Publications 2020

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640 publications

PubMed DOI Crossref
Whole-genome sequencing of recurrent neuroblastoma reveals somatic mutations that affect key players in cancer progression and telomere maintenance.
Fransson S, Martinez-Monleon A, Johansson M, ..., Kogner P, Martinsson T
Sci Rep 10 (1) 22432 [2020-12-31; online 2020-12-31]
Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Lysophospholipids as Predictive Markers of ST-Elevation Myocardial Infarction (STEMI) and Non-ST-Elevation Myocardial Infarction (NSTEMI).
Chorell E, Olsson T, Jansson JH, Wennberg P
Metabolites 11 (1) 25 [2020-12-31; online 2020-12-31]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Defining eligible patients for allele-selective chemotherapies targeting NAT2 in colorectal cancer.
Rendo V, Kundu S, Rameika N, ..., Stoimenov I, Sjöblom T
Sci Rep 10 (1) 22436 [2020-12-31; online 2020-12-31]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mechanistic Insights into Regulation of the ALC1 Remodeler by the Nucleosome Acidic Patch.
Lehmann LC, Bacic L, Hewitt G, ..., Boulton SJ, Deindl S
Cell Rep 33 (12) 108529 [2020-12-22; online 2020-12-29]
Cryo-EM [Service]
PubMed DOI Crossref
Genomic Adaptations and Evolutionary History of the Extinct Scimitar-Toothed Cat, Homotherium latidens.
Barnett R, Westbury MV, Sandoval-Velasco M, ..., Yamaguchi N, Gilbert MTP
Curr. Biol. 30 (24) 5018-5025.e5 [2020-12-21; online 2020-10-15]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
You Had Me at “MAGIC”!: Four Barley MAGIC Populations Reveal Novel Resistance QTL for Powdery Mildew
Novakazi F, Krusell L, Jensen J, ..., Bengtsson T, None
Genes 11 (12) 1512 [2020-12-18; online 2020-12-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Depletion of protein kinase STK25 ameliorates renal lipotoxicity and protects against diabetic kidney disease.
Cansby E, Caputo M, Gao L, ..., Howell BW, Mahlapuu M
JCI Insight 5 (24) - [2020-12-17; online 2020-12-17]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
A biomimetic engineered bone platform for advanced testing of prosthetic implants.
Sladkova-Faure M, Pujari-Palmer M, Öhman-Mägi C, ..., Engqvist H, de Peppo GM
Sci Rep 10 (1) 22154 [2020-12-17; online 2020-12-17]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
The Bactericidal Fatty Acid Mimetic 2CCA-1 Selectively Targets Pneumococcal Extracellular Polyunsaturated Fatty Acid Metabolism.
Reithuber E, Nannapaneni P, Rzhepishevska O, ..., Henriques-Normark B, Mellroth P
MBio 11 (6) e03027-20 [2020-12-15; online 2020-12-15]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Structure and elevator mechanism of the mammalian sodium/proton exchanger NHE9.
Winklemann I, Matsuoka R, Meier PF, ..., Beckstein O, Drew D
EMBO J. 39 (24) e105908 [2020-12-15; online 2020-10-29]
Cryo-EM [Service]
PubMed DOI Crossref
Screening of Multiple Biomarkers Associated With Ischemic Stroke in Atrial Fibrillation.
Hijazi Z, Wallentin L, Lindbäck J, ..., Oldgren J, Siegbahn A
J Am Heart Assoc 9 (24) e018984 [2020-12-15; online 2020-12-09]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Rational Design of Azastatin as a Potential ADC Payload with Reduced Bystander Killing.
Hartmann RW, Fahrner R, Shevshenko D, ..., Lehmann F, Odell LR
ChemMedChem 15 (24) 2500-2512 [2020-12-15; online 2020-10-16]
Drug Discovery and Development (DDD)
PubMed DOI Crossref
HY5 and phytochrome activity modulate shoot-to-root coordination during thermomorphogenesis in Arabidopsis.
Gaillochet C, Burko Y, Platre MP, ..., Chory J, Busch W
Development 147 (24) - [2020-12-15; online 2020-12-15]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Direct energy transfer from photosystem II to photosystem I confers winter sustainability in Scots Pine.
Bag P, Chukhutsina V, Zhang Z, ..., Holzwarth AR, Jansson S
Nat Commun 11 (1) 6388 [2020-12-15; online 2020-12-15]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Cryo-EM structure of native human uromodulin, a zona pellucida module polymer.
Stsiapanava A, Xu C, Brunati M, ..., Wu B, Jovine L
EMBO J. 39 (24) e106807 [2020-12-15; online 2020-11-16]
Cryo-EM [Collaborative]
PubMed DOI Crossref
Innate lymphoid cell composition associates with COVID-19 disease severity.
García M, Kokkinou E, Carrasco García A, ..., Mjösberg J, Karolinska KI/K COVID‐19 Study Group
Clin Transl Immunology 9 (12) e1224 [2020-12-14; online 2020-12-14]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Novel Broad-Spectrum Antiviral Inhibitors Targeting Host Factors Essential for Replication of Pathogenic RNA Viruses.
Tampere M, Pettke A, Salata C, ..., Jafari R, Puumalainen MR
Viruses 12 (12) 1423 [2020-12-10; online 2020-12-10]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Hodgkin Lymphoma Monozygotic Triplets Reveal Divergences in DNA Methylation Signatures.
Xia C, Olsen TK, Zirakzadeh AA, ..., Björkholm M, Strååt K
Front Oncol 10 (-) 598872 [2020-12-09; online 2020-12-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Capillary leakage provides nutrients and antioxidants for rapid pneumococcal proliferation in influenza-infected lower airways.
Sender V, Hentrich K, Pathak A, ..., Normark S, Henriques-Normark B
Proc. Natl. Acad. Sci. U.S.A. 117 (49) 31386-31397 [2020-12-08; online 2020-11-23]
Bioinformatics Support for Computational Resources [Service] Chemical Proteomics [Collaborative]
PubMed DOI Crossref
Reaction Wood Anatomical Traits and Hormonal Profiles in Poplar Bent Stem and Root.
De Zio E, Montagnoli A, Karady M, ..., Chiatante D, Trupiano D
Front Plant Sci 11 (-) 590985 [2020-12-07; online 2020-12-07]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
BMP signaling is a therapeutic target in ovarian cancer.
Fukuda T, Fukuda R, Tanabe R, ..., Miyazono K, Heldin CH
Cell Death Discov 6 (1) 139 [2020-12-05; online 2020-12-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Resolution enhancement in NMR spectra by deconvolution with compressed sensing reconstruction.
Kazimierczuk K, Kasprzak P, Georgoulia PS, ..., Westenhoff S, Orekhov VY
Chem. Commun. (Camb.) 56 (93) 14585-14588 [2020-12-04; online 2020-11-04]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Structure and Characterization of Phosphoglucomutase 5 from Atlantic and Baltic Herring-An Inactive Enzyme with Intact Substrate Binding.
Gustafsson R, Eckhard U, Ye W, ..., Andersson L, Selmer M
Biomolecules 10 (12) - [2020-12-03; online 2020-12-03]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
A Model of Germinal Matrix Hemorrhage in Preterm Rat Pups.
Jinnai M, Koning G, Singh-Mallah G, ..., Rocha-Ferreira E, Hagberg H
Front Cell Neurosci 14 (-) 535320 [2020-12-03; online 2020-12-03]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Moose genomes reveal past glacial demography and the origin of modern lineages.
Dussex N, Alberti F, Heino MT, ..., Dalén L, Díez-Del-Molino D
BMC Genomics 21 (1) 854 [2020-12-02; online 2020-12-02]
Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Bromopyrylium Derivatization Facilitates Identification by Mass Spectrometry Imaging of Monoamine Neurotransmitters and Small Molecule Neuroactive Compounds.
Shariatgorji R, Nilsson A, Strittmatter N, ..., Goodwin RJA, Andrén PE
J. Am. Soc. Mass Spectrom. 31 (12) 2553-2557 [2020-12-02; online 2020-07-21]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
A shotgun metagenomic investigation of the microbiota of udder cleft dermatitis in comparison to healthy skin in dairy cows.
Ekman L, Bagge E, Nyman A, ..., Pringle M, Segerman B
PLoS ONE 15 (12) e0242880 [2020-12-02; online 2020-12-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Whole blood co-expression modules associate with metabolic traits and type 2 diabetes: an IMI-DIRECT study.
Gudmundsdottir V, Pedersen HK, Mazzoni G, ..., Pedersen O, Brunak S
Genome Med 12 (1) 109 [2020-12-01; online 2020-12-01]
Affinity Proteomics Stockholm [Collaborative]
PubMed DOI Crossref
Amplification-free long-read sequencing reveals unforeseen CRISPR-Cas9 off-target activity.
Höijer I, Johansson J, Gudmundsson S, ..., Gyllensten U, Ameur A
Genome Biol. 21 (1) 290 [2020-12-01; online 2020-12-01]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Tissue-specific patterns of regulatory changes underlying gene expression differences among Ficedula flycatchers and their naturally occurring F1 hybrids.
Mugal CF, Wang M, Backström N, ..., Qvarnström A, Ellegren H
Genome Res. 30 (12) 1727-1739 [2020-12-00; online 2020-11-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The methylation landscape and its role in domestication and gene regulation in the chicken.
Höglund A, Henriksen R, Fogelholm J, ..., Jensen P, Wright D
Nat Ecol Evol 4 (12) 1713-1724 [2020-12-00; online 2020-09-21]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
DOI Crossref
Surface analysis of bacterial systems using cryo‐X‐ray photoelectron spectroscopy
Hagberg A, Rzhepishevska O, Semenets A, Cisneros DA, Ramstedt M
Surf Interface Anal 52 (12) 792-801 [2020-12-00; online 2020-07-02]
Integrated Microscopy Technologies Umeå [Service]
DOI Crossref
Solid-state NMR methods for studying membrane systems
Gröbner G, Williamson P
- - (-) - [2020-12-00; online 2020-12-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Mutation-independent Proteomic Signatures of Pathological Progression in Murine Models of Duchenne Muscular Dystrophy.
van Westering TLE, Johansson HJ, Hanson B, ..., Aoki Y, Roberts TC
Mol. Cell Proteomics 19 (12) 2047-2068 [2020-12-00; online 2020-09-29]
Global Proteomics and Proteogenomics [Service]
DOI Crossref
Morphological characters and SNP markers suggest hybridization and introgression in sympatric populations of the pleurocarpous mosses Homalothecium lutescens and H. sericeum
Sawangproh W, Lang AS, Hedenäs L, Cronberg N
Org Divers Evol 20 (4) 619-637 [2020-12-00; online 2020-09-07]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Molecular characteristics of eae-positive clinical Shiga toxin-producing Escherichia coli in Sweden.
Hua Y, Bai X, Zhang J, ..., Wan C, Matussek A
Emerg Microbes Infect 9 (1) 2562-2570 [2020-12-00; online 2020-11-13]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Methods for isolation and transcriptional profiling of individual cells from the human heart.
Pimpalwar N, Czuba T, Smith ML, ..., Gidlöf O, Smith JG
Heliyon 6 (12) e05810 [2020-12-00; online 2020-12-29]
Eukaryotic Single Cell Genomics (ESCG) [Service]
DOI Crossref
Methane potentials and organic matter characterization of wood fibres from pulp and paper mills: The influence of raw material, pulping process and bleaching technique
Ekstrand EM, Hedenström M, Svensson BH, Shakeri Yekta S, Björn A
Biomass and Bioenergy 143 (-) 105824 [2020-12-00; online 2020-12-00]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Metagenome assembled-genomes reveal similar functional profiles of CPR/Patescibacteria phyla in soils.
Nascimento Lemos L, Manoharan L, William Mendes L, ..., Satler Pylro V, Tsai SM
Environ Microbiol Rep 12 (6) 651-655 [2020-12-00; online 2020-09-07]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Heterozygous variants in DCC: Beyond congenital mirror movements.
Thams S, Islam M, Lindefeldt M, ..., Nilsson D, Paucar M
Neurol Genet 6 (6) e526 [2020-12-00; online 2020-10-20]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Glycocholic acid and butyrate synergistically increase vitamin D-induced calcium uptake in Caco-2 intestinal epithelial cell monolayers.
Casselbrant A, Fändriks L, Wallenius V
Bone Rep 13 (-) 100294 [2020-12-00; online 2020-07-03]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Genome-wide association study of angioedema induced by angiotensin-converting enzyme inhibitor and angiotensin receptor blocker treatment.
Rasmussen ER, Hallberg P, Baranova EV, ..., Palmer CNA, Wadelius M
Pharmacogenomics J. 20 (6) 770-783 [2020-12-00; online 2020-02-21]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic Studies of Leptin Concentrations Implicate Leptin in the Regulation of Early Adiposity.
Yaghootkar H, Zhang Y, Spracklen CN, ..., Loos RJF, Kilpeläinen TO
Diabetes 69 (12) 2806-2818 [2020-12-00; online 2020-09-11]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genetic Predisposition to Coronary Artery Disease in Type 2 Diabetes Mellitus.
van Zuydam NR, Ladenvall C, Voight BF, ..., Palmer CNA, SUMMIT Steering Committee; CARDIOGRAMplusC4D Steering Committee*
Circ Genom Precis Med 13 (6) e002769 [2020-12-00; online 2020-08-13]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Features of increased malignancy in eosinophilic clear cell renal cell carcinoma.
Nilsson H, Lindgren D, Axelson H, ..., Lundgren J, Johansson ME
J. Pathol. 252 (4) 384-397 [2020-12-00; online 2020-09-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exome Sequencing Reveals Common and Rare Variants in F5 Associated With ACE Inhibitor and Angiotensin Receptor Blocker-Induced Angioedema.
Maroteau C, Siddiqui MK, Veluchamy A, ..., Palmer CNA, PREDICTION-ADR
Clin. Pharmacol. Ther. 108 (6) 1195-1202 [2020-12-00; online 2020-07-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Esomeprazole reduces sperm motility index by targeting the spermic cholinergic machinery: A mechanistic study for the association between use of proton pump inhibitors and reduced sperm motility index.
Kumar A, Kumar R, Flanagan J, ..., Björndahl L, Darreh-Shori T
Biochem. Pharmacol. 182 (-) 114212 [2020-12-00; online 2020-08-28]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Effect of RNA silencing suppression activity of chrysanthemum virus B p12 protein on small RNA species.
Vetukuri RR, Kalyandurg PB, Saripella GV, ..., Grenville-Briggs LJ, Savenkov EI
Arch Virol 165 (12) 2953-2959 [2020-12-00; online 2020-10-10]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Dysregulation in Akt/mTOR/HIF-1 signaling identified by proteo-transcriptomics of SARS-CoV-2 infected cells.
Appelberg S, Gupta S, Svensson Akusjärvi S, ..., Mirazimi A, Neogi U
Emerg Microbes Infect 9 (1) 1748-1760 [2020-12-00; online 2020-07-22]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Discovery of rare variants associated with blood pressure regulation through meta-analysis of 1.3 million individuals.
Surendran P, Feofanova EV, Lahrouchi N, ..., Munroe PB, Howson JMM
Nat. Genet. 52 (12) 1314-1332 [2020-12-00; online 2020-11-23]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Differentiation of two Maytenus species and their hybrid via untargeted metabolomics
Antunes ERM, Duarte RS, Moritz T, Sawaya ACHF
Industrial Crops and Products 158 (-) 113014 [2020-12-00; online 2020-12-00]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Deep sequencing detects human papillomavirus (HPV) in cervical cancers negative for HPV by PCR.
Arroyo Mühr LS, Lagheden C, Lei J, ..., Sundström K, Dillner J
Br. J. Cancer 123 (12) 1790-1795 [2020-12-00; online 2020-10-06]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Changes in lipid and carotenoid metabolism in Chlamydomonas reinhardtii during induction of CO2-concentrating mechanism: Cellular response to low CO2 stress
Abreu IN, Aksmann A, Bajhaiya AK, ..., Selstam E, Moritz T
Algal Research 52 (-) 102099 [2020-12-00; online 2020-12-00]
Swedish Metabolomics Centre (SMC)
PubMed DOI Crossref
CRISPR and Long-Read Sequencing: A Perfect Match.
