[BiO BB] Analysis of mass spectrometry results using custom protein databases

Iddo Friedberg idoerg at gmail.com
Wed Nov 12 18:07:21 EST 2008


Have you tried cutdb?

http://cutdb.burnham.org/



On Tue, Nov 11, 2008 at 3:48 AM, Vered Caspi <veredcc at bgu.ac.il> wrote:

> Hello,
>
> I received mass spec data for proteins (tryptic peptides) of a rare
> organism. Data analysis using web-based programs against standard protein
> databases did not yield results.
>
> We would like to run the analysis against a collection of the protein
> sequences from our organism, which we have constructed in-house.
>
> My question is whether there is a public program which can accept the
> protein sequences, "cut" them bioinformatically, and use that to identify
> the proteins analyzed in the mass sptrometry.
>
>                       Vered
>
> ______________________________________________________________
> Vered Caspi, Ph.D.
> Bioinformatics Core Facility, Head
> National Institute for Biotechnology in the Negev
> Building 39, room 214
> Ben-Gurion University of the Negev
> Beer-Sheva 84105, Israel
>
> Email:  <mailto:veredcc at bgumail.bgu.ac.il> veredcc at bgumail.bgu.ac.il
> Tel: 08-6479034 054-7915969
> Fax: 08-6472983
>
>  <http://bioinfo.bgu.ac.il> http://bioinfo.bgu.ac.il
> ______________________________________________________________
>
>
>
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>



-- 
Iddo Friedberg, Ph.D.
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