NWIPB OpenIR
Sequence-based protein-protein interaction prediction via support vector machine
Wang, Yongcui1,2; Wang, Jiguang3; Yang, Zhixia4; Deng, Naiyang1
2010-10-01
发表期刊JOURNAL OF SYSTEMS SCIENCE & COMPLEXITY
ISSN1009-6124
卷号23期号:5页码:1012-1023
文章类型Article
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.; 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.
关键词Imbalance Problem Protein-protein Interactions Sequence-based Support Vector Machine
WOS标题词Science & Technology ; Physical Sciences
关键词[WOS]AMINO-ACID-COMPOSITION ; INTERACTION NETWORK ; ESCHERICHIA-COLI ; DATABASE ; COMPLEXES ; RESOURCE ; UPDATE
收录类别SCI ; ISTP
语种英语
WOS研究方向Mathematics
WOS类目Mathematics, Interdisciplinary Applications
WOS记录号WOS:000284074000014
引用统计
被引频次:10[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://210.75.249.4/handle/363003/1650
专题中国科学院西北高原生物研究所
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.
条目包含的文件
条目无相关文件。
个性服务
推荐该条目
保存到收藏夹
查看访问统计
导出为Endnote文件
谷歌学术
谷歌学术中相似的文章
[Wang, Yongcui]的文章
[Wang, Jiguang]的文章
[Yang, Zhixia]的文章
百度学术
百度学术中相似的文章
[Wang, Yongcui]的文章
[Wang, Jiguang]的文章
[Yang, Zhixia]的文章
必应学术
必应学术中相似的文章
[Wang, Yongcui]的文章
[Wang, Jiguang]的文章
[Yang, Zhixia]的文章
相关权益政策
暂无数据
收藏/分享
所有评论 (0)
暂无评论
 

除非特别说明,本系统中所有内容都受版权保护,并保留所有权利。