; online 2022-10-10]
Clinical Genomics Linköping [Service]
PubMed DOI Crossref
The effects of pH on the production of volatile fatty acids and microbial dynamics in long-term reactor operation.
Atasoy M, Cetecioglu Z
J Environ Manage 319 (-) 115700 [2022-10-01; online 2022-07-20]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Proteome Integral Solubility Alteration (PISA) for High-Throughput Ligand Target Deconvolution with Increased Statistical Significance and Reduced Sample Amount.
Gaetani M, Zubarev RA
Methods Mol. Biol. 2554 (-) 91-106 [2022-10-01; online 2022-10-01]
Chemical Proteomics [Technology development]
DOI Crossref
Mycobiota Associated with Symptomatic and Asymptomatic Fraxinus excelsior in Post-Dieback Forest Stands
Bakys R, Pliūra A, Bajerkevičienė G, ..., Lynikienė J, Menkis A
Forests 13 (10) 1609 [2022-10-01; online 2022-10-01]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
iP &amp; OEIP – Cytokinin Micro Application Modulates Root Development with High Spatial Resolution
Pařízková B, Antoniadi I, Poxson DJ, ..., Novák O, Ljung K
Adv Materials Technologies 7 (10) 2101664 [2022-10-00; online 2022-04-28]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Salinity induces discontinuous protoxylem via a DELLA-dependent mechanism promoting salt tolerance in Arabidopsis seedlings.
Augstein F, Carlsbecker A
New Phytol. 236 (1) 195-209 [2022-10-00; online 2022-07-12]
Bioinformatics Compute and Storage [Service]
DOI Crossref
Reproductive homing and fine‐scaled genetic structuring of anadromous Baltic Sea perch ( <i>Perca fluviatilis</i> )
Hall M, Koch‐Schmidt P, Larsson P, ..., Yıldırım Y, Sunde J
Fisheries Management Eco 29 (5) 586-596 [2022-10-00; online 2022-03-28]
Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Rapid bacterioplankton transcription cascades regulate organic matter utilization during phytoplankton bloom progression in a coastal upwelling system.
Pontiller B, Martínez-García S, Joglar V, ..., Teira E, Pinhassi J
ISME J 16 (10) 2360-2372 [2022-10-00; online 2022-07-08]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Prostate cancer disease recurrence after radical prostatectomy is associated with HLA type and local cytomegalovirus immunity.
Classon J, Zamboni M, Engblom C, ..., Mold J, Frisén J
Mol Oncol 16 (19) 3452-3464 [2022-10-00; online 2022-08-31]
Bioinformatics Compute and Storage [Service]
DOI Crossref
Patterns of community composition and diversity in latent fungi of living Quercus serrata trunks across a range of oak wilt prevalence and climate variables in Japan
Fukasawa Y, Matsukura K, Stephan JG, ..., Yamashita S, Ushio M
Fungal Ecology 59 (-) 101095 [2022-10-00; online 2022-10-00]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Parvimonas micra is associated with tumour immune profiles in molecular subtypes of colorectal cancer.
Löwenmark T, Li X, Löfgren-Burström A, ..., Edin S, Palmqvist R
Cancer Immunol. Immunother. 71 (10) 2565-2575 [2022-10-00; online 2022-03-17]
Affinity Proteomics Uppsala [Service] Clinical Genomics Umeå [Service]
PubMed DOI Crossref
Laccaria bicolor pectin methylesterases are involved in ectomycorrhiza development with Populus tremula × Populus tremuloides.
Chowdhury J, Kemppainen M, Delhomme N, ..., Pardo AG, Lundberg-Felten J
New Phytol. 236 (2) 639-655 [2022-10-00; online 2022-07-27]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Implementing precision medicine in a regionally organized healthcare system in Sweden.
Fioretos T, Wirta V, Cavelier L, ..., Edsjö A, Rosenquist R
Nat. Med. 28 (10) 1980-1982 [2022-10-00; online 2022-09-20]
Clinical Genomics Gothenburg [Service] Clinical Genomics Linköping [Service] Clinical Genomics Umeå [Service] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Global patterns and rates of habitat transitions across the eukaryotic tree of life.
Jamy M, Biwer C, Vaulot D, ..., Massana R, Burki F
Nat Ecol Evol 6 (10) 1458-1470 [2022-10-00; online 2022-08-04]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide association study of liver enzyme elevation in an extended cohort of rheumatoid arthritis patients starting low-dose methotrexate.
Cavalli M, Eriksson N, Sundbaum JK, ..., Hallberg P, Wadelius M
Pharmacogenomics 23 (15) 813-820 [2022-10-00; online 2022-09-07]
Bioinformatics Compute and Storage [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Generation of Human iPSC-Derived Astrocytes with a mature star-shaped phenotype for CNS modeling.
Voulgaris D, Nikolakopoulou P, Herland A
Stem Cell Rev Rep 18 (7) 2494-2512 [2022-10-00; online 2022-04-30]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Fecal luminal factors from patients with irritable bowel syndrome induce distinct gene expression of colonoids.
Iribarren C, Nordlander S, Sundin J, ..., Simrén M, Öhman L
Neurogastroenterol. Motil. 34 (10) e14390 [2022-10-00; online 2022-04-29]
Swedish Metabolomics Centre (SMC) [Service]
DOI Crossref
Endophytes dominate fungal communities in six-year-old veteranisation wounds in living oak trunks
Menkis A, Redr D, Bengtsson V, ..., Nordén B, Dahlberg A
Fungal Ecology 59 (-) 101020 [2022-10-00; online 2022-10-00]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Elevation and plant species identity jointly shape a diverse arbuscular mycorrhizal fungal community in the High Arctic.
Rasmussen PU, Abrego N, Roslin T, ..., Hugerth LW, Tack AJM
New Phytol. 236 (2) 671-683 [2022-10-00; online 2022-07-15]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Duplex Sequencing Uncovers Recurrent Low-frequency Cancer-associated Mutations in Infant and Childhood KMT2A-rearranged Acute Leukemia.
Pilheden M, Ahlgren L, Hyrenius-Wittsten A, ..., Gawad C, Hagström-Andersson AK
Hemasphere 6 (10) e785 [2022-10-00; online 2022-09-30]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
Assignment of IVL-Methyl side chain of the ligand-free monomeric human MALT1 paracaspase-IgL3 domain in solution.
Han X, Levkovets M, Lesovoy D, ..., Agback P, Orekhov VY
Biomol NMR Assign 16 (2) 363-371 [2022-10-00; online 2022-09-12]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
A saturated map of common genetic variants associated with human height.
Yengo L, Vedantam S, Marouli E, ..., Visscher PM, Hirschhorn JN
Nature 610 (7933) 704-712 [2022-10-00; online 2022-10-12]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A possible genomic footprint of polygenic adaptation on population divergence in seed beetles?
Arnqvist G, Sayadi A
Ecol Evol 12 (10) e9440 [2022-10-00; online 2022-10-27]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Insight into the pulmonary molecular toxicity of heated tobacco products using human bronchial and alveolar mucosa models at air-liquid interface.
Rahman M, Irmler M, Introna M, ..., Upadhyay S, Ganguly K
Sci Rep 12 (1) 16396 [2022-09-30; online 2022-09-30]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Early Mid-pregnancy Blood-Based Proteins as Possible Biomarkers of Increased Infant Birth Size in Sex-Stratified Analyses.
Lindberger E, Ahlsson F, Junus K, ..., Wikström AK, Sundström Poromaa I
Reprod Sci - (-) 1-11 [2022-09-30; online 2022-09-30]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Proteome profiling of whole plasma and plasma-derived extracellular vesicles facilitates the detection of tissue biomarkers in the non-obese diabetic mouse.
Diaz Lozano IM, Sork H, Stone VM, ..., Gabrielsson S, Flodström-Tullberg M
Front Endocrinol (Lausanne) 13 (-) 971313 [2022-09-28; online 2022-09-28]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
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 [2022-09-28; online 2022-09-28]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Loss of SNAI1 induces cellular plasticity in invasive triple-negative breast cancer cells.
Tsirigoti C, Ali MM, Maturi V, Heldin CH, Moustakas A
Cell Death Dis 13 (9) 832 [2022-09-28; online 2022-09-28]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
GotEnzymes: an extensive database of enzyme parameter predictions.
Li F, Chen Y, Anton M, Nielsen J
Nucleic Acids Res. - (-) - [2022-09-28; online 2022-09-28]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Parasitic strongyle nemabiome communities in wild ruminants in Sweden.
Halvarsson P, Baltrušis P, Kjellander P, Höglund J
Parasit Vectors 15 (1) 341 [2022-09-27; online 2022-09-27]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Natural alleles of the abscisic acid catabolism gene ZmAbh4 modulate water use efficiency and carbon isotope discrimination in maize.
Blankenagel S, Eggels S, Frey M, ..., Schön CC, Avramova V
Plant Cell 34 (10) 3860-3872 [2022-09-27; online 2022-07-07]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Identification of Single and Combined Serum Metabolites Associated with Food Intake.
Karlsson T, Winkvist A, Rådjursöga M, ..., Pedersen A, Lindqvist HM
Metabolites 12 (10) - [2022-09-27; online 2022-09-27]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
A novel neo-sex chromosome in Sylvietta brachyura (Macrosphenidae) adds to the extraordinary avian sex chromosome diversity among Sylvioidea songbirds.
Sigeman H, Zhang H, Ali Abed S, Hansson B
J. Evol. Biol. - (-) - [2022-09-26; online 2022-09-26]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A chromosome-scale reference genome for Spironucleus salmonicida.
Xu F, Jiménez-González A, Kurt Z, ..., Andersson JO, Svärd SG
Sci Data 9 (1) 585 [2022-09-24; online 2022-09-24]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Meiotic drive is associated with sexual incompatibility in Neurospora.
Vogan AA, Svedberg J, Grudzinska-Sterno M, Johannesson H
Evolution - (-) - [2022-09-23; online 2022-09-23]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Hybrid immunity in immunocompromised patients with CLL after SARS-CoV-2 infection followed by booster mRNA vaccination.
Lisa B, Gao Y, Wullimann D, ..., Hansson L, Osterborg A
Blood - (-) - [2022-09-23; online 2022-09-23]
Autoimmunity and Serology Profiling [Service]
DOI Crossref
Accurate genotype-based demultiplexing of single cell RNA sequencing samples from non-human animals
Cardiello JF, Araus AJ, Giatrellis S, Simon A, Leigh ND
- - (-) - [2022-09-23; online 2022-09-23]
Eukaryotic Single Cell Genomics (ESCG) [Service]
PubMed DOI Crossref
Truncated lubricin glycans in osteoarthritis stimulate the synoviocyte secretion of VEGFA, IL-8, and MIP-1α: Interplay between O-linked glycosylation and inflammatory cytokines.
Huang S, Thomsson KA, Jin C, ..., Krawetz R, Karlsson NG
Front Mol Biosci 9 (-) 942406 [2022-09-21; online 2022-09-21]
Glycoproteomics [Collaborative]
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 Umeå [Service]
DOI Crossref
Synergistic Effects of Sanglifehrin-Based Cyclophilin Inhibitor NV651 with Cisplatin in Hepatocellular Carcinoma
Simón Serrano S, Tavecchio M, Mallik J, ..., Hansson MJ, Massoumi R
Cancers (Basel) 14 (19) 4553 [2022-09-20; online 2022-09-20]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Expression Levels of hgcAB Genes and Mercury Availability Jointly Explain Methylmercury Formation in Stratified Brackish Waters.
Capo E, Feng C, Bravo AG, ..., Hawkes J, Björn E
Environ. Sci. Technol. 56 (18) 13119-13130 [2022-09-20; online 2022-09-07]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
The genomic basis of hybrid male sterility in <i>Ficedula</i> flycatchers
Segami JC, Mugal CF, Cunha C, ..., Semon M, Qvarnström A
- - (-) - [2022-09-19; online 2022-09-19]
Microbial Single Cell Genomics [Service]
PubMed DOI Crossref
Multifocal Neuroblastoma and Central Hypoventilation in An Infant with Germline ALK F1174I Mutation.
Djos A, Treis D, Fransson S, ..., Kogner P, Martinsson T
Diagnostics 12 (9) - [2022-09-19; online 2022-09-19]
Bioinformatics Compute and Storage [Service] Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Spatio-temporal analysis of prostate tumors in situ suggests pre-existence of treatment-resistant clones.
Marklund M, Schultz N, Friedrich S, ..., Sonnhammer E, Lundeberg J
Nat Commun 13 (1) 5475 [2022-09-17; online 2022-09-17]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Congenital tremor and splay leg in piglets - insights into the virome, local cytokine response, and histology.
Stenberg H, Hellman S, Lindström L, ..., Hayer J, Malmberg M
BMC Vet Res 18 (1) 348 [2022-09-16; online 2022-09-16]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Treatment of periprosthetic joint infections guided by minimum biofilm eradication concentration (MBEC) in addition to minimum inhibitory concentration (MIC): protocol for a prospective randomised clinical trial.
Tillander JAN, Rilby K, Svensson Malchau K, ..., Rolfson O, Trobos M
BMJ Open 12 (9) e058168 [2022-09-15; online 2022-09-15]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Modification of xylan via an oxidation-reduction reaction.
Palasingh C, Nakayama K, Abik F, ..., Ström A, Nypelö T
Carbohydr Polym 292 (-) 119660 [2022-09-15; online 2022-05-27]
Swedish NMR Centre (SNC)
PubMed DOI Crossref
Complete Reference Genome Sequence of the Extensively Drug-Resistant Strain Neisseria gonorrhoeae AT159, with Ceftriaxone Resistance and High-Level Azithromycin Resistance, Using Nanopore Q20+ Chemistry and Illumina Sequencing.
Golparian D, Pleininger S, Jacobsson S, Indra A, Unemo M
Microbiol Resour Announc 11 (9) e0074422 [2022-09-15; online 2022-08-25]
Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Anosmia, mild cognitive impairment, and biomarkers of brain aging in older adults.
Dong Y, Li Y, Liu K, ..., Du Y, Qiu C
Alzheimers Dement - (-) - [2022-09-15; online 2022-09-15]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Distinct subcellular autophagy impairments in induced neurons from patients with Huntington's disease.
Pircs K, Drouin-Ouellet J, Horváth V, ..., Barker RA, Jakobsson J
Brain 145 (9) 3035-3057 [2022-09-14; online 2021-12-23]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
Linked-read whole-genome sequencing resolves common and private structural variants in multiple myeloma.
Peña-Pérez L, Frengen N, Hauenstein J, ..., Lindstrand A, Månsson R
Blood Adv 6 (17) 5009-5023 [2022-09-13; online 2022-06-09]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Immunodeficiency syndromes differentially impact the functional profile of SARS-CoV-2-specific T cells elicited by mRNA vaccination.
Gao Y, Cai C, Wullimann D, ..., Aleman S, Buggert M
Immunity 55 (9) 1732-1746.e5 [2022-09-13; online 2022-07-19]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Autoantibodies targeting malondialdehyde-modifications in rheumatoid arthritis regulate osteoclasts via inducing glycolysis and lipid biosynthesis.
Sakuraba K, Krishnamurthy A, Sun J, ..., Catrina AI, Réthi B
J. Autoimmun. 133 (-) 102903 [2022-09-13; online 2022-09-13]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
How broad is the selfing syndrome? Insights from convergent evolution of gene expression across species and tissues in the Capsella genus.
Zhang Z, Kryvokhyzha D, Orsucci M, ..., Milesi P, Lascoux M
New Phytol. - (-) - [2022-09-12; online 2022-09-12]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Sialic Acid and Fucose Residues on the SARS-CoV-2 Receptor-Binding Domain Modulate IgG Antibody Reactivity.
Samuelsson E, Mirgorodskaya E, Nyström K, ..., Liljeqvist J, Nordén R
ACS Infect Dis 8 (9) 1883-1893 [2022-09-09; online 2022-08-18]
Glycoproteomics [Technology development]
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 Stockholm (Genomics Applications) [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 Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
ATP6V0C variants impair vacuolar V-ATPase causing a neurodevelopmental disorder often associated with epilepsy.
Mattison KA, Tossing G, Mulroe F, ..., Campeau PM, Escayg A
Brain - (-) - [2022-09-08; online 2022-09-08]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
New regulators of the tetracycline-inducible gene expression system identified by chemical and genetic screens.
Colicchia V, Häggblad M, Sirozh O, ..., Hühn D, Fernandez-Capetillo O
FEBS Open Bio - (-) - [2022-09-05; online 2022-09-05]
CRISPR Functional Genomics [Service] Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Three Adult Cases of STAT1 Gain-of-Function with Chronic Mucocutaneous Candidiasis Treated with JAK Inhibitors.
Borgström EW, Edvinsson M, Pérez LP, ..., Brodin P, Bergman P
J Clin Immunol - (-) - [2022-09-02; online 2022-09-02]
Cellular Immunomonitoring [Collaborative] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Distinct metabolic hallmarks of WHO classified adult glioma subtypes.
Björkblom B, Wibom C, Eriksson M, ..., Sandström M, Melin B
Neuro-oncology 24 (9) 1454-1468 [2022-09-01; online 2022-02-15]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
An induced pluripotent stem cell t(7;12)(q36;p13) acute myeloid leukemia model shows high expression of MNX1 and a block in differentiation of the erythroid and megakaryocytic lineages.
Nilsson T, Waraky A, Östlund A, ..., Abrahamsson J, Palmqvist L
Int. J. Cancer 151 (5) 770-782 [2022-09-01; online 2022-06-03]
Bioinformatics Compute and Storage [Service] Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Valorization of hydrolysis lignin from a spruce-based biorefinery by applying γ-valerolactone treatment.
Momayez F, Hedenström M, Stagge S, Jönsson LJ, Martín C
Bioresour. Technol. 359 (-) 127466 [2022-09-00; online 2022-06-13]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
The role of Gdf5 in the development of the zebrafish fin endoskeleton.
Waldmann L, Leyhr J, Zhang H, ..., Öhman-Mägi C, Haitina T
Dev. Dyn. 251 (9) 1535-1549 [2022-09-00; online 2021-07-29]
BioImage Informatics [Collaborative] Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Spatial profiling of chromatin accessibility in mouse and human tissues.
Deng Y, Bartosovic M, Ma S, ..., Castelo-Branco G, Fan R
Nature 609 (7926) 375-383 [2022-09-00; online 2022-08-17]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [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 Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
DOI Crossref
Seroprevalence of SARS-CoV-2 antibodies among public transport workers in Sweden
Sjörs Dahlman A, Anund A
Journal of Transport & Health - (-) 101508 [2022-09-00; online 2022-09-00]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
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 Compute and Storage [Service]
PubMed DOI Crossref
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 Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Microbial and human transcriptome in vaginal fluid at midgestation: Association with spontaneous preterm delivery.
