Question: Cancer database with both germline and genome-wide sequencing data
gravatar for YanO
12 weeks ago by
United Kingdom
YanO90 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 12 weeks ago by Samuel Brady230 • written 12 weeks ago by YanO90
gravatar for Samuel Brady
12 weeks ago by
Samuel Brady230
Samuel Brady230 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 12 weeks ago by Samuel Brady230
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