Ameur A
CRISPR J 3 (6) 425-427 [2020-12-00; online 2020-11-30]
NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Associations between serum concentrations of perfluoroalkyl substances and DNA methylation in women exposed through drinking water: A pilot study in Ronneby, Sweden.
Xu Y, Jurkovic-Mlakar S, Lindh CH, ..., Jakobsson K, Engström K
Environ Int 145 (-) 106148 [2020-12-00; online 2020-09-30]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
A metabolite roadmap of the wood-forming tissue in Populus tremula.
Abreu IN, Johansson AI, Sokołowska K, ..., Street NR, Moritz T
New Phytol. 228 (5) 1559-1572 [2020-12-00; online 2020-08-27]
Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Collaborative]
PubMed DOI Crossref
A genome-wide association study revealed five SNPs affecting 8-month weight in sheep.
Pasandideh M, Gholizadeh M, Rahimi-Mianji G
Anim Genet 51 (6) 973-976 [2020-12-00; online 2020-09-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
TrackMate: My favorite image analysis tool, by Neubias members
Klemm A
Wiley Analytical Science https://analyticalscience.wiley.com/do/10.1002/was.000400044 (-) - [2020-11-30; online 2020-05-26]
BioImage Informatics [Technology development]
PubMed DOI Crossref
Evaluation of Single-Molecule Sequencing Technologies for Structural Variant Detection in Two Swedish Human Genomes.
Fatima N, Petri A, Gyllensten U, Feuk L, Ameur A
Genes 11 (12) 1444 [2020-11-30; online 2020-11-30]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
PubMed DOI Crossref
Competitive mapping allows for the identification and exclusion of human DNA contamination in ancient faunal genomic datasets.
Feuerborn TR, Palkopoulou E, van der Valk T, ..., Dalén L, Díez-Del-Molino D
BMC Genomics 21 (1) 844 [2020-11-30; online 2020-11-30]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
A workflow for high-throughput screening, data analysis, processing, and hit identification
Hansel CS, Yousefian S, Klemm AH, Carreras-Puigvert J
KNIME blog https://www.knime.com/blog/a-workflow-for-high-throughput-screening-data-analysis-processing-and-hit-identification (-) - [2020-11-30; online 2020-06-19]
BioImage Informatics [Technology development]
PubMed DOI Crossref
New Insights into the Microbial Profiles of Infected Root Canals in Traumatized Teeth.
Manoharan L, Brundin M, Rakhimova O, Chávez de Paz L, Romani Vestman N
J Clin Med 9 (12) 3877 [2020-11-28; online 2020-11-28]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
The Human Adenovirus Type 2 Transcriptome: An Amazing Complexity of Alternatively Spliced mRNAs.
Westergren Jakobsson A, Segerman B, Wallerman O, ..., Pettersson U, Akusjärvi G
J. Virol. - (-) - [2020-11-25; online 2020-11-25]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Immobilization of sulfate and thiosulfate-reducing biomass on sand under haloalkaline conditions.
Sousa JAB, Bolgár A, Christel S, ..., Stams AJM, Plugge CM
Sci. Total Environ. 745 (-) 141017 [2020-11-25; online 2020-07-22]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide identification of Argonautes in Solanaceae with emphasis on potato.
Liao Z, Hodén KP, Singh RK, Dixelius C
Sci Rep 10 (1) 20577 [2020-11-25; online 2020-11-25]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
α-Synuclein promotes IAPP fibril formation in vitro and β-cell amyloid formation in vivo in mice.
Mucibabic M, Steneberg P, Lidh E, ..., Lindahl E, Edlund H
Sci Rep 10 (1) 20438 [2020-11-24; online 2020-11-24]
Cryo-EM [Service]
PubMed DOI Crossref
Variations among Viruses in Influent Water and Effluent Water at a Wastewater Plant over One Year as Assessed by Quantitative PCR and Metagenomics.
Wang H, Neyvaldt J, Enache L, ..., Bergstedt O, Norder H
Appl. Environ. Microbiol. 86 (24) - [2020-11-24; online 2020-11-24]
Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Structure dynamics of ApoA-I amyloidogenic variants in small HDL increase their ability to mediate cholesterol efflux.
Nilsson O, Lindvall M, Obici L, ..., Lagerstedt JO, Del Giudice R
J. Lipid Res. 62 (-) 100004 [2020-11-24; online 2020-11-24]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
High CD45 expression of CD8+ and CD4+ T cells correlates with the size of HIV-1 reservoir in blood.
Petkov S, Bekele Y, Lakshmikanth T, ..., Brodin P, Chiodi F
Sci Rep 10 (1) 20425 [2020-11-24; online 2020-11-24]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Inactivation of mediator complex protein 22 in podocytes results in intracellular vacuole formation, podocyte loss and premature death.
Rodriguez PQ, Unnersjö-Jess D, Zambrano SS, ..., Ebarasi L, Patrakka J
Sci Rep 10 (1) 20037 [2020-11-18; online 2020-11-18]
Integrated Microscopy Technologies Stockholm [Technology development]
PubMed DOI Crossref
Exploring autoantibody signatures in brain tissue from patients with severe mental illness.
Just D, Månberg A, Mitsios N, ..., Nilsson P, Carlström EL
Transl Psychiatry 10 (1) 401 [2020-11-18; online 2020-11-18]
Autoimmunity and Serology Profiling [Collaborative]
PubMed DOI Crossref
A complex DICER1 syndrome phenotype associated with a germline pathogenic variant affecting the RNase IIIa domain of DICER1.
Pontén E, Frisk S, Taylan F, ..., Lagerstedt-Robinson K, Nordgren A
J. Med. Genet. - (-) jmedgenet-2020-107385 [2020-11-18; online 2020-11-18]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Distinct oligodendrocyte populations have spatial preference and different responses to spinal cord injury
Floriddia EM, Lourenço T, Zhang S, ..., Nilsson M, Castelo-Branco G
Nat Commun 11 (1) 5860 [2020-11-17; online 2020-11-17]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] In Situ Sequencing (ISS) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Association between Aquatic Micropollutant Dissipation and River Sediment Bacterial Communities.
Coll C, Bier R, Li Z, ..., Gorokhova E, Sobek A
Environ. Sci. Technol. 54 (22) 14380-14392 [2020-11-17; online 2020-10-26]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Evaluation of the efficiency of genomic versus pedigree predictions for growth and wood quality traits in Scots pine.
Calleja-Rodriguez A, Pan J, Funda T, ..., Abrahamsson S, Wu HX
BMC Genomics 21 (1) 796 [2020-11-16; online 2020-11-16]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
One-Pot, Metal-Free Synthesis of Dimethyl Carbonate from CO2 at Room Temperature
Khokarale SG, Bui TQ, Mikkola JP
Sustainable Chemistry 1 (3) 298-314 [2020-11-13; online 2020-11-13]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Obesity-associated microbiota contributes to mucus layer defects in genetically obese mice.
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Cell 183 (4) 968-981.e7 [2020-11-12; online 2020-09-06]
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Cancers (Basel) 12 (11) 3349 [2020-11-12; online 2020-11-12]
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Phys Med Biol 65 (22) 225011 [2020-11-12; online 2020-11-12]
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mSystems 5 (6) - [2020-11-10; online 2020-11-10]
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Sci Rep 10 (1) 19304 [2020-11-09; online 2020-11-09]
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Truvé K, Parris TZ, Vizlin-Hodzic D, ..., Ågren H, Funa K
Transl Psychiatry 10 (1) 390 [2020-11-09; online 2020-11-09]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Ozerov MY, Flajšhans M, Noreikiene K, Vasemägi A, Gross R
G3 (Bethesda) 10 (11) 3897-3906 [2020-11-05; online 2020-11-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Pettersson L, Johansson Alm S, Almstedt A, ..., Fogelstrand L, Ehinger M
Blood 136 (Supplement 1) 6-6 [2020-11-05; online 2020-11-05]
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Gaudenzi G, Kumbakumba E, Rasti R, ..., Mwanga-Amumpaire J, Alfvén T
JMIR Res Protoc 9 (11) e21430 [2020-11-04; online 2020-11-04]
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Sumida N, Sifakis EG, Kiani NA, ..., Göndör A, Ohlsson R
Nucleic Acids Res. 48 (19) 10867-10876 [2020-11-04; online 2020-10-15]
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Genome Biol Evol 12 (11) 2060-2073 [2020-11-03; online 2020-09-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Am. J. Phys. Anthropol. 173 (3) 423-436 [2020-11-00; online 2020-08-19]
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Mähler N, Schiffthaler B, Robinson KM, ..., Hvidsten TR, Street NR
Ecol Evol 10 (21) 11922-11940 [2020-11-00; online 2020-10-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Ramos J, Proven M, Halvardson J, ..., Thuresson AC, Fu D
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Epilepsia 61 (11) 2486-2499 [2020-11-00; online 2020-09-23]
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Cytogenetically visible inversions are formed by multiple molecular mechanisms.
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Sci Rep 10 (1) 18347 [2020-10-27; online 2020-10-27]
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Protein Science Facility (PSF) [Service]
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NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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TIF-Seq2 disentangles overlapping isoforms in complex human transcriptomes.
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Optotracing for selective fluorescence-based detection, visualization and quantification of live S. aureus in real-time.
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Preger C, Wigren E, Ossipova E, ..., Gräslund S, Persson H
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An embryonic stem cell-specific heterochromatin state promotes core histone exchange in the absence of DNA accessibility.
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Protein Science Facility (PSF) [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genome Biol Evol 12 (10) 1918-1928 [2020-10-01; online 2020-08-25]
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Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
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Mol Neurobiol 57 (10) 4018-4030 [2020-10-00; online 2020-07-10]
Integrated Microscopy Technologies Stockholm [Technology development]
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Multi-Reader-Multi-Split Annotation of Emphysema in Computed Tomography.
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STAR Protoc 1 (2) 100046 [2020-09-18; online 2020-06-06]
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Sci Rep 10 (1) 14977 [2020-09-11; online 2020-09-11]
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Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]
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Exp. Physiol. 105 (9) 1634-1647 [2020-09-00; online 2020-07-24]
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Lung Cancer 147 (-) 106-114 [2020-09-00; online 2020-07-12]
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DNA methylation variation in the brain of laying hens in relation to differential behavioral patterns.
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Comparative analysis of genome-wide DNA methylation in Neurospora.
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Epigenetics 15 (9) 972-987 [2020-09-00; online 2020-03-31]
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Sex differences in oncogenic mutational processes.
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Nat Commun 11 (1) 4330 [2020-08-28; online 2020-08-28]
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Prenylated Flavonoids from the Roots of Tephrosia rhodesica.
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High-Throughput Sequencing and Unsupervised Analysis of Formyltetrahydrofolate Synthetase (FTHFS) Gene Amplicons to Estimate Acetogenic Community Structure.
Singh A, Nylander JAA, Schnürer A, Bongcam-Rudloff E, Müller B
Front Microbiol 11 (-) 2066 [2020-08-27; online 2020-08-27]
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PubMed DOI Crossref
Four SARS-CoV-2 Genome Sequences from Late April in Stockholm, Sweden, Reveal a Rare Mutation in the Spike Protein.
Soratto TAT, Darban H, Bjerkner A, ..., Allander T, Andersson B
Microbiol Resour Announc 9 (35) - [2020-08-27; online 2020-08-27]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cell-surface receptors enable perception of extracellular cytokinins.
Antoniadi I, Novák O, Gelová Z, ..., Ljung K, Turnbull C
Nat Commun 11 (1) 4284 [2020-08-27; online 2020-08-27]
Swedish Metabolomics Centre (SMC) [Service]
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µ Opioid Receptor Agonism for L-DOPA-Induced Dyskinesia in Parkinson's Disease.
Bezard E, Li Q, Hulme H, ..., Andren PE, Crossman AR
J. Neurosci. 40 (35) 6812-6819 [2020-08-26; online 2020-07-20]
Spatial Mass Spectrometry [Collaborative]
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Combined transcriptome and proteome profiling of the pancreatic β-cell response to palmitate unveils key pathways of β-cell lipotoxicity.
Lytrivi M, Ghaddar K, Lopes M, ..., Eizirik DL, Cnop M
BMC Genomics 21 (1) 590 [2020-08-26; online 2020-08-26]
Global Proteomics and Proteogenomics [Collaborative]
PubMed DOI Crossref
Systems-Level Immunomonitoring from Acute to Recovery Phase of Severe COVID-19.
Rodriguez L, Pekkarinen PT, Lakshmikanth T, ..., Kekäläinen E, Brodin P
Cell Reports Medicine 1 (5) 100078 [2020-08-25; online 2020-08-05]
Affinity Proteomics Stockholm [Service] Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Whole-genome sequencing and gene network modules predict gemcitabine/carboplatin-induced myelosuppression in non-small cell lung cancer patients.
Björn N, Badam TVS, Spalinskas R, ..., Gustafsson M, Gréen H
npj Syst Biol Appl 6 (1) 25 [2020-08-24; online 2020-08-24]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Single cell RNA sequencing identifies early diversity of sensory neurons forming via bi-potential intermediates.
Faure L, Wang Y, Kastriti ME, ..., Adameyko I, Hadjab S
Nat Commun 11 (1) 4175 [2020-08-21; online 2020-08-21]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service]
PubMed DOI Crossref
Natural killer cell immunotypes related to COVID-19 disease severity.
Maucourant C, Filipovic I, Ponzetta A, ..., Björkström NK, Karolinska COVID-19 Study Group
Sci Immunol 5 (50) eabd6832 [2020-08-21; online 2020-08-23]
Affinity Proteomics Stockholm [Service] Bioinformatics Support for Computational Resources [Service]
PubMed DOI Crossref
13q12.2 deletions in acute lymphoblastic leukemia lead to upregulation of FLT3 through enhancer hijacking.
Yang M, Safavi S, Woodward EL, ..., Nord KH, Paulsson K
Blood 136 (8) 946-956 [2020-08-20; online 2020-05-10]
Clinical Genomics Lund [Service]
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Structural basis of mitochondrial translation
Aibara S, Singh V, Modelska A, Amunts A
Elife 9 (-) 1-17 [2020-08-19; online 2020-08-19]
Cryo-EM [Service] Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Rapid size change associated with intra-island evolutionary radiation in extinct Caribbean "island-shrews".
Woods R, Turvey ST, Brace S, ..., Brown MJF, Barnes I
BMC Evol. Biol. 20 (1) 106 [2020-08-18; online 2020-08-18]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
High Cysteine Membrane Proteins (HCMPs) Are Up-Regulated During Giardia-Host Cell Interactions.
Peirasmaki D, Ma'ayeh SY, Xu F, ..., Liu J, Svärd SG
Front Genet 11 (-) 913 [2020-08-18; online 2020-08-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Designing custom CRISPR libraries for hypothesis-driven drug target discovery.
Iyer VS, Jiang L, Shen Y, ..., Schmierer B, Wermeling F
Computational and Structural Biotechnology Journal 18 (-) 2237-2246 [2020-08-18; online 2020-08-18]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Collaborative]
PubMed DOI Crossref
Association of Established Blood Pressure Loci With 10-Year Change in Blood Pressure and Their Ability to Predict Incident Hypertension.
Poveda A, Atabaki-Pasdar N, Ahmad S, ..., Renström F, Franks PW
J Am Heart Assoc 9 (16) e014513 [2020-08-18; online 2020-08-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Platelet-Specific PDGFB Ablation Impairs Tumor Vessel Integrity and Promotes Metastasis.
Zhang Y, Cedervall J, Hamidi A, ..., Dimberg A, Olsson AK
Cancer Res. 80 (16) 3345-3358 [2020-08-15; online 2020-06-25]
Affinity Proteomics Uppsala [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Crystal structures of human PAICS reveal substrate and product binding of an emerging cancer target.
Škerlová J, Unterlass J, Göttmann M, ..., Jemth AS, Stenmark P
J. Biol. Chem. 295 (33) 11656-11668 [2020-08-14; online 2020-06-22]
Protein Science Facility (PSF) [Service]
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Gsta4 controls apoptosis of differentiating adult oligodendrocytes during homeostasis and remyelination via the mitochondria-associated Fas-Casp8-Bid-axis.