Wikström T, Abrahamsson S, Bengtsson-Palme J, ..., Valentin L, Hagberg H
Clin Transl Med 12 (9) e1023 [2022-09-00; online 2022-09-15]
Clinical Genomics Gothenburg [Service]
DOI Crossref
Impact of temperature and residence time on the hydrothermal carbonization of organosolv lignin
Latham KG, Matsakas L, Figueira J, ..., Christakopoulos P, Jansson S
Journal of Analytical and Applied Pyrolysis 166 (-) 105623 [2022-09-00; online 2022-09-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Immunomodulation by intravenous omega-3 fatty acid treatment in older subjects hospitalized for COVID-19: A single-blind randomized controlled trial.
Arnardottir H, Pawelzik SC, Sarajlic P, ..., Wheelock CE, Bäck M
Clin Transl Med 12 (9) e895 [2022-09-00; online 2022-09-20]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Glycosaminoglycan linkage region of urinary bikunin as a potentially useful biomarker for β3GalT6-deficient spondylodysplastic Ehlers-Danlos syndrome.
Nikpour M, Noborn F, Nilsson J, ..., Malfait F, Larson G
JIMD Rep 63 (5) 462-467 [2022-09-00; online 2022-06-28]
Glycoproteomics [Collaborative]
PubMed DOI Crossref
Genomic evidence that a sexually selected trait captures genome-wide variation and facilitates the purging of genetic load.
Parrett JM, Chmielewski S, Aydogdu E, ..., Konczal M, Radwan J
Nat Ecol Evol 6 (9) 1330-1342 [2022-09-00; online 2022-07-18]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide association analyses of physical activity and sedentary behavior provide insights into underlying mechanisms and roles in disease prevention.
Wang Z, Emmerich A, Pillon NJ, ..., Loos RJF, Hoed Md
Nat. Genet. 54 (9) 1332-1344 [2022-09-00; online 2022-09-07]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Genome-scale metabolic models for natural and long-term drug-induced viral control in HIV infection.
Ambikan AT, Svensson-Akusjärvi S, Krishnan S, ..., Benfeitas R, Neogi U
Life Sci. Alliance 5 (9) - [2022-09-00; online 2022-05-10]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Enhanced cytotoxicity of a novel family of ATPase inhibitors in colorectal cancer cells with high NAT2 activity.
Zhang X, Akcan E, Correia M, ..., Globisch D, Sjöblom T
Biochem. Pharmacol. 203 (-) 115184 [2022-09-00; online 2022-07-22]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Effects of denosumab treatment on the expression of receptor activator of nuclear kappa-B ligand (RANKL) and TNF-receptor TNFRSF9 after total hip arthroplasty-results from a randomized placebo-controlled clinical trial.
Sköld C, Kultima K, Freyhult E, ..., Hailer NP, Mallmin H
Osteoporos Int 33 (9) 1-8 [2022-09-00; online 2022-05-24]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Dissecting the mechanisms of environment sensitivity of smart probes for quantitative assessment of membrane properties.
Ragaller F, Andronico L, Sykora J, ..., Vattulainen I, Sezgin E
Open Biol 12 (9) 220175 [2022-09-00; online 2022-09-14]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Automated detection of vascular remodeling in tumor-draining lymph nodes by the deep-learning tool HEV-finder.
Bekkhus T, Avenel C, Hanna S, ..., Wählby C, Ulvmar MH
J. Pathol. 258 (1) 4-11 [2022-09-00; online 2022-07-12]
BioImage Informatics [Technology development]
PubMed DOI Crossref
Advances in spatial mass spectrometry enable in-depth neuropharmacodynamics.
Baijnath S, Kaya I, Nilsson A, Shariatgorji R, Andrén PE
Trends Pharmacol. Sci. 43 (9) 740-753 [2022-09-00; online 2022-07-05]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Primordial Capsid and Spooled ssDNA Genome Structures Unravel Ancestral Events of Eukaryotic Viruses.
Munke A, Kimura K, Tomaru Y, ..., Hongo Y, Okamoto K
MBio 13 (4) e0015622 [2022-08-30; online 2022-07-20]
Cryo-EM [Service]
PubMed DOI Crossref
Genomic diversity and biosynthetic capabilities of sponge-associated chlamydiae.
Dharamshi JE, Gaarslev N, Steffen K, ..., Sipkema D, Ettema TJG
ISME J - (-) - [2022-08-30; online 2022-08-30]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Glioblastoma CD105+ cells define a SOX2- cancer stem cell-like subpopulation in the pre-invasive niche.
Li J, Ek F, Olsson R, Belting M, Bengzon J
Acta Neuropathol Commun 10 (1) 126 [2022-08-29; online 2022-08-29]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Uncovering the genomic basis of an extraordinary plant invasion.
Bieker VC, Battlay P, Petersen B, ..., Hodgins KA, Martin MD
Sci Adv 8 (34) eabo5115 [2022-08-26; online 2022-08-24]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
PRC2-mediated repression is essential to maintain identity and function of differentiated dopaminergic and serotonergic neurons.
Toskas K, Yaghmaeian-Salmani B, Skiteva O, ..., Perlmann T, Holmberg J
Sci Adv 8 (34) eabo1543 [2022-08-26; online 2022-08-26]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Methylation associated with long- or short-term survival in glioblastoma patients from the Nordic phase 3 trial.
Łysiak M, Das J, Malmström A, Söderkvist P
Front Genet 13 (-) 934519 [2022-08-25; online 2022-08-25]
Bioinformatics Compute and Storage [Service] Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Genomic and gene expression associations to morphology of a sexual ornament in the chicken.
Bakovic V, Höglund A, Martin Cerezo ML, Henriksen R, Wright D
G3 (Bethesda) 12 (9) jkac174 [2022-08-25; online 2022-07-09]
Bioinformatics Compute and Storage [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Electroactive Covalent Organic Framework Enabling Photostimulus-Responsive Devices.
Yang Y, Sandra AP, Idström A, ..., Evenäs L, Börjesson K
J. Am. Chem. Soc. - (-) - [2022-08-25; online 2022-08-25]
Swedish NMR Centre (SNC) [Service]
DOI Crossref
Mapping the GALNT1 substrate landscape with versatile proteomics tools
Saei AA, Lundström SL, Lyu H, ..., Gygi SP, Zubarev RA
- - (-) - [2022-08-24; online 2022-08-24]
Chemical Proteomics [Technology development]
PubMed DOI Crossref
Epigenetic clock indicates accelerated aging in glial cells of progressive multiple sclerosis patients.
Kular L, Klose D, Urdánoz-Casado A, ..., Needhamsen M, Jagodic M
Front Aging Neurosci 14 (-) 926468 [2022-08-24; online 2022-08-24]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
A 14,000-year-old genome sheds light on the evolution and extinction of a Pleistocene vulture.
Ericson PGP, Irestedt M, Zuccon D, ..., Werdelin L, Qu Y
Commun Biol 5 (1) 857 [2022-08-23; online 2022-08-23]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Seasonal dynamics in picocyanobacterial abundance and clade composition at coastal and offshore stations in the Baltic Sea.
Zufia JA, Legrand C, Farnelid H
Sci Rep 12 (1) 14330 [2022-08-22; online 2022-08-22]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Multi-Omic Investigations of a 17-19 Translocation Links MINK1 Disruption to Autism, Epilepsy and Osteoporosis.
Eisfeldt J, Schuy J, Stattin EL, ..., Feuk L, Lindstrand A
Int J Mol Sci 23 (16) - [2022-08-20; online 2022-08-20]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Evolutionary consequences of genomic deletions and insertions in the woolly mammoth genome.
van der Valk T, Dehasque M, Chacón-Duque JC, ..., Díez-Del-Molino D, Dalén L
iScience 25 (8) 104826 [2022-08-19; online 2022-08-01]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Characterization of hemocytes and hematopoietic cells of a freshwater crayfish based on single-cell transcriptome analysis.
Söderhäll I, Fasterius E, Ekblom C, Söderhäll K
iScience 25 (8) 104850 [2022-08-19; online 2022-08-02]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Single cell [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cerebrospinal fluid proteomic study of two bipolar disorder cohorts.
Isgren A, Göteson A, Holmén-Larsson J, ..., Jakobsson J, Landén M
Mol. Psychiatry - (-) - [2022-08-19; online 2022-08-19]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Ecosystem size-induced environmental fluctuations affect the temporal dynamics of community assembly mechanisms.
Bier RL, Vass M, Székely AJ, Langenheder S
ISME J 16 (12) 2635-2643 [2022-08-18; online 2022-08-18]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Terrigenous dissolved organic matter persists in the energy-limited deep groundwaters of the Fennoscandian Shield.
Osterholz H, Turner S, Alakangas LJ, ..., Kalinowski BE, Dopson M
Nat Commun 13 (1) 4837 [2022-08-17; online 2022-08-17]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Multi-omics personalized network analyses highlight progressive disruption of central metabolism associated with COVID-19 severity.
Ambikan AT, Yang H, Krishnan S, ..., Benfeitas R, Neogi U
Cell Syst 13 (8) 665-681.e4 [2022-08-17; online 2022-07-08]
Affinity Proteomics Uppsala [Service] Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Isolated Grauer's gorilla populations differ in diet and gut microbiome.
Michel A, Minocher R, Niehoff PP, ..., Caillaud D, Guschanski K
Mol. Ecol. - (-) - [2022-08-17; online 2022-08-17]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Learning Representations with Contrastive Self-Supervised Learning for Histopathology Applications
Stacke K, Unger J, Lundström C, Eilertsen G
Machine Learning for Biomedical Imaging 1 (August 2022 issue) - [2022-08-16; online 2022-08-16]
AIDA Data Hub [Service]
PubMed DOI Crossref
Microbial functional genes are driven by gradients in sediment stoichiometry, oxygen, and salinity across the Baltic benthic ecosystem.
Broman E, Izabel-Shen D, Rodríguez-Gijón A, ..., Garcia SL, Nascimento FJA
Microbiome 10 (1) 126 [2022-08-15; online 2022-08-15]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Feasibility and reliability of measures of bioactive lipids in human plasma and nasal mucosa.
Claeson AS, Lindberg RH, Gouveia-Figueira S, Nording ML
Journal of Chromatography B 1206 (-) 123357 [2022-08-15; online 2022-07-03]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Dynamical Systems Model of RNA Velocity Improves Inference of Single-cell Trajectory, Pseudo-time and Gene Regulation.
Liu R, Pisco AO, Braun E, Linnarsson S, Zou J
J. Mol. Biol. 434 (15) 167606 [2022-08-15; online 2022-04-27]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A method for Boolean analysis of protein interactions at a molecular level.
Raykova D, Kermpatsou D, Malmqvist T, ..., Kampf C, Söderberg O
Nat Commun 13 (1) 4755 [2022-08-13; online 2022-08-13]
BioImage Informatics [Collaborative]
PubMed DOI Crossref
Staphylococcal self-loading helicases couple the staircase mechanism with inter domain high flexibility.
Qiao C, Debiasi-Anders G, Mir-Sanchis I
Nucleic Acids Res. 50 (14) 8349-8362 [2022-08-12; online 2022-07-25]
Cryo-EM [Service]
DOI Crossref
agoTRIBE detects miRNA-target interactions transcriptome-wide in single cells
Sekar V, Mármol-Sánchez E, Kalogeropoulos P, ..., Biryukova I, Friedländer MR
- - (-) - [2022-08-11; online 2022-08-11]
Eukaryotic Single Cell Genomics (ESCG) [Service]
PubMed DOI Crossref
Estimation of the impact of three different bioinformatic pipelines on sheep nemabiome analysis.
Baltrušis P, Halvarsson P, Höglund J
Parasit Vectors 15 (1) 290 [2022-08-11; online 2022-08-11]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Single-cell multi-omics of human preimplantation embryos shows susceptibility to glucocorticoids.
Zhao C, Biondic S, Vandal K, ..., Reik W, Petropoulos S
Genome Res. 32 (9) 1627-1641 [2022-08-10; online 2022-08-10]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Single cell [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Nuclear-specific gene expression in heterokaryons of the filamentous ascomycete Neurospora tetrasperma.
Meunier C, Darolti I, Reimegård J, Mank JE, Johannesson H
Proc. Biol. Sci. 289 (1980) 20220971 [2022-08-10; online 2022-08-10]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Metatranscriptomics of Nasopharyngeal Microbiota and Host Distinguish between Pneumonia and Health.
Nannapaneni P, Sundh J, Prast-Nielsen S, ..., Naucler P, Henriques-Normark B
Am. J. Respir. Crit. Care Med. - (-) - [2022-08-10; online 2022-08-10]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Detailed Characterization of the Cell Wall Structure and Composition of Nordic Green Microalgae.
Spain O, Funk C
J. Agric. Food Chem. 70 (31) 9711-9721 [2022-08-10; online 2022-07-27]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Benchmarking ultra-high molecular weight DNA preservation methods for long-read and long-range sequencing.
Dahn HA, Mountcastle J, Balacco J, ..., Jarvis ED, Fedrigo O
Gigascience 11 (-) - [2022-08-10; online 2022-08-11]
NGI Long read [Technology development] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Ageing desexualizes the Drosophila brain transcriptome.
Malacrinò A, Brengdahl MI, Kimber CM, ..., Mirabello C, Friberg U
Proc. Biol. Sci. 289 (1980) 20221115 [2022-08-10; online 2022-08-10]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Single-cell transcriptomics reveals the identity and regulators of human mast cell progenitors.
Wu C, Boey D, Bril O, ..., Nilsson G, Dahlin JS
Blood Adv 6 (15) 4439-4449 [2022-08-09; online 2022-05-03]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Detecting DNA Methylations in the Hyperthermoacidophilic Crenarchaeon Sulfolobus acidocaldarius Using SMRT Sequencing.
Tellgren-Roth C, Couturier M
Methods Mol. Biol. 2516 (-) 39-50 [2022-08-04; online 2022-08-04]
NGI Long read [Technology development] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Bi-allelic loss-of-function variants in PPFIBP1 cause a neurodevelopmental disorder with microcephaly, epilepsy, and periventricular calcifications.
Rosenhahn E, O'Brien TJ, Zaki MS, ..., Maroofian R, Platzer K
Am. J. Hum. Genet. 109 (8) 1421-1435 [2022-08-04; online 2022-07-12]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
A multi-layer functional genomic analysis to understand noncoding genetic variation in lipids.
Ramdas S, Judd J, Graham SE, ..., Zhu X, Brown CD
Am. J. Hum. Genet. 109 (8) 1366-1387 [2022-08-04; online 2022-08-06]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Single, but not dual, attack by a biotrophic pathogen and a sap-sucking insect affects the oak leaf metabolome.
van Dijk LJA, Regazzoni EDE, Albrectsen BR, ..., Pawlowski K, Tack AJM
Front Plant Sci 13 (-) 897186 [2022-08-03; online 2022-08-03]
Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
Polymer Dots as Photoactive Membrane Vesicles for [FeFe]-Hydrogenase Self-Assembly and Solar-Driven Hydrogen Evolution.
Pavliuk MV, Lorenzi M, Morado DR, ..., Berggren G, Tian H
J. Am. Chem. Soc. 144 (30) 13600-13611 [2022-08-03; online 2022-07-21]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Identification and functional characterization of a novel susceptibility locus for small vessel vasculitis with MPO-ANCA.
Dahlqvist J, Ekman D, Sennblad B, ..., Eriksson P, Lindblad-Toh K
Rheumatology (Oxford) 61 (8) 3461-3470 [2022-08-03; online 2021-12-11]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI SNP genotyping [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Genome for Edith's Checkerspot Butterfly: An Insect with Complex Host-Adaptive Suites and Rapid Evolutionary Responses to Environmental Changes.
Tunstrom K, Wheat CW, Parmesan C, Singer MC, Mikheyev AS
Genome Biol Evol 14 (8) - [2022-08-03; online 2022-07-26]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Recessive inborn errors of type I IFN immunity in children with COVID-19 pneumonia.
Zhang Q, Matuozzo D, Le Pen J, ..., Cobat A, Casanova JL
J. Exp. Med. 219 (8) - [2022-08-01; online 2022-06-16]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Metabolic control of arginine and ornithine levels paces the progression of leaf senescence.
Liebsch D, Juvany M, Li Z, ..., Guo H, Keech O
Plant Physiol. 189 (4) 1943-1960 [2022-08-01; online 2022-05-24]
Swedish Metabolomics Centre (SMC) [Technology development]
PubMed DOI Crossref
A relationship between phages and organic carbon in wastewater treatment plant effluents.
Modin O, Fuad N, Abadikhah M, ..., Persson F, Wilén BM
Water Res X 16 (-) 100146 [2022-08-01; online 2022-06-16]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The discovAIR project: a roadmap towards the Human Lung Cell Atlas.
Luecken MD, Zaragosi LE, Madissoon E, ..., Meyer KB, Nawijn MC
Eur. Respir. J. 60 (2) - [2022-08-00; online 2022-08-18]
In Situ Sequencing (ISS) [Collaborative]
PubMed DOI Crossref
TCF4 trinucleotide repeat expansion in Swedish cases with Fuchs' endothelial corneal dystrophy.
Viberg A, Westin IM, Golovleva I, Byström B
Acta Ophthalmol 100 (5) 541-548 [2022-08-00; online 2021-10-13]
Clinical Genomics Umeå [Service]
PubMed DOI Crossref
Sulfated glycan recognition by carbohydrate sulfatases of the human gut microbiota.
Luis AS, Baslé A, Byrne DP, ..., Martens EC, Cartmell A
Nat. Chem. Biol. 18 (8) 841-849 [2022-08-00; online 2022-06-16]
Glycoproteomics [Collaborative]
PubMed DOI Crossref
SubCellBarCode: integrated workflow for robust spatial proteomics by mass spectrometry.
Arslan T, Pan Y, Mermelekas G, ..., Orre LM, Lehtiö J
Nat Protoc 17 (8) 1832-1867 [2022-08-00; online 2022-06-22]
Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Spatially resolved clonal copy number alterations in benign and malignant tissue.
Erickson A, He M, Berglund E, ..., Lamb AD, Lundeberg J
Nature 608 (7922) 360-367 [2022-08-00; online 2022-08-10]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Site-specific glycosylation of proteoglycans: A revisited frontier in proteoglycan research.
Noborn F, Nilsson J, Larson G
Matrix Biol. 111 (-) 289-306 [2022-08-00; online 2022-07-15]
Glycoproteomics [Collaborative]
PubMed DOI Crossref
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
Wegler C, Saleh A, Lindqvist A, ..., Smeraglia J, Baranczewski P
Journal of Chromatography B 1205 (-) 123340 [2022-08-00; online 2022-08-00]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
SimSearch: A Human-in-The-Loop Learning Framework for Fast Detection of Regions of Interest in Microscopy Images.
Gupta A, Sabirsh A, Wahlby C, Sintorn I
IEEE J Biomed Health Inform 26 (8) 4079-4089 [2022-08-00; online 2022-08-11]
BioImage Informatics [Technology development]
PubMed DOI Crossref
Short- and long-read metabarcoding of the eukaryotic rRNA operon: Evaluation of primers and comparison to shotgun metagenomics sequencing.
