Question: database of genetic alternations for inherited cancer
1
gravatar for J.F.Jiang
4.7 years ago by
J.F.Jiang750
China
J.F.Jiang750 wrote:

Hi all,

We are going to start up a project to investigate the possibility of get inherited cancer by screening genetic alternations of genes, e.g., BRCA1/BRCA2 for breast cancer.

However, how to annotate these SNVs might be quite difficult.

One convenient way is to compare the results with those published data to check whether the SNV might drive the cancer.

I know one comercial database is HGMD, is there any public database that I can check in terms of cancer type, such as breast cancer, colorectal cancer, ovrian cancer ...

 

Thanks

cancer genetic database • 1.5k views
ADD COMMENTlink modified 4.0 years ago by wangjq0 • written 4.7 years ago by J.F.Jiang750
1
gravatar for Giovanni M Dall'Olio
4.7 years ago by
London, UK
Giovanni M Dall'Olio26k wrote:

Look at the International Cancer Genome Consortium's data portal.  You can click on a cancer type and get the list of most frequently mutated genes. If you then click on the  # of Mutations column to get the list of most frequent mutations.

ADD COMMENTlink written 4.7 years ago by Giovanni M Dall'Olio26k

The ICGC is a large portal offering collected data from other large projects, such as TCGA.

However, what I am looking for is the genetic variation for cancer, not the somatic ones.

So either TCGA or ICGC is a good source for investigation.

Thanks.

ADD REPLYlink written 4.7 years ago by J.F.Jiang750
0
gravatar for Mary
4.7 years ago by
Mary11k
Boston MA area
Mary11k wrote:

Just today I was looking around COSMIC for something else, and found myself on their tabs variation data for a gene I happened to be looking into. They have a number of ways you can explore the data and you might find some useful things in there.

COSMIC main site: http://cancer.sanger.ac.uk

Recent paper about their project: http://nar.oxfordjournals.org/content/43/D1/D805.full

ADD COMMENTlink written 4.7 years ago by Mary11k

Thanks, Mary.

The COSMIC database is a large complex union for cancer variation detection. However, it is also collected from those somatic mutations, but not the variants inherited.

ADD REPLYlink written 4.7 years ago by J.F.Jiang750
0
gravatar for wangjq
4.0 years ago by
wangjq0
China
wangjq0 wrote:

Have you found the database?

ADD COMMENTlink written 4.0 years ago by wangjq0
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