Carlström KE, Zhu K, Ewing E, ..., Castelo-Branco G, Piehl F
Nat Commun 11 (1) 4071 [2020-08-13; online 2020-08-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Variations in Plasma Membrane Topography Can Explain Heterogenous Diffusion Coefficients Obtained by Fluorescence Correlation Spectroscopy.
Gesper A, Wennmalm S, Hagemann P, ..., Happel P, Parmryd I
Front Cell Dev Biol 8 (-) 767 [2020-08-11; online 2020-08-11]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
Transcriptional mutagenesis dramatically alters genome-wide p53 transactivation landscape.
Liang S, Ezerskyte M, Wang J, Pelechano V, Dreij K
Sci Rep 10 (1) 13513 [2020-08-11; online 2020-08-11]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Regular use of depot medroxyprogesterone acetate causes thinning of the superficial lining and apical distribution of HIV target cells in the human ectocervix.
Edfeldt G, Lajoie J, Röhl M, ..., Broliden K, Tjernlund A
J. Infect. Dis. - (-) - [2020-08-11; online 2020-08-11]
BioImage Informatics [Service]
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Association of Factor V Leiden With Subsequent Atherothrombotic Events: A GENIUS-CHD Study of Individual Participant Data.
Mahmoodi BK, Tragante V, Kleber ME, ..., Asselbergs FW, Patel RS
Circulation 142 (6) 546-555 [2020-08-11; online 2020-07-13]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Mebendazole is unique among tubulin-active drugs in activating the MEK-ERK pathway.
Andersson CR, Selvin T, Blom K, ..., Nygren P, Larsson R
Sci Rep 10 (1) 13124 [2020-08-04; online 2020-08-04]
Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Lysophosphatidic Acid-Mediated GPR35 Signaling in CX3CR1+ Macrophages Regulates Intestinal Homeostasis.
Kaya B, Doñas C, Wuggenig P, ..., Villablanca EJ, Niess JH
Cell Rep 32 (5) 107979 [2020-08-04; online 2020-08-07]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Heterogeneous somatostatin-expressing neuron population in mouse ventral tegmental area.
Nagaeva E, Zubarev I, Bengtsson Gonzales C, ..., Augustine GJ, Korpi ER
Elife 9 (-) - [2020-08-04; online 2020-08-04]
Eukaryotic Single Cell Genomics (ESCG) [Service]
PubMed DOI Crossref
The Relation Between Position and Chemical Composition of Bis-Indole Substituents Determines Their Interactions with G-Quadruplex DNA.
Prasad B, Das RN, Jamroskovic J, ..., Sabouri N, Chorell E
Chemistry 26 (43) 9561-9572 [2020-08-03; online 2020-07-03]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
zOPT: an open source optical projection tomography system and methods for rapid 3D zebrafish imaging.
Zhang H, Waldmann L, Manuel R, ..., Haitina T, Allalou A
Biomed. Opt. Express 11 (8) 4290-4305 [2020-08-01; online 2020-07-15]
BioImage Informatics [Technology development] Bioinformatics Support for Computational Resources [Service] Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Optical coherence tomography for thyroid pathology: 3D analysis of tissue microstructure.
Emil Tampu I, Maintz M, Koller D, ..., Eklund A, Haj-Hosseini N
Biomed. Opt. Express 11 (8) 4130-4149 [2020-08-01; online 2020-07-09]
AIDA Data Hub [Service]
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Uncovering the hidden diversity of litter-decomposition mechanisms in mushroom-forming fungi.
Floudas D, Bentzer J, Ahrén D, ..., Persson P, Tunlid A
ISME J 14 (8) 2046-2059 [2020-08-00; online 2020-05-07]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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The influence of forest surroundings on the soil fungal community of black truffle (Tuber melanosporum) plantations
Oliach D, Colinas C, Castaño C, ..., Bonet JA, Oliva J
Forest Ecology and Management 469 (-) 118199 [2020-08-00; online 2020-08-00]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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The importance of the ZBED6-IGF2 axis for metabolic regulation in mouse myoblast cells.
Younis S, Naboulsi R, Wang X, ..., Welsh N, Andersson L
FASEB J. 34 (8) 10250-10266 [2020-08-00; online 2020-06-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The compact genome of Giardia muris reveals important steps in the evolution of intestinal protozoan parasites.
Xu F, Jiménez-González A, Einarsson E, ..., Svärd SG, Jerlström-Hultqvist J
Microb Genom 6 (8) - [2020-08-00; online 2020-07-03]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Neolithic Pitted Ware culture foragers were culturally but not genetically influenced by the Battle Axe culture herders.
Coutinho A, Günther T, Munters AR, ..., Malmström H, Jakobsson M
Am. J. Phys. Anthropol. 172 (4) 638-649 [2020-08-00; online 2020-06-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Technologies for assessing vaccine responses in the very young.
Brodin P
Current Opinion in Immunology 65 (-) 28-31 [2020-08-00; online 2020-04-24]
Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
SWEDEGENE-a Swedish nation-wide DNA sample collection for pharmacogenomic studies of serious adverse drug reactions.
Hallberg P, Yue QY, Eliasson E, ..., Ås J, Wadelius M
Pharmacogenomics J. 20 (4) 579-585 [2020-08-00; online 2020-01-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SLC12A2 mutations cause NKCC1 deficiency with encephalopathy and impaired secretory epithelia.
Stödberg T, Magnusson M, Lesko N, ..., Stranneheim H, Wedell A
Neurol Genet 6 (4) e478 [2020-08-00; online 2020-07-02]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Recent introgression between Taiga Bean Goose and Tundra Bean Goose results in a largely homogeneous landscape of genetic differentiation.
Ottenburghs J, Honka J, Müskens GJDM, Ellegren H
Heredity (Edinb) 125 (1-2) 73-84 [2020-08-00; online 2020-05-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Preclinical safety studies of human embryonic stem cell-derived retinal pigment epithelial cells for the treatment of age-related macular degeneration.
Petrus-Reurer S, Kumar P, Padrell Sánchez S, ..., Kvanta A, Lanner F
Stem Cells Transl Med 9 (8) 936-953 [2020-08-00; online 2020-04-22]
Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
MrpH, a new class of metal-binding adhesin, requires zinc to mediate biofilm formation.
Jiang W, Ubhayasekera W, Breed MC, ..., Pearson MM, Knight SD
PLoS Pathog. 16 (8) e1008707 [2020-08-00; online 2020-08-11]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Management of an outbreak of postpartum Streptococcus pyogenes emm75 infections.
Trell K, Jörgensen J, Rasmussen M, Senneby E
J. Hosp. Infect. 105 (4) 752-756 [2020-08-00; online 2020-06-01]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Leveraging a gain-of-function allele of Caenorhabditis elegans paqr-1 to elucidate membrane homeostasis by PAQR proteins.
Busayavalasa K, Ruiz M, Devkota R, ..., Borén J, Pilon M
PLoS Genet. 16 (8) e1008975 [2020-08-00; online 2020-08-04]
Integrated Microscopy Technologies Gothenburg [Service]
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Label‐free laser scanning microscopy targeting sentinel lymph node diagnostics: A feasibility study ex vivo
Kantere D, Siarov J, De Lara S, ..., Wennberg Larkö A, Ericson MB
Translational Biophotonics 2 (3) - [2020-08-00; online 2020-06-22]
Integrated Microscopy Technologies Gothenburg [Service]
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Joint impact of common risk factors on incident dementia: A cohort study of the Swedish Twin Registry.
Tomata Y, Li X, Karlsson IK, ..., Pedersen NL, Hägg S
J. Intern. Med. 288 (2) 234-247 [2020-08-00; online 2020-05-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Higher host plant specialization of root-associated endophytes than mycorrhizal fungi along an arctic elevational gradient.
Abrego N, Huotari T, Tack AJM, ..., Ovaskainen O, Roslin T
Ecol Evol 10 (16) 8989-9002 [2020-08-00; online 2020-08-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Evolutionary genetics of canine respiratory coronavirus and recent introduction into Swedish dogs.
Wille M, Wensman JJ, Larsson S, ..., Hayer J, Malmberg M
Infection, Genetics and Evolution 82 (-) 104290 [2020-08-00; online 2020-03-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Determinants of genetic variation across eco-evolutionary scales in pinnipeds.
Peart CR, Tusso S, Pophaly SD, ..., Shafer ABA, Wolf JBW
Nat Ecol Evol 4 (8) 1095-1104 [2020-08-00; online 2020-06-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
CELLULOSE SYNTHASE INTERACTING 1 is required for wood mechanics and leaf morphology in aspen.
Bünder A, Sundman O, Mahboubi A, ..., Rüggeberg M, Niittylä T
Plant J. 103 (5) 1858-1868 [2020-08-00; online 2020-07-10]
Integrated Microscopy Technologies Umeå [Service]
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Association between proteomics and obstructive sleep apnea phenotypes in a community-based cohort of women.
Ljunggren M, Theorell-Haglöw J, Freyhult E, ..., Janson C, Lindberg E
J Sleep Res 29 (4) e13041 [2020-08-00; online 2020-04-08]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Archaea in boreal Swedish lakes are diverse, dominated by Woesearchaeota and follow deterministic community assembly.
Juottonen H, Fontaine L, Wurzbacher C, ..., Peura S, Eiler A
Environ. Microbiol. 22 (8) 3158-3171 [2020-08-00; online 2020-06-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Apparent stiffness of vimentin intermediate filaments in living cells and its relation with other cytoskeletal polymers
Smoler M, Coceano G, Testa I, Bruno L, Levi V
Biochimica et Biophysica Acta (BBA) - Molecular Cell Research 1867 (8) 118726 [2020-08-00; online 2020-08-00]
Integrated Microscopy Technologies Stockholm [Service]
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A robust and versatile method for production and purification of large-scale RNA samples for structural biology.
Karlsson H, Baronti L, Petzold K
RNA 26 (8) 1023-1037 [2020-08-00; online 2020-04-30]
Protein Science Facility (PSF) [Service]
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A novel recombinant expression and purification approach for the full-length anti-apoptotic membrane protein Bcl-2.
Ådén J, Mushtaq AU, Dingeldein A, Wallgren M, Gröbner G
Protein Expression and Purification 172 (-) 105628 [2020-08-00; online 2020-03-22]
Swedish NMR Centre (SNC) [Collaborative]
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A decade of epigenetic change in aging twins: Genetic and environmental contributions to longitudinal DNA methylation.
Reynolds CA, Tan Q, Munoz E, ..., Hägg S, Pedersen NL
Aging Cell 19 (8) e13197 [2020-08-00; online 2020-07-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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A 3D Cell Culture Model Identifies Wnt/β-Catenin Mediated Inhibition of p53 as a Critical Step during Human Hepatocyte Regeneration.
Oliva-Vilarnau N, Vorrink SU, Ingelman-Sundberg M, Lauschke VM
Adv Sci (Weinh) 7 (15) 2000248 [2020-08-00; online 2020-06-23]
Global Proteomics and Proteogenomics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The genetic regulation of size variation in the transcriptome of the cerebrum in the chicken and its role in domestication and brain size evolution.
Höglund A, Strempfl K, Fogelholm J, Wright D, Henriksen R
BMC Genomics 21 (1) 518 [2020-07-29; online 2020-07-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
First evidence of microbial wood degradation in the coastal waters of the Antarctic.
Björdal CG, Dayton PK
Sci Rep 10 (1) 12774 [2020-07-29; online 2020-07-29]
Integrated Microscopy Technologies Gothenburg [Service]
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Extracellular vesicles from human mesenchymal stem cells expedite chondrogenesis in 3D human degenerative disc cell cultures.
Hingert D, Ekström K, Aldridge J, Crescitelli R, Brisby H
Stem Cell Res Ther 11 (1) 323 [2020-07-29; online 2020-07-29]
Integrated Microscopy Technologies Gothenburg [Service]
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Detection of leukemia gene fusions by targeted RNA-sequencing in routine diagnostics.
Engvall M, Cahill N, Jonsson BI, ..., Hallböök H, Cavelier L
BMC Med Genomics 13 (1) 106 [2020-07-29; online 2020-07-29]
Clinical Genomics Uppsala [Technology development]
PubMed DOI Crossref
Combining transcriptomics and genetic linkage based information to identify candidate genes associated with Heterobasidion-resistance in Norway spruce.
Chaudhary R, Lundén K, Dalman K, ..., Stenlid J, Elfstrand M
Sci Rep 10 (1) 12711 [2020-07-29; online 2020-07-29]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Prototypical pacemaker neurons interact with the resident microbiota.
Klimovich A, Giacomello S, Björklund Å, ..., Adameyko I, Bosch TCG
Proc. Natl. Acad. Sci. U.S.A. 117 (30) 17854-17863 [2020-07-28; online 2020-07-09]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Early Pleistocene origin and extensive intra-species diversity of the extinct cave lion.
Stanton DWG, Alberti F, Plotnikov V, ..., Skoglund P, Dalén L
Sci Rep 10 (1) 12621 [2020-07-28; online 2020-07-28]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Transmembrane Crenarchaeal Mannosyltransferase Is Involved in N-Glycan Biosynthesis and Displays an Unexpected Minimal Cellulose-Synthase-like Fold.
Gandini R, Reichenbach T, Spadiut O, ..., Kalyani DC, Divne C
J. Mol. Biol. 432 (16) 4658-4672 [2020-07-24; online 2020-06-19]
Protein Science Facility (PSF) [Service]
PubMed DOI Crossref
Recording In-Cell NMR-Spectra in Living Mammalian Cells.
Matečko-Burmann I, Burmann BM
Methods Mol. Biol. 2141 (-) 857-871 [2020-07-23; online 2020-07-23]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Multimodal Analysis of Composition and Spatial Architecture in Human Squamous Cell Carcinoma.
Ji AL, Rubin AJ, Thrane K, ..., Lundeberg J, Khavari PA
Cell 182 (2) 497-514.e22 [2020-07-23; online 2020-06-23]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Decellularization and recellularization of the ovary for bioengineering applications; studies in the mouse.
Alshaikh AB, Padma AM, Dehlin M, ..., Brännström M, Hellström M
Reprod Biol Endocrinol 18 (1) 75 [2020-07-23; online 2020-07-23]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Cell-Free Protein Synthesis of Small Intrinsically Disordered Proteins for NMR Spectroscopy.
Isaksson L, Pedersen A
Methods Mol. Biol. 2141 (-) 233-245 [2020-07-23; online 2020-07-23]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Extended-Spectrum-β-Lactamase- and Plasmid AmpC-Producing Escherichia coli Causing Community-Onset Bloodstream Infection: Association of Bacterial Clones and Virulence Genes with Septic Shock, Source of Infection, and Recurrence.
Fröding I, Hasan B, Sylvin I, ..., Nauclér P, Giske CG
Antimicrob. Agents Chemother. 64 (8) - [2020-07-22; online 2020-07-22]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Human Immune System Variation during 1 Year.
Lakshmikanth T, Muhammad SA, Olin A, ..., Uhlen M, Brodin P
Cell Rep 32 (3) 107923 [2020-07-21; online 2020-07-23]
Affinity Proteomics Stockholm [Service] Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
PubMed DOI Crossref
Descriptive Proteome Analysis to Investigate Context-Dependent Treatment Responses to OXPHOS Inhibition in Colon Carcinoma Cells Grown as Monolayer and Multicellular Tumor Spheroids.
Steinmetz J, Senkowski W, Lengqvist J, ..., Fryknäs M, Kultima K
ACS Omega 5 (28) 17242-17254 [2020-07-21; online 2020-07-06]
Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Probing the retention mechanism of small hydrophilic molecules in hydrophilic interaction chromatography using saturation transfer difference nuclear magnetic resonance spectroscopy.
Shamshir A, Dinh NP, Jonsson T, Sparrman T, Irgum K
Journal of Chromatography A 1623 (-) 461130 [2020-07-19; online 2020-04-29]
Swedish NMR Centre (SNC) [Collaborative]
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Validating Signal Transducer and Activator of Transcription (STAT) Protein-Inhibitor Interactions Using Biochemical and Cellular Thermal Shift Assays.