Latz MAC, Grujcic V, Brugel S, ..., Andersson A, Andersson AF
Mol Ecol Resour 22 (6) 2304-2318 [2022-08-00; online 2022-05-06]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Seawater browning alters community composition and reduces nutritional quality of plankton in a subarctic marine ecosystem
Bandara T, Brugel S, Andersson A, Lau DCP
Can. J. Fish. Aquat. Sci. 79 (8) 1291-1301 [2022-08-00; online 2022-08-00]
Swedish Metabolomics Centre (SMC) [Service]
DOI Crossref
Reactive melt crosslinking of cellulose nanocrystals/poly(ε-caprolactone) for heat-shrinkable network
Avella A, Idström A, Mincheva R, ..., Raquez JM, Lo Re G
Composites Part A: Applied Science and Manufacturing - (-) 107166 [2022-08-00; online 2022-08-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Probing the folding pathways of four-stranded intercalated cytosine-rich motifs at single base-pair resolution.
Jamroskovic J, Deiana M, Sabouri N
Biochimie 199 (-) 81-91 [2022-08-00; online 2022-04-20]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Mosaic Deletions of Known Genes Explain Skeletal Dysplasias With High and Low Bone Mass.
Muurinen M, Taylan F, Tournis S, ..., Mäkitie O, Costantini A
JBMR Plus 6 (8) e10660 [2022-08-00; online 2022-07-05]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Human adaptation to arsenic in Bolivians living in the Andes.
De Loma J, Vicente M, Tirado N, ..., Schlebusch CM, Broberg K
Chemosphere 301 (-) 134764 [2022-08-00; online 2022-04-28]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Long read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Host genotype interacts with aerial spore communities and influences the needle mycobiome of Norway spruce.
Redondo MA, Oliva J, Elfstrand M, ..., Karlsson B, Berlin A
Environ. Microbiol. 24 (8) 3640-3654 [2022-08-00; online 2022-03-22]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Five Percent Variant Allele Frequency Is a Reliable Reporting Threshold for TP53 Variants Detected by Next Generation Sequencing in Chronic Lymphocytic Leukemia in the Clinical Setting.
Pandzic T, Ladenvall C, Engvall M, ..., Ljungström V, Baliakas P
Hemasphere 6 (8) e761 [2022-08-00; online 2022-08-02]
Bioinformatics Compute and Storage [Service] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Esterified Lignin from Construction and Demolition Waste (CDW) as a Versatile Additive for Polylactic-Acid (PLA) Composites-The Effect of Artificial Weathering on its Performance.
Anugwom I, Lahtela V, Hedenström M, ..., Kärki T, Kallioinen-Mänttäri M
Glob Chall 6 (8) 2100137 [2022-08-00; online 2022-06-11]
Swedish NMR Centre (SNC) [Collaborative]
DOI Crossref
Ericaceous dwarf shrubs contribute a significant but drought‐sensitive fraction of soil respiration in a boreal pine forest
Mielke LA, Ekblad A, Finlay RD, ..., Lindahl BD, Clemmensen KE
J Ecol 110 (8) 1928-1941 [2022-08-00; online 2022-06-15]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Deep Visual Proteomics defines single-cell identity and heterogeneity.
Mund A, Coscia F, Kriston A, ..., Horvath P, Mann M
Nat. Biotechnol. 40 (8) 1231-1240 [2022-08-00; online 2022-05-19]
Spatial Proteomics [Service]
PubMed DOI Crossref
De novo spatiotemporal modelling of cell-type signatures in the developmental human heart using graph convolutional neural networks.
Marco Salas S, Yuan X, Sylven C, ..., Wählby C, Partel G
PLoS Comput. Biol. 18 (8) e1010366 [2022-08-00; online 2022-08-12]
BioImage Informatics [Technology development] In Situ Sequencing (ISS) [Collaborative]
PubMed DOI Crossref
Complement C4 Copy Number Variation is Linked to SSA/Ro and SSB/La Autoantibodies in Systemic Inflammatory Autoimmune Diseases.
Lundtoft C, Pucholt P, Martin M, ..., Svenungsson E, Rönnblom L
Arthritis & rheumatology (Hoboken, N.J.) 74 (8) 1440-1450 [2022-08-00; online 2022-06-27]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Combining biomarker and virus phylogenetic models improves HIV-1 epidemiological source identification.
Lundgren E, Romero-Severson E, Albert J, Leitner T
PLoS Comput. Biol. 18 (8) e1009741 [2022-08-00; online 2022-08-26]
Bioinformatics Compute and Storage [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
A polygenic architecture with habitat-dependent effects underlies ecological differentiation in Silene.
Gramlich S, Liu X, Favre A, Buerkle CA, Karrenberg S
New Phytol. 235 (4) 1641-1652 [2022-08-00; online 2022-06-23]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genomic surveillance and antimicrobial resistance in Neisseria gonorrhoeae isolates in Bangkok, Thailand in 2018.
Golparian D, Kittiyaowamarn R, Paopang P, ..., Wi T, Unemo M
J. Antimicrob. Chemother. 77 (8) 2171-2182 [2022-07-28; online 2022-05-12]
Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Characterization of Pipistrellus pygmaeus Bat Virome from Sweden.
Cholleti H, de Jong J, Blomström AL, Berg M
Viruses 14 (8) - [2022-07-28; online 2022-07-28]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structures of Atm1 provide insight into [2Fe-2S] cluster export from mitochondria.
Li P, Hendricks AL, Wang Y, ..., Wang K, Gourdon P
Nat Commun 13 (1) 4339 [2022-07-27; online 2022-07-27]
Cryo-EM
PubMed DOI Crossref
Restricted X chromosome introgression and support for Haldane's rule in hybridizing damselflies.
Swaegers J, Sánchez-Guillén RA, Chauhan P, Wellenreuther M, Hansson B
Proc. Biol. Sci. 289 (1979) 20220968 [2022-07-27; online 2022-07-20]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Inputs of Terrestrial Dissolved Organic Matter Enhance Bacterial Production and Methylmercury Formation in Oxic Coastal Water.
Rodríguez J, Andersson A, Björn E, ..., Skrobonja A, Rowe O
Front Microbiol 13 (-) 809166 [2022-07-27; online 2022-07-27]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide association study identifies Sjögren's risk loci with functional implications in immune and glandular cells.
Khatri B, Tessneer KL, Rasmussen A, ..., Nordmark G, Lessard CJ
Nat Commun 13 (1) 4287 [2022-07-27; online 2022-07-27]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Assessment of phylogenetic approaches to study the timing of recombination cessation on sex chromosomes.
Zhang H, Sigeman H, Hansson B
J. Evol. Biol. - (-) - [2022-07-27; online 2022-07-27]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Proliferation and Immune Response Gene Signatures Associated with Clinical Outcome to Immunotherapy and Targeted Therapy in Metastatic Cutaneous Malignant Melanoma.
Costa Svedman F, Das I, Tuominen R, ..., Höiom V, Egyhazi Brage S
Cancers (Basel) 14 (15) - [2022-07-22; online 2022-07-22]
NGI Short read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Claudin5 protects the peripheral endothelial barrier in an organ and vessel-type-specific manner.
Richards M, Nwadozi E, Pal S, ..., Nordling S, Claesson-Welsh L
Elife 11 (-) - [2022-07-21; online 2022-07-21]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Using multimarker screening to identify biomarkers associated with cardiovascular death in patients with atrial fibrillation.
Pol T, Hijazi Z, Lindbäck J, ..., Siegbahn A, Wallentin L
Cardiovasc. Res. 118 (9) 2112-2123 [2022-07-20; online 2021-08-07]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Amplification of CDK4 and MDM2: a detailed study of a high-risk neuroblastoma subgroup.
Martinez-Monleon A, Kryh Öberg H, Gaarder J, ..., Fransson S, Martinsson T
Sci Rep 12 (1) 12420 [2022-07-20; online 2022-07-20]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
The Influence of Plant Stress Hormones and Biotic Elicitors on Cyclotide Production in Viola uliginosa Cell Suspension Cultures.
Slazak B, Jędrzejska A, Badyra B, ..., Andrén PE, Göransson U
Plants (Basel) 11 (14) - [2022-07-19; online 2022-07-19]
Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
Sensitive Protein Detection Using Site-Specifically Oligonucleotide-Conjugated Nanobodies.
Al-Amin RA, Muthelo PM, Abdurakhmanov E, ..., Danielson UH, Landegren U
Anal. Chem. 94 (28) 10054-10061 [2022-07-19; online 2022-07-05]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Migrating to Long-Read Sequencing for Clinical Routine BCR-ABL1 TKI Resistance Mutation Screening.
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]
PubMed DOI Crossref
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]
PubMed DOI Crossref
Effect and function of β-N-methylamino-L-alanine in the diatom Phaeodactylum tricornutum.
Kim SY, Rasmussen U, Rydberg S
Sci. Total Environ. 830 (-) 154778 [2022-07-15; online 2022-03-24]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Galectin-9 and Interferon-Gamma Are Released by Natural Killer Cells upon Activation with Interferon-Alpha and Orchestrate the Suppression of Hepatitis C Virus Infection.
Carreca AP, Gaetani M, Busà R, ..., Conaldi PG, Badami E
Viruses 14 (7) - [2022-07-14; online 2022-07-14]
Chemical Proteomics [Collaborative]
PubMed DOI Crossref
Equilibrated evolution of the mixed auto-/allopolyploid haplotype-resolved genome of the invasive hexaploid Prussian carp.
Kuhl H, Du K, Schartl M, ..., Stöck M, Lamatsch DK
Nat Commun 13 (1) 4092 [2022-07-14; online 2022-07-14]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Hitchhiker's guide through the bio-image analysis software universe.
Haase R, Fazeli E, Legland D, ..., Klemm A, Tischer C
FEBS Lett. - (-) - [2022-07-14; online 2022-07-14]
BioImage Informatics [Collaborative]
PubMed DOI Crossref
Single-cell transcriptional pharmacodynamics of trifluridine in a tumor-immune model.
Selvin T, Fasterius E, Jarvius M, ..., Larsson R, Andersson CR
Sci Rep 12 (1) 11960 [2022-07-13; online 2022-07-13]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Single cell [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Integrated single cell and spatial transcriptomics reveal autoreactive differentiated B cells in joints of early rheumatoid arthritis.
Hardt U, Carlberg K, Af Klint E, ..., Ståhl PL, Malmström V
Sci Rep 12 (1) 11876 [2022-07-13; online 2022-07-13]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
High Variability of Fungal Communities Associated with the Functional Tissues and Rhizosphere Soil of Picea abies in the Southern Baltics
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]
PubMed DOI Crossref
Ultra-sensitive monitoring of leukemia patients using superRCA mutation detection assays.
Chen L, Eriksson A, Weström S, ..., Cavelier L, Landegren U
Nat Commun 13 (1) 4033 [2022-07-12; online 2022-07-12]
Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Comparative Small RNA and Degradome Sequencing Provides Insights into Antagonistic Interactions in the Biocontrol Fungus Clonostachys rosea.
Piombo E, Vetukuri RR, Sundararajan P, ..., Karlsson M, Dubey M
Appl. Environ. Microbiol. 88 (13) e0064322 [2022-07-12; online 2022-06-13]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
An atlas of endogenous DNA double-strand breaks arising during human neural cell fate determination.
Ballarino R, Bouwman BAM, Agostini F, ..., Bienko M, Crosetto N
Sci Data 9 (1) 400 [2022-07-12; online 2022-07-12]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
FLOWERING LOCUS T paralogs control the annual growth cycle in Populus trees.
André D, Marcon A, Lee KC, ..., Schmid M, Nilsson O
Curr. Biol. 32 (13) 2988-2996.e4 [2022-07-11; online 2022-06-03]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Co-Occurrence of Francisella, Spotted Fever Group Rickettsia, and Midichloria in Avian-Associated Hyalomma rufipes.
Hoffman T, Sjödin A, Öhrman C, ..., Lundkvist Å, Olsen B
Microorganisms 10 (7) - [2022-07-11; online 2022-07-11]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Rapid adaptive radiation of Darwin's finches depends on ancestral genetic modules.
Rubin CJ, Enbody ED, Dobreva MP, ..., Grant PR, Andersson L
Sci Adv 8 (27) eabm5982 [2022-07-08; online 2022-07-08]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
B-cell repopulation dynamics and drug pharmacokinetics impact SARS-CoV-2 vaccine efficacy in anti-CD20-treated multiple sclerosis patients.
Asplund Högelin K, Ruffin N, Pin E, ..., Piehl F, Al Nimer F
Eur. J. Neurol. - (-) - [2022-07-08; online 2022-07-08]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
The onset of PI3K-related vascular malformations occurs during angiogenesis and is prevented by the AKT inhibitor miransertib.
Kobialka P, Sabata H, Vilalta O, ..., Castillo SD, Graupera M
EMBO Mol Med 14 (7) e15619 [2022-07-07; online 2022-06-13]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
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]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Microplastic exposure across trophic levels: effects on the host-microbiota of freshwater organisms.
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]
PubMed DOI Crossref
Single-cell RNA-sequencing analysis of the developing mouse inner ear identifies molecular logic of auditory neuron diversification.
Petitpré C, Faure L, Uhl P, ..., Hadjab S, Lallemend F
Nat Commun 13 (1) 3878 [2022-07-05; online 2022-07-05]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 Compute and Storage [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Respiratory viral infections in otherwise healthy humans with inherited IRF7 deficiency.
Campbell TM, Liu Z, Zhang Q, ..., Meyts I, Bryceson YT
J. Exp. Med. 219 (7) - [2022-07-04; online 2022-06-07]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
High-throughput muscle fiber typing from RNA sequencing data.
Oskolkov N, Santel M, Parikh HM, ..., Pääbo S, Hansson O
Skelet Muscle 12 (1) 16 [2022-07-02; online 2022-07-02]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Galectin-4 levels in hospitalized versus non-hospitalized subjects with obesity: the Malmö Preventive Project.
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]
PubMed DOI Crossref
Regulatory networks and 5' partner usage of miRNA host gene fusions in breast cancer.
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 Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Practical application of a Bayesian network approach to poultry epigenetics and stress.
Videla Rodriguez EA, Pértille F, Guerrero-Bosagna C, ..., Jensen P, Smith VA
BMC Bioinformatics 23 (1) 261 [2022-07-01; online 2022-07-01]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Mercury–Selenium Accumulation Patterns in Muscle Tissue of Two Freshwater Fish Species, Eurasian Perch (Perca fluviatilis) and Vendace (Coregonus albula)
Regnell O, Tesson SVM, Oskolkov N, Nerentorp M
Water Air Soil Pollut 233 (7) - [2022-07-00; online 2022-06-20]
Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Impaired KIN10 function restores developmental defects in the Arabidopsis trehalose 6-phosphate synthase1 (tps1) mutant.
Zacharaki V, Ponnu J, Crepin N, ..., Rolland F, Schmid M
New Phytol. 235 (1) 220-233 [2022-07-00; online 2022-04-08]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Immune responses after omicron infection in triple-vaccinated health-care workers with and without previous SARS-CoV-2 infection.
Blom K, Marking U, Havervall S, ..., Klingström J, Thålin C
Lancet Infect Dis 22 (7) 943-945 [2022-07-00; online 2022-06-09]
Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Grey wolf genomic history reveals a dual ancestry of dogs.
Bergström A, Stanton DWG, Taron UH, ..., Dalén L, Skoglund P
Nature 607 (7918) 313-320 [2022-07-00; online 2022-06-29]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genomic profile - a possible diagnostic and prognostic marker in upper tract urothelial carcinoma.
Grahn A, Eisfeldt J, Malm C, ..., Tham E, Brehmer M
BJU Int. 130 (1) 92-101 [2022-07-00; online 2021-08-29]
Bioinformatics Compute and Storage [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Genomic dynamics of brown trout populations released to a novel environment.
Kurland S, Rafati N, Ryman N, Laikre L
Ecol Evol 12 (7) e9050 [2022-07-00; online 2022-07-03]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cross-sectional associations between the gut microbe Ruminococcus gnavus and features of the metabolic syndrome.
Grahnemo L, Nethander M, Coward E, ..., Hveem K, Ohlsson C
Lancet Diabetes Endocrinol 10 (7) 481-483 [2022-07-00; online 2022-06-01]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Clonal haematopoiesis as a risk factor for therapy-related myeloid neoplasms in patients with chronic lymphocytic leukaemia treated with chemo-(immuno)therapy.
Voso MT, Pandzic T, Falconi G, ..., Fabiani E, Baliakas P
Br. J. Haematol. 198 (1) 103-113 [2022-07-00; online 2022-03-11]
Clinical Genomics Uppsala [Service]
DOI Crossref
An Adaptable Antibody‐Based Platform for Flexible Synthetic Peptide Delivery Built on Agonistic CD40 Antibodies
Eltahir M, Laurén I, Lord M, ..., Persson H, Mangsbo SM
Advanced Therapeutics 5 (7) 2200008 [2022-07-00; online 2022-06-14]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Allorecognition genes drive reproductive isolation in Podospora anserina.
Ament-Velásquez SL, Vogan AA, Granger-Farbos A, ..., Clavé C, Johannesson H
Nat Ecol Evol 6 (7) 910-923 [2022-07-00; online 2022-05-12]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Age‐dependent aneuploidy in mammalian oocytes instigated at the second meiotic division
Kouznetsova A, Liu JG, Valentiniene S, Brismar H, Höög C
Aging Cell 21 (7) - [2022-07-00; online 2022-06-03]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
A polar bear paleogenome reveals extensive ancient gene flow from polar bears into brown bears.
Wang MS, Murray GGR, Mann D, ..., Green RE, Shapiro B
Nat Ecol Evol 6 (7) 936-944 [2022-07-00; online 2022-06-16]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
A high content screening assay for discovery of antimycobacterial compounds based on primary human macrophages infected with virulent Mycobacterium tuberculosis.
Kalsum S, Otrocka M, Andersson B, ..., Lundbäck T, Lerm M
Tuberculosis 135 (-) 102222 [2022-07-00; online 2022-06-16]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
DOI Crossref
Evidence for further non-coding RNA genes in the fungal rDNA region
Rosenblad MA, Larsson E, Walker A, ..., Wurzbacher C, Nilsson RH
MycoKeys 90 (-) 203-213 [2022-06-30; online 2022-06-30]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Niche partitioning between planktivorous fish in the pelagic Baltic Sea assessed by DNA metabarcoding, qPCR and microscopy.
Novotny A, Jan KMG, Dierking J, Winder M
Sci Rep 12 (1) 10952 [2022-06-29; online 2022-06-29]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
High prevalence of somatic PIK3CA and TP53 pathogenic variants in the normal mammary gland tissue of sporadic breast cancer patients revealed by duplex sequencing.
Kostecka A, Nowikiewicz T, Olszewski P, ..., Dumanski JP, Piotrowski A
NPJ Breast Cancer 8 (1) 76 [2022-06-29; online 2022-06-29]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Serine Protease Inhibitors Restrict Host Susceptibility to SARS-CoV-2 Infections.
Rosendal E, Mihai IS, Becker M, ..., Överby AK, Lenman A
MBio 13 (3) e0089222 [2022-06-28; online 2022-05-09]
Affinity Proteomics Uppsala [Service] Bioinformatics Compute and Storage [Service] Microbial Single Cell Genomics [Service]
DOI Crossref
Molecular International Prognostic Scoring System for Myelodysplastic Syndromes
Bernard E, Tuechler H, Greenberg PL, ..., Hellström-Lindberg E, Papaemmanuil E
NEJM Evidence 1 (7) - [2022-06-28; online 2022-06-28]
Clinical Genomics Uppsala [Service]
PubMed DOI Crossref
Metatranscriptomics captures dynamic shifts in mycorrhizal coordination in boreal forests.
