Prediction of protein residue contact using support vector machine

Weng Howe Chan; Mohd Saberi Mohamad

doi:10.1007/978-3-642-32826-8_33

Prediction of protein residue contact using support vector machine

Weng Howe Chan, Mohd Saberi Mohamad

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Abstract

Prediction of protein residue contact is one of the important two-dimensional prediction tasks in protein structure prediction. The residue contact map of protein contains information which represents three-dimensional conformation of protein. However the accuracy of the prediction is dependent on the type of protein information used to distinguish between contacts or non-contacts. According to CASP (Critical Assessment of Techniques of Protein Structure Prediction) the accuracy of protein contact map prediction is still low due to the behaviour of the predictors developed where the predictors only effective against specific type of protein structure. In order to further improve the performance of the predictor, effective features must be identified and used. Therefore, this research is conducted to determine the effectiveness of the existing features used in protein contact map prediction.

Original language	English
Title of host publication	Knowledge Technology - Third Knowledge Technology Week, KTW 2011, Revised Selected Papers
Pages	323-332
Number of pages	10
DOIs	https://doi.org/10.1007/978-3-642-32826-8_33
Publication status	Published - 2012
Externally published	Yes
Event	3rd Knowledge Technology Week, KTW 2011 - Kajang, Malaysia Duration: Jul 18 2011 → Jul 22 2011

Publication series

Name	Communications in Computer and Information Science
Volume	295 CCIS
ISSN (Print)	1865-0929

Conference

Conference	3rd Knowledge Technology Week, KTW 2011
Country/Territory	Malaysia
City	Kajang
Period	7/18/11 → 7/22/11

Keywords

protein residue contact map
protein structure prediction
support vector machine

ASJC Scopus subject areas

General Computer Science
General Mathematics

Access to Document

10.1007/978-3-642-32826-8_33

Cite this

Prediction of protein residue contact using support vector machine. / Chan, Weng Howe; Mohamad, Mohd Saberi.
Knowledge Technology - Third Knowledge Technology Week, KTW 2011, Revised Selected Papers. 2012. p. 323-332 (Communications in Computer and Information Science; Vol. 295 CCIS).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Chan, WH & Mohamad, MS 2012, Prediction of protein residue contact using support vector machine. in Knowledge Technology - Third Knowledge Technology Week, KTW 2011, Revised Selected Papers. Communications in Computer and Information Science, vol. 295 CCIS, pp. 323-332, 3rd Knowledge Technology Week, KTW 2011, Kajang, Malaysia, 7/18/11. https://doi.org/10.1007/978-3-642-32826-8_33

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abstract = "Prediction of protein residue contact is one of the important two-dimensional prediction tasks in protein structure prediction. The residue contact map of protein contains information which represents three-dimensional conformation of protein. However the accuracy of the prediction is dependent on the type of protein information used to distinguish between contacts or non-contacts. According to CASP (Critical Assessment of Techniques of Protein Structure Prediction) the accuracy of protein contact map prediction is still low due to the behaviour of the predictors developed where the predictors only effective against specific type of protein structure. In order to further improve the performance of the predictor, effective features must be identified and used. Therefore, this research is conducted to determine the effectiveness of the existing features used in protein contact map prediction.",

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AB - Prediction of protein residue contact is one of the important two-dimensional prediction tasks in protein structure prediction. The residue contact map of protein contains information which represents three-dimensional conformation of protein. However the accuracy of the prediction is dependent on the type of protein information used to distinguish between contacts or non-contacts. According to CASP (Critical Assessment of Techniques of Protein Structure Prediction) the accuracy of protein contact map prediction is still low due to the behaviour of the predictors developed where the predictors only effective against specific type of protein structure. In order to further improve the performance of the predictor, effective features must be identified and used. Therefore, this research is conducted to determine the effectiveness of the existing features used in protein contact map prediction.

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Prediction of protein residue contact using support vector machine

Abstract

Publication series

Conference

Keywords

ASJC Scopus subject areas

Access to Document

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Cite this