Identifying drug-target proteins based on network features  

作　　者：ZHU MingZhu1, GAO Lei1, LI Xia1,2 & LIU ZhiCheng1 1 School of Biomedical Engineering, Capital Medical University, Beijing 100069, China 2 College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China 

出　　处：《Science China(Life Sciences)》2009年第4期398-404,共7页中国科学（生命科学英文版）

基　　金：Supported by National Natural Science Foundation of China (Grant No. 30370798, 30571034 and 30570424);National High-Tech Research and Development Program of China (Grant No. 2007AA02Z329);National Basic Research Program of China (Grant No. 2008CB517302); Natural Science Foundation of Heilongjiang Province, China (Grant No. ZJG0501, 1055HG009, GB03C602-4 and BMFH060044); New Century Hundred-Thousand-Ten Thousand Talents Project of Beijing City, Scientific Research Common Program of Beijing Municipal Commission of Education (KM200610025011).

摘　　要：Proteins rarely function in isolation inside and outside cells, but operate as part of a highly intercon- nected cellular network called the interaction network. Therefore, the analysis of the properties of drug-target proteins in the biological network is especially helpful for understanding the mechanism of drug action in terms of informatics. At present, no detailed characterization and description of the topological features of drug-target proteins have been available in the human protein-protein interac- tion network. In this work, by mapping the drug-targets in DrugBank onto the interaction network of human proteins, five topological indices of drug-targets were analyzed and compared with those of the whole protein interactome set and the non-drug-target set. The experimental results showed that drug-target proteins have higher connectivity and quicker communication with each other in the PPI network. Based on these features, all proteins in the interaction network were ranked. The results showed that, of the top 100 proteins, 48 are covered by DrugBank; of the remaining 52 proteins, 9 are drug-target proteins covered by the TTD, Matador and other databases, while others have been dem- onstrated to be drug-target proteins in the literature.Proteins rarely function in isolation inside and outside cells, but operate as part of a highly intercon- nected cellular network called the interaction network. Therefore, the analysis of the properties of drug-target proteins in the biological network is especially helpful for understanding the mechanism of drug action in terms of informatics. At present, no detailed characterization and description of the topological features of drug-target proteins have been available in the human protein-protein interac- tion network. In this work, by mapping the drug-targets in DrugBank onto the interaction network of human proteins, five topological indices of drug-targets were analyzed and compared with those of the whole protein interactome set and the non-drug-target set. The experimental results showed that drug-target proteins have higher connectivity and quicker communication with each other in the PPI network. Based on these features, all proteins in the interaction network were ranked. The results showed that, of the top 100 proteins, 48 are covered by DrugBank; of the remaining 52 proteins, 9 are drug-target proteins covered by the TTD, Matador and other databases, while others have been dem- onstrated to be drug-target proteins in the literature.

关 键 词：drug-target PROTEIN-PROTEIN INTERACTION TOPOLOGICAL FEATURES 

分 类 号：R91[医药卫生—药学]