Law SR, Serrano AR, Daguerre Y, ..., Street NR, Hurry V
Proc. Natl. Acad. Sci. U.S.A. 119 (26) e2118852119 [2022-06-28; online 2022-06-21]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Immunological differences between heart- and kidney-transplanted children: a cross-sectional study.
Ekman-Joelsson BM, Brandström P, Allén M, ..., Mellgren K, Ekwall O
Cardiol Young - (-) 1-6 [2022-06-24; online 2022-06-24]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Novel cancer gene discovery using a forward genetic screen in RCAS-PDGFB-driven gliomas.
Weishaupt H, Čančer M, Rosén G, ..., Ameur A, Swartling FJ
Neuro-oncology - (-) - [2022-06-23; online 2022-06-23]
Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Ultrafast and selective labeling of endogenous proteins using affinity-based benzotriazole chemistry.
Xin X, Zhang Y, Gaetani M, ..., Corkery DP, Wu Y
Chem. Sci. 13 (24) 7240-7246 [2022-06-22; online 2022-05-30]
Chemical Proteomics [Service]
PubMed DOI Crossref
Evaluation of within-host evolution of methicillin-resistant Staphylococcus aureus (MRSA) by comparing cgMLST and SNP analysis approaches.
Lagos AC, Sundqvist M, Dyrkell F, ..., Söderquist B, Mölling P
Sci Rep 12 (1) 10541 [2022-06-22; online 2022-06-22]
Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
mafba and mafbb differentially regulate lymphatic endothelial cell migration in topographically distinct manners.
Arnold H, Panara V, Hußmann M, ..., Schulte-Merker S, Koltowska K
Cell Rep 39 (12) 110982 [2022-06-21; online 2022-06-23]
BioImage Informatics [Collaborative] Genome Engineering Zebrafish [Service]
DOI Crossref
The immune cell atlas of human neuroblastoma
Verhoeven BM, Mei S, Olsen TK, ..., Johnsen JI, Baryawno N
Cell Reports Medicine 3 (6) 100657 [2022-06-21; online 2022-06-00]
Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service] Spatial Proteomics [Service]
PubMed DOI Crossref
Screening for Biomarkers Associated with Left Ventricular Function During Follow-up After Acute Coronary Syndrome.
Christersson C, Baron T, Flachskampf F, ..., Lindahl B, Siegbahn A
J. of Cardiovasc. Trans. Res. - (-) - [2022-06-21; online 2022-06-21]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Membrane insertion mechanism of the caveola coat protein Cavin1.
Liu KC, Pace H, Larsson E, ..., Hubert M, Lundmark R
Proc. Natl. Acad. Sci. U.S.A. 119 (25) e2202295119 [2022-06-21; online 2022-06-13]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
MYCN induces cell-specific tumorigenic growth in RB1-proficient human retinal organoid and chicken retina models of retinoblastoma.
Blixt MKE, Hellsand M, Konjusha D, ..., Ring H, Hallböök F
Oncogenesis 11 (1) 34 [2022-06-21; online 2022-06-21]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Immune gene expression in the mosquito vector <i>Culex quinquefasciatus</i> during an avian malaria infection
García-Longoria L, Ahrén D, Berthomieu A, ..., Rivero A, Hellgren O
- - (-) - [2022-06-16; online 2022-06-16]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Genetic loci and prioritization of genes for kidney function decline derived from a meta-analysis of 62 longitudinal genome-wide association studies.
Gorski M, Rasheed H, Teumer A, ..., Kronenberg F, Heid IM
Kidney Int. - (-) - [2022-06-16; online 2022-06-16]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structural basis of rapid actin dynamics in the evolutionarily divergent Leishmania parasite.
Kotila T, Wioland H, Selvaraj M, ..., Romet-Lemonne G, Lappalainen P
Nat Commun 13 (1) 3442 [2022-06-15; online 2022-06-15]
Cryo-EM [Service]
PubMed DOI Crossref
Molecular profiling of stem cell-derived retinal pigment epithelial cell differentiation established for clinical translation.
Petrus-Reurer S, Lederer AR, Baqué-Vidal L, ..., La Manno G, Lanner F
Stem Cell Reports 17 (6) 1458-1475 [2022-06-14; online 2022-06-16]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
CRISPR-Cas9 treatment partially restores amyloid-β 42/40 in human fibroblasts with the Alzheimer's disease PSEN 1 M146L mutation.
Konstantinidis E, Molisak A, Perrin F, ..., Berezovska O, Ingelsson M
Mol Ther Nucleic Acids 28 (-) 450-461 [2022-06-14; online 2022-03-28]
NGI Short read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
GenErode: a bioinformatics pipeline to investigate genome erosion in endangered and extinct species.
Kutschera VE, Kierczak M, van der Valk T, ..., Dalén L, Díez-Del-Molino D
BMC Bioinformatics 23 (1) 228 [2022-06-13; online 2022-06-13]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]
PubMed DOI Crossref
Differential and shared genetic effects on kidney function between diabetic and non-diabetic individuals.
Winkler TW, Rasheed H, Teumer A, ..., Pattaro C, Heid IM
Commun Biol 5 (1) 580 [2022-06-13; online 2022-06-13]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Combining metabolic phenotype determination with metabolomics and transcriptional analyses to reveal pathways regulated by hydroxycarboxylic acid receptor 2.
Rabe P, Gehmlich M, Peters A, ..., Nordström A, Stäubert C
Discov Oncol 13 (1) 47 [2022-06-13; online 2022-06-13]
Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
Case Report: Inversion of LMX1B - A Novel Cause of Nail-Patella Syndrome in a Swedish Family and a Longtime Follow-Up.
Lindelöf H, Horemuzova E, Voss U, ..., Grigelioniene G, Hammarsjö A
Front Endocrinol (Lausanne) 13 (-) 862908 [2022-06-13; online 2022-06-13]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Asgard archaea shed light on the evolutionary origins of the eukaryotic ubiquitin-ESCRT machinery.
Hatano T, Palani S, Papatziamou D, ..., Robinson NP, Balasubramanian M
Nat Commun 13 (1) 3398 [2022-06-13; online 2022-06-13]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Long-Term Warming of Baltic Sea Coastal Waters Affects Bacterial Communities in Bottom Water and Sediments Differently.
Seidel L, Broman E, Ståhle M, ..., Hylander S, Dopson M
Front Microbiol 13 (-) 873281 [2022-06-10; online 2022-06-10]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Disturbance-based management of ecosystem services and disservices in partial nitritation-anammox biofilms.
Suarez C, Sedlacek CJ, Gustavsson DJI, ..., Hermansson M, Persson F
NPJ Biofilms Microbiomes 8 (1) 47 [2022-06-08; online 2022-06-08]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Bioarchaeological evidence of one of the earliest Islamic burials in the Levant.
Srigyan M, Bolívar H, Ureña I, ..., Günther T, Valdiosera C
Commun Biol 5 (1) 554 [2022-06-07; online 2022-06-07]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Developmental landscape of human forebrain at a single-cell level identifies early waves of oligodendrogenesis.
van Bruggen D, Pohl F, Langseth CM, ..., Sundström E, Castelo-Branco G
Dev. Cell 57 (11) 1421-1436.e5 [2022-06-06; online 2022-05-05]
Bioinformatics Compute and Storage [Service] In Situ Sequencing (ISS) [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
LymphoTrack Is Equally Sensitive as PCR GeneScan and Sanger Sequencing for Detection of Clonal Rearrangements in ALL Patients.
Paulsen K, Marincevic M, Cavelier L, Hollander P, Amini RM
Diagnostics 12 (6) - [2022-06-04; online 2022-06-04]
Clinical Genomics Uppsala [Technology development]
PubMed DOI Crossref
Applicability of polygenic risk scores in endometriosis clinical presentation.
Svensson A, Garcia-Etxebarria K, Åkesson A, ..., D'Amato M, Ohlsson B
BMC Womens Health 22 (1) 208 [2022-06-03; online 2022-06-03]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
The Karolinska KI/K COVID-19 Immune Atlas: An open resource for immunological research and educational purposes.
Ljunggren HG, Ask EH, Cornillet M, ..., Strålin K, Björkström NK
Scand. J. Immunol. - (-) e13195 [2022-06-02; online 2022-06-02]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Secondary resistance to idelalisib is characterized by upregulation of IGF1R rather than by MAPK/ERK pathway mutations.
Tausch E, Ljungström V, Agathangelidis A, ..., Rosenquist R, Stilgenbauer S
Blood 139 (22) 3340-3344 [2022-06-02; online 2022-04-05]
Clinical Genomics Uppsala [Service]
PubMed DOI Crossref
C1QTNF3 is Upregulated During Subcutaneous Adipose Tissue Remodeling and Stimulates Macrophage Chemotaxis and M1-Like Polarization.
Micallef P, Vujičić M, Wu Y, ..., Cardell SL, Wernstedt Asterholm I
Front Immunol 13 (-) 914956 [2022-06-02; online 2022-06-02]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Accelerated epigenetic aging in suicide attempters uninfluenced by high intent-to-die and choice of lethal methods.
Jokinen J, Andersson P, Chatzittofis A, ..., Åsberg M, Boström ADE
Transl Psychiatry 12 (1) 224 [2022-06-02; online 2022-06-02]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Scipion-ED: a graphical user interface for batch processing and analysis of 3D ED/MicroED data.
Bengtsson VEG, Pacoste L, de la Rosa-Trevin JM, ..., Zou X, Xu H
J Appl Crystallogr 55 (Pt 3) 638-646 [2022-06-01; online 2022-04-22]
Cryo-EM [Technology development]
PubMed DOI Crossref
Robust derivation of transplantable dopamine neurons from human pluripotent stem cells by timed retinoic acid delivery.
Alekseenko Z, Dias JM, Adler AF, ..., Parmar M, Ericson J
Nat Commun 13 (1) 3046 [2022-06-01; online 2022-06-01]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mutation in the TACI gene and autoimmune neutropenia: A case report.
Bergman P, Broliden PA, Ratcliffe P, ..., Höglund P, Palmblad J
Am. J. Hematol. 97 (6) E207-E210 [2022-06-01; online 2022-03-26]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Identification of Antibiotic Resistance Proteins via MiCId's Augmented Workflow. A Mass Spectrometry-Based Proteomics Approach.
Alves G, Ogurtsov A, Karlsson R, ..., Moore ERB, Yu YK
J. Am. Soc. Mass Spectrom. 33 (6) 917-931 [2022-06-01; online 2022-05-02]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
The mosaic oat genome gives insights into a uniquely healthy cereal crop.
Kamal N, Tsardakas Renhuldt N, Bentzer J, ..., Spannagl M, Sirijovski N
Nature 606 (7912) 113-119 [2022-06-00; online 2022-05-18]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The HDAC9-associated risk locus promotes coronary artery disease by governing TWIST1.
Ma L, Bryce NS, Turner AW, ..., Björkegren JLM, Kovacic JC
PLoS Genet. 18 (6) e1010261 [2022-06-00; online 2022-06-17]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
TGFβ selects for pro-stemness over pro-invasive phenotypes during cancer cell epithelial-mesenchymal transition.
Tsubakihara Y, Ohata Y, Okita Y, ..., Heldin CH, Moustakas A
Mol Oncol 16 (12) 2330-2354 [2022-06-00; online 2022-04-10]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Site-specific N-glycan profiles of α5 β1 integrin from rat liver.
Mirgorodskaya E, Dransart E, Shafaq-Zadah M, ..., Leffler H, Johannes L
Biol Cell 114 (6) 160-176 [2022-06-00; online 2022-03-31]
Glycoproteomics [Technology development]
PubMed DOI Crossref
Single base substitution and insertion/deletion mutational signatures in adult core binding factor acute myeloid leukemia.
Gunnarsson R, Yang M, Biloglav A, ..., Paulsson K, Johansson B
Leukemia 36 (6) 1681-1684 [2022-06-00; online 2022-04-01]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
PatientMatcher: A customizable Python-based open-source tool for matching undiagnosed rare disease patients via the Matchmaker Exchange network.
Rasi C, Nilsson D, Magnusson M, ..., Wirta V, Stranneheim H
Hum. Mutat. 43 (6) 708-716 [2022-06-00; online 2022-03-07]
Clinical Genomics Stockholm [Technology development]
PubMed DOI Crossref
No association in maternal serum levels of TMAO and its precursors in pre-eclampsia and in non-complicated pregnancies.
Jääskeläinen T, Kärkkäinen O, Heinonen S, Hanhineva K, Laivuori H
Pregnancy Hypertens 28 (-) 74-80 [2022-06-00; online 2022-02-26]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Metabolomic profiles of mid-trimester amniotic fluid are not associated with subsequent spontaneous preterm delivery or gestational duration at delivery.
Hallingström M, Barman M, Savolainen O, ..., Brunius C, Jacobsson B
J Matern Fetal Neonatal Med 35 (11) 2054-2062 [2022-06-00; online 2020-06-16]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Mechanism of mitoribosomal small subunit biogenesis and preinitiation.
Itoh Y, Khawaja A, Laptev I, ..., Rorbach J, Amunts A
Nature 606 (7914) 603-608 [2022-06-00; online 2022-06-08]
Cryo-EM [Service] Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Loss of Nexilin function leads to a recessive lethal fetal cardiomyopathy characterized by cardiomegaly and endocardial fibroelastosis.
Johansson J, Frykholm C, Ericson K, ..., Bondeson ML, Wilbe M
Am. J. Med. Genet. A 188 (6) 1676-1687 [2022-06-00; online 2022-02-15]
Bioinformatics Compute and Storage [Service] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
DOI Crossref
Improving lithium dose prediction using population pharmacokinetics and pharmacogenomics: a cohort genome-wide association study in Sweden
Millischer V, Matheson GJ, Bergen SE, ..., Lavebratt C, Schalling M
The Lancet Psychiatry 9 (6) 447-457 [2022-06-00; online 2022-06-00]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Higher levels of Bifidobacteria and tumor necrosis factor in children with drug-resistant epilepsy are associated with anti-seizure response to the ketogenic diet.
Dahlin M, Singleton SS, David JA, ..., Mazumder R, Prast-Nielsen S
EBioMedicine 80 (-) 104061 [2022-06-00; online 2022-05-19]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic determinants of mannose-binding lectin activity predispose to thromboembolic complications in critical COVID-19.
Hultström M, Frithiof R, Grip J, ..., Zeberg H, Eriksson O
Nat. Immunol. 23 (6) 861-864 [2022-06-00; online 2022-05-27]
Bioinformatics Compute and Storage [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Extensively drug-resistant (XDR) Neisseria gonorrhoeae causing possible gonorrhoea treatment failure with ceftriaxone plus azithromycin in Austria, April 2022.
Pleininger S, Indra A, Golparian D, ..., Heidler S, Unemo M
Euro Surveill. 27 (24) - [2022-06-00; online 2022-06-18]
Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Do cold weather temperatures affect the efficacy of skin decontamination?
Thors L, Wästerby P, Wigenstam E, ..., Öberg L, Bucht A
J Appl Toxicol 42 (6) 961-969 [2022-06-00; online 2021-12-01]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Dataset on seston and zooplankton fatty-acid compositions, zooplankton and phytoplankton biomass, and environmental conditions of coastal and offshore waters of the northern Baltic Sea.
Bandara T, Brugel S, Andersson A, Lau DCP
Data Brief 42 (-) 108158 [2022-06-00; online 2022-04-10]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Comparative structural analysis provides new insights into the function of R2-like ligand-binding oxidase.
Diamanti R, Srinivas V, Johansson AI, ..., Lebrette H, Högbom M
FEBS Lett. 596 (12) 1600-1610 [2022-06-00; online 2022-03-04]
Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
Chronic Obstructive Pulmonary Disease Is Associated with Epigenome-Wide Differential Methylation in BAL Lung Cells.
Eriksson Ström J, Kebede Merid S, Pourazar J, ..., Behndig AF, Melén E
Am J Respir Cell Mol Biol 66 (6) 638-647 [2022-06-00; online 2022-03-15]
Bioinformatics Compute and Storage [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Childhood overweight and risk of obesity-related adult cancer in men.
Célind J, Bygdell M, Martikainen J, Ohlsson C, Kindblom JM
Cancer Commun (Lond) 42 (6) 576-579 [2022-06-00; online 2022-04-08]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Ancient DNA from a 2700-year-old goitered gazelle (Gazella subgutturosa) supports gazelle hunting in Iron Age Central Asia.
Rodrigues Soares AE, Boroffka N, Schröder O, ..., Benecke N, Günther T
R. Soc. open sci. 9 (6) 220104 [2022-06-00; online 2022-06-15]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Accumulation dynamics of ARGONAUTE proteins during meiosis in Arabidopsis.
Oliver C, Martinez G
Plant Reprod 35 (2) 153-160 [2022-06-00; online 2021-11-23]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
A new transgenic reporter line reveals expression of protocadherin 9 at a cellular level within the zebrafish central nervous system.
Habicher J, Manuel R, Pedroni A, ..., Ampatzis K, Boije H
Gene Expr Patterns 44 (-) 119246 [2022-06-00; online 2022-04-12]
Genome Engineering Zebrafish [Collaborative]
PubMed DOI Crossref
A breathing mask attenuates acute airway responses to exercise in sub-zero environment in healthy subjects.
Stenfors N, Persson H, Tutt A, ..., Ainegren M, Hanstock HG
Eur J Appl Physiol 122 (6) 1473-1484 [2022-06-00; online 2022-04-07]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Development of gut microbiota during the first 2 years of life.
Wernroth ML, Peura S, Hedman AM, ..., Dicksved J, Fall T
Sci Rep 12 (1) 9080 [2022-05-31; online 2022-05-31]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
An empirical evaluation of genotype imputation of ancient DNA.
Ausmees K, Sanchez-Quinto F, Jakobsson M, Nettelblad C
G3 (Bethesda) 12 (6) - [2022-05-30; online 2022-04-29]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Nitrogen represses haustoria formation through abscisic acid in the parasitic plant Phtheirospermum japonicum.
Kokla A, Leso M, Zhang X, ..., Yoshida S, Melnyk CW
Nat Commun 13 (1) 2976 [2022-05-27; online 2022-05-27]
Bioinformatics Compute and Storage [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
The long noncoding RNA ADIPINT regulates human adipocyte metabolism via pyruvate carboxylase.
Kerr AG, Wang Z, Wang N, ..., Arner P, Gao H
Nat Commun 13 (1) 2958 [2022-05-26; online 2022-05-26]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Inflammation and Interferon Signatures in Peripheral B-Lymphocytes and Sera of Individuals With Fibromyalgia.
