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Sequence-based protein-protein interaction prediction via support vector machine

文献类型：期刊论文

作者Wang, Yongcui1,2; Wang, Jiguang3; Yang, Zhixia4; Deng, Naiyang1
刊名JOURNAL OF SYSTEMS SCIENCE & COMPLEXITY
出版日期2010-10-01
卷号23期号:5页码:1012-1023
关键词Imbalance problem protein-protein interactions sequence-based support vector machine
ISSN号1009-6124
DOI10.1007/s11424-010-0214-z
英文摘要This paper develops sequence-based methods for identifying novel protein-protein interactions (PPIs) by means of support vector machines (SVMs). The authors encode proteins ont only in the gene level but also in the amino acid level, and design a procedure to select negative training set for dealing with the training dataset imbalance problem, i.e., the number of interacting protein pairs is scarce relative to large scale non-interacting protein pairs. The proposed methods are validated on PPIs data of Plasmodium falciparum and Escherichia coli, and yields the predictive accuracy of 93.8% and 95.3%, respectively. The functional annotation analysis and database search indicate that our novel predictions are worthy of future experimental validation. The new methods will be useful supplementary tools for the future proteomics studies.
WOS研究方向Mathematics
语种英语
WOS记录号WOS:000284074000014
出版者SPRINGER HEIDELBERG
源URL[http://ir.amss.ac.cn/handle/2S8OKBNM/10887]  
专题中国科学院数学与系统科学研究院
通讯作者Wang, Yongcui
作者单位1.China Agr Univ, Coll Sci, Beijing 100083, Peoples R China
2.Chinese Acad Sci, NW Inst Plateau Biol, Key Lab Adaptat & Evolut Plateau Biota, Xining 810008, Peoples R China
3.Chinese Acad Sci, Acad Math & Syst Sci, Inst Syst Sci, Beijing 100190, Peoples R China
4.Xinjiang Univ, Coll Math & Syst Sci, Urumuchi 830046, Peoples R China
推荐引用方式
GB/T 7714		 Wang, Yongcui,Wang, Jiguang,Yang, Zhixia,et al. Sequence-based protein-protein interaction prediction via support vector machine[J]. JOURNAL OF SYSTEMS SCIENCE & COMPLEXITY,2010,23(5):1012-1023.
APA Wang, Yongcui,Wang, Jiguang,Yang, Zhixia,&Deng, Naiyang.(2010).Sequence-based protein-protein interaction prediction via support vector machine.JOURNAL OF SYSTEMS SCIENCE & COMPLEXITY,23(5),1012-1023.
MLA Wang, Yongcui,et al."Sequence-based protein-protein interaction prediction via support vector machine".JOURNAL OF SYSTEMS SCIENCE & COMPLEXITY 23.5(2010):1012-1023.

入库方式： OAI收割

来源：数学与系统科学研究院

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