Attarha S, Reithmeier A, Busker S, Desroses M, Page BDG
ACS Chem. Biol. 15 (7) 1842-1851 [2020-07-17; online 2020-07-02]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Unveiling the activation dynamics of a fold-switch bacterial glycosyltransferase by 19F NMR.
Liebau J, Tersa M, Trastoy B, ..., Guerin ME, Mäler L
J. Biol. Chem. 295 (29) 9868-9878 [2020-07-17; online 2020-05-20]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Translating GWAS-identified loci for cardiac rhythm and rate using an in vivo image- and CRISPR/Cas9-based approach
von der Heyde B, Emmanouilidou A, Mazzaferro E, ..., Brooke HL, den Hoed M
Sci Rep 10 (1) 11831 [2020-07-16; online 2020-07-16]
BioImage Informatics [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Genome Engineering Zebrafish [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 [Service]
PubMed DOI Crossref
AML displays increased CTCF occupancy associated with aberrant gene expression and transcription factor binding.
Mujahed H, Miliara S, Neddermeyer A, ..., Lennartsson A, Lehmann S
Blood 136 (3) 339-352 [2020-07-16; online 2020-04-02]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
RNA Splicing Alterations Induce a Cellular Stress Response Associated with Poor Prognosis in Acute Myeloid Leukemia.
Anande G, Deshpande NP, Mareschal S, ..., Unnikrishnan A, Pimanda JE
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BMC Genomics 21 (1) 482 [2020-07-14; online 2020-07-14]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A Patient-Derived Cell Atlas Informs Precision Targeting of Glioblastoma.
Johansson P, Krona C, Kundu S, ..., Marino S, Nelander S
Cell Rep 32 (2) 107897 [2020-07-14; online 2020-07-16]
Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Service]
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Mapping the Interactome of the Nuclear Heparan Sulfate Proteoglycan Syndecan-1 in Mesothelioma Cells.
Kumar-Singh A, Shrinet J, Parniewska MM, ..., Dobra K, Hjerpe A
Biomolecules 10 (7) - [2020-07-11; online 2020-07-11]
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Transcriptional responses in Parascaris univalens after in vitro exposure to ivermectin, pyrantel citrate and thiabendazole.
Martin F, Dube F, Karlsson Lindsjö O, ..., Bergström TF, Tydén E
Parasit Vectors 13 (1) 342 [2020-07-09; online 2020-07-09]
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SF3B1-mutant MDS as a distinct disease subtype: a proposal from the International Working Group for the Prognosis of MDS.
Malcovati L, Stevenson K, Papaemmanuil E, ..., Hellstrom-Lindberg E, Cazzola M
Blood 136 (2) 157-170 [2020-07-09; online 2020-04-30]
Clinical Genomics Uppsala [Service]
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Disturbance history can increase functional stability in the face of both repeated disturbances of the same type and novel disturbances.
Renes SE, Sjöstedt J, Fetzer I, Langenheder S
Sci Rep 10 (1) 11333 [2020-07-09; online 2020-07-09]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Arachidonic acid promotes the binding of 5-lipoxygenase on nanodiscs containing 5-lipoxygenase activating protein in the absence of calcium-ions.
Kumar RB, Purhonen P, Hebert H, Jegerschöld C
PLoS ONE 15 (7) e0228607 [2020-07-09; online 2020-07-09]
Protein Science Facility (PSF) [Service]
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Systems biology of acidophile biofilms for efficient metal extraction.
Buetti-Dinh A, Herold M, Christel S, ..., Pivkin IV, Dopson M
Sci Data 7 (1) 215 [2020-07-07; online 2020-07-07]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Low Abundance of Methanotrophs in Sediments of Shallow Boreal Coastal Zones With High Water Methane Concentrations.
Broman E, Sun X, Stranne C, ..., Humborg C, Nascimento FJA
Front Microbiol 11 (-) 1536 [2020-07-07; online 2020-07-07]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Discovery and population genomics of structural variation in a songbird genus.
Weissensteiner MH, Bunikis I, Catalán A, ..., Warmuth VM, Wolf JBW
Nat Commun 11 (1) 3403 [2020-07-07; online 2020-07-07]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Clonal hematopoiesis in patients with high-grade B-cell lymphoma is associated with inferior outcome.
Amini RM, Ljungström V, Abdulla M, ..., Enblad G, Baliakas P
Am. J. Hematol. 95 (10) - [2020-07-06; online 2020-07-06]
Clinical Genomics Uppsala [Collaborative]
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VEGF-B signaling impairs endothelial glucose transcytosis by decreasing membrane cholesterol content.
Moessinger C, Nilsson I, Muhl L, ..., Skogsberg J, Eriksson U
EMBO Rep. 21 (7) e49343 [2020-07-03; online 2020-05-24]
Swedish Metabolomics Centre (SMC) [Service]
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Spatio-molecular domains identified in the mouse subthalamic nucleus and neighboring glutamatergic and GABAergic brain structures.
Wallén-Mackenzie Å, Dumas S, Papathanou M, ..., König N, Björklund ÅK
Commun Biol 3 (1) 338 [2020-07-03; online 2020-07-03]
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Multiplex profiling of serum proteins in solution using barcoded antibody fragments and next generation sequencing.
Brofelth M, Ekstrand AI, Gour S, ..., Axelsson U, Borrebaeck CAK
Commun Biol 3 (1) 339 [2020-07-03; online 2020-07-03]
Clinical Genomics Lund
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Diamond Blackfan anemia is mediated by hyperactive Nemo-like kinase.
Wilkes MC, Siva K, Chen J, ..., Flygare J, Sakamoto KM
Nat Commun 11 (1) 3344 [2020-07-03; online 2020-07-03]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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meQTL and ncRNA functional analyses of 102 GWAS-SNPs associated with depression implicate HACE1 and SHANK2 genes.
Ciuculete DM, Voisin S, Kular L, ..., Mwinyi J, Schiöth HB
Clin Epigenetics 12 (1) 99 [2020-07-02; online 2020-07-02]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Y-Chromosome Variation in Southern African Khoe-San Populations Based on Whole-Genome Sequences.
Naidoo T, Xu J, Vicente M, ..., Jakobsson M, Schlebusch CM
Genome Biol Evol 12 (7) 1031-1039 [2020-07-01; online 2020-07-23]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Viral antigens elicit augmented immune responses in primary Sjögren's syndrome.
Björk A, Thorlacius GE, Mofors J, ..., Kvarnström M, Wahren-Herlenius M
Rheumatology (Oxford) 59 (7) 1651-1661 [2020-07-01; online 2019-10-31]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
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Loqusdb: added value of an observations database of local genomic variation.
Magnusson M, Eisfeldt J, Nilsson D, ..., Wedell A, Stranneheim H
BMC Bioinformatics 21 (1) 273 [2020-07-01; online 2020-07-01]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Stockholm [Technology development]
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Genetic Associations Between Childhood Psychopathology and Adult Depression and Associated Traits in 42 998 Individuals: A Meta-analysis.
Akingbuwa WA, Hammerschlag AR, Jami ES, ..., Middeldorp CM, Bipolar Disorder and Major Depressive Disorder Working Groups of the Psychiatric Genomics Consortium
JAMA Psychiatry 77 (7) 715-728 [2020-07-01; online 2020-04-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Transcriptomes from German shepherd dogs reveal differences in immune activity between atopic dermatitis affected and control skin.
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Immunogenetics 72 (5) 315-323 [2020-07-00; online 2020-06-18]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Tissue-specific isolation of Arabidopsis/plant mitochondria - IMTACT (isolation of mitochondria tagged in specific cell types).
Boussardon C, Przybyla-Toscano J, Carrie C, Keech O
Plant J. 103 (1) 459-473 [2020-07-00; online 2020-03-13]
Integrated Microscopy Technologies Umeå [Service]
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Support systems to guide clinical decision-making in precision oncology: The Cancer Core Europe Molecular Tumor Board Portal.
Tamborero D, Dienstmann R, Rachid MH, ..., Rodon J, Lehtiö J
Nat. Med. 26 (7) 992-994 [2020-07-00; online 2020-07-08]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Stockholm [Collaborative] Global Proteomics and Proteogenomics [Technology development]
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Serum Metabolites in Hand-Arm Vibration Exposed Workers.
Vihlborg P, Graff P, Hagenbjörk A, ..., Bryngelsson IL, Eriksson K
J Occup Environ Med 62 (7) 460-465 [2020-07-00; online 2020-07-31]
Swedish Metabolomics Centre (SMC) [Service]
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Proton pump inhibitors act with unprecedented potencies as inhibitors of the acetylcholine biosynthesizing enzyme-A plausible missing link for their association with incidence of dementia.
Kumar R, Kumar A, Nordberg A, Långström B, Darreh-Shori T
Alzheimers Dement 16 (7) 1031-1042 [2020-07-00; online 2020-05-08]
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Proteomic analysis of follicular fluid during human ovulation.
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Acta Obstet Gynecol Scand 99 (7) 917-924 [2020-07-00; online 2020-04-07]
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Pre- and postnatal Lactobacillus reuteri treatment alters DNA methylation of infant T helper cells.
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Pediatr Allergy Immunol 31 (5) 544-553 [2020-07-00; online 2020-04-03]
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PHF1 fusions cause distinct gene expression and chromatin accessibility profiles in ossifying fibromyxoid tumors and mesenchymal cells.
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Clinical Genomics Lund [Service]
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Odorant receptor phylogeny confirms conserved channels for sex pheromone and host plant signals in tortricid moths.
Gonzalez F, Borrero-Echeverry F, Jósvai JK, ..., Bengtsson M, Walker WB
Ecol Evol 10 (14) 7334-7348 [2020-07-00; online 2020-06-30]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Meiofauna improve oxygenation and accelerate sulfide removal in the seasonally hypoxic seabed.
Bonaglia S, Hedberg J, Marzocchi U, ..., Glud RN, Nascimento FJA
Mar Environ Res 159 (-) 104968 [2020-07-00; online 2020-03-29]
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Inflammatory markers in women with postpartum depressive symptoms.
Bränn E, Fransson E, White RA, ..., Sundström-Poromaa I, Skalkidou A
J Neuro Res 98 (7) 1309-1321 [2020-07-00; online 2018-09-05]
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Identifying the ‘unidentified’ fungi: a global-scale long-read third-generation sequencing approach
Tedersoo L, Anslan S, Bahram M, Kõljalg U, Abarenkov K
Fungal Diversity 103 (1) 273-293 [2020-07-00; online 2020-08-08]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Growth-Inhibitory Activity of Bone Morphogenetic Protein 4 in Human Glioblastoma Cell Lines Is Heterogeneous and Dependent on Reduced SOX2 Expression.
Dalmo E, Johansson P, Niklasson M, ..., Nelander S, Westermark B
Mol Cancer Res 18 (7) 981-991 [2020-07-00; online 2020-03-31]
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Genomic epidemiology and antimicrobial resistance determinants of Neisseria gonorrhoeae isolates from Ukraine, 2013-2018.
Boiko I, Golparian D, Jacobsson S, ..., Shevchenko T, Unemo M
APMIS 128 (7) 465-475 [2020-07-00; online 2020-05-23]
Clinical Genomics Örebro [Collaborative]
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Gastric Microbiota in a Low-Helicobacter pylori Prevalence General Population and Their Associations With Gastric Lesions.
Ndegwa N, Ploner A, Andersson AF, ..., Agreus L, Ye W
Clin Transl Gastroenterol 11 (7) e00191 [2020-07-00; online 2020-08-09]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Female-biased gene flow between two species of Darwin's finches.
Lamichhaney S, Han F, Webster MT, ..., Grant PR, Andersson L
Nat Ecol Evol 4 (7) 979-986 [2020-07-00; online 2020-05-04]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Facets of individual-specific health signatures determined from longitudinal plasma proteome profiling.
Dodig-Crnković T, Hong MG, Thomas CE, ..., Uhlén M, Schwenk JM
EBioMedicine 57 (-) 102854 [2020-07-00; online 2020-07-03]
Affinity Proteomics Stockholm [Collaborative]
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Dynamic allosteric communication pathway directing differential activation of the glucocorticoid receptor.
Köhler C, Carlström G, Gunnarsson A, ..., Edman K, Akke M
Sci Adv 6 (29) eabb5277 [2020-07-00; online 2020-07-17]
Swedish NMR Centre (SNC) [Service]
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Deactivation mechanism of Cu active sites in Cu/SSZ-13 — Phosphorus poisoning and the effect of hydrothermal aging
Wang A, Xie K, Bernin D, ..., Kamasamudram K, Olsson L
Applied Catalysis B: Environmental 269 (-) 118781 [2020-07-00; online 2020-07-00]
Swedish NMR Centre (SNC) [Service]
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DNA demethylation regulates gene expression in IgE-activated mouse mast cells.
Paivandy A, Grujic M, Rafati N, Pejler G
Allergy 75 (7) 1776-1780 [2020-07-00; online 2020-02-12]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Comparison of spleen transcriptomes of two wild rodent species reveals differences in the immune response against Borrelia afzelii.
Zhong X, Lundberg M, Råberg L
Ecol Evol 10 (13) 6421-6434 [2020-07-00; online 2020-05-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Base-pair conformational switch modulates miR-34a targeting of Sirt1 mRNA.
Baronti L, Guzzetti I, Ebrahimi P, ..., Chen AA, Petzold K
Nature 583 (7814) 139-144 [2020-07-00; online 2020-05-27]
Protein Science Facility (PSF) [Service]
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Accounting for environmental variation in co-occurrence modelling reveals the importance of positive interactions in root-associated fungal communities.
Abrego N, Roslin T, Huotari T, ..., Schmidt NM, Ovaskainen O
Mol. Ecol. 29 (14) 2736-2746 [2020-07-00; online 2020-07-04]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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A framework to assess the quality and impact of bioinformatics training across ELIXIR.
Gurwitz KT, Singh Gaur P, Bellis LJ, ..., Morgan SL, Rustici G
PLoS Comput. Biol. 16 (7) e1007976 [2020-07-00; online 2020-07-23]
Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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A Sample Preparation Protocol for High Throughput Immunofluorescence of Suspension Cells on an Adherent Surface.
Bäckström A, Kugel L, Gnann C, ..., Lundberg E, Stadler C
J. Histochem. Cytochem. 68 (7) 473-489 [2020-07-00; online 2020-06-20]
Spatial Proteomics [Technology development]
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High content drug screening for Fanconi anemia therapeutics.
Montanuy H, Camps-Fajol C, Carreras-Puigvert J, ..., Minguillón J, Surrallés J
Orphanet J Rare Dis 15 (1) 170 [2020-06-30; online 2020-06-30]
Drug Discovery and Development (DDD)
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Genome assembly of the basket willow, Salix viminalis, reveals earliest stages of sex chromosome expansion.
Almeida P, Proux-Wera E, Churcher A, ..., Berlin S, Mank JE
BMC Biol. 18 (1) 78 [2020-06-30; online 2020-06-30]
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An efficient single-cell transcriptomics workflow for microbial eukaryotes benchmarked on Giardia intestinalis cells.
Onsbring H, Tice AK, Barton BT, Brown MW, Ettema TJG
BMC Genomics 21 (1) 448 [2020-06-29; online 2020-06-29]
Microbial Single Cell Genomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Whole genome sequencing of familial isolated oesophagus atresia uncover shared structural variants.
Klar J, Engstrand-Lilja H, Maqbool K, ..., Feuk L, Dahl N
BMC Med Genomics 13 (1) 85 [2020-06-26; online 2020-06-26]
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Evolutionary History of the Marchantia polymorpha Complex.
Linde AM, Sawangproh W, Cronberg N, Szövényi P, Lagercrantz U
Front Plant Sci 11 (-) 829 [2020-06-26; online 2020-06-26]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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CAM-Delam: an in vivo approach to visualize and quantify the delamination and invasion capacity of human cancer cells.
Palaniappan TK, Šlekienė L, Jonasson AK, Gilthorpe J, Gunhaga L
Sci Rep 10 (1) 10472 [2020-06-26; online 2020-06-26]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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RNA-seq reveals altered gene expression levels in proximal tubular cell cultures compared to renal cortex but not during early glucotoxicity.