Fineschi S, Klar J, Gustafsson KA, ..., Karlsson B, Dahl N
Front Immunol 13 (-) 874490 [2022-05-26; online 2022-05-26]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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 [2022-05-25; online 2022-05-25]
In Situ Sequencing (ISS) [Service]
PubMed DOI Crossref
Nitrogen Removal Capacity of Microbial Communities Developing in Compost- and Woodchip-Based Multipurpose Reactive Barriers for Aquifer Recharge With Wastewater.
Hellman M, Valhondo C, Martínez-Landa L, ..., Juhanson J, Hallin S
Front Microbiol 13 (-) 877990 [2022-05-24; online 2022-05-24]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Challenges in Analyzing Functional Epigenetic Data in Perspective of Adolescent Psychiatric Health.
Manu DM, Mwinyi J, Schiöth HB
Int J Mol Sci 23 (10) - [2022-05-23; online 2022-05-23]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Quantitative Analysis of the Transcriptome of Two Commonly Used Human Monocytic Cell Lines-THP-1 and Mono Mac 6-Reveals Their Arrest during Early Monocyte/Neutrophil Differentiation.
Akula S, Lara S, Olsson AK, Hellman L
Int J Mol Sci 23 (10) - [2022-05-22; online 2022-05-22]
NGI Short read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Ultrastructure and nuclear architecture of telomeric chromatin revealed by correlative light and electron microscopy.
Hübner B, von Otter E, Ahsan B, ..., Ludwig A, Sandin S
Nucleic Acids Res. 50 (9) 5047-5063 [2022-05-20; online 2022-05-01]
Integrated Microscopy Technologies Umeå [Technology development]
PubMed DOI Crossref
Touch signaling and thigmomorphogenesis are regulated by complementary CAMTA3- and JA-dependent pathways.
Darwish E, Ghosh R, Ontiveros-Cisneros A, ..., Khan K, Van Aken O
Sci Adv 8 (20) eabm2091 [2022-05-20; online 2022-05-20]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Environmentally induced DNA methylation is inherited across generations in an aquatic keystone species.
Feiner N, Radersma R, Vasquez L, ..., Heijmans BT, Uller T
iScience 25 (5) 104303 [2022-05-20; online 2022-04-25]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Critical role of Lama4 for hematopoiesis regeneration and acute myeloid leukemia progression.
Cai H, Kondo M, Sandhow L, ..., Ekblom M, Qian H
Blood 139 (20) 3040-3057 [2022-05-19; online 2021-12-28]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Spatial Resolution of Mycobacterium tuberculosis Bacteria and Their Surrounding Immune Environments Based on Selected Key Transcripts in Mouse Lungs.
Magoulopoulou A, Qian X, Pediatama Setiabudiawan T, ..., Nilsson M, Carow B
Front Immunol 13 (-) 876321 [2022-05-18; online 2022-05-18]
In Situ Sequencing (ISS) [Collaborative]
PubMed DOI Crossref
Generalisation effects of predictive uncertainty estimation in deep learning for digital pathology.
Pocevičiūtė M, Eilertsen G, Jarkman S, Lundström C
Sci Rep 12 (1) 8329 [2022-05-18; online 2022-05-18]
AIDA Data Hub [Service]
PubMed DOI Crossref
DGAT1 activity synchronises with mitophagy to protect cells from metabolic rewiring by iron depletion.
Long M, Sanchez-Martinez A, Longo M, ..., Whitworth AJ, McWilliams TG
EMBO J. 41 (10) e109390 [2022-05-16; online 2022-04-12]
Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
A nucleotide-sensing oligomerization mechanism that controls NrdR-dependent transcription of ribonucleotide reductases.
Rozman Grinberg I, Martínez-Carranza M, Bimai O, ..., Sjöberg BM, Stenmark P
Nat Commun 13 (1) 2700 [2022-05-16; online 2022-05-16]
Cryo-EM [Service]
PubMed DOI Crossref
Early Bactericidal Activity of Meropenem plus Clavulanate (with or without Rifampin) for Tuberculosis: The COMRADE Randomized, Phase 2A Clinical Trial.
De Jager V, Gupte N, Nunes S, ..., Diacon AH, Dooley KE
Am. J. Respir. Crit. Care Med. 205 (10) 1228-1235 [2022-05-15; online 2022-03-09]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Direct RNA targeted in situ sequencing for transcriptomic profiling in tissue.
Lee H, Marco Salas S, Gyllborg D, Nilsson M
Sci Rep 12 (1) 7976 [2022-05-13; online 2022-05-13]
In Situ Sequencing (ISS) [Technology development]
PubMed DOI Crossref
Large differences in carbohydrate degradation and transport potential among lichen fungal symbionts.
Resl P, Bujold AR, Tagirdzhanova G, ..., Willis LM, Spribille T
Nat Commun 13 (1) 2634 [2022-05-12; online 2022-05-12]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Genome-wide association meta-analysis identifies 48 risk variants and highlights the role of the stria vascularis in hearing loss.
Trpchevska N, Freidin MB, Broer L, ..., Williams FMK, Nagtegaal AP
Am. J. Hum. Genet. 109 (6) 1077-1091 [2022-05-12; online 2022-05-12]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Competitive ability depends on mating system and ploidy level across Capsella species.
Orsucci M, Yang X, Vanikiotis T, ..., Lascoux M, Glémin S
Ann. Bot. 129 (6) 697-708 [2022-05-12; online 2022-03-25]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
The impact of digital media on children's intelligence while controlling for genetic differences in cognition and socioeconomic background.
Sauce B, Liebherr M, Judd N, Klingberg T
Sci Rep 12 (1) 7720 [2022-05-11; online 2022-05-11]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Hepatocyte Thorns, A Novel Drug-Induced Stress Response in Human and Mouse Liver Spheroids.
Pridgeon CS, Bolhuis DP, Milosavljević F, ..., Jukić MM, Ingelman-Sundberg M
Cells 11 (10) - [2022-05-10; online 2022-05-10]
Chemical Proteomics [Service]
PubMed DOI Crossref
Speciation and population divergence in a mutualistic seed dispersing bird.
de Raad J, Päckert M, Irestedt M, ..., Neuschulz EL, Nilsson MA
Commun Biol 5 (1) 429 [2022-05-09; online 2022-05-09]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Seasonal and Spatial Variations in Synechococcus Abundance and Diversity Throughout the Gullmar Fjord, Swedish Skagerrak.
Laber CP, Pontiller B, Bunse C, ..., Pinhassi J, Farnelid H
Front Microbiol 13 (-) 828459 [2022-05-09; online 2022-05-09]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Contribution of rare whole-genome sequencing variants to plasma protein levels and the missing heritability.
Kierczak M, Rafati N, Höglund J, ..., Karlsson T, Johansson Å
Nat Commun 13 (1) 2532 [2022-05-09; online 2022-05-09]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Association between systemic inflammation and experimental pain sensitivity in subjects with pain and painless neuropathy after traumatic nerve injuries.
Miclescu AA, Granlund P, Butler S, Gordh T
Scand J Pain - (-) - [2022-05-09; online 2022-05-09]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
A randomized controlled trial of the effects of whole grains versus refined grains diets on the microbiome in pregnancy.
Sun H, Yamada P, Paetow A, ..., Dominguez-Bello MG, Young BK
Sci Rep 12 (1) 7509 [2022-05-07; online 2022-05-07]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Modulation of RNA stability regulates gene expression in two opposite ways: through buffering of RNA levels upon global perturbations and by supporting adapted differential expression.
Faucillion ML, Johansson AM, Larsson J
Nucleic Acids Res. 50 (8) 4372-4388 [2022-05-06; online 2022-04-08]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Evaluating metagenomic assembly approaches for biome-specific gene catalogues.
Delgado LF, Andersson AF
Microbiome 10 (1) 72 [2022-05-06; online 2022-05-06]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Birth weight and young adult body mass index for predicting the risk of developing adult heart failure in men.
Bygdell M, Ohlsson C, Lilja L, ..., Rosengren A, Kindblom JM
Eur J Prev Cardiol 29 (6) 971-978 [2022-05-06; online 2021-12-16]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Ivermectin-induced gene expression changes in adult Parascaris univalens and Caenorhabditis elegans: a comparative approach to study anthelminthic metabolism and resistance in vitro.
Dube F, Hinas A, Roy S, ..., Svärd S, Tydén E
Parasit Vectors 15 (1) 158 [2022-05-05; online 2022-05-05]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
"ON THE IMPORTANCE OF VARIATION OF ALKALISATION CONDITIONS ON CELLULOSE ETHER SYNTHESIS"
REYES FORSBERG DC, None , SUNDMAN O, None
Cellulose Chem. Technol. 56 (3-4) 227-238 [2022-05-05; online 2022-05-05]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Real-time evaluation of glioblastoma growth in patient-specific zebrafish xenografts.
Almstedt E, Rosén E, Gloger M, ..., Krona C, Nelander S
Neuro-oncology 24 (5) 726-738 [2022-05-04; online 2021-12-18]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
FOXO Dictates Initiation of B Cell Development and Myeloid Restriction in Common Lymphoid Progenitors.
Peña-Pérez L, Kharazi S, Frengen N, ..., Luc S, Månsson R
Front Immunol 13 (-) 880668 [2022-05-04; online 2022-05-04]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Comparison of methodological approaches to the study of young sex chromosomes: A case study in Poecilia.
Darolti I, Almeida P, Wright AE, Mank JE
J. Evol. Biol. 35 (12) 1646-1658 [2022-05-04; online 2022-05-04]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genomic Impact of Whaling in North Atlantic Fin Whales.
Wolf M, de Jong M, Halldórsson SD, Árnason Ú, Janke A
Mol. Biol. Evol. 39 (5) - [2022-05-03; online 2022-05-06]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic Landscape of the ACE2 Coronavirus Receptor.
Yang Z, Macdonald-Dunlop E, Chen J, ..., Wilson JF, Shen X
Circulation 145 (18) 1398-1411 [2022-05-03; online 2022-04-07]
Affinity Proteomics Stockholm [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Combined Transcriptomic and Protein Array Cytokine Profiling of Human Stem Cells from Dental Apical Papilla Modulated by Oral Bacteria.
Zymovets V, Razghonova Y, Rakhimova O, ..., Landström M, Romani Vestman N
Int J Mol Sci 23 (9) 5098 [2022-05-03; online 2022-05-03]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Factors Associated With Serological Response to SARS-CoV-2 Vaccination in Patients With Multiple Sclerosis Treated With Rituximab.
Tolf A, Wiberg A, Müller M, ..., Mangsbo S, Burman J
JAMA Netw Open 5 (5) e2211497 [2022-05-02; online 2022-05-02]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
The microtubule plus-end tracking protein Bik1 is required for chromosome congression.
Julner A, Abbasi M, Menéndez-Benito V
Mol. Biol. Cell 33 (5) br7 [2022-05-01; online 2022-03-02]
BioImage Informatics [Service]
PubMed DOI Crossref
Hepatocyte growth factor, colony-stimulating factor 1, CD40, and 11 other inflammation-related proteins are associated with pain in diabetic neuropathy: exploration and replication serum data from the Pain in Neuropathy Study.
Bäckryd E, Themistocleous A, Larsson A, ..., Bennett DL, Gerdle B
Pain 163 (5) 897-909 [2022-05-01; online 2021-08-27]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
[Correlation between intake of fish or supplements containing omega-3 fatty acids and early pregnancy plasma concentrations.].
Tryggvadottir EA, Halldorsson TI, Birgisdottir BE, ..., Hardardottir H, Gunnarsdottir I
Laeknabladid 108 (5) 238-243 [2022-05-00; online 2022-05-03]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
The outcome of targeted NGS screening in patients with syndromic forms of sagittal and pansynostosis - IL11RA is an emerging core-gene for pansynostosis.
Topa A, Rohlin A, Andersson MK, ..., Stenman G, Kölby L
Eur J Med Genet 65 (5) 104476 [2022-05-00; online 2022-03-21]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Stratification of COVID-19 patients based on quantitative immune-related gene expression in whole blood.
Persson J, Andersson B, van Veen S, ..., Andersson LM, Harandi AM
Mol. Immunol. 145 (-) 17-26 [2022-05-00; online 2022-03-04]
Clinical Genomics Gothenburg [Service]
DOI Crossref
Soil phosphorus forms show only minor changes across a 5000-year-old boreal wildfire chronosequence
Vincent AG, Schleucher J, Giesler R, Wardle DA
Biogeochemistry 159 (1) 15-32 [2022-05-00; online 2022-02-27]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Polymorphisms in alpha 7 nicotinic acetylcholine receptor gene, CHRNA7, and its partially duplicated gene, CHRFAM7A, associate with increased inflammatory response in human peripheral mononuclear cells.
Pattanaik B, Hammarlund M, Mjörnstedt F, ..., Bergström G, Johansson ME
FASEB J. 36 (5) e22271 [2022-05-00; online 2022-03-29]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Plaque Evaluation by Ultrasound and Transcriptomics Reveals BCLAF1 as a Regulator of Smooth Muscle Cell Lipid Transdifferentiation in Atherosclerosis.
Rykaczewska U, Zhao Q, Saliba-Gustafsson P, ..., Hedin U, Matic L
Arterioscler. Thromb. Vasc. Biol. 42 (5) 659-676 [2022-05-00; online 2022-03-24]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Nutrient driven transcriptional changes during phage infection in an aquatic Gammaproteobacterium.
Nilsson E, Li K, Hoetzinger M, Holmfeldt K
Environ. Microbiol. 24 (5) 2270-2281 [2022-05-00; online 2022-01-26]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Nitrate fertilization may delay autumn leaf senescence, while amino acid treatments do not.
Fataftah N, Edlund E, Lihavainen J, ..., Näsholm T, Jansson S
Physiol Plantarum 174 (3) e13690 [2022-05-00; online 2022-04-24]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Multi-omics analysis of the cervical epithelial integrity of women using depot medroxyprogesterone acetate.
Bradley F, Franzén Boger M, Kaldhusdal V, ..., Tjernlund A, Broliden K
PLoS Pathog. 18 (5) e1010494 [2022-05-00; online 2022-05-09]
BioImage Informatics [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
DOI Crossref
Microbial functional genes influenced by short-term experimental drought across European agricultural fields
Kozjek K, Manoharan L, Ahrén D, Hedlund K
Soil Biology and Biochemistry 168 (-) 108650 [2022-05-00; online 2022-05-00]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Metagenomic evidence of a novel family of anammox bacteria in a subsea environment.
Suarez C, Dalcin Martins P, Jetten MSM, ..., Hermansson M, Persson F
Environ. Microbiol. 24 (5) 2348-2360 [2022-05-00; online 2022-04-18]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Interleukin-10 regulates goblet cell numbers through Notch signaling in the developing zebrafish intestine.
Morales RA, Rabahi S, Diaz OE, ..., Hernández PP, Villablanca EJ
Mucosal Immunol 15 (5) 940-951 [2022-05-00; online 2022-07-15]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Hormone-sensitive lipase is localized at synapses and is necessary for normal memory functioning in mice.
Skoug C, Holm C, Duarte JMN
J. Lipid Res. 63 (5) 100195 [2022-05-00; online 2022-03-15]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
HLA variants associated with azathioprine-induced pancreatitis in patients with Crohn's disease.
Ås J, Bertulyte I, Eriksson N, ..., Wadelius M, Hallberg P
Clin Transl Sci 15 (5) 1249-1256 [2022-05-00; online 2022-02-20]
Bioinformatics Compute and Storage [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Evolution, geographic spreading, and demographic distribution of Enterovirus D68.
Hodcroft EB, Dyrdak R, Andrés C, ..., Neher RA, Albert J
PLoS Pathog. 18 (5) e1010515 [2022-05-00; online 2022-05-31]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Epicardium-derived cells organize through tight junctions to replenish cardiac muscle in salamanders.
Eroglu E, Yen CYT, Tsoi YL, ..., Simon A, Chien KR
Nat Cell Biol 24 (5) 645-658 [2022-05-00; online 2022-05-12]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Concurrent stem- and lineage-affiliated chromatin programs precede hematopoietic lineage restriction
Safi F, Dhapola P, Warsi S, ..., Thakur RK, Karlsson G
Cell Rep 39 (6) 110798 [2022-05-00; online 2022-05-00]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
Author Correction: The Molecular Tumor Board Portal supports clinical decisions and automated reporting for precision oncology.
Tamborero D, Dienstmann R, Rachid MH, ..., Rodon J, Lehtiö J
Nat Cancer 3 (5) 649 [2022-05-00; online 2022-04-23]
Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
A starch- and sucrose-reduced dietary intervention in irritable bowel syndrome patients produced a shift in gut microbiota composition along with changes in phylum, genus, and amplicon sequence variant abundances, without affecting the micro-RNA levels.
Nilholm C, Manoharan L, Roth B, D'Amato M, Ohlsson B
United European Gastroenterol J 10 (4) 363-375 [2022-05-00; online 2022-04-28]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
A modeling-based proposal for safe and efficacious reintroduction of bedaquiline after dose interruption: A population pharmacokinetics study.
Keutzer L, Akhondipour Salehabad Y, Davies Forsman L, Simonsson USH
CPT Pharmacometrics Syst Pharmacol 11 (5) 628-639 [2022-05-00; online 2022-02-16]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Satellite DNA evolution in Corvoidea inferred from short and long reads.
Peona V, Kutschera VE, Blom MPK, Irestedt M, Suh A
Mol. Ecol. - (-) - [2022-04-30; online 2022-04-30]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
RpuS/R Is a Novel Two-Component Signal Transduction System That Regulates the Expression of the Pyruvate Symporter MctP in Sinorhizobium fredii NGR234.
Ramos AL, Aquino M, García G, ..., Lupas AN, Sepulveda E
Front Microbiol 13 (-) 871077 [2022-04-29; online 2022-04-29]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Identification of four novel T cell autoantigens and personal autoreactive profiles in multiple sclerosis.
Bronge M, Högelin KA, Thomas OG, ..., Olsson T, Grönlund H
Sci Adv 8 (17) eabn1823 [2022-04-29; online 2022-04-27]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Cancer cells use self-inflicted DNA breaks to evade growth limits imposed by genotoxic stress.
Larsen BD, Benada J, Yung PYK, ..., Bartek J, Sørensen CS
Science 376 (6592) 476-483 [2022-04-29; online 2022-04-28]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Findzx: an automated pipeline for detecting and visualising sex chromosomes using whole-genome sequencing data.
Sigeman H, Sinclair B, Hansson B
BMC Genomics 23 (1) 328 [2022-04-27; online 2022-04-27]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Dual RNA Sequencing Reveals Key Events When Different Giardia Life Cycle Stages Interact With Human Intestinal Epithelial Cells In Vitro.
Rojas L, Grüttner J, Ma'ayeh S, Xu F, Svärd SG
Front. Cell. Infect. Microbiol. 12 (-) 862211 [2022-04-27; online 2022-04-27]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Wastewater effluent affects behaviour and metabolomic endpoints in damselfly larvae.
Späth J, Fick J, McCallum E, ..., Nording ML, Brodin T
Sci Rep 12 (1) 6830 [2022-04-26; online 2022-04-26]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Cell-lineage controlled epigenetic regulation in glioblastoma stem cells determines functionally distinct subgroups and predicts patient survival.
