Difference between revisions of "Jpred"

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Revision as of 20:56, 2 June 2011

Jpred

Basic Information

Jnet
Author James A. Cuff, Geoffrey J. Barton
Year 2000
Reference PubMed 10861942
ML Method Neural Network

Jpred itself is just a Protein Secondary Structure Prediction server, which exists since 1998 in different versions. JPred predicts Solvent Accessibility and Coiled-coil regions with the Lupas method and the secondary structure with the Jnet algorithm.

Jnet

<<under construction>>

Jnet uses neural networks for its prediction. first, input: window of 17 residues over each amino acid in the alignment plus the addition of a conservation number; nine hidden nodes; three output nodes

second, input: window of 19 residues (result of first network) plus the conservation number; nine hidden nodes; three output nodes

input: multiple sequence alignment output: for each amino-acid three scores for three secondary structure elements (Helix, Sheet, Coil)