Question: Data repository for Whole Exome Sequencing
0
gravatar for Alejandro Jimenez Sanchez
3.3 years ago by
Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK

Hi,

I was wondering if there is any data repository like GEO for Whole Exome Sequencing data.

Thanks for your help.

Alejandro

UPDATE

If anyone has the same question, it was quite easy to upload the bam files to the SRA database.

Thanks for the suggestions!

wes database geo • 1.9k views
ADD COMMENTlink modified 3.2 years ago • written 3.3 years ago by Alejandro Jimenez Sanchez120
1
gravatar for genomax
3.3 years ago by
genomax80k
United States
genomax80k wrote:

NCBI SRA. Also accessible from EBI-ENA and DDBJ.

ADD COMMENTlink written 3.3 years ago by genomax80k
1
gravatar for igor
3.3 years ago by
igor9.8k
United States
igor9.8k wrote:

I would add dbGaP to the list.

NCBI actually has a nice page explaining the different databases it hosts for public data: https://www.ncbi.nlm.nih.gov/home/submit-wizard.shtml

dbGaP archives descriptions, supporting documentation and results of human clinical and non-clinical studies investigating the interactions of human genotype and phenotype, including genome-wide association studies.

ADD COMMENTlink written 3.3 years ago by igor9.8k
0
gravatar for mastal511
3.3 years ago by
mastal5112.0k
mastal5112.0k wrote:

There is also ExAC, hosted by the Broad Institute, http://exac.broadinstitute.org/

ADD COMMENTlink written 3.3 years ago by mastal5112.0k

I was unable to find any sequence data there, just variant calls...

ADD REPLYlink written 3.3 years ago by Brian Bushnell17k

ExAc is not a repository for hosting raw sequencing data.

ADD REPLYlink written 3.3 years ago by poisonAlien2.8k

I stand corrected. Looks like ExAC is a repository for aggregating the results of human exome studies, but not the actual sequencing reads.

ADD REPLYlink written 3.3 years ago by mastal5112.0k
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