Lu X, Maturi NP, Jarvius M, ..., Uhrbom L, Chen X
Nat Commun 13 (1) 2236 [2022-04-25; online 2022-04-25]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Auxin boosts energy generation pathways to fuel pollen maturation in barley.
Amanda D, Frey FP, Neumann U, ..., Ljung K, Acosta IF
Curr. Biol. 32 (8) 1798-1811.e8 [2022-04-25; online 2022-03-21]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Auxilin is a novel susceptibility gene for congenital heart block which directly impacts fetal heart function.
Meisgen S, Hedlund M, Ambrosi A, ..., Sonesson S, Wahren-Herlenius M
Ann. Rheum. Dis. 81 (8) 1151-1161 [2022-04-25; online 2022-04-25]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Carniolan Honeybee from Slovenia-A Complete and Annotated Mitochondrial Genome with Comparisons to Closely Related Apis mellifera Subspecies.
Moškrič A, Marinč A, Ferk P, ..., Soler L, Prešern J
Insects 13 (5) 403 [2022-04-22; online 2022-04-22]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Comprehensive Target Screening and Cellular Profiling of the Cancer-Active Compound b-AP15 Indicate Abrogation of Protein Homeostasis and Organelle Dysfunction as the Primary Mechanism of Action.
Gubat J, Selvaraju K, Sjöstrand L, ..., Linder S, D'Arcy P
Front Oncol 12 (-) 852980 [2022-04-22; online 2022-04-22]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Snapshots of actin and tubulin folding inside the TRiC chaperonin.
Kelly JJ, Tranter D, Pardon E, ..., Huiskonen JT, Yue WW
Nat. Struct. Mol. Biol. - (-) - [2022-04-21; online 2022-04-21]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Characterization of the ganglioside recognition profile of Escherichia coli heat-labile enterotoxin LT-IIc.
Zalem D, Juhás M, Terrinoni M, ..., Connell TD, Teneberg S
Glycobiology 32 (5) 391-403 [2022-04-21; online 2022-01-02]
Glycoproteomics [Service]
PubMed DOI Crossref
App-based COVID-19 syndromic surveillance and prediction of hospital admissions in COVID Symptom Study Sweden.
Kennedy B, Fitipaldi H, Hammar U, ..., Franks PW, Fall T
Nat Commun 13 (1) 2110 [2022-04-21; online 2022-04-21]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Systems analysis shows a role of cytophilic antibodies in shaping innate tolerance to malaria.
Lautenbach MJ, Yman V, Silva CS, ..., Färnert A, Sundling C
Cell Rep 39 (3) 110709 [2022-04-19; online 2022-04-21]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Silencing of STE20-type kinase STK25 in human aortic endothelial and smooth muscle cells is atheroprotective.
Cansby E, Kumari S, Caputo M, ..., Goncalves I, Mahlapuu M
Commun Biol 5 (1) 379 [2022-04-19; online 2022-04-19]
Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]
PubMed DOI Crossref
Interaction of Bartonella henselae with Fibronectin Represents the Molecular Basis for Adhesion to Host Cells.
Vaca DJ, Thibau A, Leisegang MS, ..., Happonen L, Kempf VAJ
Microbiol Spectr - (-) e0059822 [2022-04-18; online 2022-04-18]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Impact of SARS-CoV-2 infection on vaccine-induced immune responses over time.
Havervall S, Marking U, Greilert-Norin N, ..., Åberg M, Thålin C
Clin Transl Immunology 11 (4) e1388 [2022-04-18; online 2022-04-18]
Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
The Effects of High Fiber Rye, Compared to Refined Wheat, on Gut Microbiota Composition, Plasma Short Chain Fatty Acids, and Implications for Weight Loss and Metabolic Risk Factors (the RyeWeight Study).
Iversen KN, Dicksved J, Zoki C, ..., Langton M, Landberg R
Nutrients 14 (8) - [2022-04-17; online 2022-04-17]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Multi-omics protein-coding units as massively parallel Bayesian networks: Empirical validation of causality structure.
Zenere A, Rundquist O, Gustafsson M, Altafini C
iScience 25 (4) 104048 [2022-04-15; online 2022-03-11]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Influence of cysteine, serine, sulfate, and sulfide on anaerobic conversion of unsaturated long-chain fatty acid, oleate, to methane.
Shakeri Yekta S, Elreedy A, Liu T, ..., Fujii M, Schnürer A
Sci. Total Environ. 817 (-) 152967 [2022-04-15; online 2022-01-10]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Evaluation of polarity switching for untargeted lipidomics using liquid chromatography coupled to high resolution mass spectrometry.
Carlsson H, Vaivade A, Emami Khoonsari P, Burman J, Kultima K
Journal of Chromatography B 1195 (-) 123200 [2022-04-15; online 2022-02-28]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Design and development of photoswitchable DFG-Out RET kinase inhibitors.
Xu Y, Gao C, Andreasson M, ..., Andréasson J, Grøtli M
Eur J Med Chem 234 (-) 114226 [2022-04-15; online 2022-03-10]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Pharmacodynamic Evaluation of Zoliflodacin Treatment of Neisseria gonorrhoeae Strains With Amino Acid Substitutions in the Zoliflodacin Target GyrB Using a Dynamic Hollow Fiber Infection Model.
Jacobsson S, Golparian D, Oxelbark J, ..., Drusano G, Unemo M
Front Pharmacol 13 (-) 874176 [2022-04-14; online 2022-04-14]
Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
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
Psychoneuroendocrinology 141 (-) 105765 [2022-04-14; online 2022-04-14]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Broad-spectrum antidote discovery by untangling the reactivation mechanism of nerve agent inhibited acetylcholinesterase.
Lindgren C, Forsgren N, Hoster N, ..., Ekström F, Linusson A
Chemistry - (-) - [2022-04-14; online 2022-04-14]
Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
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]
PubMed DOI Crossref
Development and Optimization of a Silica Column-Based Extraction Protocol for Ancient DNA.
Dehasque M, Pečnerová P, Kempe Lagerholm V, ..., Vartanyan S, Dalén L
Genes 13 (4) - [2022-04-13; online 2022-04-13]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Basal ganglia neuropeptides show abnormal processing associated with L-DOPA-induced dyskinesia.
Hulme H, Fridjonsdottir E, Vallianatou T, ..., Bezard E, Andrén PE
NPJ Parkinsons Dis 8 (1) 41 [2022-04-13; online 2022-04-13]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Conflict over the eukaryote root resides in strong outliers, mosaics and missing data sensitivity of site-specific (CAT) mixture models.
Al Jewari C, Baldauf SL
Syst. Biol. - (-) - [2022-04-12; online 2022-04-12]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Transposon activity, local duplications and propagation of structural variants across haplotypes drive the evolution of the Drosophila S2 cell line.
Lewerentz J, Johansson AM, Larsson J, Stenberg P
BMC Genomics 23 (1) 276 [2022-04-07; online 2022-04-07]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
scSPLAT, a scalable plate-based protocol for single cell WGBS library preparation.
Raine A, Lundmark A, Annett A, ..., Bergin C, Nordlund J
Sci Rep 12 (1) 5772 [2022-04-06; online 2022-04-06]
Bioinformatics Compute and Storage [Service] Microbial Single Cell Genomics NGI Single cell [Technology development] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Structural basis for PoxtA-mediated resistance to phenicol and oxazolidinone antibiotics.
Crowe-McAuliffe C, Murina V, Turnbull KJ, ..., Wilson DN, Hauryliuk V
Nat Commun 13 (1) 1860 [2022-04-06; online 2022-04-06]
Bioinformatics Compute and Storage [Service] Cryo-EM [Service]
PubMed DOI Crossref
Epigenomic priming of immune genes implicates oligodendroglia in multiple sclerosis susceptibility.
Meijer M, Agirre E, Kabbe M, ..., Malhotra D, Castelo-Branco G
Neuron 110 (7) 1193-1210.e13 [2022-04-06; online 2022-01-31]
Bioinformatics Compute and Storage [Service] Eukaryotic Single Cell Genomics (ESCG) [Service]
PubMed DOI Crossref
Direct measurements of mRNA translation kinetics in living cells.
Metelev M, Lundin E, Volkov IL, ..., Elf J, Johansson M
Nat Commun 13 (1) 1852 [2022-04-06; online 2022-04-06]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
SLC38A10 Regulate Glutamate Homeostasis and Modulate the AKT/TSC2/mTOR Pathway in Mouse Primary Cortex Cells.
Tripathi R, Aggarwal T, Lindberg FA, Klemm AH, Fredriksson R
Front Cell Dev Biol 10 (-) 854397 [2022-04-05; online 2022-04-05]
Autoimmunity and Serology Profiling [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Well-Plate μFASP for Proteomic Analysis of Single Pancreatic Islets.
Sandbaumhüter FA, Nezhyva M, Eriksson O, ..., Andrén PE, Jansson ET
J. Proteome Res. 21 (4) 1167-1174 [2022-04-01; online 2022-03-16]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
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]
Bioinformatics Compute and Storage [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 [Service]
DOI Crossref
Two structural types of dithiocarbamato-chlorido complexes of mercury(II): Preparation, supramolecular self-assembly, solid-state 13C and 15N NMR characterisation and thermal behaviour of pseudo-polymeric compounds of [Hg2(S2CNBu2)2Cl2] and [Hg4(S2CNiBu2)6][Hg2Cl6]
Loseva OV, Rodina TA, Shah FU, ..., Antzutkin ON, Ivanov AV
Inorganica Chimica Acta 533 (-) 120786 [2022-04-00; online 2022-04-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Timing is everything - obtaining accurate measures of plant uptake of amino acids.
Svennerstam H, Jämtgård S
New Phytol. 234 (1) 311-318 [2022-04-00; online 2022-02-02]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Target sequence capture of Barnadesioideae (Compositae) demonstrates the utility of low coverage loci in phylogenomic analyses.
Ferreira PdL, Batista R, Andermann T, ..., Bacon CD, Antonelli A
Mol. Phylogenet. Evol. 169 (-) 107432 [2022-04-00; online 2022-02-04]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Multiomics Analysis Reveals the Impact of Microbiota on Host Metabolism in Hepatic Steatosis.
Zeybel M, Arif M, Li X, ..., Borén J, Mardinoglu A
Adv Sci (Weinh) 9 (11) e2104373 [2022-04-00; online 2022-02-07]
Affinity Proteomics Stockholm [Service]
DOI Crossref
Multidisciplinary investigation reveals an individual of West African origin buried in a Portuguese Mesolithic shell midden four centuries ago
Peyroteo-Stjerna R, Simões LG, Fernandes R, ..., Günther T, Jakobsson M
Journal of Archaeological Science: Reports 42 (-) 103370 [2022-04-00; online 2022-04-00]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Metabolism is a major driver of hydrogen isotope fractionation recorded in tree-ring glucose of Pinus nigra.
Wieloch T, Grabner M, Augusti A, ..., Yu J, Schleucher J
New Phytol. 234 (2) 449-461 [2022-04-00; online 2022-02-26]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
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
Immun Inflamm Dis 10 (4) e595 [2022-04-00; online 2022-03-30]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Long-Term Follow-Up of Newborns with 22q11 Deletion Syndrome and Low TRECs.
Framme JL, Lundqvist C, Lundell AC, ..., Oskarsdóttir S, Ekwall O
J Clin Immunol 42 (3) 618-633 [2022-04-00; online 2022-01-26]
Clinical Genomics Umeå [Service]
PubMed DOI Crossref
Inherited IFNAR1 Deficiency in a Child with Both Critical COVID-19 Pneumonia and Multisystem Inflammatory Syndrome.
Abolhassani H, Landegren N, Bastard P, ..., Hammarström L, Pan-Hammarström Q
J Clin Immunol 42 (3) 471-483 [2022-04-00; online 2022-01-28]
Autoimmunity and Serology Profiling [Service]
PubMed DOI Crossref
Gastrointestinal mucus in dog: Physiological characteristics, composition, and structural properties.
Dubbelboer IR, Barmpatsalou V, Rodler A, ..., Häggström J, Bergström CAS
Eur J Pharm Biopharm 173 (-) 92-102 [2022-04-00; online 2022-02-25]
Global Proteomics and Proteogenomics [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Characterization of novel nonacid glycosphingolipids as biomarkers of human gastric adenocarcinoma.
Jin C, Teneberg S
J. Biol. Chem. 298 (4) 101732 [2022-04-00; online 2022-02-15]
Glycoproteomics [Service]
PubMed DOI Crossref
Bovine oocyte exposure to perfluorohexane sulfonate (PFHxS) induces phenotypic, transcriptomic, and DNA methylation changes in resulting embryos in vitro.
Hallberg I, Persson S, Olovsson M, ..., Rüegg J, Sjunnesson YCB
Reprod Toxicol 109 (-) 19-30 [2022-04-00; online 2022-02-24]
BioImage Informatics [Collaborative]
PubMed DOI Crossref
Acute sleep loss alters circulating fibroblast growth factor 21 levels in humans: A randomised crossover trial.
Mateus Brandão LE, Espes D, Westholm JO, ..., Benedict C, Cedernaes J
J Sleep Res 31 (2) e13472 [2022-04-00; online 2021-09-02]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
ADP-ribosylating adjuvant reveals plasticity in cDC1 cells that drive mucosal Th17 cell development and protection against influenza virus infection.
Arabpour M, Lebrero-Fernandez C, Schön K, ..., Agace W, Lycke N
Mucosal Immunol 15 (4) 745-761 [2022-04-00; online 2022-04-13]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Linear Epitope Binding Patterns of Grass Pollen-Specific Antibodies in Allergy and in Response to Allergen-Specific Immunotherapy
Thörnqvist L, Sjöberg R, Greiff L, van Hage M, Ohlin M
Front. Allergy 3 (-) - [2022-03-31; online 2022-03-31]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Coupling Lipid Nanoparticle Structure and Automated Single Particle Composition Analysis to Design Phospholipase Responsive Nanocarriers.
Barriga HMG, Pence IJ, Holme MN, ..., Carroni M, Stevens MM
Adv Mater - (-) e2200839 [2022-03-31; online 2022-03-31]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Pre-Treatment Integrase Inhibitor Resistance and Natural Polymorphisms among HIV-1 Subtype C Infected Patients in Ethiopia.
Arimide DA, Szojka ZI, Zealiyas K, ..., Björkman P, Medstrand P
Viruses 14 (4) - [2022-03-30; online 2022-03-30]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Next Generation Plasma Proteomics Identifies High-Precision Biomarker Candidates for Ovarian Cancer.
Gyllensten U, Hedlund-Lindberg J, Svensson J, ..., Åberg M, Enroth S
Cancers (Basel) 14 (7) - [2022-03-30; online 2022-03-30]
Affinity Proteomics Uppsala [Collaborative] NGI Proteomics [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Integrative multi-omics and drug response profiling of childhood acute lymphoblastic leukemia cell lines.
Leo IR, Aswad L, Stahl M, ..., Vesterlund M, Jafari R
Nat Commun 13 (1) 1691 [2022-03-30; online 2022-03-30]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The genomic architecture of the passerine MHC region: High repeat content and contrasting evolutionary histories of single copy and tandemly duplicated MHC genes.
Westerdahl H, Mellinger S, Sigeman H, ..., Wolf JBW, Strandh M
Mol Ecol Resour - (-) - [2022-03-29; online 2022-03-29]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
DOI Crossref
Subcellular mapping of the protein landscape of SARS-CoV-2 infected cells for target-centric drug repurposing
Kaimal JM, Tampere M, Le TH, ..., Östling P, Stadler C
- - (-) - [2022-03-29; online 2022-03-29]
Spatial Proteomics
PubMed DOI Crossref
An inverse association between plasma benzoxazinoid metabolites and PSA after rye intake in men with prostate cancer revealed with a new method.
Nordin E, Steffensen SK, Laursen BB, ..., Fomsgaard IS, Landberg R
Sci Rep 12 (1) 5260 [2022-03-28; online 2022-03-28]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Genetics of age-at-onset in major depression.
Harder A, Nguyen TD, Pasman JA, ..., Hägg S, Lu Y
Transl Psychiatry 12 (1) 124 [2022-03-26; online 2022-03-26]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Multivariate mining of an alpaca immune repertoire identifies potent cross-neutralizing SARS-CoV-2 nanobodies.
Hanke L, Sheward DJ, Pankow A, ..., McInerney GM, Murrell B
Sci Adv 8 (12) eabm0220 [2022-03-25; online 2022-03-25]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Inflammation and neutrophil extracellular traps in cerebral cavernous malformation.
Yau ACY, Globisch MA, Onyeogaziri FC, ..., Dejana E, Magnusson PU
Cell. Mol. Life Sci. 79 (4) 206 [2022-03-25; online 2022-03-25]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Temporal patterns of inflammation-related proteins measured in the cerebrospinal fluid of patients with aneurysmal subarachnoid hemorrhage using multiplex Proximity Extension Assay technology.
Vlachogiannis P, Hillered L, Enblad P, Ronne-Engström E
PLoS ONE 17 (3) e0263460 [2022-03-24; online 2022-03-24]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
A Study Protocol for Validation and Implementation of Whole-Genome and -Transcriptome Sequencing as a Comprehensive Precision Diagnostic Test in Acute Leukemias.
Berglund E, Barbany G, Orsmark-Pietras C, ..., Fioretos T, Rosenquist R
Front Med (Lausanne) 9 (-) 842507 [2022-03-24; online 2022-03-24]
Clinical Genomics Gothenburg [Service] Clinical Genomics Umeå [Service] Clinical Genomics Uppsala [Collaborative]
DOI Crossref
Taxonomic and functional diversity of aquatic heterotrophs is sustained by dissolved organic matter chemodiversity
Garcia SL, Nuy JK, Mehrshad M, ..., Hawkes J, Bertilsson S
- - (-) - [2022-03-22; online 2022-03-22]
Microbial Single Cell Genomics [Technology development]
PubMed DOI Crossref
Near Chromosome-Level Genome Assembly and Annotation of Rhodotorula babjevae Strains Reveals High Intraspecific Divergence.
Martín-Hernández GC, Müller B, Brandt C, ..., Viehweger A, Passoth V
JoF 8 (4) - [2022-03-22; online 2022-03-22]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A novel immunopeptidomic-based pipeline for the generation of personalized oncolytic cancer vaccines.
Feola S, Chiaro J, Martins B, ..., Lehtiö J, Cerullo V
Elife 11 (-) - [2022-03-22; online 2022-03-22]
Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Comparative Genomics of Cyclic di-GMP Metabolism and Chemosensory Pathways in Shewanella algae Strains: Novel Bacterial Sensory Domains and Functional Insights into Lifestyle Regulation.
Martín-Rodríguez AJ, Higdon SM, Thorell K, ..., Krell T, Römling U
mSystems - (-) e0151821 [2022-03-21; online 2022-03-21]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Small Molecule Screening of Primary Human Acute Myeloid Leukemia Using Co-culture and Multiplexed FACS Analysis.
Baudet A, Hultmark S, Ek F, Magnusson M
BIO-PROTOCOL 12 (6) e4353 [2022-03-20; online 2022-03-20]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Periodontal Disease Augments Cardiovascular Disease Risk Biomarkers in Rheumatoid Arthritis.
