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Predicting DNA- and RNA-binding proteins from sequences with kernel methods

文献类型：期刊论文

作者Shao, Xiaojian1; Tian, Yingjie2; Wu, Lingyun3; Wang, Yong3; Jing, Ling1; Deng, Naiyang1
刊名JOURNAL OF THEORETICAL BIOLOGY
出版日期2009-05-21
卷号258期号:2页码:289-293
关键词Bioinformatics Protein function Conjoint triad Nucleic-acid-binding protein Support vector machine
ISSN号0022-5193
DOI10.1016/j.jtbi.2009.01.024
英文摘要In this paper, Support vector machines (SVMs) are applied to predict the nucleic-acid-binding proteins. We constructed two classifiers to differentiate DNA/RNA-binding proteins from non-nucleic-acid-binding proteins by using a conjoint triad feature which extract information directly from amino acids sequence of protein. Both self-consistency and jackknife tests show promising results oil the protein datasets in which the sequences identity is less than 25%. In the self-consistency test, the predictive accuracy is 90.37% for DNA-binding proteins and 89.70% for RNA-binding proteins. In the jackknife test, the predictive accuracies are 78.93% and 76.75%, respectively. Comparison results Show that Our method is very competitive by Outperforming other previously published sequence-based prediction methods. (C) 2009 Elsevier Ltd. All rights reserved.
资助项目National Natural Science Foundation of China[10631070] ; National Natural Science Foundation of China[10601064]
WOS研究方向Life Sciences & Biomedicine - Other Topics ; Mathematical & Computational Biology
语种英语
WOS记录号WOS:000265801600013
出版者ACADEMIC PRESS LTD- ELSEVIER SCIENCE LTD
源URL[http://ir.amss.ac.cn/handle/2S8OKBNM/7736]  
专题应用数学研究所
通讯作者Deng, Naiyang
作者单位1.China Agr Univ, Coll Sci, Beijing 100083, Peoples R China
2.Chinese Acad Sci, Res Ctr Fictitious Econ & Data Sci, Beijing 100190, Peoples R China
3.Chinese Acad Sci, Acad Math & Syst Sci, Beijing 100190, Peoples R China
推荐引用方式
GB/T 7714		 Shao, Xiaojian,Tian, Yingjie,Wu, Lingyun,et al. Predicting DNA- and RNA-binding proteins from sequences with kernel methods[J]. JOURNAL OF THEORETICAL BIOLOGY,2009,258(2):289-293.
APA Shao, Xiaojian,Tian, Yingjie,Wu, Lingyun,Wang, Yong,Jing, Ling,&Deng, Naiyang.(2009).Predicting DNA- and RNA-binding proteins from sequences with kernel methods.JOURNAL OF THEORETICAL BIOLOGY,258(2),289-293.
MLA Shao, Xiaojian,et al."Predicting DNA- and RNA-binding proteins from sequences with kernel methods".JOURNAL OF THEORETICAL BIOLOGY 258.2(2009):289-293.

入库方式： OAI收割

来源：数学与系统科学研究院

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