Nilsson LM, Castresana-Aguirre M, Scott L, Brismar H
Sci Rep 10 (1) 10390 [2020-06-25; online 2020-06-25]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A site-specific self-assembled light-up rotor probe for selective recognition and stabilization of c-MYC G-quadruplex DNA.
Deiana M, Chand K, Jamroskovic J, ..., Chorell E, Sabouri N
Nanoscale 12 (24) 12950-12957 [2020-06-25; online 2020-06-12]
Swedish NMR Centre (SNC) [Service]
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Whole-genome sequence association analysis of blood proteins in a longitudinal wellness cohort.
Zhong W, Gummesson A, Tebani A, ..., Fagerberg L, Uhlén M
Genome Med 12 (1) 53 [2020-06-23; online 2020-06-23]
Affinity Proteomics Stockholm [Collaborative] Bioinformatics Support for Computational Resources [Service]
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Skeletal Muscle Transcriptomic Comparison between Long-Term Trained and Untrained Men and Women.
Chapman MA, Arif M, Emanuelsson EB, ..., Mardinoglu A, Sundberg CJ
Cell Rep 31 (12) 107808 [2020-06-23; online 2020-06-25]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Amyloid precursor protein-b facilitates cell adhesion during early development in zebrafish.
Banote RK, Chebli J, Şatır TM, ..., Abramsson A, Zetterberg H
Sci Rep 10 (1) 10127 [2020-06-23; online 2020-06-23]
Genome Engineering Zebrafish [Collaborative] Integrated Microscopy Technologies Gothenburg [Service]
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Altered levels of CSF proteins in patients with FTD, presymptomatic mutation carriers and non-carriers.
Remnestål J, Öijerstedt L, Ullgren A, ..., Graff C, Nilsson P
Transl Neurodegener 9 (1) 27 [2020-06-23; online 2020-06-23]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Decreased detection of ESBL- or pAmpC-producing Escherichia coli in broiler breeders imported into Sweden.
Nilsson O, Börjesson S, Landén A, Greko C, Bengtsson B
Acta Vet. Scand. 62 (1) 33 [2020-06-22; online 2020-06-22]
Clinical Genomics Stockholm [Service]
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Accelerated Nuclear Magnetic Resonance Spectroscopy with Deep Learning.
Qu X, Huang Y, Lu H, ..., Orekhov V, Chen Z
Angew. Chem. Int. Ed. Engl. 59 (26) 10297-10300 [2020-06-22; online 2020-04-15]
Swedish NMR Centre (SNC) [Collaborative]
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T2 and T17 cytokines alter the cargo and function of airway epithelium-derived extracellular vesicles.
Ax E, Jevnikar Z, Cvjetkovic A, ..., Rådinger M, Lässer C
Respir. Res. 21 (1) 155 [2020-06-19; online 2020-06-19]
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Ciliate mitoribosome illuminates evolutionary steps of mitochondrial translation.
Tobiasson V, Amunts A
Elife 9 (-) 1-15 [2020-06-18; online 2020-06-18]
Cryo-EM [Service] Global Proteomics and Proteogenomics [Service]
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Removal of H2Aub1 by ubiquitin-specific proteases 12 and 13 is required for stable Polycomb-mediated gene repression in Arabidopsis.
Kralemann LEM, Liu S, Trejo-Arellano MS, ..., Köhler C, Hennig L
Genome Biol. 21 (1) 144 [2020-06-16; online 2020-06-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Chanjo: Clincal grade sequence coverage analysis
Andeer R, Magnusson M, Wedell A, Stranneheim H
F1000Res 9 (-) 615 [2020-06-16; online 2020-06-16]
Clinical Genomics Stockholm [Technology development]
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Aβ(1-42) tetramer and octamer structures reveal edge conductivity pores as a mechanism for membrane damage.
Ciudad S, Puig E, Botzanowski T, ..., Bardiaux B, Carulla N
Nat Commun 11 (1) 3014 [2020-06-15; online 2020-06-15]
Swedish NMR Centre (SNC) [Collaborative]
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Integrated transcriptomic and genomic analysis improves prediction of complete remission and survival in elderly patients with acute myeloid leukemia.
Österroos A, Björklund M, Eriksson A, ..., Grönberg H, Lehmann S
Blood Cancer J 10 (6) 67 [2020-06-11; online 2020-06-11]
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Illuminating Genetic Mysteries of the Dead Sea Scrolls.
Anava S, Neuhof M, Gingold H, ..., Jakobsson M, Rechavi O
Cell 181 (6) 1218-1231.e27 [2020-06-11; online 2020-06-02]
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Distinct pre-initiation steps in human mitochondrial translation.
Khawaja A, Itoh Y, Remes C, ..., Amunts A, Rorbach J
Nat Commun 11 (1) 2932 [2020-06-10; online 2020-06-10]
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Whole-genome sequencing of glioblastoma reveals enrichment of non-coding constraint mutations in known and novel genes.
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Genome Biol. 21 (1) 127 [2020-06-09; online 2020-06-09]
Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
Sales of antibiotics and occurrence of resistance in Sweden
Swedres-Svarm 19088 (-) 1-128 [2020-06-09; online 2020-06-09]
Clinical Genomics Stockholm [Service]
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High genomic-based predicted strain coverage among invasive meningococcal isolates when combining Bexsero and Trumenba vaccines.
Säll O, Olofsson E, Jacobsson S
Vaccine 38 (28) 4374-4378 [2020-06-09; online 2020-05-12]
Clinical Genomics Örebro [Collaborative]
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CYCLIN-B1/2 and -D1 act in opposition to coordinate cortical progenitor self-renewal and lineage commitment.
Hagey DW, Topcic D, Kee N, ..., Perlmann T, Muhr J
Nat Commun 11 (1) 2898 [2020-06-09; online 2020-06-09]
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The regulation and pharmacological modulation of immune complex induced type III IFN production by plasmacytoid dendritic cells.
Hjorton K, Hagberg N, Pucholt P, Eloranta ML, Rönnblom L
Arthritis Res. Ther. 22 (1) 130 [2020-06-05; online 2020-06-05]
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LPS-treatment of bovine endometrial epithelial cells causes differential DNA methylation of genes associated with inflammation and endometrial function.
Jhamat N, Niazi A, Guo Y, ..., Andersson G, Humblot P
BMC Genomics 21 (1) 385 [2020-06-03; online 2020-06-03]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Radiation Triggers a Dynamic Sequence of Transient Microglial Alterations in Juvenile Brain.
Osman AM, Sun Y, Burns TC, ..., Kele J, Blomgren K
Cell Rep 31 (9) 107699 [2020-06-02; online 2020-06-04]
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Vegetation type determines spore deposition within a forest-agricultural mosaic landscape.
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NGI Uppsala (Uppsala Genome Center) National Genomics Infrastructure
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Normal murine respiratory tract has its mucus concentrated in clouds based on the Muc5b mucin.
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Evolutionary Analysis of the Bacillus subtilis Genome Reveals New Genes Involved in Sporulation.
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The mating type system of the rare polypore Hapalopilus croceus
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Fungal Ecology 45 (-) 100941 [2020-06-00; online 2020-06-00]
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Size-Dependent Pulmonary Impact of Thin Graphene Oxide Sheets in Mice: Toward Safe-by-Design.
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NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Single-cell RNA counting at allele and isoform resolution using Smart-seq3.
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Nat. Biotechnol. 38 (6) 708-714 [2020-06-00; online 2020-05-04]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Predicting and elucidating the etiology of fatty liver disease: A machine learning modeling and validation study in the IMI DIRECT cohorts.
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Affinity Proteomics Stockholm [Collaborative]
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Normal Testosterone but Higher Luteinizing Hormone Plasma Levels in Men With Hypersexual Disorder.
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NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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New approaches to the study of immune responses in humans.
Brodin P
Hum. Genet. 139 (6-7) 795-799 [2020-06-00; online 2020-02-10]
Cellular Immunomonitoring [Technology development]
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Mitochondrial genomes from Bronze Age Poland reveal genetic continuity from the Late Neolithic and additional genetic affinities with the steppe populations.
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MYO5B mutations in pheochromocytoma/paraganglioma promote cancer progression.
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PLoS Genet. 16 (6) e1008803 [2020-06-00; online 2020-06-08]
Clinical Genomics Gothenburg [Service]
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Genome-wide CRISPR screen identifies ZIC2 as an essential gene that controls the cell fate of early mesodermal precursors to human heart progenitors.
Xu J, Zhou C, Foo KS, ..., Sahara M, Chien KR
Stem Cells 38 (6) 741-755 [2020-06-00; online 2020-03-10]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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DEqMS: A Method for Accurate Variance Estimation in Differential Protein Expression Analysis.
Zhu Y, Orre LM, Zhou Tran Y, ..., Anders S, Lehtiö J
Mol. Cell Proteomics 19 (6) 1047-1057 [2020-06-00; online 2020-03-23]
Global Proteomics and Proteogenomics [Technology development]
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Benchmarking single-cell RNA-sequencing protocols for cell atlas projects.
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Nat. Biotechnol. 38 (6) 747-755 [2020-06-00; online 2020-04-06]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Balancing selection in Pattern Recognition Receptor signalling pathways is associated with gene function and pleiotropy in a wild rodent.
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An immune gene expression signature distinguishes central nervous system metastases from primary tumours in non-small-cell lung cancer.
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Age-of-onset information helps identify 76 genetic variants associated with allergic disease.
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PLoS Genet. 16 (6) e1008725 [2020-06-00; online 2020-06-30]
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Activated carbon stimulates microbial diversity and PAH biodegradation under anaerobic conditions in oil-polluted sediments.
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Chemosphere 248 (-) 126023 [2020-06-00; online 2020-01-24]
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Restoration of KMT2C/MLL3 in human colorectal cancer cells reinforces genome-wide H3K4me1 profiles and influences cell growth and gene expression.
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Clin Epigenetics 12 (1) 74 [2020-05-29; online 2020-05-29]
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In silico Druggability Assessment of the NUDIX Hydrolase Protein Family as a Workflow for Target Prioritization.
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Front. Chem. 8 (-) 443 [2020-05-29; online 2020-05-29]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Protein Science Facility (PSF) [Service]
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Transitions in wheat endosperm metabolism upon transcriptional induction of oil accumulation by oat endosperm WRINKLED1.
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BMC Plant Biol. 20 (1) 235 [2020-05-25; online 2020-05-25]
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Staphylococcus argenteus as an etiological agent of prosthetic hip joint infection: a case presentation.
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Auxin export from proximal fruits drives arrest in temporally competent inflorescences
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NPLANTS 6 (6) 699-707 [2020-05-25; online 2020-05-25]
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Multi-ancestry GWAS of the electrocardiographic PR interval identifies 202 loci underlying cardiac conduction.
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Nat Commun 11 (1) 2542 [2020-05-21; online 2020-05-21]
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Integration of whole-body [18F]FDG PET/MRI with non-targeted metabolomics can provide new insights on tissue-specific insulin resistance in type 2 diabetes.
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Comprehensive metabolomics analysis of prostate cancer tissue in relation to tumor aggressiveness and TMPRSS2-ERG fusion status.
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BMC Cancer 20 (1) 437 [2020-05-18; online 2020-05-18]
Swedish Metabolomics Centre (SMC) [Service] Swedish NMR Centre (SNC) [Collaborative]
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Behavioral Characterization of dmrt3a Mutant Zebrafish Reveals Crucial Aspects of Vertebrate Locomotion through Phenotypes Related to Acceleration.
Del Pozo A, Manuel R, Iglesias Gonzalez AB, ..., Kullander K, Boije H
eNeuro 7 (3) ENEURO.0047-20.2020 [2020-05-18; online 2020-05-18]
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Single cell transcriptomics identifies stem cell-derived graft composition in a model of Parkinson's disease.
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Nat Commun 11 (1) 2434 [2020-05-15; online 2020-05-15]
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Myocardial micro-biopsy procedure for molecular characterization with increased precision and reduced trauma.
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Sci Rep 10 (1) 8029 [2020-05-15; online 2020-05-15]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Alterations of endometrial epithelial-mesenchymal transition and MAPK signalling components in women with PCOS are partially modulated by metformin in vitro.
Hu M, Zhang Y, Li X, ..., Shao LR, Billig H
Mol. Hum. Reprod. 26 (5) 312-326 [2020-05-15; online 2020-03-24]
Integrated Microscopy Technologies Gothenburg [Service]
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Integrative genomics approach identifies molecular features associated with early-stage ovarian carcinoma histotypes.
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Sci Rep 10 (1) 7946 [2020-05-14; online 2020-05-14]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Genetic and environmental influences on human height from infancy through adulthood at different levels of parental education.
Jelenkovic A, Sund R, Yokoyama Y, ..., Kaprio J, Silventoinen K
Sci Rep 10 (1) 7974 [2020-05-14; online 2020-05-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Interphase Design of Cellulose Nanocrystals/Poly(hydroxybutyrate-ran-valerate) Bionanocomposites for Mechanical and Thermal Properties Tuning.
Magnani C, Idström A, Nordstierna L, ..., Raquez JM, Lo Re G
Biomacromolecules 21 (5) 1892-1901 [2020-05-11; online 2020-03-04]
Swedish NMR Centre (SNC) [Service]
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Altered Thermal and Mechanical Properties of Spruce Galactoglucomannan Films Modified with an Etherification Reaction.
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Srebf1 Controls Midbrain Dopaminergic Neurogenesis.
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Cell Rep 31 (5) 107601 [2020-05-05; online 2020-05-07]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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High-Resolution In Situ NMR Spectroscopy of Bacterial Envelope Proteins in Outer Membrane Vesicles.
Thoma J, Burmann BM
Biochemistry 59 (17) 1656-1660 [2020-05-05; online 2020-04-06]
Swedish NMR Centre (SNC) [Service]
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A progressive and complex clinical course in two family members with ERF-related craniosynostosis: a case report.
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BMC Med. Genet. 21 (1) 90 [2020-05-05; online 2020-05-05]
Clinical Genomics Uppsala [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Lipid accumulation controls the balance between surface connection and scission of caveolae.
Hubert M, Larsson E, Vegesna NVG, ..., Moodie LW, Lundmark R
Elife 9 (-) - [2020-05-04; online 2020-05-04]
Integrated Microscopy Technologies Umeå [Collaborative] Swedish Metabolomics Centre (SMC) [Collaborative]
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Rare variants in dynein heavy chain genes in two individuals with situs inversus and developmental dyslexia: a case report.
Bieder A, Einarsdottir E, Matsson H, ..., Kere J, Tapia-Páez I
BMC Med. Genet. 21 (1) 87 [2020-05-01; online 2020-05-01]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Molecular changes during progression from nonmuscle invasive to advanced urothelial carcinoma.
Sjödahl G, Eriksson P, Patschan O, ..., Liedberg F, Höglund M
Int. J. Cancer 146 (9) 2636-2647 [2020-05-01; online 2019-11-14]
Clinical Genomics Lund [Service]
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Isolation and characterization of microvesicles from mesenchymal stem cells.
Mohammadi MR, Riazifar M, Pone EJ, ..., Lotvall J, Zhao W
Methods 177 (-) 50-57 [2020-05-01; online 2019-10-25]
Integrated Microscopy Technologies Gothenburg [Service]
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Extracellular vesicles from mast cells induce mesenchymal transition in airway epithelial cells.
Yin Y, Shelke GV, Lässer C, Brismar H, Lötvall J
Respir. Res. 21 (1) 101 [2020-05-01; online 2020-05-01]
Integrated Microscopy Technologies Gothenburg [Service] Integrated Microscopy Technologies Stockholm [Service]
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Evolution of a New Function by Fusion between Phage DNA and a Bacterial Gene.
Warsi O, Knopp M, Surkov S, Jerlström Hultqvist J, Andersson DI
Mol. Biol. Evol. 37 (5) 1329-1341 [2020-05-01; online 2020-01-25]
Glycoproteomics and MS Proteomics [Service]
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Differential Expression of Immune Genes between Two Closely Related Beetle Species with Different Immunocompetence following Attack by Asecodes parviclava.
