AMS 4.0: consensus prediction of post-translational modifications in protein sequences.

ABSTRACT: We present here the 2011 update of the AutoMotif Service (AMS 4.0) that predicts the wide selection of 88 different types of the single amino acid post-translational modifications (PTM) in protein sequences. The selection of experimentally confirmed modifications is acquired from the latest UniProt and Phospho.ELM databases for training. The sequence vicinity of each modified residue is represented using amino acids physico-chemical features encoded using high quality indices (HQI) obtaining by automatic clustering of known indices extracted from AAindex database. For each type of the numerical representation, the method builds the ensemble of Multi-Layer Perceptron (MLP) pattern classifiers, each optimising different objectives during the training (for example the recall, precision or are

SUBMITTER: Plewczynski D 

PROVIDER: S-EPMC3397139 | biostudies-literature | 2012 Aug

REPOSITORIES: biostudies-literature