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Scatter-search with support vector machine for prediction of relative solvent accessibility.

ABSTRACT: Proteins have vital roles in the living cells. The protein function is almost completely dependent on protein structure. The prediction of relative solvent accessibility gives helpful information for the prediction of tertiary structure of a protein. In recent years several relative solvent accessibility (RSA) prediction methods including those that generate real values and those that predict discrete states have been developed. The proposed method consists of two main steps: the first one, provided subset selection of quantitative features based on selected qualitative features and the second, dedicated to train a model with selected quantitative features for RSA prediction. The results show that the proposed method has an improvement in average prediction accuracy and training time. The proposed method can dig out all the valuable knowledge about which physicochemical features of amino acids are deemed more important in prediction of RSA without human supervision, which is of great importance for biologists and their future researches.

SUBMITTER: Kashefi AH 

PROVIDER: S-EPMC4531788 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature

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Scatter-search with support vector machine for prediction of relative solvent accessibility.

Kashefi Amir Hosein AH   Meshkin Alireza A   Zargoosh Mina M   Zahiri Javad J   Taheri Mohsen M   Ashtiani Saman S  

EXCLI journal 20130121

Proteins have vital roles in the living cells. The protein function is almost completely dependent on protein structure. The prediction of relative solvent accessibility gives helpful information for the prediction of tertiary structure of a protein. In recent years several relative solvent accessibility (RSA) prediction methods including those that generate real values and those that predict discrete states have been developed. The proposed method consists of two main steps: the first one, prov  ...[more]

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