A Study of Residue Correlation within Protein Sequences and Its Application to Sequence Classification. (10th September 2007)

• Record Type: Journal Article
• Authors: Hemmerich, Chris; Kim, Sun
• Other Names: Rousu Juho Academic Editor.
• Is Part Of: EURASIP journal on bioinformatics and systems biology. Volume 2007(2007)
• Publication Date: 2007-09-10
• Subjects: Bioinformatics -- Periodicals; Systems biology -- Periodicals; Systems Biology; Signal Processing, Computer-Assisted; Bio-informatique; Biologie systémique; Bioinformatics; Systems biology; Systems Biology; Bioinformatics; Electronic journals; Periodical; Fulltext; Internet Resources; Periodicals; Periodicals; 570.285
• DOI: 10.1155/2007/87356
• Languages: English
• ISSNs: 1687-4145

Abstract

Abstract : We investigate methods of estimating residue correlation within protein sequences. We begin by using mutual information (MI) of adjacent residues, and improve our methodology by defining the mutual information vector (MIV) to estimate long range correlations between nonadjacent residues. We also consider correlation based on residue hydropathy rather than protein-specific interactions. Finally, in experiments of family classification tests, the modeling power of MIV was shown to be significantly better than the classic MI method, reaching the level where proteins can be classified without alignment information.