GPS 5.0: An Update on the Prediction of Kinase-specific Phosphorylation Sites in Proteins.

GPS 5.0: An Update on the Prediction of Kinase-specific Phosphorylation Sites in Proteins.
Genomics Proteomics Bioinformatics. 2020 Mar 18;:
Authors: Wang C, Xu H, Lin S, Deng W, Zhou J, Zhang Y, Shi Y, Peng D, Xue Y
Abstract
In eukaryotes, protein phosphorylation is specifically catalyzed by numerous protein kinases (PKs), faithfully orchestrates various biological processes, and reversibly determines cellular dynamics and plasticity. Here we report an updated algorithm of Group-based Prediction System (GPS) 5.0 to improve the performance for predicting kinase-specific phosphorylation sites (p-sites). Two novel methods, position weight determination (PWD) and scoring matrix optimization (SMO), were developed. Compared with other existing tools, GPS 5.0 exhibits a highly competitive accuracy. Besides serine/threonine or tyrosine kinases, GPS 5.0 also supports the prediction of dual-specificity kinase-specific p-sites. In the classical module of GPS 5.0, 617 individual predictors were constructed for predicting p-sites of 479 human PKs. To extend the application of GPS 5.0, a species-specific module was implemented to predict kinase-specific p-sites for 44,795 PKs in 161 eukaryotes. The online service and local packages of GPS 5.0 are freely available for academic research at http://gps.biocuckoo.cn.
PMID: 32200042 [PubMed - as supplied by publisher]

Source: Genomics Proteomics ... - March 17, 2020 Category: Genetics & Stem Cells Authors: Wang C, Xu H, Lin S, Deng W, Zhou J, Zhang Y, Shi Y, Peng D, Xue Y Tags: Genomics Proteomics Bioinformatics Source Type: research