Systematic Analysis of Protein Phosphorylation Networks From Phosphoproteomic Data
文献类型：期刊论文
| 作者 | Song, Chunxia1; Ye, Mingliang1; Liu, Zexian2; Cheng, Han2; Jiang, Xinning1; Han, Guanghui1; Zhou Songyang3; Tan, Yexiong4; Wang, Hongyang4; Ren, Jian3 |
| 刊名 | molecular & cellular proteomics
 |
| 出版日期 | 2012-10-01 |
| 卷号 | 11期号:10页码:1070-1083 |
| ISSN号 | 1535-9476 |
| 产权排序 | 1,1 |
| 通讯作者 | 邹汉法 ; 薛宇 ; 任健 |
| 英文摘要 | in eukaryotes, hundreds of protein kinases (pks) specifically and precisely modify thousands of substrates at specific amino acid residues to faithfully orchestrate numerous biological processes, and reversibly determine the cellular dynamics and plasticity. although over 100,000 phosphorylation sites (p-sites) have been experimentally identified from phosphoproteomic studies, the regulatory pks for most of these sites still remain to be characterized. here, we present a novel software package of igps for the prediction of in vivo site-specific kinase-substrate relations mainly from the phosphoproteomic data. by critical evaluations and comparisons, the performance of igps is satisfying and better than other existed tools. based on the prediction results, we modeled protein phosphorylation networks and observed that the eukaryotic phospho-regulation is poorly conserved at the site and substrate levels. with an integrative procedure, we conducted a large-scale phosphorylation analysis of human liver and experimentally identified 9719 p-sites in 2998 proteins. using igps, we predicted a human liver protein phosphorylation networks containing 12,819 potential site-specific kinase-substrate relations among 350 pks and 962 substrates for 2633 p-sites. further statistical analysis and comparison revealed that 127 pks significantly modify more or fewer p-sites in the liver protein phosphorylation networks against the whole human protein phosphorylation network. the largest data set of the human liver phosphoproteome together with computational analyses can be useful for further experimental consideration. this work contributes to the understanding of phosphorylation mechanisms at the systemic level, and provides a powerful methodology for the general analysis of in vivo post-translational modifications regulating sub-proteomes. molecular & cellular proteomics 11: 10.1074/mcp.m111.012625, 1070-1083, 2012. |
| WOS标题词 | science & technology ; life sciences & biomedicine |
| 学科主题 | 物理化学 |
| 类目[WOS] | biochemical research methods |
| 研究领域[WOS] | biochemistry & molecular biology |
| 关键词[WOS] | human liver-tissue ; in-vivo ; kinase ; sites ; specificity ; resource ; yeast ; phosphopeptides ; phospho.elm ; elongation |
| 收录类别 | SCI |
| 语种 | 英语 |
| WOS记录号 | WOS:000310211000017 |
| 公开日期 | 2013-10-11 |
| 源URL | [http://159.226.238.44/handle/321008/118127]  |
| 专题 | 大连化学物理研究所_中国科学院大连化学物理研究所 |
| 作者单位 | 1.Chinese Acad Sci, CAS Key Lab Separat Sci Analyt Chem, Natl Chromatog RandA Ctr, Dalian Inst Chem Phys, Dalian 116023, Liaoning, Peoples R China 2.Huazhong Univ Sci & Technol, Hubei Bioinformat & Mol Imaging Key Lab, Dept Biomed Engn, Coll Life Sci & Technol, Wuhan 430074, Hubei, Peoples R China 3.Sun Yat Sen Univ, State Key Lab Biocontrol, Sch Life Sci, Guangzhou 510275, Guangdong, Peoples R China 4.Second Mil Med Univ, Int Cooperat Lab Signal Transduct, Eastern Hepatobiliary Surg Inst, Shanghai 200438, Peoples R China |
| 推荐引用方式 GB/T 7714 | Song, Chunxia,Ye, Mingliang,Liu, Zexian,et al. Systematic Analysis of Protein Phosphorylation Networks From Phosphoproteomic Data[J]. molecular & cellular proteomics,2012,11(10):1070-1083. |
| APA | Song, Chunxia.,Ye, Mingliang.,Liu, Zexian.,Cheng, Han.,Jiang, Xinning.,...&Zou, Hanfa.(2012).Systematic Analysis of Protein Phosphorylation Networks From Phosphoproteomic Data.molecular & cellular proteomics,11(10),1070-1083. |
| MLA | Song, Chunxia,et al."Systematic Analysis of Protein Phosphorylation Networks From Phosphoproteomic Data".molecular & cellular proteomics 11.10(2012):1070-1083. |
入库方式： OAI收割
来源：大连化学物理研究所
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