Stand alone Blast

Everything on bioinformatics, the science of information technology as applied to biological research.

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magicsiew
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Stand alone Blast

Post by magicsiew » Wed Jan 05, 2011 1:48 pm

Hi, I have download whole banana EST from GenBank (more than 30,000 EST), then I want to do stand alone blast against my gene of interest collected from other species, but not yet annotated in GenBank. However, after I perform stand alone blast, found no match on my gene of interest. What I want to ask is my method using stand alone blast to find the matching is correct or not? Or stand alone blast can't do that? And do you have any suggestion on other software to use? Thank you... ^^

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JackBean
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Post by JackBean » Thu Jan 06, 2011 4:55 pm

I don't think the problem would be in algorithm (stand alone BLAST), but rather in settings or absence of your gene ;)
http://www.biolib.cz/en/main/

Cis or trans? That's what matters.

magicsiew
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Post by magicsiew » Thu Jan 06, 2011 6:55 pm

Hi JackBean, thanks.. Ya, is really due to absence of the gene...

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