Yang X, Fors L, Slotte T, ..., Wheat CW, Hambäck PA
Genome Biol Evol 12 (5) 522-534 [2020-05-01; online 2020-04-14]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Whole-genome sequencing reveals complex chromosome rearrangement disrupting NIPBL in infant with Cornelia de Lange syndrome.
Plesser Duvdevani M, Pettersson M, Eisfeldt J, ..., Lindstrand A, Harel T
Am. J. Med. Genet. A 182 (5) 1143-1151 [2020-05-00; online 2020-03-03]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Whole-genome sequencing of human remains to enable genealogy DNA database searches - A case report.
Tillmar A, Sjölund P, Lundqvist B, ..., Älgenäs C, Green H
Forensic Sci Int Genet 46 (-) 102233 [2020-05-00; online 2020-01-17]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transcriptome profiling of Ewing sarcomas - treatment resistance pathways and IGF-dependency.
Chen Y, Hesla AC, Lin Y, ..., Larsson O, Haglund F
Mol Oncol 14 (5) 1101-1117 [2020-05-00; online 2020-03-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SweHLA: the high confidence HLA typing bio-resource drawn from 1000 Swedish genomes.
Nordin J, Ameur A, Lindblad-Toh K, Gyllensten U, Meadows JRS
Eur. J. Hum. Genet. 28 (5) 627-635 [2020-05-00; online 2019-12-16]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Recurrent Fusions Between YAP1 and KMT2A in Morphologically Distinct Neoplasms Within the Spectrum of Low-grade Fibromyxoid Sarcoma and Sclerosing Epithelioid Fibrosarcoma.
Puls F, Agaimy A, Flucke U, ..., Arbajian E, Mertens F
Am. J. Surg. Pathol. 44 (5) 594-606 [2020-05-00; online 2020-01-09]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Lund [Service]
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Parentage and relatedness reconstruction in Pinus sylvestris using genotyping-by-sequencing.
Hall D, Zhao W, Wennström U, Andersson Gull B, Wang XR
Heredity (Edinb) 124 (5) 633-646 [2020-05-00; online 2020-03-02]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Next-Generation Sequencing Reveals Differential Responses to Acute versus Long-Term Exposures to Graphene Oxide in Human Lung Cells.
Mukherjee SP, Gupta G, Klöditz K, ..., Kostarelos K, Fadeel B
Small 16 (21) e1907686 [2020-05-00; online 2020-03-29]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Monitoring calcium-induced epidermal differentiation in vitro using multiphoton microscopy.
Malak M, Grantham J, Ericson MB
J Biomed Opt 25 (7) 1-11 [2020-05-00; online 2020-05-11]
Integrated Microscopy Technologies Gothenburg [Service]
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In-depth plasma proteomics reveals increase in circulating PD-1 during anti-PD-1 immunotherapy in patients with metastatic cutaneous melanoma.
Babačić H, Lehtiö J, Pico de Coaña Y, Pernemalm M, Eriksson H
J Immunother Cancer 8 (1) e000204 [2020-05-00; online 2020-05-28]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Genetic identification of cell types underlying brain complex traits yields insights into the etiology of Parkinson's disease.
Bryois J, Skene NG, Hansen TF, ..., Hjerling-Leffler J, Sullivan PF
Nat. Genet. 52 (5) 482-493 [2020-05-00; online 2020-04-27]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Early growth response 1 regulates hematopoietic support and proliferation in human primary bone marrow stromal cells.
Li H, Lim HC, Zacharaki D, ..., Hansson J, Scheding S
Haematologica 105 (5) 1206-1215 [2020-05-00; online 2019-08-01]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
Deep sequencing of myxoinflammatory fibroblastic sarcoma.
Arbajian E, Hofvander J, Magnusson L, Mertens F
Genes Chromosomes Cancer 59 (5) 309-317 [2020-05-00; online 2020-01-31]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
Comprehensive chemical proteomics for target deconvolution of the redox active drug auranofin.
Saei AA, Gullberg H, Sabatier P, ..., Arnér ESJ, Zubarev RA
Redox Biol 32 (-) 101491 [2020-05-00; online 2020-03-03]
Drug Discovery and Development (DDD)
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Analysis of DNA methylation patterns in the tumor immune microenvironment of metastatic melanoma.
Mitra S, Lauss M, Cabrita R, ..., Brown KM, Jönsson G
Mol Oncol 14 (5) 933-950 [2020-05-00; online 2020-03-21]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
A molecular mechanism explaining albuminuria in kidney disease.
Butt L, Unnersjö-Jess D, Höhne M, ..., Schermer B, Benzing T
Nat Metab 2 (5) 461-474 [2020-05-00; online 2020-05-11]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Interactive proteogenomic exploration of response to Fusarium head blight in oat varieties with different resistance.
Willforss J, Leonova S, Tillander J, ..., Chawade A, Levander F
J Proteomics 218 (-) 103688 [2020-04-30; online 2020-02-14]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Interactions of the Lysosomotropic Detergent O-Methyl-Serine Dodecylamide Hydrochloride (MSDH) with Lipid Bilayer Membranes-Implications for Cell Toxicity.
Villamil Giraldo AM, Eriksson I, Wennmalm S, ..., Ederth T, Öllinger K
Int J Mol Sci 21 (9) 3136 [2020-04-29; online 2020-04-29]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Fungal Diversity in the Phyllosphere of Pinus heldreichii H. Christ—An Endemic and High-Altitude Pine of the Mediterranean Region
Lazarević J, Menkis A
Diversity 12 (5) 172 [2020-04-28; online 2020-04-28]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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DNA methylation and copy number variation profiling of T-cell lymphoblastic leukemia and lymphoma.
Haider Z, Landfors M, Golovleva I, ..., Hultdin M, Degerman S
Blood Cancer J 10 (4) 45 [2020-04-28; online 2020-04-28]
Clinical Genomics Umeå [Service]
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Biodiversity between sand grains: Meiofauna composition across southern and western Sweden assessed by metabarcoding.
Atherton S, Jondelius U
Biodivers Data J 8 (-) e51813 [2020-04-27; online 2020-04-27]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mending Fences: Na,K-ATPase signaling via Ca2+ in the maintenance of epithelium integrity.
Aperia A, Brismar H, Uhlén P
Cell Calcium 88 (-) 102210 [2020-04-26; online 2020-04-26]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Low occurrence of extended-spectrum cephalosporinase producing Enterobacteriaceae and no detection of methicillin-resistant coagulase-positive staphylococci in healthy dogs in Sweden.
Börjesson S, Gunnarsson L, Landén A, Grönlund U
Acta Vet. Scand. 62 (1) 18 [2020-04-25; online 2020-04-25]
Clinical Genomics Stockholm [Service]
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Optimization of Tetrahydroindazoles as Inhibitors of Human Dihydroorotate Dehydrogenase and Evaluation of Their Activity and In Vitro Metabolic Stability.
Popova G, Ladds MJGW, Johansson L, ..., Yngve U, Lain S
J. Med. Chem. 63 (8) 3915-3934 [2020-04-23; online 2020-04-08]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Service]
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Trade-off between somatic and germline repair in a vertebrate supports the expensive germ line hypothesis.
Chen HY, Jolly C, Bublys K, Marcu D, Immler S
Proc. Natl. Acad. Sci. U.S.A. 117 (16) 8973-8979 [2020-04-21; online 2020-04-03]
Bioinformatics Support for Computational Resources [Service] Genome Engineering Zebrafish [Service]
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Studies of Emission Processes of Polymer Additives into Water Using Quartz Crystal Microbalance-A Case Study on Organophosphate Esters.
Xiao L, Zheng Z, Irgum K, Andersson PL
Environ. Sci. Technol. 54 (8) 4876-4885 [2020-04-21; online 2020-04-01]
Swedish NMR Centre (SNC) [Service]
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Solution Conformations Explain the Chameleonic Behaviour of Macrocyclic Drugs.
Danelius E, Poongavanam V, Peintner S, ..., Erdélyi M, Kihlberg J
Chemistry 26 (23) 5231-5244 [2020-04-21; online 2020-04-06]
Swedish NMR Centre (SNC) [Service]
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Molecular profiling of driver events in metastatic uveal melanoma.
Karlsson J, Nilsson LM, Mitra S, ..., Olofsson Bagge R, Nilsson JA
Nat Commun 11 (1) 1894 [2020-04-20; online 2020-04-20]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Long-term stability of partial nitritation-anammox for treatment of municipal wastewater in a moving bed biofilm reactor pilot system.
Gustavsson DJI, Suarez C, Wilén BM, Hermansson M, Persson F
Sci. Total Environ. 714 (-) 136342 [2020-04-20; online 2020-01-07]
Integrated Microscopy Technologies Gothenburg [Service]
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Effect of Cobalt, Nickel, and Selenium/Tungsten Deficiency on Mesophilic Anaerobic Digestion of Chemically Defined Soluble Organic Compounds.
Šafarič L, Yekta SS, Svensson BH, ..., Bastviken D, Björn A
Microorganisms 8 (4) 598 [2020-04-20; online 2020-04-20]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Fungi and Oomycetes in the Irrigation Water of Forest Nurseries
Marčiulynas A, Marčiulynienė D, Lynikienė J, ..., Vaičiukynė M, Menkis A
Forests 11 (4) 459 [2020-04-18; online 2020-04-18]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Rapid Biophysical Characterization and NMR Spectroscopy Structural Analysis of Small Proteins from Bacteria and Archaea.
Kubatova N, Pyper DJ, Jonker HRA, ..., Schmitz RA, Schwalbe H
ChemBioChem 21 (8) 1178-1187 [2020-04-17; online 2020-01-21]
Swedish NMR Centre (SNC) [Collaborative]
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Genome-Scale Metabolic Modeling of Glioblastoma Reveals Promising Targets for Drug Development.
Larsson I, Uhlén M, Zhang C, Mardinoglu A
Front Genet 11 (-) 381 [2020-04-17; online 2020-04-17]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Whole-genome genotyping and resequencing reveal the association of a deletion in the complex interferon alpha gene cluster with hypothyroidism in dogs.
Bianchi M, Rafati N, Karlsson Å, ..., Lindblad-Toh K, Rosengren Pielberg G
BMC Genomics 21 (1) 307 [2020-04-16; online 2020-04-16]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Capsid Structure of a Marine Algal Virus of the Order Picornavirales.
Munke A, Kimura K, Tomaru Y, Okamoto K
J. Virol. 94 (9) - [2020-04-16; online 2020-04-16]
Cryo-EM [Service]
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The ELIXIR Core Data Resources: fundamental infrastructure for the life sciences.
Drysdale R, Cook CE, Petryszak R, ..., Durinx C, McEntyre J
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Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Increased burden of ultra-rare structural variants localizing to boundaries of topologically associated domains in schizophrenia.
Halvorsen M, Huh R, Oskolkov N, ..., Sullivan PF, Szatkiewicz JP
Nat Commun 11 (1) 1842 [2020-04-15; online 2020-04-15]
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Effect of sample preparation techniques upon single cell chemical imaging: A practical comparison between synchrotron radiation based X-ray fluorescence (SR-XRF) and Nanoscopic Secondary Ion Mass Spectrometry (nano-SIMS).
De Samber B, De Rycke R, De Bruyne M, ..., Polerecky L, Vincze L
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Cryo-EM [Collaborative]
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Difference in virulence between Neisseria meningitidis serogroups W and Y in transgenic mice.
Eriksson L, Stenmark B, Deghmane A, ..., Mölling P, Taha M
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Clinical Genomics Örebro [Collaborative]
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Berglund E, Saarenpää S, Jemt A, ..., Lundeberg J, Giacomello S
BMC Genomics 21 (1) 298 [2020-04-15; online 2020-04-15]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Generation of Retinal Pigment Epithelial Cells Derived from Human Embryonic Stem Cells Lacking Human Leukocyte Antigen Class I and II.
Petrus-Reurer S, Winblad N, Kumar P, ..., Kvanta A, Lanner F
Stem Cell Reports 14 (4) 648-662 [2020-04-14; online 2020-03-19]
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MutT homologue 1 (MTH1) removes N6-methyl-dATP from the dNTP pool.
Scaletti ER, Vallin KS, Bräutigam L, ..., Stenmark P, Jemth AS
J. Biol. Chem. 295 (15) 4761-4772 [2020-04-10; online 2020-03-06]
Protein Science Facility (PSF) [Service]
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Ex Vivo Organoid Cultures Reveal the Importance of the Tumor Microenvironment for Maintenance of Colorectal Cancer Stem Cells.
Li X, Larsson P, Ljuslinder I, ..., Edin S, Palmqvist R
Cancers (Basel) 12 (4) 923 [2020-04-10; online 2020-04-10]
Clinical Genomics Umeå [Collaborative]
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Hybrid Aspen Expressing a Carbohydrate Esterase Family 5 Acetyl Xylan Esterase Under Control of a Wood-Specific Promoter Shows Improved Saccharification.
Wang Z, Pawar PM, Derba-Maceluch M, ..., Jönsson LJ, Mellerowicz EJ
Front Plant Sci 11 (-) 380 [2020-04-08; online 2020-04-08]
Swedish NMR Centre (SNC) [Collaborative]
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Building blocks are synthesized on demand during the yeast cell cycle.
Campbell K, Westholm J, Kasvandik S, ..., Mormino M, Nielsen J
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Yañez O, Chávez-Galarza J, Tellgren-Roth C, ..., Neumann P, de Miranda JR
Sci Rep 10 (1) 5956 [2020-04-06; online 2020-04-06]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Draft Genome Sequence of the Urinary Catheter Isolate Enterobacter ludwigii CEB04 with High Biofilm Forming Capacity.
Shafeeq S, Wang X, Lünsdorf H, Brauner A, Römling U
Microorganisms 8 (4) 522 [2020-04-05; online 2020-04-05]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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The conifer root rot pathogens Heterobasidion irregulare and Heterobasidion occidentale employ different strategies to infect Norway spruce.
Hu Y, Elfstrand M, Stenlid J, Durling MB, Olson Å
Sci Rep 10 (1) 5884 [2020-04-03; online 2020-04-03]
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Plant resistance does not compromise parasitoid-based biocontrol of a strawberry pest.
Weber D, Egan PA, Muola A, Ericson LE, Stenberg JA
Sci Rep 10 (1) 5899 [2020-04-03; online 2020-04-03]
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Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training
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Genomic characterization and outcome of prosthetic joint infections caused by Staphylococcus aureus.
Wildeman P, Tevell S, Eriksson C, ..., Söderquist B, Stenmark B
Sci Rep 10 (1) 5938 [2020-04-03; online 2020-04-03]
Clinical Genomics Örebro [Collaborative]
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Thermal Proteome Profiling Identifies Oxidative-Dependent Inhibition of the Transcription of Major Oncogenes as a New Therapeutic Mechanism for Select Anticancer Compounds.
Peuget S, Zhu J, Sanz G, ..., Zubarev R, Selivanova G
Cancer Res. 80 (7) 1538-1550 [2020-04-01; online 2020-02-04]
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Paralogization and New Protein Architectures in Planctomycetes Bacteria with Complex Cell Structures.
Mahajan M, Yee B, Hägglund E, ..., Fuerst JA, Andersson SGE
Mol. Biol. Evol. 37 (4) 1020-1040 [2020-04-01; online 2019-12-07]
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Lung developmental arrest caused by PDGF-A deletion: consequences for the adult mouse lung.
Gouveia L, Kraut S, Hadzic S, ..., Betsholtz C, Andrae J
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Extensive Clonal Branching Shapes the Evolutionary History of High-Risk Pediatric Cancers.
Andersson N, Bakker B, Karlsson J, ..., Foijer F, Gisselsson D
Cancer Res. 80 (7) 1512-1523 [2020-04-01; online 2020-02-10]
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Eriksen AK, Brunius C, Mazidi M, ..., Dicksved J, Landberg R
Am. J. Clin. Nutr. 111 (4) 864-876 [2020-04-01; online 2020-02-26]
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de la Rosa-Trevín JM, Hernández Viga PA, Otón J, Lindahl E
Acta Crystallogr D Struct Biol 76 (Pt 4) 350-356 [2020-04-01; online 2020-03-31]
Cryo-EM [Technology development]
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The acute effect of metabolic cofactor supplementation: a potential therapeutic strategy against non-alcoholic fatty liver disease.
