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学科主题: 医学信息学
题名:
Identifying Human Kinase-Specific Protein Phosphorylation Sites by Integrating Heterogeneous Information from Various Sources
作者: Li, Tingting1,4; Du, Pufeng3,4; Xu, Nanfang1,2
刊名: PLOS ONE
发表日期: 2010-11-15
DOI: 10.1371/journal.pone.0015411
卷: 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
所属项目编号: 60905014 ; 60721003
项目资助者: NSFC
WOS记录号: WOS:000284231800031
Citation statistics:
内容类型: 期刊论文
URI标识: http://ir.bjmu.edu.cn/handle/400002259/54177
Appears in Collections:基础医学院_医学信息学系_期刊论文

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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

Recommended Citation:
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).
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