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学科主题医学信息学
Identifying Human Kinase-Specific Protein Phosphorylation Sites by Integrating Heterogeneous Information from Various Sources
Li, Tingting1,4; Du, Pufeng3,4; Xu, Nanfang1,2
刊名PLOS ONE
2010-11-15
DOI10.1371/journal.pone.0015411
5期:11
收录类别SCI
文章类型Article
WOS标题词Science & Technology
类目[WOS]Multidisciplinary Sciences
研究领域[WOS]Science & Technology - Other Topics
关键词[WOS]CELL-CYCLE CONTROL ; PREDICTION ; SEQUENCE ; PHOSPHO.ELM ; FEATURES ; DATABASE ; COMPLEX ; GENOME
英文摘要

Phosphorylation is an important type of protein post-translational modification. Identification of possible phosphorylation sites of a protein is important for understanding its functions. Unbiased screening for phosphorylation sites by in vitro or in vivo experiments is time consuming and expensive; in silico prediction can provide functional candidates and help narrow down the experimental efforts. Most of the existing prediction algorithms take only the polypeptide sequence around the phosphorylation sites into consideration. However, protein phosphorylation is a very complex biological process in vivo. The polypeptide sequences around the potential sites are not sufficient to determine the phosphorylation status of those residues. In the current work, we integrated various data sources such as protein functional domains, protein subcellular location and protein-protein interactions, along with the polypeptide sequences to predict protein phosphorylation sites. The heterogeneous information significantly boosted the prediction accuracy for some kinase families. To demonstrate potential application of our method, we scanned a set of human proteins and predicted putative phosphorylation sites for Cyclin-dependent kinases, Casein kinase 2, Glycogen synthase kinase 3, Mitogen-activated protein kinases, protein kinase A, and protein kinase C families (avaiable at http://cmbi.bjmu.edu.cn/huphospho). The predicted phosphorylation sites can serve as candidates for further experimental validation. Our strategy may also be applicable for the in silico identification of other post-translational modification substrates.

语种英语
WOS记录号WOS:000284231800031
引用统计
被引频次:24[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://ir.bjmu.edu.cn/handle/400002259/54177
专题北京大学基础医学院_医学信息学系
北京大学基础医学院
作者单位1.Peking Univ, Hosp 1, Beijing 100871, Peoples R China
2.Peking Univ, Hlth Sci Ctr, Dept Biomed Informat, Beijing 100871, Peoples R China
3.Tianjin Univ, Sch Comp Sci & Technol, Tianjin 300072, Peoples R China
4.Tsinghua Univ, Dept Automat, Tsinghua Natl Lab Informat Sci & Technol, Minist Educ,Key Lab Bioinformat & Bioinformat Div, Beijing 100084, Peoples R China
推荐引用方式
GB/T 7714
Li, Tingting,Du, Pufeng,Xu, Nanfang. Identifying Human Kinase-Specific Protein Phosphorylation Sites by Integrating Heterogeneous Information from Various Sources[J]. PLOS ONE,2010,5(11).
APA Li, Tingting,Du, Pufeng,&Xu, Nanfang.(2010).Identifying Human Kinase-Specific Protein Phosphorylation Sites by Integrating Heterogeneous Information from Various Sources.PLOS ONE,5(11).
MLA Li, Tingting,et al."Identifying Human Kinase-Specific Protein Phosphorylation Sites by Integrating Heterogeneous Information from Various Sources".PLOS ONE 5.11(2010).
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