Protein & Peptide Letters

Prof. Ben M. Dunn  
Department of Biochemistry and Molecular Biology
University of Florida
College of Medicine
P.O. Box 100245
Gainesville, FL


Predicting Protein Subcellular Location Using Chous Pseudo Amino Acid Composition and Improved Hybrid Approach

Author(s): Feng-Min Li, Qian-Zhong Li.


The location of a protein in a cell is closely correlated with its biological function. Based on the concept that the protein subcellular location is mainly determined by its amino acid and pseudo amino acid composition (PseAA), a new algorithm of increment of diversity combined with support vector machine is proposed to predict the protein subcellular location. The subcellular locations of plant and non-plant proteins are investigated by our method. The overall prediction accuracies in jackknife test are 88.3% for the eukaryotic plant proteins and 92.4% for the eukaryotic non-plant proteins, respectively. In order to estimate the effect of the sequence identity on predictive result, the proteins with sequence identity 40% are selected. The overall success rates of prediction are 86.2% and 92.3% for plant and non-plant proteins in jackknife test, respectively.

Keywords: Subcellular location, increment of diversity, support vector machine, Chou's pseudo amino acid composition

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Article Details

Year: 2008
Page: [612 - 616]
Pages: 5
DOI: 10.2174/092986608784966930
Price: $58