[BiO BB] a validation study
idoerg at burnham.org
Mon Dec 6 17:45:51 EST 2004
l x yi wrote:
>I have developed a new method for searching protein
>banks with PSSM (position-specific matrices). To do a
>validation analysis of the method on real protein
>sequences, I need to decide
>-- a selection of some position-specific matrices for
>major protein domains
>-- a databank of single sequences
>-- a gold standard of which sequences truly belonged
>to which protein domain
>Could anyone suggest some reliable sources of
>references as to how to conduct this validation
>analysis? Any suggestions are appreciated.
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>BiO_Bulletin_Board maillist - BiO_Bulletin_Board at bioinformatics.org
How about looking at the papers which have already used PSSM-based
searching, and choosing your benchmarks from there?
Iddo Friedberg, Ph.D.
The Burnham Institute
10901 N. Torrey Pines Rd.
La Jolla, CA 92037 USA
Tel: +1 (858) 646 3100 x3516
Fax: +1 (858) 713 9930
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