[Bioperl-l] protein identification program for proteomics

[Aaron J Mackey]

The FASTA package includes a variant called 'FASTS' which searches
a database with multiple sequence fragments (presumably obtained by
tandem-MS experiments) simultaneously.  The advantage is that you get to
identity proteins that have not yet been sequenced, and you get to search
nucleotide databases (with 'TFASTS').  There's the additional advantage of
being able to assess statistical significance to your results.

A molecular weight cutoff/filter is also available as an option.

-Aaron

On Thu, 14 Sep 2000, Tsvika wrote:

> Hi all,
> 
> I am looking for a stand alone protein identification program for
> proteomics written in Perl to run on my Linux box.  This program will
> identify proteins based on their molecular weight, and their N-terminal,
> or C-terminal sequence (a short one that you get from micro sequencing).
> The program will search flat files of amino acids sequences from the
> generic databases.
> 
> Please your help or advise?
> 
> Thanks in advance,
> 
> Tsvika.
> 

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