Zhang C, Bjornson E, Arif M, ..., Borén J, Mardinoglu A
Mol. Syst. Biol. 16 (4) e9495 [2020-04-00; online 2020-04-28]
Affinity Proteomics Stockholm [Service] Bioinformatics Support for Computational Resources [Service]
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Substantial intrinsic variability in chemoradiosensitivity of newly established anaplastic thyroid cancer cell-lines.
Gretarsson S, Nygren A, Rosendahl AH, ..., Wennerberg J, Ekblad L
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Hulme H, Fridjonsdottir E, Gunnarsdottir H, ..., Svenningsson P, Andrén PE
Neurobiol. Dis. 137 (-) 104738 [2020-04-00; online 2020-01-10]
Spatial Mass Spectrometry [Technology development]
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Screening for autoantibody targets in post-vaccination narcolepsy using proteome arrays.
Lind A, Eriksson D, Akel O, ..., Elding Larsson H, Landegren N
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Polymerase IV Plays a Crucial Role in Pollen Development in Capsella.
Wang Z, Butel N, Santos-González J, ..., Martinez G, Köhler C
Plant Cell 32 (4) 950-966 [2020-04-00; online 2020-01-27]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Molecular characterization of a large unselected cohort of metastatic colorectal cancers in relation to primary tumor location, rare metastatic sites and prognosis.
Nunes L, Aasebø K, Mathot L, ..., Sjöblom T, Glimelius B
Acta Oncol 59 (4) 417-426 [2020-04-00; online 2020-01-10]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Long-term application of Swedish sewage sludge on farmland does not cause clear changes in the soil bacterial resistome.
Rutgersson C, Ebmeyer S, Lassen SB, ..., Flach CF, Larsson DGJ
Environ Int 137 (-) 105339 [2020-04-00; online 2020-02-06]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genes and variants in hematopoiesis-related pathways are associated with gemcitabine/carboplatin-induced thrombocytopenia.
Björn N, Sigurgeirsson B, Svedberg A, ..., Lundeberg J, Gréen H
Pharmacogenomics J. 20 (2) 179-191 [2020-04-00; online 2019-10-15]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Establishing Trypanosoma cruzi farnesyl pyrophosphate synthase as a viable target for biosensor driven fragment-based lead discovery.
Opassi G, Nordström H, Lundin A, ..., Klebe G, Danielson UH
Protein Sci. 29 (4) 991-1003 [2020-04-00; online 2020-02-07]
Drug Discovery and Development (DDD)
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Cell Cycle Profiling Reveals Protein Oscillation, Phosphorylation, and Localization Dynamics.
Herr P, Boström J, Rullman E, ..., Maddalo G, Altun M
Mol. Cell Proteomics 19 (4) 608-623 [2020-04-00; online 2020-02-12]
Global Proteomics and Proteogenomics [Collaborative]
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ABCB1 single-nucleotide variants and survival in patients with glioblastoma treated with radiotherapy concomitant with temozolomide.
Malmström A, Łysiak M, Åkesson L, ..., Green H, Söderkvist P
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Cavalli M, Diamanti K, Pan G, ..., Komorowski J, Wadelius C
OMICS 24 (4) 180-194 [2020-04-00; online 2020-03-16]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Transcriptome Profiling and Toxicity Following Long-Term, Low Dose Exposure of Human Lung Cells to Ni and NiO Nanoparticles-Comparison with NiCl2.
Gliga AR, Di Bucchianico S, Åkerlund E, Karlsson HL
Nanomaterials (Basel) 10 (4) 649 [2020-03-31; online 2020-03-31]
NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mutations in COL1A1/A2 and CREB3L1 are associated with oligodontia in osteogenesis imperfecta.
Andersson K, Malmgren B, Åström E, ..., Taylan F, Dahllöf G
Orphanet J Rare Dis 15 (1) 80 [2020-03-31; online 2020-03-31]
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Identification of cell surface markers and establishment of monolayer differentiation to retinal pigment epithelial cells.
Plaza Reyes A, Petrus-Reurer S, Padrell Sánchez S, ..., Kvanta A, Lanner F
Nat Commun 11 (1) 1609 [2020-03-30; online 2020-03-30]
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Antimicrobial peptide and sequence variation along a latitudinal gradient in two anurans.
Cortázar-Chinarro M, Meyer-Lucht Y, Van der Valk T, ..., Laurila A, Höglund J
BMC Genet. 21 (1) 38 [2020-03-30; online 2020-03-30]
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Structural basis for the increased processivity of D-family DNA polymerases in complex with PCNA.
Madru C, Henneke G, Raia P, ..., Carroni M, Sauguet L
Nat Commun 11 (1) 1591 [2020-03-27; online 2020-03-27]
Cryo-EM [Collaborative]
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Image-Based Morphological Profiling Identifies a Lysosomotropic, Iron-Sequestering Autophagy Inhibitor.
Laraia L, Garivet G, Foley DJ, ..., Rodriguez R, Waldmann H
Angew. Chem. Int. Ed. Engl. 59 (14) 5721-5729 [2020-03-27; online 2020-01-24]
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Deficits in Motor Performance, Neurotransmitters and Synaptic Plasticity in Elderly and Experimental Parkinsonian Mice Lacking GPR37.
Zhang X, Mantas I, Fridjonsdottir E, ..., Chergui K, Svenningsson P
Front Aging Neurosci 12 (-) 84 [2020-03-27; online 2020-03-27]
Spatial Mass Spectrometry [Collaborative]
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Tiemann TT, Padma AM, Sehic E, ..., Brännström M, Hellström M
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Ignatov D, Vaitkevicius K, Durand S, ..., Condon C, Johansson J
Cell Rep 30 (12) 4027-4040.e7 [2020-03-24; online 2020-03-27]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Robinson JL, Kocabaş P, Wang H, ..., Uhlén M, Nielsen J
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Bioinformatics Support, Infrastructure and Training [Technology development] Systems Biology [Technology development]
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Marine Sediments Illuminate Chlamydiae Diversity and Evolution.
Dharamshi JE, Tamarit D, Eme L, ..., Spang A, Ettema TJG
Curr. Biol. 30 (6) 1032-1048.e7 [2020-03-23; online 2020-03-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Molecular Profiling for Predictors of Radiosensitivity in Patients with Breast or Head-and-Neck Cancer.
Drobin K, Marczyk M, Halle M, ..., Schwenk JM, Haghdoost S
Cancers (Basel) 12 (3) 753 [2020-03-22; online 2020-03-22]
Affinity Proteomics Stockholm [Collaborative]
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Non-dopaminergic Alterations in Depression-Like FSL Rats in Experimental Parkinsonism and L-DOPA Responses.
Schintu N, Zhang X, Stroth N, ..., Andrén PE, Svenningsson P
Front Pharmacol 11 (-) 304 [2020-03-20; online 2020-03-20]
Spatial Mass Spectrometry [Collaborative]
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Böhm ME, Razavi M, Marathe NP, Flach CF, Larsson DGJ
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NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Specific functions for Mediator complex subunits from different modules in the transcriptional response of Arabidopsis thaliana to abiotic stress.
Crawford T, Karamat F, Lehotai N, ..., Strand Å, Björklund S
Sci Rep 10 (1) 5073 [2020-03-19; online 2020-03-19]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Analysis of the behaviour of confined molecules using 2H T1 nuclear magnetic relaxation dispersion
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Molecular Physics 118 (6) e1645367 [2020-03-18; online 2019-07-24]
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Newborn Screening for Presymptomatic Diagnosis of Complement and Phagocyte Deficiencies.
Dezfouli M, Bergström S, Skattum L, ..., Nilsson P, Hammarström L
Front Immunol 11 (-) 455 [2020-03-17; online 2020-03-17]
Affinity Proteomics Stockholm [Collaborative]
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Immune Profiling of Human Gut-Associated Lymphoid Tissue Identifies a Role for Isolated Lymphoid Follicles in Priming of Region-Specific Immunity.
Fenton TM, Jørgensen PB, Niss K, ..., Johansson-Lindbom B, Agace WW
Immunity 52 (3) 557-570.e6 [2020-03-17; online 2020-03-10]
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Effects of acute sleep loss on diurnal plasma dynamics of CNS health biomarkers in young men.
Benedict C, Blennow K, Zetterberg H, Cedernaes J
Neurology 94 (11) e1181-e1189 [2020-03-17; online 2020-01-08]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The application of differential scanning fluorimetry in exploring bisubstrate binding to protein arginine N-methyltransferase 1.
Brown JI, Page BDG, Frankel A
Methods 175 (-) 10-23 [2020-03-15; online 2019-11-11]
Protein Science Facility (PSF) [Service]
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Inherited DNA Repair Gene Mutations in Men with Lethal Prostate Cancer.
Rantapero T, Wahlfors T, Kähler A, ..., Schleutker J, Wiklund F
Genes 11 (3) 314 [2020-03-14; online 2020-03-14]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Ecosystem-wide metagenomic binning enables prediction of ecological niches from genomes.
Alneberg J, Bennke C, Beier S, ..., Pinhassi J, Andersson AF
Commun Biol 3 (1) 119 [2020-03-13; online 2020-03-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Comparing the Performance of Microsatellites and RADseq in Population Genetic Studies: Analysis of Data for Pike (Esox lucius) and a Synthesis of Previous Studies.
Sunde J, Yıldırım Y, Tibblin P, Forsman A
Front Genet 11 (-) 218 [2020-03-13; online 2020-03-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Exploiting loss of heterozygosity for allele-selective colorectal cancer chemotherapy.
Rendo V, Stoimenov I, Mateus A, ..., Cheong I, Sjöblom T
Nat Commun 11 (1) 1308 [2020-03-11; online 2020-03-11]
Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Service]
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Footprints of natural selection at the mannose-6-phosphate isomerase locus in barnacles.
Nunez JCB, Flight PA, Neil KB, ..., Blomberg A, Rand DM
Proc. Natl. Acad. Sci. U.S.A. 117 (10) 5376-5385 [2020-03-10; online 2020-02-25]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Uncovering diversity and metabolic spectrum of animals in dead zone sediments.
Broman E, Bonaglia S, Holovachov O, ..., Hall POJ, Nascimento FJA
Commun Biol 3 (1) 106 [2020-03-06; online 2020-03-06]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Ribonucleotide reductase inhibitors suppress SAMHD1 ara-CTPase activity enhancing cytarabine efficacy.
Rudd SG, Tsesmetzis N, Sanjiv K, ..., Helleday T, Herold N
EMBO Mol Med 12 (3) e10419 [2020-03-06; online 2020-01-17]
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An atlas of the protein-coding genes in the human, pig, and mouse brain.
Sjöstedt E, Zhong W, Fagerberg L, ..., Uhlén M, Mulder J
Science 367 (6482) eaay5947 [2020-03-06; online 2020-03-07]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The Molecular Anatomy of Mouse Skin during Hair Growth and Rest.
Joost S, Annusver K, Jacob T, ..., Sandberg R, Kasper M
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Stressful Beginnings with Long-Term Consequences.
Consiglio CR, Brodin P
Cell 180 (5) 820-821 [2020-03-05; online 2020-03-07]
Bioinformatics Support for Computational Resources [Service] Cellular Immunomonitoring [Technology development]
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Short-Range Order and Transport Properties in Mixtures of the Protic Ionic Liquid [C2HIm][TFSI] with Water or Imidazole.
Hasani M, Varela LM, Martinelli A
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Swedish NMR Centre (SNC) [Service]
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Genome-wide Association Analysis in Humans Links Nucleotide Metabolism to Leukocyte Telomere Length.
Li C, Stoma S, Lotta LA, ..., Langenberg C, Codd V
Am. J. Hum. Genet. 106 (3) 389-404 [2020-03-05; online 2020-02-27]
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Epiphyseal Cartilage Formation Involves Differential Dynamics of Various Cellular Populations During Embryogenesis.
Zhang Y, Annusver K, Sunadome K, ..., Adameyko I, Xie M
Front Cell Dev Biol 8 (-) 122 [2020-03-05; online 2020-03-05]
Integrated Microscopy Technologies Stockholm [Service]
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One-Pot Production of RNA in High Yield and Purity Through Cleaving Tandem Transcripts.
Feyrer H, Munteanu R, Baronti L, Petzold K
Molecules 25 (5) - [2020-03-04; online 2020-03-04]
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Transcriptomic resources for evolutionary studies in flat periwinkles and related species.
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Nutrients 12 (3) 681 [2020-03-03; online 2020-03-03]
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Single-cell analysis of human ovarian cortex identifies distinct cell populations but no oogonial stem cells.
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Tumor localized agonistic anti-CD40 therapy and beyond.
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Synthesis, Evaluation and Proposed Binding Pose of Substituted Spiro-Oxindole Dihydroquinazolinones as IRAP Inhibitors.
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Structure of a minimal photosystem I from the green alga Dunaliella salina.
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PIRIN2 suppresses S-type lignin accumulation in a noncell-autonomous manner in Arabidopsis xylem elements.
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New Phytol. 225 (5) 1923-1935 [2020-03-00; online 2019-11-11]
Swedish NMR Centre (SNC) [Collaborative]
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Overexpression of chromatin remodeling and tyrosine kinase genes in iAMP21-positive acute lymphoblastic leukemia.
Ivanov Öfverholm I, Zachariadis V, Taylan F, ..., Nordlund J, Barbany G
Leuk. Lymphoma 61 (3) 604-613 [2020-03-00; online 2019-10-22]
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Longitudinal changes in the frequency of mosaic chromosome Y loss in peripheral blood cells of aging men varies profoundly between individuals.
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Eur. J. Hum. Genet. 28 (3) 349-357 [2020-03-00; online 2019-10-25]
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Irreversible TrxR1 inhibitors block STAT3 activity and induce cancer cell death.
Busker S, Qian W, Haraldsson M, ..., Tamm KP, Page BDG
Sci Adv 6 (12) eaax7945 [2020-03-00; online 2020-03-20]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Protein Science Facility (PSF) [Service]
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In Situ Encapsulation of Nile Red or Doxorubicin during RAFT‐Mediated Emulsion Polymerization via Polymerization‐Induced Self‐Assembly for Biomedical Applications
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Macromol. Chem. Phys. 221 (5) 1900443 [2020-03-00; online 2020-02-10]
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Hyena paleogenomes reveal a complex evolutionary history of cross-continental gene flow between spotted and cave hyena.
Westbury MV, Hartmann S, Barlow A, ..., Heller R, Hofreiter M
Sci Adv 6 (11) eaay0456 [2020-03-00; online 2020-03-13]
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High genetic risk score is associated with early disease onset, damage accrual and decreased survival in systemic lupus erythematosus.
Reid S, Alexsson A, Frodlund M, ..., Rönnblom L, Leonard D
Ann. Rheum. Dis. 79 (3) 363-369 [2020-03-00; online 2019-12-11]
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Haworth S, Esberg A, Lif Holgerson P, ..., Franks PW, Johansson I
J Dent Res 99 (3) 264-270 [2020-03-00; online 2020-01-06]
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Functionally distinct subgroups of oligodendrocyte precursor cells integrate neural activity and execute myelin formation.
Marisca R, Hoche T, Agirre E, ..., Castelo-Branco G, Czopka T
Nat. Neurosci. 23 (3) 363-374 [2020-03-00; online 2020-02-17]
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Evidence for widespread selection in shaping the genomic landscape during speciation of Populus.
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Distinct structural modulation of photosystem I and lipid environment stabilizes its tetrameric assembly.
Chen M, Perez-Boerema A, Zhang L, ..., Li S, Amunts A
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Schizophr Bull 46 (2) 336-344 [2020-02-26; online 2019-06-18]
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Dussex N, Stanton DWG, Sigeman H, ..., Hansson B, Dalén L
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Swedish NMR Centre (SNC) [Service]
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Kumar R, Chand K, Bhowmik S, ..., Hedenström M, Chorell E
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Front Oncol 10 (-) 162 [2020-02-18; online 2020-02-18]
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Microorganisms 8 (2) 259 [2020-02-15; online 2020-02-15]
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Nordlund J, Marincevic-Zuniga Y, Cavelier L, ..., Lönnerholm G, Syvänen AC
Sci Rep 10 (1) 2512 [2020-02-13; online 2020-02-13]
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Jamroskovic J, Doimo M, Chand K, ..., Chorell E, Sabouri N
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Subpopulations of extracellular vesicles from human metastatic melanoma tissue identified by quantitative proteomics after optimized isolation.
