Prediction of protein-protein interaction types using the decision templates

Wei Chen, Shao Wu Zhang, Yong Mei Cheng

科研成果: 书/报告/会议事项章节会议稿件同行评审

1 引用 (Scopus)

摘要

Protein-protein interactions (PPIs) play a key role in many cellular processes. Knowing about the multitude of PPIs can help the biological scientist understand the molecular mechanism of the cell. Unfortunately, it is both time-consuming and expensive to do so solely based on experiments. Therefore, developing computational approaches for predicting PPIs, PPI binding sites and PPI types would be of significant value. Here, we propose a novel method for predicting the PPI types based on decision templates. First, we introduce the concept of tensor product to construct three kinds of feature vectors which are the amino acid composition tensor product, the residue multi-scale conservation energy tensor product and the secondary structure content tensor product. Then, the correlation-based feature selection method was also used to reduce the dimensionality of these feature vectors. So, the protein pair can be represented by our three new kinds of feature vectors and Zhu's six kinds of feature vectors. The nine kinds of feature vectors are further taken as the inputs of individual support vector machine classifier respectively, and the outputs of these classifiers are aggregated with decision templates in decision level. The overall success rate obtained by jackknife cross-validation was 90.95%, indicating our method is very promising for predicting PPI types.

源语言英语
主期刊名BIC-TA 2009 - Proceedings, 2009 4th International Conference on Bio-Inspired Computing
主期刊副标题Theories and Applications
93-98
页数6
DOI
出版状态已出版 - 2009
活动2009 4th International Conference on Bio-Inspired Computing: Theories and Applications, BIC-TA 2009 - Beijing, 中国
期限: 16 10月 200919 10月 2009

出版系列

姓名BIC-TA 2009 - Proceedings, 2009 4th International Conference on Bio-Inspired Computing: Theories and Applications

会议

会议2009 4th International Conference on Bio-Inspired Computing: Theories and Applications, BIC-TA 2009
国家/地区中国
Beijing
时期16/10/0919/10/09

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