Context-specific BLAST

Context-specific BLAST

Postby soeding on Wed Feb 25, 2009 4:45 am

Dear CASP attendees,

our article on context-specific profile searches has just been published by PNAS. Here's the pdf:
http://www.pnas.org/content/early/2009/ ... l.pdf+html

In this work, we develop a sequence search methodology that takes local sequence context into account. Our context-specific extension to BLAST(CS-BLAST) has two-fold increased sensitivity at the same error rate and speed. Two search iterations of our context-specific PSI-BLAST (CSI-BLAST) find more homologs than five iterations of normal PSI-BLAST. Binaries are available from
ftp://toolkit.lmb.uni-muenchen.de/csblast/

If you find the method helpful, please spread the word. Thanks.

Best regards,
Johannes
soeding
 
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