RegPhos 2.0: An updated resource to explore protein kinase-substrate phosphorylation networks in mammals

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题名:	RegPhos 2.0: An updated resource to explore protein kinase-substrate phosphorylation networks in mammals
作者:	吳忻怡;Huang, Kai-Yao;Wu, Hsin-Yi;Chen, Yi-Ju;Lu, Cheng-Tsung;Su, Min-Gang;Hsieh, Yun-Chung;Tsai, Chih-Ming;Lin, Kuo-I;Huang, Hsien-Da;Lee, Tzong-Yi;Chen, Yu-Ju
贡献者:	總教學中心通識教育中心
关键词:	biochemical pathways;biomarkers;case studies;Database Update;Databases, Protein;gene expression;Gene Expression Profiling;genes;Humans;Internet;liquid chromatography;mass spectrometry;mice;microarray technology;neoplasms;Phosphoproteins - chemistry;Phosphoproteins - metabolism;Phosphorylation;phosphotransferases (kinases);Protein Interaction Mapping - methods;Protein Kinases - chemistry;Protein Kinases - metabolism;protein phosphorylation;protein-protein interactions;proteins;proteomics;rats;Signal Transduction
日期:	2014-01-01
上传时间:	2026-04-23 12:55:20 (UTC+8)
出版者:	Oxford University Press;England: Oxford University Press (OUP)
摘要:	摘要： Protein phosphorylation catalyzed by kinases plays crucial roles in regulating a variety of intracellular processes. Owing to an increasing number of in vivo phosphorylation sites that have been identified by mass spectrometry (MS)-based proteomics, the RegPhos, available online at http://csb.cse.yzu.edu.tw/RegPhos2/, was developed to explore protein phosphorylation networks in human. In this update, we not only enhance the data content in human but also investigate kinase-substrate phosphorylation networks in mouse and rat. The experimentally validated phosphorylation sites as well as their catalytic kinases were extracted from public resources, and MS/MS phosphopeptides were manually curated from research articles. RegPhos 2.0 aims to provide a more comprehensive view of intracellular signaling networks by integrating the information of metabolic pathways and protein-protein interactions. A case study shows that analyzing the phosphoproteome profile of time-dependent cell activation obtained from Liquid chromatography-mass spectrometry (LC-MS/MS) analysis, the RegPhos deciphered not only the consistent scheme in B cell receptor (BCR) signaling pathway but also novel regulatory molecules that may involve in it. With an attempt to help users efficiently identify the candidate biomarkers in cancers, 30 microarray experiments, including 39 cancerous versus normal cells, were analyzed for detecting cancer-specific expressed genes coding for kinases and their substrates. Furthermore, this update features an improved web interface to facilitate convenient access to the exploration of phosphorylation networks for a group of genes/proteins. Database URL: http://csb.cse.yzu.edu.tw/RegPhos2/ 其他題名： Database (Oxford) 出版者： England: Oxford University Press (OUP) 出版日期： 2014 出處： Database, 2014, Vol.2014 (p.bau034-bau034), p.bau034- 版權： The Author(s) 2014. Published by Oxford University Press. 2014 識別號： ISSN: 1758-0463 識別號： EISSN: 1758-0463 識別號： DOI: 10.1093/database/bau034 識別號： PMID: 24771658
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