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GPS 5.0: An Update on the Prediction of Kinase-specific Phosphorylation Sites in Proteins
- Source :
- Genomics, Proteomics & Bioinformatics, Vol 18, Iss 1, Pp 72-80 (2020)
- Publication Year :
- 2020
- Publisher :
- Oxford University Press, 2020.
-
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.
Details
- Language :
- English
- ISSN :
- 16720229
- Volume :
- 18
- Issue :
- 1
- Database :
- Directory of Open Access Journals
- Journal :
- Genomics, Proteomics & Bioinformatics
- Publication Type :
- Academic Journal
- Accession number :
- edsdoj.50892173f9454918bfad0a72e436c073
- Document Type :
- article
- Full Text :
- https://doi.org/10.1016/j.gpb.2020.01.001