ANNOUNCEMENT: NetChop 1.0 prediction (web)server.
http://www.cbs.dtu.dk/services/NetChop/
For prediction of proteasomal cleavages. Proteasomes, major proteolytic components
in eukaryotic cells, play an important part in the host immune response, as
they generate major histocompatibility class I (MHC I) ligands. Prediction of
proteasomal cleavage sites is a difficult task because the enzymatic
specificity is highly complex, and the data available is very sparse.
The server, based on artificial neural networks, is trained on experimentally
verified, naturally processed cleavage sites (i.e. MHC I ligands). The method
is able to predict most of the assigned non-cleavage sites, and has a somewhat
lower performance on the assigned cleavage sites, reflecting the stochastic
nature of proteasomal activity. This tool, in combination with a predictor of
MHC binding capacity, would give a more complete prediction of the generation
and presentation of peptides on MHC I molecules.
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Can Kesmir
Centre for Biol. Seq. Anal. Email: kesmir at cbs.dtu.dk
Dept of Biotech, Bldg-208 Tel: +45-4525-2472
The Technical Univ of Denmark Fax: +45-4593-1585
Lyngby, DK-2800, Denmark
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