Question: Cancer database with both germline and genome-wide sequencing data
gravatar for YanO
3.0 years ago by
United Kingdom
YanO130 wrote:

I am looking for a database where I can find germline, genome-wide/noncoding sequencing data in cancer patients.

There are plenty of exome-sequencing studies and somatic variant calls available but I'm having real trouble finding something with my exact specifictions of germline & genome-wide/noncoding (& preferably breast cancer).

The TCGA database seems to me to have germline data from breast cancer patients, but I think it is only whole-exome-sequencing. So far I have found one study through the ICGC, it's controlled data from WGS in French patients. link here

Has anyone spotted a similar study/database?

At this stage I'd be willing to have a look at somatic variants without the germline filtered out, if that's possible, and failing that I'd be willing to branch out to ovarian cancer... Thanks!

ADD COMMENTlink modified 3.0 years ago by Samuel Brady310 • written 3.0 years ago by YanO130
gravatar for Samuel Brady
3.0 years ago by
Samuel Brady310
Samuel Brady310 wrote:

In this study 560 breast cancer whole-genomes were sequenced: The data are deposited on EGA here: At EGA you have to request data access but sometimes the process is relatively smooth. Good luck.

ADD COMMENTlink written 3.0 years ago by Samuel Brady310
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