BLAST against cancer genome

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6.0 years ago

mhasa006 ▴ 70

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 gene genome • 1.5k views

ADD COMMENT • link updated 6.0 years ago by Biostar 20 • written 6.0 years ago by mhasa006 ▴ 70

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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 REPLY • link 6.0 years ago by WouterDeCoster 47k

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I need to find if the gene is translocated.

ADD REPLY • link 6.0 years ago by mhasa006 ▴ 70

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In which file format are those genomes?

ADD REPLY • link 6.0 years ago by WouterDeCoster 47k

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

ADD REPLY • link 6.0 years ago by mhasa006 ▴ 70

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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 REPLY • link 6.0 years ago by WouterDeCoster 47k

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