Panezai J, Ghaffar A, Altamash M, ..., Larsson A, Engström PE
Biomedicines 10 (3) - [2022-03-19; online 2022-03-19]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
GBS-MeDIP: A protocol for parallel identification of genetic and epigenetic variation in the same reduced fraction of genomes across individuals.
Rezaei S, Uffenorde J, Gimm O, ..., Guerrero-Bosagna C, Pértille F
STAR Protoc 3 (1) 101202 [2022-03-18; online 2022-03-03]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Deficits in attention, motor control and perception childhood to age 30 years: prospective case-control study of outcome predictors.
Landgren V, Fernell E, Gillberg C, Landgren M, Johnson M
BMJ Open 12 (3) e054424 [2022-03-17; online 2022-03-17]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Structural Analysis of the Black-Legged Tick Saliva Protein Salp15.
Chaves-Arquero B, Persson C, Merino N, ..., Anguita J, Blanco FJ
Int J Mol Sci 23 (6) - [2022-03-15; online 2022-03-15]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Extracellular endosulfatase Sulf-2 harbors a chondroitin/dermatan sulfate chain that modulates its enzyme activity.
El Masri R, Seffouh A, Roelants C, ..., Filhol O, Vivès RR
Cell Rep 38 (11) 110516 [2022-03-15; online 2022-03-17]
Glycoproteomics [Service]
PubMed DOI Crossref
Salivary Microbiota and Host-Inflammatory Responses in Periodontitis Affected Individuals With and Without Rheumatoid Arthritis.
Eriksson K, Lundmark A, Delgado LF, ..., Andersson AF, Yucel-Lindberg T
Front. Cell. Infect. Microbiol. 12 (-) 841139 [2022-03-14; online 2022-03-14]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Norway spruce postglacial recolonization of Fennoscandia.
Nota K, Klaminder J, Milesi P, ..., Suyama Y, Parducci L
Nat Commun 13 (1) 1333 [2022-03-14; online 2022-03-14]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Five Hours Total Sleep Deprivation Does Not Affect CA1 Dendritic Length or Spine Density.
Brodin ATS, Gabulya S, Wellfelt K, Karlsson TE
Front. Synaptic Neurosci. 14 (-) 854160 [2022-03-14; online 2022-03-14]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
Mixed-mode chromatography-mass spectrometry enables targeted and untargeted screening of carboxylic acids in biological samples.
Hodek O, Argemi-Muntadas L, Khan A, Moritz T
Anal. Methods 14 (10) 1015-1022 [2022-03-10; online 2022-03-10]
Swedish Metabolomics Centre (SMC) [Technology development]
PubMed DOI Crossref
A "spindle and thread" mechanism unblocks p53 translation by modulating N-terminal disorder.
Kaldmäe M, Vosselman T, Zhong X, ..., Lane DP, Landreh M
Structure - (-) - [2022-03-10; online 2022-03-10]
Swedish NMR Centre (SNC) [Service]
DOI Crossref
Control of NK cell tolerance in MHC class I-deficiency by regulated SHP-1 localization to the activating immune synapse
Schmied L, Luu TT, Søndergaard JN, ..., Saeed MB, Höglund P
- - (-) - [2022-03-09; online 2022-03-09]
Bioinformatics Compute and Storage [Service] Integrated Microscopy Technologies Stockholm [Service]
DOI Crossref
Weakened resilience of benthic microbial communities in the face of climate change
Seidel L, Ketzer M, Broman E, ..., Hylander S, Dopson M
ISME COMMUN. 2 (1) - [2022-03-08; online 2022-03-08]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Elevated mid-pregnancy plasma levels of angiotensin-converting enzyme 2 in women prior to the development of preeclampsia.
Junus K, Björk Ragnarsdóttir I, Nordlöf Callbo P, ..., Lager S, Wikström AK
Sci Rep 12 (1) 4109 [2022-03-08; online 2022-03-08]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Downregulation and Hypermethylation of GABPB1 Is Associated with Aggressive Thyroid Cancer Features.
Xing X, Mu N, Yuan X, ..., Neo SY, Xu D
Cancers (Basel) 14 (6) - [2022-03-08; online 2022-03-08]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Computational Modeling of O-Linked Glycan Biosynthesis in CHO Cells.
Kouka T, Akase S, Sogabe I, ..., Karlsson NG, Aoki-Kinoshita KF
Molecules 27 (6) - [2022-03-08; online 2022-03-08]
Glycoproteomics [Service]
PubMed DOI Crossref
Clonotypic analysis of protective influenza M2e-specific lung resident Th17 memory cells reveals extensive functional diversity.
Omokanye A, Ong LC, Lebrero-Fernandez C, ..., Czarnewski P, Lycke N
Mucosal Immunol - (-) - [2022-03-08; online 2022-03-08]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Alterations in Self-Aggregating Neuropeptides in Cerebrospinal Fluid of Patients with Parkinsonian Disorders.
Zhu S, Bäckström D, Forsgren L, Trupp M
J Parkinsons Dis 12 (4) 1169-1189 [2022-03-08; online 2022-03-08]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Aggregation Behavior of Structurally Similar Therapeutic Peptides Investigated by 1H NMR and All-Atom Molecular Dynamics Simulations.
Hjalte J, Hossain S, Hugerth A, ..., Larsson P, Lundberg D
Mol. Pharm. 19 (3) 904-917 [2022-03-07; online 2022-02-01]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Visible-Light Mediated Oxidative Fragmentation of Ethers and Acetals by Means of Fe(III) Catalysis.
Lindroth R, Ondrejková A, Wallentin CJ
Org. Lett. 24 (8) 1662-1667 [2022-03-04; online 2022-02-22]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Single-cell transcriptional profiling informs efficient reprogramming of human somatic cells to cross-presenting dendritic cells.
Rosa FF, Pires CF, Kurochkin I, ..., Scheding S, Pereira CF
Sci Immunol 7 (69) eabg5539 [2022-03-04; online 2022-03-04]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
Effect of the Aza-N-Bridge and Push-Pull Moieties: A Comparative Study between BODIPYs and Aza-BODIPYs.
Schäfer C, Mony J, Olsson T, Börjesson K
J. Org. Chem. 87 (5) 2569-2579 [2022-03-04; online 2022-02-21]
Swedish NMR Centre (SNC)
PubMed DOI Crossref
The respiratory supercomplex from C. glutamicum.
Moe A, Kovalova T, Król S, ..., Högbom M, Brzezinski P
Structure 30 (3) 338-349.e3 [2022-03-03; online 2021-12-14]
Cryo-EM [Service]
PubMed DOI Crossref
Improvements in Body Composition after a Proposed Anti-Inflammatory Diet Are Modified by Employment Status in Weight-Stable Patients with Rheumatoid Arthritis, a Randomized Controlled Crossover Trial.
Hulander E, Lindqvist HM, Wadell AT, ..., Winkvist A, Bärebring L
Nutrients 14 (5) - [2022-03-02; online 2022-03-02]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Structural Modifications and Biological Evaluations of Rift Valley Fever Virus Inhibitors Identified from Chemical Library Screening.
Islam K, Carlsson M, Enquist PA, ..., Ahlm C, Evander M
ACS Omega 7 (8) 6854-6868 [2022-03-01; online 2022-02-16]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Optimization of cerebrospinal fluid microbial DNA metagenomic sequencing diagnostics.
Olausson J, Brunet S, Vracar D, ..., Jakobsson HE, Tang K
Sci Rep 12 (1) 3378 [2022-03-01; online 2022-03-01]
Bioinformatics Compute and Storage [Service] Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Identification of a discrete subpopulation of spinal cord ependymal cells with neural stem cell properties.
Stenudd M, Sabelström H, Llorens-Bobadilla E, ..., Barnabé-Heider F, Frisén J
Cell Rep 38 (9) 110440 [2022-03-01; online 2022-03-03]
Bioinformatics Compute and Storage [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]
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
- - (-) - [2022-03-01; online 2022-03-01]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
GWAS in people of Middle Eastern descent reveals a locus protective of kidney function-a cross-sectional study.
Mohamed SA, Fernadez-Tajes J, Franks PW, Bennet L
BMC Med 20 (1) 76 [2022-03-01; online 2022-03-01]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Utilizing museomics to trace the complex history and species boundaries in an avian-study system of conservation concern.
Ernst M, Jønsson KA, Ericson PGP, Blom MPK, Irestedt M
Heredity (Edinb) 128 (3) 159-168 [2022-03-00; online 2022-01-26]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The era of reference genomes in conservation genomics.
Formenti G, Theissinger K, Fernandes C, ..., Bálint M, European Reference Genome Atlas (ERGA) Consortium
Trends Ecol Evol 37 (3) 197-202 [2022-03-00; online 2022-01-24]
NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
The chemical composition and antioxidant activity of mandaçaia (melipona quadrifasciata) geopropolis varies more due to region than month of collection.
Gabriel MB, Carneiro MJ, de Camargo RCR, Sawaya ACHF
Nat Prod Res 36 (6) 1626-1630 [2022-03-00; online 2021-03-10]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
The Genetic Architecture of Obsessive-Compulsive Disorder: Contribution of Liability to OCD From Alleles Across the Frequency Spectrum.
Mahjani B, Klei L, Mattheisen M, ..., Devlin B, Grice DE
Am J Psychiatry 179 (3) 216-225 [2022-03-00; online 2021-11-18]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Structure of the decoy module of human glycoprotein 2 and uromodulin and its interaction with bacterial adhesin FimH.
Stsiapanava A, Xu C, Nishio S, ..., Wu B, Jovine L
Nat. Struct. Mol. Biol. 29 (3) 190-193 [2022-03-00; online 2022-03-10]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Pseudouridine-modified tRNA fragments repress aberrant protein synthesis and predict leukaemic progression in myelodysplastic syndrome.
Guzzi N, Muthukumar S, Cieśla M, ..., Dimitriou M, Bellodi C
Nat Cell Biol 24 (3) 299-306 [2022-03-00; online 2022-03-15]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Loss of Y and clonal hematopoiesis in blood-two sides of the same coin?
Ljungström V, Mattisson J, Halvardson J, ..., Baliakas P, Forsberg LA
Leukemia 36 (3) 889-891 [2022-03-00; online 2021-11-01]
Bioinformatics Compute and Storage [Service] Clinical Genomics Uppsala [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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
Mol. Ecol. 31 (5) 1504-1514 [2022-03-00; online 2022-01-22]
NGI Short read [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 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 Compute and Storage [Service] NGI Stockholm (Genomics Applications) [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 Compute and Storage [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] 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]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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 Compute and Storage [Service]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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 Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 Uppsala [Collaborative]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Duration of SARS-CoV-2 Immune Responses Up to Six Months Following Homologous or Heterologous Primary Immunization with ChAdOx1 nCoV-19 and BNT162b2 mRNA Vaccines.
Marking U, Havervall S, Greilert-Norin N, ..., Åberg M, Thålin C
Vaccines (Basel) 10 (3) - [2022-02-24; online 2022-02-24]
Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Ultralarge Virtual Screening Identifies SARS-CoV-2 Main Protease Inhibitors with Broad-Spectrum Activity against Coronaviruses.
Luttens A, Gullberg H, Abdurakhmanov E, ..., Danielson UH, Carlsson J
J. Am. Chem. Soc. 144 (7) 2905-2920 [2022-02-23; online 2022-02-10]
Bioinformatics Compute and Storage [Service] Chemical Biology Consortium Sweden (CBCS) [Service] Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
A complementary chemical probe approach towards customized studies of G-quadruplex DNA structures in live cells.
Prasad B, Doimo M, Andréasson M, ..., Chorell E, Wanrooij S
Chem. Sci. 13 (8) 2347-2354 [2022-02-23; online 2022-02-01]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
TC-hunter: identification of the insertion site of a transgenic gene within the host genome.
Börjesson V, Martinez-Monleon A, Fransson S, ..., Milosevic J, López MD
BMC Genomics 23 (1) 149 [2022-02-20; online 2022-02-20]
Clinical Genomics Gothenburg [Service]
DOI Crossref
Transposon- and Genome Dynamics in the Fungal Genus Neurospora: Insights from Nearly Gapless Genome Assemblies
Nguyen D, Peona V, Unneberg P, ..., Jern P, Johannesson H
Fungal Genetics Reports 66 (1) - [2022-02-18; online 2022-02-18]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
The Value of Whole-Genome Sequencing for Mitochondrial DNA Population Studies: Strategies and Criteria for Extracting High-Quality Mitogenome Haplotypes.
Sturk-Andreaggi K, Ring JD, Ameur A, ..., Marshall C, Allen M
Int J Mol Sci 23 (4) - [2022-02-17; online 2022-02-17]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Populus SVL Acts in Leaves to Modulate the Timing of Growth Cessation and Bud Set.
André D, Zambrano JA, Zhang B, ..., Marcon A, Nilsson O
Front Plant Sci 13 (-) 823019 [2022-02-17; online 2022-02-17]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Longitudinal Serum Metabolomics in Extremely Premature Infants: Relationships With Gestational Age, Nutrition, and Morbidities.
Nilsson AK, Tebani A, Malmodin D, ..., Uhlén M, Hellström A
Front. Neurosci. 16 (-) 830884 [2022-02-17; online 2022-02-17]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Semi-supervised learning with natural language processing for right ventricle classification in echocardiography-a scalable approach.
Hagberg E, Hagerman D, Johansson R, ..., Alvén J, Hjelmgren O
Comput Biol Med 143 (-) 105282 [2022-02-15; online 2022-02-15]
AIDA Data Hub [Service]
PubMed DOI Crossref
Expanding the mutation and phenotype spectrum of MYH3-associated skeletal disorders.
Zhao S, Zhang Y, Hallgrimsdottir S, ..., Grigelioniene G, Wu N
npj Genom. Med. 7 (1) 11 [2022-02-15; online 2022-02-15]
Clinical Genomics Stockholm [Service]
DOI Crossref
Production of Exopolysaccharides by Cultivation of Halotolerant Bacillus atrophaeus BU4 in Glucose- and Xylose-Based Synthetic Media and in Hydrolysates of Quinoa Stalks
Chambi D, Lundqvist J, Nygren E, ..., Jönsson LJ, Martín C
Fermentation 8 (2) 79 [2022-02-14; online 2022-02-14]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Differences between Arterial and Venous Umbilical Cord Plasma Metabolome and Association with Parity.
Hartvigsson O, Barman M, Savolainen O, ..., Sandberg AS, Brunius C
Metabolites 12 (2) - [2022-02-13; online 2022-02-13]
Bioinformatics Compute and Storage [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
1H, 13C and 15N resonance assignment of backbone and IVL-methyl side chain of the S135A mutant NS3pro/NS2B protein of Dengue II virus reveals unique secondary structure features in solution.
Agback P, Lesovoy DM, Han X, ..., Achour A, Orekhov VY
Biomol NMR Assign - (-) - [2022-02-12; online 2022-02-12]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Three-dimensional spatial transcriptomics uncovers cell type localizations in the human rheumatoid arthritis synovium.
Vickovic S, Schapiro D, Carlberg K, ..., Regev A, Ståhl PL
Commun Biol 5 (1) 129 [2022-02-11; online 2022-02-11]
NGI Short read [Service] NGI Spatial omics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The spatial transcriptomic landscape of the healing mouse intestine following damage.
Parigi SM, Larsson L, Das S, ..., Lundeberg J, Villablanca EJ
Nat Commun 13 (1) 828 [2022-02-11; online 2022-02-11]
NGI Short read [Service] NGI Spatial omics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Scavenger receptor CD36 governs recruitment of myeloid cells to the blood-CSF barrier after stroke in neonatal mice.
Rayasam A, Mottahedin A, Faustino J, Mallard C, Vexler ZS
J Neuroinflammation 19 (1) 47 [2022-02-11; online 2022-02-11]
Clinical Genomics Gothenburg [Service]
DOI Crossref
NMR Backbone Assignment of VIM-2 and Identification of the Active Enantiomer of a Potential Inhibitor
Wieske LHE, Bogaerts J, Leding AAM, ..., Bayer A, Erdélyi M
ACS Med Chem Lett 13 (2) 257-261 [2022-02-10; online 2022-01-28]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Protein-lipid interaction at low pH induces oligomerization of the MakA cytotoxin from Vibrio cholerae.
Nadeem A, Berg A, Pace H, ..., Uhlin BE, Wai SN
Elife 11 (-) - [2022-02-08; online 2022-02-08]
Cryo-EM [Service] Integrated Microscopy Technologies Umeå [Service] Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Metallo-β-Lactamase Inhibitor Phosphonamidate Monoesters.
Palica K, Vorácová M, Skagseth S, ..., Andersson H, Erdélyi M
ACS Omega 7 (5) 4550-4562 [2022-02-08; online 2022-01-25]
Swedish NMR Centre (SNC)
PubMed DOI Crossref
A serum proteomic study of two case-control cohorts identifies novel biomarkers for bipolar disorder.
Göteson A, Isgren A, Sparding T, ..., Pålsson E, Landén M
Transl Psychiatry 12 (1) 55 [2022-02-08; online 2022-02-08]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Ionotropic receptors in the turnip moth Agrotis segetum respond to repellent medium-chain fatty acids.
Hou XQ, Zhang DD, Powell D, ..., Andersson MN, Löfstedt C
BMC Biol. 20 (1) 34 [2022-02-07; online 2022-02-07]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Bhlhe40 function in activated B and TFH cells restrains the GC reaction and prevents lymphomagenesis.
Rauschmeier R, Reinhardt A, Gustafsson C, ..., Busslinger M, Kreslavsky T
J. Exp. Med. 219 (2) - [2022-02-07; online 2021-12-17]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Partial Monosomy 21 Mirrors Gene Expression of Trisomy 21 in a Patient-Derived Neuroepithelial Stem Cell Model.
Schuy J, Eisfeldt J, Pettersson M, ..., Falk A, Lindstrand A
Front Genet 12 (-) 803683 [2022-02-04; online 2022-02-04]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mutation analysis of disease causing genes in patients with early onset or familial forms of Alzheimer's disease and frontotemporal dementia.
Pagnon de la Vega M, Näslund C, Brundin R, ..., Ingelsson M, Giedraitis V
BMC Genomics 23 (1) 99 [2022-02-04; online 2022-02-04]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genomic basis for skin phenotype and cold adaptation in the extinct Steller's sea cow.
Le Duc D, Velluva A, Cassatt-Johnstone M, ..., Shapiro B, Schöneberg T
Sci Adv 8 (5) eabl6496 [2022-02-04; online 2022-02-04]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Sparse Model-Inspired Deep Thresholding Network for Exponential Signal Reconstruction--Application in Fast Biological Spectroscopy.
Wang Z, Guo D, Tu Z, ..., Orekhov V, Qu X
IEEE Trans Neural Netw Learn Syst PP (-) - [2022-02-04; online 2022-02-04]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
The miRNome function transitions from regulating developmental genes to transposable elements during pollen maturation.
Oliver C, Annacondia ML, Wang Z, ..., Köhler C, Martinez G
Plant Cell 34 (2) 784-801 [2022-02-03; online 2021-11-11]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The involvement of cyclotides in mutual interactions of violets and the two-spotted spider mite.
