[BiO BB] Search a Profile against a sequence database

[Ryan Golhar]

You can use PSI-BLAST.  Generate your sequence database using formatdb
from the NCBI toolkit, and then use PSI-BLAST to search your custom
database using your profile...

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Ryan Golhar
Computational Biologist
The Informatics Institute at
The University of Medicine & Dentistry of NJ

Phone: 973-972-5034
Fax: 973-972-7412
Email: golharam at umdnj.edu

-----Original Message-----
From: bio_bulletin_board-admin at bioinformatics.org
[mailto:bio_bulletin_board-admin at bioinformatics.org] On Behalf Of Raj
Sent: Wednesday, September 08, 2004 5:00 PM
To: bio_bulletin_board at bioinformatics.org
Subject: [BiO BB] Search a Profile against a sequence database


Hi all,
     I am looking for some tool that enables me to search a (custom)
sequence database using the 'profile' (BLAST generated) of the query
sequence rather than a query sequence itself. If anyone is aware of any
such tool, please let me know.

Regards,
Raj
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