RNA-Seq data release for 1000 genomes samples

geuvadisGEUVADIS – Genetic European Variation in Disease, A European Medical Sequencing Consortium – We are committed to gaining insights into the human genome and its role in health and medicine by sharing data, experience and expertise in high-throughput sequencing. Funded by the European Commission (FP7, HEALTH), GEUVADIS brings together 17 partners including academic institutes and private companies from 7 different countries.

EMBARGO STATEMENT

Note that the data is under embargo based on the Fort Lauderdale Agreement until the first publication by the investigators in early 2013 – the data can be freely downloaded and used in analysis, but any results based on these data can not be submitted for publication until the main paper has been accepted.

DATA

Data are deposited into ArrayExpress (including BAM files) and ENA (excluding BAM files, since it takes more time).

Accessions numbers in ArrayExpress: E-GEUV-1 (for mRNA), E-GEUV-2 (for microRNA)
http://www.ebi.ac.uk/arrayexpress/browse.html?keywords=E-GEUV-1
http://www.ebi.ac.uk/arrayexpress/browse.html?keywords=E-GEUV-2

Fastq files are available as links to ENA from the sample meta-data description page (which is also available from the study description page):
http://www.ebi.ac.uk/arrayexpress/experiments/E-GEUV-1/samples.html
http://www.ebi.ac.uk/arrayexpress/experiments/E-GEUV-2/samples.html

All other ENA data objects are also available through ArrayExpress interface. Here are the accessions to ENA studies: ERP001942,ERP001941 and runs:
mRNA-seq
http://www.ebi.ac.uk/ena/data/view/ERR188021-ERR188482
microRNA-seq
http://www.ebi.ac.uk/ena/data/view/ERR187488-ERR187939

ALIGNEMENT DETAILS
The gem mapper:
http://algorithms.cnag.cat/wiki/Main_Page
The GEM-Tools library we developed to be used as Mapping pipeline:
http://github.com/gemtools/gemtools