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Nat Commun 11 (1) 579 [2020-02-05; online 2020-02-05]
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Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Schulz CA, Engström G, Nilsson J, ..., Melander O, Orho-Melander M
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Visuttijai K, Hedberg-Oldfors C, Thomsen C, ..., Roach P, Oldfors A
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Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Chemical Biology Consortium Sweden (CBCS) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Hamm GR, Bäckström E, Brülls M, ..., Fridén M, Goodwin RJA
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Fernandez C, Surma MA, Klose C, ..., Simons K, Melander O
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Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Perspective on CETSA Literature: Toward More Quantitative Data Interpretation.
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Genomic and transcriptomic features of dermatofibrosarcoma protuberans: Unusual chromosomal origin of the COL1A1-PDGFB fusion gene and synergistic effects of amplified regions in tumor development.
Köster J, Arbajian E, Viklund B, ..., Mandahl N, Mertens F
Cancer Genet 241 (-) 34-41 [2020-02-00; online 2019-12-10]
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Fast time-resolved NMR with non-uniform sampling.
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Swedish NMR Centre (SNC) [Collaborative]
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Exosomes influence the behavior of human mesenchymal stem cells on titanium surfaces.
Wang X, Shah FA, Vazirisani F, ..., Ekström K, Thomsen P
Biomaterials 230 (-) 119571 [2020-02-00; online 2019-10-24]
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Engineering yeast phospholipid metabolism for de novo oleoylethanolamide production.
Liu Y, Liu Q, Krivoruchko A, Khoomrung S, Nielsen J
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Fellström B, Helmersson-Karlqvist J, Lind L, ..., Ärnlöv J, Larsson A
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Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Garcia M, Juhos S, Larsson M, ..., Käller M, Nystedt B
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Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Microbial Single Cell Genomics [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Extracellular Vesicles Released From the Skin Commensal Yeast Malassezia sympodialis Activate Human Primary Keratinocytes.
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Drug Discovery and Development (DDD) [Technology development]
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CREBBP and WDR 24 Identified as Candidate Genes for Quantitative Variation in Red-Brown Plumage Colouration in the Chicken.
Fogelholm J, Henriksen R, Höglund A, ..., Jensen P, Wright D
Sci Rep 10 (1) 1161 [2020-01-24; online 2020-01-24]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Medical Genome Reference Bank contains whole genome and phenotype data of 2570 healthy elderly.
Pinese M, Lacaze P, Rath EM, ..., Dinger ME, Thomas DM
Nat Commun 11 (1) 435 [2020-01-23; online 2020-01-23]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Reverse engineering directed gene regulatory networks from transcriptomics and proteomics data of biomining bacterial communities with approximate Bayesian computation and steady-state signalling simulations.
Buetti-Dinh A, Herold M, Christel S, ..., Friedman R, Dopson M
BMC Bioinformatics 21 (1) 23 [2020-01-21; online 2020-01-21]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Modulation of Structural Heterogeneity Controls Phytochrome Photoswitching.
Gustavsson E, Isaksson L, Persson C, ..., Orekhov V, Westenhoff S
Biophysical Journal 118 (2) 415-421 [2020-01-21; online 2019-11-26]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Transcriptome analysis of fibroblasts from schizophrenia patients reveals differential expression of schizophrenia-related genes.
Etemadikhah M, Niazi A, Wetterberg L, Feuk L
Sci Rep 10 (1) 630 [2020-01-20; online 2020-01-20]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Loss of centromere function drives karyotype evolution in closely related Malassezia species.
Sankaranarayanan SR, Ianiri G, Coelho MA, ..., Heitman J, Sanyal K
Elife 9 (-) - [2020-01-20; online 2020-01-20]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Genome-Based Comparison of All Species of the Genus Moorella, and Status of the Species Moorella thermoacetica and Moorella thermoautotrophica.
Redl S, Poehlein A, Esser C, ..., Dürre P, Nielsen AT
Front Microbiol 10 (-) 3070 [2020-01-17; online 2020-01-17]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A spontaneous mitonuclear epistasis converging on Rieske Fe-S protein exacerbates complex III deficiency in mice.
Purhonen J, Grigorjev V, Ekiert R, ..., Fellman V, Kallijärvi J
Nat Commun 11 (1) 322 [2020-01-16; online 2020-01-16]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Gene regulatory response to hyposalinity in the brown seaweed Fucus vesiculosus.
Rugiu L, Panova M, Pereyra RT, Jormalainen V
BMC Genomics 21 (1) 42 [2020-01-13; online 2020-01-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Development and characterization of an EMS-mutagenized wheat population and identification of salt-tolerant wheat lines.
Lethin J, Shakil SSM, Hassan S, ..., Olsson O, Aronsson H
BMC Plant Biol. 20 (1) 18 [2020-01-13; online 2020-01-13]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Screening for bioactive secondary metabolites in Sri Lankan medicinal plants by microfractionation and targeted isolation of antimicrobial flavonoids from Derris scandens.
Mohotti S, Rajendran S, Muhammad T, ..., Hettiarachchi CM, Gunasekera S
Journal of Ethnopharmacology 246 (-) 112158 [2020-01-10; online 2019-08-14]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
A regulatory role for CHD2 in myelopoiesis.
Shahin Varnoosfaderani F, Palau A, Dong W, ..., Svensson JP, Lennartsson A
Epigenetics 15 (6-7) 702-714 [2020-01-10; online 2020-01-10]
Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide association and Mendelian randomisation analysis provide insights into the pathogenesis of heart failure.
Shah S, Henry A, Roselli C, ..., Swerdlow DI, Lumbers RT
Nat Commun 11 (1) 163 [2020-01-09; online 2020-01-09]
NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
DNA methylation changes in Down syndrome derived neural iPSCs uncover co-dysregulation of ZNF and HOX3 families of transcription factors.
Laan L, Klar J, Sobol M, ..., Schuster J, Dahl N
Clin Epigenetics 12 (1) 9 [2020-01-08; online 2020-01-08]
Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A Light-up Logic Platform for Selective Recognition of Parallel G-Quadruplex Structures via Disaggregation-Induced Emission.
Deiana M, Chand K, Jamroskovic J, ..., Chorell E, Sabouri N
Angew. Chem. Int. Ed. Engl. 59 (2) 896-902 [2020-01-07; online 2019-11-22]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Evolutionary History, Genomic Adaptation to Toxic Diet, and Extinction of the Carolina Parakeet.
Gelabert P, Sandoval-Velasco M, Serres A, ..., Gilbert MTP, Lalueza-Fox C
Curr. Biol. 30 (1) 108-114.e5 [2020-01-06; online 2019-12-12]
NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Metabolic Profiling and Compound-Class Identification Reveal Alterations in Serum Triglyceride Levels in Mice Immunized with Human Vaccine Adjuvant Alum.
Khoomrung S, Nookaew I, Sen P, ..., Harandi AM, Nielsen J
J. Proteome Res. 19 (1) 269-278 [2020-01-03; online 2019-11-01]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Integrative discovery of treatments for high-risk neuroblastoma.
Almstedt E, Elgendy R, Hekmati N, ..., Krona C, Nelander S
Nat Commun 11 (1) 71 [2020-01-03; online 2020-01-03]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
The Mitogenome of Norway Spruce and a Reappraisal of Mitochondrial Recombination in Plants.
Sullivan AR, Eldfjell Y, Schiffthaler B, ..., Street NR, Wang XR
Genome Biol Evol 12 (1) 3586-3598 [2020-01-01; online 2019-11-28]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Genome of the Endangered Dryas Monkey Provides New Insights into the Evolutionary History of the Vervets.
van der Valk T, Gonda CM, Silegowa H, ..., Detwiler KM, Guschanski K
Mol. Biol. Evol. 37 (1) 183-194 [2020-01-01; online 2019-09-19]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Hepatitis E virus genotype 3 strains and a plethora of other viruses detected in raw and still in tap water.
Wang H, Kjellberg I, Sikora P, ..., Bergstedt O, Norder H
Water Res. 168 (-) 115141 [2020-01-01; online 2019-09-30]
Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Discovery of Novel Sequences in 1,000 Swedish Genomes.
Eisfeldt J, Mårtensson G, Ameur A, Nilsson D, Lindstrand A
Mol. Biol. Evol. 37 (1) 18-30 [2020-01-01; online 2019-09-29]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
A dual-action peptide-containing hydrogel targets wound infection and inflammation.
Puthia M, Butrym M, Petrlova J, ..., Kjellström S, Schmidtchen A
Sci Transl Med 12 (524) eaax6601 [2020-01-01; online 2020-01-03]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Whole genome sequencing of apparently mutation-negative MEN1 patients.
Backman S, Bajic D, Crona J, ..., Skogseid B, Stålberg P
Eur. J. Endocrinol. 182 (1) 35-45 [2020-01-00; online 2019-10-29]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Variable neurodevelopmental and morphological phenotypes of carriers with 12q12 duplications.
Myers L, Blyth M, Moradkhani K, ..., Anderlid BM, Tammimies K
Mol Genet Genomic Med 8 (1) e1013 [2020-01-00; online 2019-11-15]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The Proteome of the Dentate Terminal Zone of the Perforant Path Indicates Presynaptic Impairment in Alzheimer Disease.
Haytural H, Mermelekas G, Emre C, ..., Tjernberg LO, Frykman S
Mol. Cell Proteomics 19 (1) 128-141 [2020-01-00; online 2019-11-07]
Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Collaborative]
PubMed DOI Crossref
Regulation of α-synuclein by chaperones in mammalian cells.
Burmann BM, Gerez JA, Matečko-Burmann I, ..., Riek R, Hiller S
Nature 577 (7788) 127-132 [2020-01-00; online 2019-12-04]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Protein and DNA methylation-based scores as surrogate markers for interferon system activation in patients with primary Sjögren's syndrome.
Björk A, Richardsdotter Andersson E, Imgenberg-Kreuz J, ..., Nordmark G, Wahren-Herlenius M
RMD Open 6 (1) e000995 [2020-01-00; online 2020-01-21]
Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service] Clinical Biomarkers [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
Probabilistic cell typing enables fine mapping of closely related cell types in situ.
Qian X, Harris KD, Hauling T, ..., Hjerling-Leffler J, Nilsson M
Nat. Methods 17 (1) 101-106 [2020-01-00; online 2019-11-18]
Bioinformatics Support for Computational Resources [Service] In Situ Sequencing (ISS) [Service]
PubMed DOI Crossref
NMR Spectroscopic Analysis to Evaluate the Quality of Insulin: Concentration, Variability, and Excipient Content.
Malmodin D, Pedersen A, Karlsson BG, Forsander G
J Diabetes Sci Technol 14 (1) 180-184 [2020-01-00; online 2019-02-19]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
NIST Interlaboratory Study on Glycosylation Analysis of Monoclonal Antibodies: Comparison of Results from Diverse Analytical Methods.
De Leoz MLA, Duewer DL, Fung A, ..., Yuan H, Stein SE
Mol. Cell Proteomics 19 (1) 11-30 [2020-01-00; online 2019-10-07]
Glycoproteomics and MS Proteomics [Collaborative]
PubMed DOI Crossref
Molecular mechanisms of collateral sensitivity to the antibiotic nitrofurantoin.
Roemhild R, Linkevicius M, Andersson DI
PLoS Biol. 18 (1) e3000612 [2020-01-00; online 2020-01-27]
Glycoproteomics and MS Proteomics [Service]
PubMed DOI Crossref
Metabolic response patterns in brain microdialysis fluids and serum during interstitial cisplatin treatment of high-grade glioma.
Björkblom B, Jonsson P, Tabatabaei P, ..., Bergenheim AT, Antti H
Br. J. Cancer 122 (2) 221-232 [2020-01-00; online 2019-12-10]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Identification of novel diagnostic and prognostic biomarkers for abdominal aortic aneurysm.
Memon AA, Zarrouk M, Ågren-Witteschus S, ..., Gottsäter A, Sundquist K
Eur J Prev Cardiol 27 (2) 132-142 [2020-01-00; online 2019-08-29]
Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]
PubMed DOI Crossref
IDDomainSpotter: Compositional bias reveals domains in long disordered protein regions-Insights from transcription factors.
Millard PS, Bugge K, Marabini R, ..., Burow M, Kragelund BB
Protein Sci. 29 (1) 169-183 [2020-01-00; online 2019-11-11]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Genotypic variation in Norway spruce correlates to fungal communities in vegetative buds.
Elfstrand M, Zhou L, Baison J, ..., Stenlid J, García-Gil MR
Mol. Ecol. 29 (1) 199-213 [2020-01-00; online 2019-12-09]
NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Genome-wide signatures of environmental adaptation in European aspen (Populus tremula) under current and future climate conditions.
Ingvarsson PK, Bernhardsson C
Evol Appl 13 (1) 132-142 [2020-01-00; online 2019-04-02]
Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Do we really know who has an MGMT methylated glioma? Results of an international survey regarding use of MGMT analyses for glioma.
Malmström A, Łysiak M, Kristensen BW, ..., Henriksson R, Söderkvist P
Neurooncol Pract 7 (1) 68-76 [2020-01-00; online 2019-09-24]
Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Developmental exposure to a human relevant mixture of endocrine disruptors alters metabolism and adipogenesis in zebrafish (Danio rerio).
Mentor A, Brunström B, Mattsson A, Jönsson M
Chemosphere 238 (-) 124584 [2020-01-00; online 2019-08-13]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Circadian regulation of phosphodiesterase 6 genes in zebrafish differs between cones and rods: Implications for photopic and scotopic vision.
Abalo XM, Lagman D, Heras G, ..., Eggert J, Larhammar D
Vision Res. 166 (-) 43-51 [2020-01-00; online 2019-12-16]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
Cell-of-origin determined by both gene expression profiling and immunohistochemistry is the strongest predictor of survival in patients with diffuse large B-cell lymphoma.
Abdulla M, Hollander P, Pandzic T, ..., Rosenquist R, Amini RM
Am. J. Hematol. 95 (1) 57-67 [2020-01-00; online 2019-11-07]
Bioinformatics Support for Computational Resources [Service] Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Association of genetic variants related to plasma fatty acids with type 2 diabetes mellitus and glycaemic traits: a Mendelian randomisation study.
Yuan S, Larsson SC
Diabetologia 63 (1) 116-123 [2020-01-00; online 2019-11-05]
Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Regeneration of water-deactivated Cu/SAPO-34(MO) with acids
Woo J, Bernin D, Ahari H, ..., Zammit M, Olsson L
Catal. Sci. Technol. 10 (5) 1539-1550 [2020-00-00; online 2020-00-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
In Situ Sequencing: A High-Throughput, Multi-Targeted Gene Expression Profiling Technique for Cell Typing in Tissue Sections
Hilscher MM, Gyllborg D, Yokota C, Nilsson M
Methods Mol. Biol. 2148 (-) 313-329 [2020-00-00; online 2020-05-12]
Bioinformatics Support for Computational Resources [Service] In Situ Sequencing (ISS) [Collaborative]
DOI Crossref
An integrative toolbox to unlock the structure and dynamics of protein–surfactant complexes
Sanchez-Fernandez A, Diehl C, Houston JE, ..., Sjögren H, Wahlgren M
Nanoscale Adv. 2 (9) 4011-4023 [2020-00-00; online 2020-00-00]
Swedish NMR Centre (SNC) [Service]
DOI Crossref
A Chemical Screen Identifies a Link between Lipid Metabolism and mRNA Translation
Corman A, Kanellis DC, Häggblad M, ..., Carreras-Puigvert J, Fernandez-Capetillo O
SSRN Journal - (-) - [2020-00-00; online 2020-00-00]
Chemical Biology Consortium Sweden (CBCS) [Service]
SciLifeLab Data Centre
Publications 9.5.1