P-Binder: a system for the protein-protein binding sites identification
ISBRA'12 Proceedings of the 8th international conference on Bioinformatics Research and Applications
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Summary: A number of complementary methods have been developed for predicting protein-protein interaction sites. We sought to increase prediction robustness and accuracy by combining results from different predictors, and report here a meta web server, meta-PPISP, that is built on three individual web servers: cons-PPISP ( http://pipe.scs.fsu.edu/ppisp.html), Promate (http://bioportal.weizmann.ac.il/promate), and PINUP (http://sparks.informatics.iupui.edu/PINUP/). A linear regression method, using the raw scores of the three servers as input, was trained on a set of 35 nonhomologous proteins. Cross validation showed that meta-PPISP outperforms all the three individual servers. At coverages identical to those of the individual methods, the accuracy of meta-PPISP is higher by 4.8 to 18.2 percentage points. Similar improvements in accuracy are also seen on CAPRI and other targets. Availability: meta-PPISP can be accessed at http://pipe.scs.fsu.edu/meta-ppisp.html Contact: zhou@sb.fsu.edu Supplementary information: Data sets, linear regression coefficients, and details of prediction results are shown at the site of the meta-PPISP server.