E-GEUV-1 - RNA-sequencing of 465 lymphoblastoid cell lines from the 1000 Genomes

Status
Released on 6 November 2012, last updated on 22 May 2019
Organism
Homo sapiens
Samples (462)
Protocols (5)
Description
Geuvadis RNA sequencing data set of 462 unrelated human lymphoblastoid cell line samples from the CEU, FIN, GBR, TSI and YRI populations from the 1000 Genomes sample collection was created by the http://www.geuvadis.org - Geuvadis consortium. More details about RNA-seq Geuvadis project can be found here http://www.geuvadis.org/web/geuvadis/rnaseq-project and from Lappalainen et al. Nature 2013 (http://dx.doi.org/10.1038/nature12531). This accession contains mRNA sequencing data passed quality control, small RNA data from the same samples are available under accession E-GEUV-2, full Geuvadis RNA-seq dataset including all mRNA and small RNA data regardless quality control status is available under accession E-GEUV-3. Link to bam files: http://www.ebi.ac.uk/arrayexpress/experiments/E-GEUV-1/files/processed. Link to genomic variation data used in analysis: http://www.ebi.ac.uk/arrayexpress/experiments/E-GEUV-1/files/genotypes. Link to analysis results (quantifications and eQTLs): http://www.ebi.ac.uk/arrayexpress/experiments/E-GEUV-1/files/analysis_results. Link to the Geuvadis data browser: http://www.ebi.ac.uk/Tools/geuvadis-das
Experiment types
RNA-seq of coding RNA, operator variation design, population based design
Contacts
Citations
Sequence variation between 462 human individuals fine-tunes functional sites of RNA processing. Ferreira PG, Oti M, Barann M, Wieland T, Ezquina S, Friedländer MR, Rivas MA, Esteve-Codina A, GEUVADIS Consortium, Rosenstiel P, Strom TM, Lappalainen T, Guigó R, Sammeth M. , PMID:27617755
Long-Range Modulation of PAG1 Expression by 8q21 Allergy Risk Variants. Vicente CT, Edwards SL, Hillman KM, Kaufmann S, Mitchell H, Bain L, Glubb DM, Lee JS, French JD, Ferreira MA. , PMID:26211970
Transcriptome and genome sequencing uncovers functional variation in humans. Lappalainen T, Sammeth M, Friedlander MR, t Hoen PA, Monlong J, Rivas MA, Gonzalez-Porta M, Kurbatova N, Griebel T, Ferreira PG, Barann M, Wieland T, Greger L, van Iterson M, Almlof J, Ribeca P, Pulyakhina I, Esser D, Giger T, Tikhonov A, Sultan M, Bertier G, MacArthur DG, Lek M, Lizano E, Buermans HP, Padioleau I, Schwarzmayr T, Karlberg O, Ongen H, Kilpinen H, Beltran S, Gut M, Kahlem K, Amstislavskiy V, Stegle O, Pirinen M, Montgomery SB, Donnelly P, McCarthy MI, Flicek P, Strom TM, Geuvadis Consortium, Lehrach H, Schreiber S, Sudbrak R, Carracedo A, Antonarakis SE, Hasler R, Syvanen AC, van Ommen GJ, Brazma A, Meitinger T, Rosenstiel P, Guigo R, Gut IG, Estivill X, Dermitzakis ET. Nature 501(7468):506-511 (2013), PMID:24037378
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-GEUV-1.idf.txt
Sample and data relationshipE-GEUV-1.sdrf.txt
Processed data (462)Click to browse processed data
Links