Using Nonlinear Energy Operator Index As Pseudo Amino Acid Compositions for Predicting Protein Subcellular Location

Author

Guo, Xiaoli ; Chen, Xiaoming ; Qiu, Yihong ; Huang, Zhende ; Zhu, Yisheng

Author_Institution

Sch. of Life Sci. & Biotechnol., Shanghai Jiao Tong Univ., Shanghai, China

fYear

2009

fDate

11-13 June 2009

Firstpage

1

Lastpage

4

Abstract

The functions of proteins are closely correlated with their subcellular localizations. Based on the concept of pseudo amino acid composition, the nonlinear energy operator (NEO) approach is introduced to incorporate the sequence order effect on protein subcellular localization. Results obtained through self- consistency, jackknife and independent dataset tests indicate that the prediction accuracies by the current algorithm are significantly higher than those by using conventional 20 D amino acid components. It is anticipated that some signal processing approaches, such as nonlinear energy operator, may serve as useful vehicles in biologic area.

Keywords

bioinformatics; covariance analysis; hydrophilicity; hydrophobicity; molecular biophysics; proteins; covariant-discriminant algorithm; hydrophilicity; hydrophobicity; independent dataset test; jackknife test; nonlinear energy operator index; proteins; pseudo amino acid compositions; self-consistency test; signal processing; subcellular localizations; Accuracy; Amino acids; Biomedical signal processing; Extracellular; Organisms; Protein engineering; Sequences; Signal processing algorithms; Support vector machine classification; Support vector machines;

fLanguage

English

Publisher

ieee

Conference_Titel

Bioinformatics and Biomedical Engineering , 2009. ICBBE 2009. 3rd International Conference on

Conference_Location

Beijing

Print_ISBN

978-1-4244-2901-1

Electronic_ISBN

978-1-4244-2902-8

Type

conf

DOI

10.1109/ICBBE.2009.5163739

Filename

5163739