Question: BLAST against cancer genome
0
gravatar for mhasa006
5 months ago by
mhasa00640
United States
mhasa00640 wrote:

I need to BLAST a particular gene against many cancer genomes. Is there a tool/webtool where I can do that? If not, where can I find the latest downloads of cancer genomes? I can run BLAST locally then. But I would prefer if there is a webtool for this. Thanks.

cancer blast genome gene • 234 views
ADD COMMENTlink modified 4 months ago by Biostar ♦♦ 20 • written 5 months ago by mhasa00640

Are you sure BLAST is the right tool here? Can you explain better what you aim to achieve? In which file format are those genomes?

ADD REPLYlink written 5 months ago by WouterDeCoster38k

I need to find if the gene is translocated.

ADD REPLYlink written 5 months ago by mhasa00640

In which file format are those genomes?

ADD REPLYlink written 5 months ago by WouterDeCoster38k

I don't have the genomes. I am looking for cancer genomes.

ADD REPLYlink written 5 months ago by mhasa00640

I am looking for cancer genomes.

Maybe you should start there, then. You'll find aligned reads in BAM format. Those are not suitable to use BLAST on.

ADD REPLYlink written 5 months ago by WouterDeCoster38k
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