Bioinformatics Compute and Storage

SciLifeLab National facility since 2013. Previously associated with the UPPNEX project at UPPMAX.

870 publications

Year 2020

Year 2019

MYCN-enhanced Oxidative and Glycolytic Metabolism Reveals Vulnerabilities for Targeting Neuroblastoma.
Oliynyk G, Ruiz-Pérez MV, Sainero-Alcolado L, ..., Lehtiö J, Arsenian-Henriksson M
pii: S2589-0042(19)30399-2 pmc: PMC6889365
iScience 21 (-) 188-204 [2019-11-22; online 2019-10-11]
Bioinformatics Compute and Storage [Service] Proteogenomics [Collaborative]
Cell generation dynamics underlying naive T-cell homeostasis in adult humans.
Mold JE, Réu P, Olin A, ..., Brodin P, Frisén J
pii: PBIOLOGY-D-19-01355
PLoS Biol. 17 (10) e3000383 [2019-10-00; online 2019-10-29]
Bioinformatics Compute and Storage [Service] Mass Cytometry [Collaborative]
A Call for Blood-In Human Immunology.
Brodin P, Duffy D, Quintana-Murci L
pii: S1074-7613(19)30232-8
Immunity 50 (6) 1335-1336 [2019-06-18; online 2019-06-20]
Bioinformatics Compute and Storage [Service] Mass Cytometry [Technology development]
The viral protein corona directs viral pathogenesis and amyloid aggregation.
Ezzat K, Pernemalm M, Pålsson S, ..., Spetz AL, El Andaloussi S
pii: 10.1038/s41467-019-10192-2 pmc: PMC6536551
Nat Commun 10 (1) 2331 [2019-05-27; online 2019-05-27]
Bioinformatics Compute and Storage [Service] Proteogenomics [Technology development]
Spatiotemporal dissection of the cell cycle regulated human proteome
Mahdessian D, Sullivan D, Danielsson F, ..., Lindskog C, Lundberg E
- - (-) - [2019-02-07; online 2019-02-07]
Bioinformatics Compute and Storage [Service] Cell Profiling [Collaborative]

Year 2018

Sharing of photobionts in sympatric populations of Thamnolia and Cetraria lichens: evidence from high-throughput sequencing
Onuț-Brännström I, Benjamin M, Scofield DG, ..., Lindström ES, Johannesson H
ENA: ERR2307093 ENA: ERR2307094 ENA: ERR2307095 ENA: ERR2307096 ENA: ERR2307097 ENA: ERR2307098 GENBANK: MG372066
Sci Rep 8 (1) - [2018-12-00; online 2018-03-13]
Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
Chorea, psychosis, acanthocytosis, and prolonged survival associated with
Paucar M, Pajak A, Freyer C, ..., Wredenberg A, Svenningsson P
pii: WNL.0000000000006320 pmc: PMC6177277
Neurology 91 (15) 710-712 [2018-10-09; online 2018-09-14]
Bioinformatics Compute and Storage [Service] Clinical Genomics Stockholm [Service]
Enhanced validation of antibodies for research applications.
Edfors F, Hober A, Linderbäck K, ..., Forsström B, Uhlen M
pii: 10.1038/s41467-018-06642-y pmc: PMC6175901 ProteomeXchange: PXD005914 ProteomeXchange: PXD010178 Panorama Public Datasets: https://panoramaweb.org/western_blot.url BioProject: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA183192 BioProject: PRJNA183192
Nat Commun 9 (1) 4130 [2018-10-08; online 2018-10-08]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
Genetic analysis of over 1 million people identifies 535 new loci associated with blood pressure traits.
Evangelou E, Warren HR, Mosen-Ansorena D, ..., Caulfield MJ, Million Veteran Program
pii: 10.1038/s41588-018-0205-x
Nat. Genet. 50 (10) 1412-1425 [2018-10-00; online 2018-09-17]
Bioinformatics Compute and Storage [Service]
Contribution of allelic imbalance to colorectal cancer.
Palin K, Pitkänen E, Turunen M, ..., Taipale J, Aaltonen LA
pii: 10.1038/s41467-018-06132-1 pmc: PMC6131244 European Nucleotide Archive: PRJEB25645 European Genome-phenome Archive: EGAS00001002966 European Genome-phenome Archive: EGAS00001003010 Zenodo: https://doi.org/10.5281/zenodo.1222172
Nat Commun 9 (1) 3664 [2018-09-10; online 2018-09-10]
Bioinformatics Compute and Storage [Service] High-throughput Genome Engineering (HTGE) [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
The molecular genetic basis of herbivory between butterflies and their host plants.
Nallu S, Hill JA, Don K, ..., Wheat CW, Kronforst MR
pii: 10.1038/s41559-018-0629-9 pmc: PMC6149523 mid: NIHMS979338 SRA: SRP134094 Transcriptome Shotgun Assembly Sequence Database: GGJX00000000 Transcriptome Shotgun Assembly Sequence Database: GGKA00000000 Transcriptome Shotgun Assembly Sequence Database: GGJQ00000000 Transcriptome Shotgun Assembly Sequence Database: GGJO00000000 Transcriptome Shotgun Assembly Sequence Database: GGJY00000000 Transcriptome Shotgun Assembly Sequence Database: GGJZ00000000 Transcriptome Shotgun Assembly Sequence Database: GGKB00000000 Transcriptome Shotgun Assembly Sequence Database: GGKC00000000
Nat Ecol Evol 2 (9) 1418-1427 [2018-09-00; online 2018-08-03]
Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
OLMα2 Cells Bidirectionally Modulate Learning
Siwani S, França ASC, Mikulovic S, ..., Tort ABL, Kullander K
Neuron 99 (2) 404-412.e3 [2018-07-00; online 2018-07-00]
Advanced Light Microscopy (ALM) [Collaborative] Bioinformatics Compute and Storage [Service]
ILF2 and ILF3 are autoantigens in canine systemic autoimmune disease.
Bremer HD, Landegren N, Sjöberg R, ..., Kämpe O, Hansson-Hamlin H
pii: 10.1038/s41598-018-23034-w pmc: PMC5859008
Sci Rep 8 (1) 4852 [2018-03-19; online 2018-03-19]
Autoimmunity Profiling [Service] Bioinformatics Compute and Storage [Service]
Kynurenic Acid and Gpr35 Regulate Adipose Tissue Energy Homeostasis and Inflammation.
Agudelo LZ, Ferreira DMS, Cervenka I, ..., Berggren P, Ruas JL
pii: S1550-4131(18)30053-6
Cell Metab. 27 (2) 378-392.e5 [2018-02-06; online 2018-02-08]
Bioinformatics Compute and Storage [Service] Mass Cytometry [Collaborative]
Genetical genomics of growth in a chicken model.
Johnsson M, Henriksen R, Höglund A, ..., Jensen P, Wright D
pii: 10.1186/s12864-018-4441-3 pmc: PMC5782384 ArrayExpress: E-MTAB-5572
BMC Genomics 19 (1) 72 [2018-01-23; online 2018-01-23]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

Year 2017

Transcriptomics and methylomics of CD4-positive T cells in arsenic-exposed women.
Engström K, Wojdacz TK, Marabita F, ..., Vahter M, Broberg K
pii: 10.1007/s00204-016-1879-4