PPIPP: an online protein-protein interaction network prediction and analysis platform Online publication date: Wed, 06-Apr-2016
by Fen Wang; Baoxing Song; Dengyun Li; Xing Zhao; Yaotian Miao; Pengfei Jiang; Deli Zhang
International Journal of Data Mining and Bioinformatics (IJDMB), Vol. 14, No. 4, 2016
Abstract: Although several methods have been developed for protein-protein interaction (PPI) prediction, each method has a specialised emphasis, and it is often necessary to use multiple methods to avoid a high false-negative rate. We here describe a method that is based on binding profiles and only requires protein sequence as an input. We also developed an online platform, the PPI Prediction Platform (PPIPP), to predict PPI networks (PPINs). PPIPP, which is freely accessible at http://ppipp.songbx.me, provides two main functions: PPI prediction, which uses the binding profile method, domain-motif interactions from structural topology, and PPIN-based detection of functionally similar proteins within species. PPIPP offers a web-based interface to facilitate PPIN predictions and a high-performance server to overcome the problems of user access and large-scale computation. The wheat proteome was used to evaluate the performance of this platform.
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