Prediction of protein complexes based on protein interaction data and functional annotation data using kernel methods

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	Prediction of protein complexes based on protein interaction data and functional annotation data using kernel methods
	Zhang, Shi-Hua; Ning, Xue-Mei ; Liu, Hong-Wei ; Zhang, Xiang-Sun
	2006
发表期刊	COMPUTATIONAL INTELLIGENCE AND BIOINFORMATICS, PT 3, PROCEEDINGS
ISSN	0302-9743
卷号	4115 页码:514-524
摘要	Prediction of protein complexes is a crucial problem in computational biology. The increasing amount of available genomic data can enhance the identification of protein complexes. Here we describe an approach for predicting protein complexes based on integration of protein-protein interaction (PPI) data and protein functional annotation data. The basic idea is that proteins in protein complexes often interact with each other and protein complexes exhibit high functional consistency/even multiple functional consistency. We create a protein-protein relationship network (PPRN) via a kernel-based integration of these two genomic data. Then we apply the MCODE algorithm on PPRN to detect network clusters as numerically determined protein complexes. We present the results of the approach to yeast Sacchromyces cerevisiae. Comparison with well-known experimentally derived complexes and results of other methods verifies the effectiveness of our approach.
语种	英语
WOS研究方向	Biochemistry & Molecular Biology ; Computer Science
WOS类目	Biochemical Research Methods ; Computer Science, Artificial Intelligence ; Computer Science, Information Systems ; Computer Science, Interdisciplinary Applications ; Computer Science, Theory & Methods
WOS记录号	WOS:000240085400055
出版者	SPRINGER-VERLAG BERLIN
引用统计
文献类型	期刊论文
条目标识符	http://ir.amss.ac.cn/handle/2S8OKBNM/2995
专题	应用数学研究所
通讯作者	Zhang, Shi-Hua
作者单位	1.Chinese Acad Sci, Inst Appl Math, Acad Math & Syst Sci, Beijing 100080, Peoples R China 2.Renmin Univ China, Sch Econ, Beijing 100872, Peoples R China
推荐引用方式 GB/T 7714	Zhang, Shi-Hua,Ning, Xue-Mei,Liu, Hong-Wei,et al. Prediction of protein complexes based on protein interaction data and functional annotation data using kernel methods[J]. COMPUTATIONAL INTELLIGENCE AND BIOINFORMATICS, PT 3, PROCEEDINGS,2006,4115:514-524.
APA	Zhang, Shi-Hua,Ning, Xue-Mei,Liu, Hong-Wei,&Zhang, Xiang-Sun.(2006).Prediction of protein complexes based on protein interaction data and functional annotation data using kernel methods.COMPUTATIONAL INTELLIGENCE AND BIOINFORMATICS, PT 3, PROCEEDINGS,4115,514-524.
MLA	Zhang, Shi-Hua,et al."Prediction of protein complexes based on protein interaction data and functional annotation data using kernel methods".COMPUTATIONAL INTELLIGENCE AND BIOINFORMATICS, PT 3, PROCEEDINGS 4115(2006):514-524.