More of a question than an answer but what exactly are you doing? Are these cleanly sliced or were they digested in an environment where they may have been further modified? For that matter, is the organism unusual enough to suspect unusual post-translational modifications? etc.
> From: [EMAIL PROTECTED] > To: [email protected] > Date: Tue, 11 Nov 2008 13:48:46 +0200 > Subject: [BiO BB] Analysis of mass spectrometry results using custom protein > databases > > 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: [EMAIL PROTECTED] > Tel: 08-6479034 054-7915969 > Fax: 08-6472983 > > http://bioinfo.bgu.ac.il > ______________________________________________________________ > > > > _______________________________________________ > BBB mailing list > [email protected] > http://www.bioinformatics.org/mailman/listinfo/bbb _________________________________________________________________ Get 5 GB of storage with Windows Live Hotmail. http://windowslive.com/Explore/Hotmail?ocid=TXT_TAGLM_WL_hotmail_acq_5gb_112008 _______________________________________________ BBB mailing list [email protected] http://www.bioinformatics.org/mailman/listinfo/bbb
