Title: An expert system to predict protein thermostability using decision tree
Authors: Wu, Li-Cheng
Lee, Jian-Xin
Huang, Hsien-Da
Liu, Baw-Juine
Horng, Jorng-Tzong
Institude of Bioinformatics and Systems Biology
Keywords: Expert system;Machine learning;Bioinformatics;Protein thermostability;Decision Tree
Issue Date: 1-Jul-2009
Abstract: Protein thermostability information is closely linked to commercial production of many biomaterials. Recent developments have shown that amino acid composition, special sequence patterns and hydrogen bonds, disulfide bonds, salt bridges and so on are of considerable importance to thermostability. In this study, we present a system to integrate these various factors that predict protein thermostability. In this study, the features of proteins in the PGTdb are analyzed. We consider both structure and sequence features and correlation coefficients are incorporated into the feature selection algorithm. Machine learning algorithms are then used to develop identification systems and performances between the different algorithms are compared. In this research, two features, (E + F + M + R)/residue and charged/non-charged, are found to be critical to the thermostability of proteins. Although the sequence and structural models achieve a higher accuracy, sequence-only models provides sufficient accuracy for sequence-only thermostability prediction. (C) 2008 Elsevier Ltd. All rights reserved.
URI: http://dx.doi.org/10.1016/j.eswa.2008.12.020
ISSN: 0957-4174
DOI: 10.1016/j.eswa.2008.12.020
Volume: 36
Issue: 5
Begin Page: 9007
End Page: 9014
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