E-GEUV-3 - RNA-sequencing and small RNA-sequencing of 465 lymphoblastoid cell lines from the 1000 Genomes

Status
Released on 6 December 2012, last updated on 6 August 2014
Organism
Homo sapiens
Samples (465)
Protocols (7)
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 Geuvadis consortium.
More details about RNA-seq Geuvadis project can be found here and from Lappalainen et al. Nature 2013.
This accession contains all mRNA and small RNA sequencing data regardless quality control status, mRNA data that passed quality control filters are available under accession E-GEUV-1, small RNA sequencing data also passed quality control filters are available under accession E-GEUV-2.

Link to bam files: bam files.
Link to genomic variation data used in analysis: genotyping data.
Link to analysis results (quantifications and eQTLs): analysis results.
Link to the Geuvadis data browser: Geuvadis Data Browser.
Experiment types
RNA-seq of coding RNA, RNA-seq of non coding RNA, operator variation design, population based design
Contacts
Citations
Reproducibility of high-throughput mRNA and small RNA sequencing across laboratories. Peter A C 't Hoen, Marc R Friedländer, Jonas Almlöf, Michael Sammeth, Irina Pulyakhina, Seyed Yahya Anvar, Jeroen F J Laros, Henk P J Buermans, Olof Karlberg, Mathias Brännvall, The GEUVADIS Consortium, Johan T den Dunnen, Gert-Jan B van Ommen, Ivo G Gut, Roderic Guigó, Xavier Estivill, Ann-Christine Syvänen, Emmanouil T Dermitzakis and Tuuli Lappalainen. Nature Biotechnology 31:1015-1022 (2013), Europe PMC 24037425
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), Europe PMC 24037378
MINSEQE
Exp. designProtocolsFactorsProcessedSeq. reads
Files
Investigation descriptionE-GEUV-3.idf.txt
Sample and data relationshipE-GEUV-3.sdrf.txt
Processed data (667)Click to browse processed data
Links