Slazak B, Jędrzejska A, Badyra B, ..., Göransson U, Kiełkiewicz M
Sci Rep 12 (1) 1914 [2022-02-03; online 2022-02-03]
Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
PΨFinder: a practical tool for the identification and visualization of novel pseudogenes in DNA sequencing data.
Abrahamsson S, Eiengård F, Rohlin A, Dávila López M
BMC Bioinformatics 23 (1) 59 [2022-02-03; online 2022-02-03]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Urinary Metabolomic Changes Accompanying Albuminuria Remission following Gastric Bypass Surgery for Type 2 Diabetic Kidney Disease.
Martin WP, Malmodin D, Pedersen A, ..., le Roux CW, Docherty NG
Metabolites 12 (2) 139 [2022-02-02; online 2022-02-22]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Comprehensive Peak Characterization (CPC) in Untargeted LC-MS Analysis.
Pirttilä K, Balgoma D, Rainer J, ..., Hedeland M, Brunius C
Metabolites 12 (2) - [2022-02-02; online 2022-02-02]
Swedish Metabolomics Centre (SMC) [Technology development]
PubMed DOI Crossref
CRISPR-Cas9 induces large structural variants at on-target and off-target sites in vivo that segregate across generations.
Höijer I, Emmanouilidou A, Östlund R, ..., den Hoed M, Ameur A
Nat Commun 13 (1) 627 [2022-02-02; online 2022-02-02]
Bioinformatics Compute and Storage [Service] NGI Long read [Technology development] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
PplD is a de-N-acetylase of the cell wall linkage unit of streptococcal rhamnopolysaccharides.
Rush JS, Parajuli P, Ruda A, ..., Widmalm G, Korotkova N
Nat Commun 13 (1) 590 [2022-02-01; online 2022-02-01]
Swedish NMR Centre (SNC)
PubMed DOI Crossref
ExSTED microscopy reveals contrasting functions of dopamine and somatostatin CSF-c neurons along the lamprey central canal.
Jalalvand E, Alvelid J, Coceano G, ..., Grillner S, Testa I
Elife 11 (-) - [2022-02-01; online 2022-02-01]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
The antimicrobial drug pyrimethamine inhibits STAT3 transcriptional activity by targeting the enzyme dihydrofolate reductase.
Heppler LN, Attarha S, Persaud R, ..., Page BDG, Frank DA
J. Biol. Chem. 298 (2) 101531 [2022-02-00; online 2021-12-23]
Chemical Proteomics [Service]
PubMed DOI Crossref
The Molecular Tumor Board Portal supports clinical decisions and automated reporting for precision oncology.
Tamborero D, Dienstmann R, Rachid MH, ..., Rodon J, Lehtiö J
Nat Cancer 3 (2) 251-261 [2022-02-00; online 2022-02-24]
Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Proteomic characterisation of polyglucosan bodies in skeletal muscle in RBCK1 deficiency.
Thomsen C, Malfatti E, Jovanovic A, ..., Lindberg C, Oldfors A
Neuropathol Appl Neurobiol 48 (1) e12761 [2022-02-00; online 2021-09-12]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Population genomics and geographic dispersal in Chagas disease vectors: Landscape drivers and evidence of possible adaptation to the domestic setting.
Hernandez-Castro LE, Villacís AG, Jacobs A, ..., Llewellyn MS, Grijalva MJ
PLoS Genet. 18 (2) e1010019 [2022-02-00; online 2022-02-04]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Pharmacological targeting of MTHFD2 suppresses acute myeloid leukemia by inducing thymidine depletion and replication stress.
Bonagas N, Gustafsson NMS, Henriksson M, ..., Homan EJ, Helleday T
Nat Cancer 3 (2) 156-172 [2022-02-00; online 2022-02-28]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
LongITools: Dynamic longitudinal exposome trajectories in cardiovascular and metabolic noncommunicable diseases.
Ronkainen J, Nedelec R, Atehortua A, ..., Juola T, Sebert S
Environ Epidemiol 6 (1) e184 [2022-02-00; online 2021-12-28]
Swedish Metabolomics Centre (SMC) [Collaborative]
DOI Crossref
Links between boreal forest management, soil fungal communities and below‐ground carbon sequestration
Jörgensen K, Granath G, Strengbom J, Lindahl BD
Functional Ecology 36 (2) 392-405 [2022-02-00; online 2021-12-22]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Impaired phosphocreatine metabolism in white adipocytes promotes inflammation.
Maqdasy S, Lecoutre S, Renzi G, ..., Mejhert N, Rydén M
Nat Metab 4 (2) 190-202 [2022-02-00; online 2022-02-14]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Heterochiasmy and the establishment of gsdf as a novel sex determining gene in Atlantic halibut.
Edvardsen RB, Wallerman O, Furmanek T, ..., Norberg B, Rubin CJ
PLoS Genet. 18 (2) e1010011 [2022-02-00; online 2022-02-08]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genomic differentiation within East Asian Helicobacter pylori.
You Y, Thorell K, He L, ..., Falush D, Zhang J
Microb Genom 8 (2) - [2022-02-00; online 2022-02-22]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Genetically proxied therapeutic inhibition of antihypertensive drug targets and risk of common cancers: A mendelian randomization analysis.
Yarmolinsky J, Díez-Obrero V, Richardson TG, ..., Martin RM, Moreno V
PLoS Med. 19 (2) e1003897 [2022-02-00; online 2022-02-03]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
Clinical and biological relevance of the transcriptomic-based prostate cancer metastasis subtypes MetA-C.
Thysell E, Köhn L, Semenas J, ..., Bergh A, Wikström P
Mol Oncol 16 (4) 846-859 [2022-02-00; online 2021-12-27]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics Umeå [Service]
PubMed DOI Crossref
Chondroitin/dermatan sulfate glycosyltransferase genes are essential for craniofacial development.
Habicher J, Varshney GK, Waldmann L, ..., Burgess SM, Ledin J
PLoS Genet. 18 (2) e1010067 [2022-02-00; online 2022-02-22]
BioImage Informatics [Collaborative]
PubMed DOI Crossref
Autosomal recessive congenital hereditary corneal dystrophy associated with a novel SLC4A11 mutation in two consanguineous Tunisian families.
Chibani Z, Abid IZ, Söderkvist P, Feki J, Aifa MH
Br J Ophthalmol 106 (2) 281-287 [2022-02-00; online 2021-04-20]
Clinical Genomics Linköping [Service]
PubMed DOI Crossref
A genomic and morphometric analysis of alpine bumblebees: Ongoing reductions in tongue length but no clear genetic component.
Christmas MJ, Jones JC, Olsson A, ..., Miller-Struttmann NE, Webster MT
Mol. Ecol. 31 (4) 1111-1127 [2022-02-00; online 2021-12-07]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
A Verticillium longisporum pleiotropic drug transporter determines tolerance to the plant host β-pinene monoterpene.
Rafiei V, Ruffino A, Persson Hodén K, ..., Dubey M, Tzelepis G
Mol. Plant Pathol. 23 (2) 291-303 [2022-02-00; online 2021-11-26]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
In situ 13 C solid-state polarization transfer NMR to follow starch transformations in food.
Nowacka-Perrin A, Steglich T, Topgaard D, Bernin D
Magn Reson Chem - (-) - [2022-01-30; online 2022-01-30]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Longitudinal analyses of development of the immune system during the first five years of life in relation to lifestyle.
Olin A, Acevedo N, Lakshmikanth T, ..., Scheynius A, Brodin P
Allergy - (-) - [2022-01-29; online 2022-01-29]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Substrate-bound and substrate-free outward-facing structures of a multidrug ABC exporter.
Chaptal V, Zampieri V, Wiseman B, ..., Boumendjel A, Falson P
Sci Adv 8 (4) eabg9215 [2022-01-28; online 2022-01-26]
Cryo-EM [Service]
PubMed DOI Crossref
Spatial Statistics for Understanding Tissue Organization.
Behanova A, Klemm A, Wählby C
Front Physiol 13 (-) 832417 [2022-01-28; online 2022-01-28]
BioImage Informatics [Technology development]
PubMed DOI Crossref
Sequence specificity in DNA binding is mainly governed by association.
Marklund E, Mao G, Yuan J, ..., Deindl S, Elf J
Science 375 (6579) 442-445 [2022-01-28; online 2022-01-27]
Bioinformatics Compute and Storage [Service] Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Intramolecular carbon isotope signals reflect metabolite allocation in plants.
Wieloch T, Sharkey TD, Werner RA, Schleucher J
J. Exp. Bot. - (-) - [2022-01-27; online 2022-01-27]
Swedish NMR Centre (SNC) [Collaborative]
DOI Crossref
16S rRNA gene sequences of Candidatus Methylumidiphilus (Methylococcales), a putative methanotrophic genus in lakes and ponds
Rissanen A, Buck M, Peura S
Aquat. Microb. Ecol. 88 (-) 25-30 [2022-01-27; online 2022-01-27]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Medications Activating Tubular Fatty Acid Oxidation Enhance the Protective Effects of Roux-en-Y Gastric Bypass Surgery in a Rat Model of Early Diabetic Kidney Disease.
Martin WP, Chuah YHD, Abdelaal M, ..., le Roux CW, Docherty NG
Front Endocrinol (Lausanne) 12 (-) 757228 [2022-01-26; online 2022-01-26]
Clinical Genomics Gothenburg [Service] Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Standards recommendations for the Earth BioGenome Project.
Lawniczak MKN, Durbin R, Flicek P, ..., Lewin HA, Richards S
Proc. Natl. Acad. Sci. U.S.A. 119 (4) - [2022-01-25; online 2022-01-20]
NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Occasional paternal inheritance of the germline-restricted chromosome in songbirds.
Pei Y, Forstmeier W, Ruiz-Ruano FJ, ..., Suh A, Kempenaers B
Proc. Natl. Acad. Sci. U.S.A. 119 (4) - [2022-01-25; online 2022-01-22]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Method To Visualize the Intratumor Distribution and Impact of Gemcitabine in Pancreatic Ductal Adenocarcinoma by Multimodal Imaging.
Strittmatter N, Richards FM, Race AM, ..., Goodwin RJA, Jodrell DI
Anal. Chem. 94 (3) 1795-1803 [2022-01-25; online 2022-01-10]
Spatial Mass Spectrometry [Collaborative]
PubMed DOI Crossref
Massive genome inversion drives coexistence of divergent morphs in common quails.
Sanchez-Donoso I, Ravagni S, Rodríguez-Teijeiro JD, ..., Leonard JA, Vilà C
Curr. Biol. 32 (2) 462-469.e6 [2022-01-24; online 2021-11-29]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Single-Cell Transcriptomics reveals relaxed evolutionary constraint of spermatogenesis in two passerine birds as compared to mammals
Segami JC, Semon M, Cunha C, ..., Mugal CF, Qvarnström A
- - (-) - [2022-01-23; online 2022-01-23]
Microbial Single Cell Genomics [Technology development]
PubMed DOI Crossref
Region-Specific and Age-Dependent Multitarget Effects of Acetylcholinesterase Inhibitor Tacrine on Comprehensive Neurotransmitter Systems.
Fridjonsdottir E, Vallianatou T, Mantas I, ..., Svenningsson P, Andrén PE
ACS Chem. Biol. 17 (1) 147-158 [2022-01-21; online 2021-12-21]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Integrative proteo-transcriptomic and immunophenotyping signatures of HIV-1 elite control phenotype: A cross-talk between glycolysis and HIF signaling.
Akusjärvi SS, Ambikan AT, Krishnan S, ..., Sönnerborg A, Neogi U
iScience 25 (1) 103607 [2022-01-21; online 2021-12-10]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Fish Skin Microbiomes Are Highly Variable Among Individuals and Populations but Not Within Individuals.
Berggren H, Tibblin P, Yıldırım Y, ..., Lundin D, Forsman A
Front Microbiol 12 (-) 767770 [2022-01-21; online 2022-01-21]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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 [2022-01-21; online 2022-01-21]
Eukaryotic Single Cell Genomics (ESCG) [Service]
PubMed DOI Crossref
An Image-Analysis-Based Method for the Prediction of Recombinant Protein Fiber Tensile Strength.
Bäcklund FG, Schmuck B, Miranda GHB, ..., Rydén J, Rising A
Materials (Basel) 15 (3) - [2022-01-18; online 2022-01-18]
BioImage Informatics [Collaborative]
PubMed DOI Crossref
Cold case: The disappearance of Egypt bee virus, a fourth distinct master strain of deformed wing virus linked to honeybee mortality in 1970's Egypt.
de Miranda JR, Brettell LE, Chejanovsky N, ..., Martin SJ, Ball BV
Virol J 19 (1) 12 [2022-01-15; online 2022-01-15]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transcriptome Analysis of an Aedes albopictus Cell Line Single- and Dual-Infected with Lammi Virus and WNV.
Öhlund P, Delhomme N, Hayer J, Hesson JC, Blomström AL
Int J Mol Sci 23 (2) - [2022-01-14; online 2022-01-14]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Plant Growth-Promoting Activity of Pseudomonas aeruginosa FG106 and Its Ability to Act as a Biocontrol Agent against Potato, Tomato and Taro Pathogens.
Ghadamgahi F, Tarighi S, Taheri P, ..., Ortiz R, Vetukuri RR
Biology (Basel) 11 (1) - [2022-01-14; online 2022-01-14]
NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
3D Microvascularized Tissue Models by Laser-Based Cavitation Molding of Collagen.
Enrico A, Voulgaris D, Östmans R, ..., Herland A, Stemme G
Adv Mater - (-) e2109823 [2022-01-14; online 2022-01-14]
Integrated Microscopy Technologies Stockholm [Service]
PubMed DOI Crossref
First National Genomic Epidemiological Study of Neisseria gonorrhoeae Strains Spreading Across Sweden in 2016.
Hadad R, Golparian D, Velicko I, ..., Engstrand L, Unemo M
Front Microbiol 12 (-) 820998 [2022-01-13; online 2022-01-13]
Bioinformatics Compute and Storage [Service] Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Circulating proteins reveal prior use of menopausal hormonal therapy and increased risk of breast cancer.
Thomas CE, Dahl L, Byström S, ..., Schwenk JM, Gabrielson M
Transl Oncol 17 (-) 101339 [2022-01-13; online 2022-01-13]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
The formation of avian montane diversity across barriers and along elevational gradients.
Pujolar JM, Blom MPK, Reeve AH, ..., Irestedt M, Jønsson KA
Nat Commun 13 (1) 268 [2022-01-12; online 2022-01-12]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SARS-CoV-2 induces a durable and antigen specific humoral immunity after asymptomatic to mild COVID-19 infection.
Havervall S, Jernbom Falk A, Klingström J, ..., Nilsson P, Thålin C
PLoS ONE 17 (1) e0262169 [2022-01-12; online 2022-01-12]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
Anaplerotic flux into the Calvin-Benson cycle: hydrogen isotope evidence for in vivo occurrence in C3 metabolism.
Wieloch T, Augusti A, Schleucher J
New Phytol. - (-) - [2022-01-12; online 2022-01-12]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Transcriptomic analysis reveals proinflammatory signatures associated with acute myeloid leukemia progression.
Stratmann S, Yones SA, Garbulowski M, ..., Komorowski J, Holmfeldt L
Blood Adv 6 (1) 152-164 [2022-01-11; online 2021-10-08]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Clinical Genomics Uppsala [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 (SMC) [Service]
PubMed DOI Crossref
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 Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
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]
PubMed DOI Crossref
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]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
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]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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 Linköping [Service]
PubMed DOI Crossref
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 Compute and Storage [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
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]
PubMed DOI Crossref
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 Linköping [Service]
PubMed DOI Crossref
Backbone chemical shift assignment and dynamics of the N-terminal domain of ClpB from Francisella tularensis type VI secretion system.
Mushtaq AU, Ådén J, Alam A, Sjöstedt A, Gröbner G
Biomol NMR Assign - (-) - [2022-01-05; online 2022-01-05]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
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 Compute and Storage [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
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 Compute and Storage [Service]
PubMed DOI Crossref
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 Compute and Storage [Service]
PubMed DOI Crossref
Transcriptome sequencing of archived lymphoma specimens is feasible and clinically relevant using exome capture technology.
Skaftason A, Qu Y, Abdulla M, ..., Rosenquist R, Mansouri L
Genes Chromosomes Cancer 61 (1) 27-36 [2022-01-00; online 2021-10-23]
Clinical Genomics Uppsala [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
DOI Crossref
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 Compute and Storage [Service]
PubMed DOI Crossref
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 Gothenburg [Service] Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Super-Resolution Imaging of the Filtration Barrier Suggests a Role for Podocin R229Q in Genetic Predisposition to Glomerular Disease.
Butt L, Unnersjö-Jess D, Höhne M, ..., Schermer B, Benzing T
J. Am. Soc. Nephrol. 33 (1) 138-154 [2022-01-00; online 2021-12-01]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
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]
DOI Crossref
Prolonged estrogen deprivation triggers a broad immunosuppressive phenotype in breast cancer cells
Hühn D, Martí‐Rodrigo P, Mouron S, ..., Carreras‐Puigvert J, Fernandez‐Capetillo O
Mol Oncol 16 (1) 148-165 [2022-01-00; online 2021-08-29]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
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 Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
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 Compute and Storage [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]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Metabolomics reveals changes in metabolite profiles due to growth and metamorphosis during the ontogeny of the northern damselfly.
Späth J, Brodin T, McCallum E, ..., Fick J, Nording ML
J Insect Physiol 136 (-) 104341 [2022-01-00; online 2021-11-27]
Swedish Metabolomics Centre (SMC) [Service]
DOI Crossref
Influence of lipid extraction and processing conditions on hydrothermal conversion of microalgae feedstocks – Effect on hydrochar composition, secondary char formation and phytotoxicity
Benavente V, Lage S, Gentili FG, Jansson S
Chemical Engineering Journal 428 (-) 129559 [2022-01-00; online 2022-01-00]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
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 Compute and Storage [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 (DDD) [Service]
PubMed DOI Crossref
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 Compute and Storage [Service]
PubMed DOI Crossref
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 Compute and Storage [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]
DOI Crossref
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 (SNC) [Service]
PubMed DOI Crossref
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]
PubMed DOI Crossref
Amplification of ERBB2 (HER2) in embryonal rhabdomyosarcoma: A potential treatment target in rare cases?
Mitra S, Sydow S, Magnusson L, ..., Gisselsson D, Mertens F
Genes Chromosomes Cancer 61 (1) 5-9 [2022-01-00; online 2021-09-01]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
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 Gothenburg [Service]
DOI Crossref
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]
DOI Crossref
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 (SNC) [Service]
DOI Crossref
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 (SNC) [Service]
DOI Crossref
Batch Processing Methods in ImageJ
Klemm A, Miura K
Springer - (-) 7-27 [2022-00-00; online 2022-09-29]
BioImage Informatics [Technology development]
DOI Crossref
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]

Overview

Add publication

Labels

Xref

Subset

User account

Multiple copies

Blacklist

API

SciLifeLab Data Centre
Publications 8.1.0