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Graphical Features of Functional Genes in Human Protein Interaction Network

文献类型：期刊论文

作者Wang, Pei1; Chen, Yao2; Lu, Jinhu3; Wang, Qingyun4; Yu, Xinghuo5
刊名IEEE TRANSACTIONS ON BIOMEDICAL CIRCUITS AND SYSTEMS
出版日期2016-06-01
卷号10期号:3页码:707-720
关键词Cluster disease classification functional gene human protein interaction network receiver operating characteristic (ROC) curve topological structure
ISSN号1932-4545
DOI10.1109/TBCAS.2015.2487299
英文摘要With the completion of the human genome project, it is feasible to investigate large-scale human protein interaction network (HPIN) with complex networks theory. Proteins are encoded by genes. Essential, viable, disease, conserved, housekeeping (HK) and tissue-enriched (TE) genes are functional genes, which are organized and functioned via interaction networks. Based on up-to-date data from various databases or literature, two large-scale HPINs and six subnetworks are constructed. We illustrate that the HPINs and most of the subnetworks are sparse, small-world, scale-free, disassortative and with hierarchical modularity. Among the six subnetworks, essential, disease and HK subnetworks are more densely connected than the others. Statistical analysis on the topological structures of the HPIN reveals that the lethal, the conserved, the HK and the TE genes are with hallmark graphical features. Receiver operating characteristic (ROC) curves indicate that the essential genes can be distinguished from the viable ones with accuracy as high as almost 70%. Closeness, semi-local and eigenvector centralities can distinguish the HK genes from the TE ones with accuracy around 82%. Furthermore, the Venn diagram, cluster dendgrams and classifications of disease genes reveal that some classes of disease genes are with hallmark graphical features, especially for cancer genes, HK disease genes and TE disease genes. The findings facilitate the identification of some functional genes via topological structures. The investigations shed some light on the characteristics of the compete interactome, which have potential implications in networked medicine and biological network control.
资助项目National Science and Technology Major Project of China[2014ZX10004-001-014] ; National Natural Science Foundation of China[61304151] ; National Natural Science Foundation of China[61532020] ; National Natural Science Foundation of China[11472290] ; National Natural Science Foundation of China[11172215] ; National Natural Science Foundation of China[61174028] ; Australia ARC Discovery Grant[DP130104765]
WOS研究方向Engineering
语种英语
WOS记录号WOS:000381440400016
出版者IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC
源URL[http://ir.amss.ac.cn/handle/2S8OKBNM/23519]  
专题系统科学研究所
通讯作者Wang, Pei
作者单位1.Henan Univ, Sch Math & Stat, Kaifeng 475004, Peoples R China
2.Hong Kong Polytech Univ, Dept Comp, Hong Kong, Hong Kong, Peoples R China
3.Chinese Acad Sci, Inst Syst Sci, Acad Math & Syst Sci, Beijing 100190, Peoples R China
4.Beihang Univ, Dept Dynam & Control, Beijing 100191, Peoples R China
5.RMIT Univ, Sch Elect & Comp Engn, Melbourne, Vic 3001, Australia
推荐引用方式
GB/T 7714		 Wang, Pei,Chen, Yao,Lu, Jinhu,et al. Graphical Features of Functional Genes in Human Protein Interaction Network[J]. IEEE TRANSACTIONS ON BIOMEDICAL CIRCUITS AND SYSTEMS,2016,10(3):707-720.
APA Wang, Pei,Chen, Yao,Lu, Jinhu,Wang, Qingyun,&Yu, Xinghuo.(2016).Graphical Features of Functional Genes in Human Protein Interaction Network.IEEE TRANSACTIONS ON BIOMEDICAL CIRCUITS AND SYSTEMS,10(3),707-720.
MLA Wang, Pei,et al."Graphical Features of Functional Genes in Human Protein Interaction Network".IEEE TRANSACTIONS ON BIOMEDICAL CIRCUITS AND SYSTEMS 10.3(2016):707-720.

入库方式： OAI收割

来源：数学与系统科学研究院

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