PHPred 2.0 is an online server for the prediction of phage proteins located in the host cell (PH proteins) and their subcellular localizations based on machine learning method. In the process of training model, separated dipeptide compositions and the descriptor CTD of physicochemical properties were considered to build feature sets, and then analysis of variance (ANOVA) was proposed to exclude noise and redundant information. The incremental feature selection (IFS) was used to determine the optimal number of feature which could produce the maximum accuracy. Results of jack-knife test by SVM show that the proposed method can discriminate PH proteins from non-PH proteins with an overall accuracy of 86.7%, classify phage proteins located in the host cell membrane (PHM proteins) and phage proteins located in the host cell cytoplasm (PHC proteins) with an overall accuracy of 97.9%, respectively. We hope the web server could provide convenience for wet-experimental scholars.
