title: Characterization of BioPlex network by topological properties.
abstract: Protein-protein interaction (PPI) networks are emerging as valuable prototypes to study important problems in molecular cellular biology and systems biomedicine. An analysis of the topological properties of a PPI network is very helpful for understanding the function and structure of networks. In this study, we analyzed the topological patterns in the BioPlex network containing interactions among 10,961 proteins; most interactions were previously undocumented. The BioPlex network is a comprehensive map of human protein interactions and represents the first phase of a long-term effort to profile the entire human ORFEOME collection. Similar to other biological networks, we observed that the BioPlex network has several topological properties. We also quantified correlations profiles for the BioPlex network and compared them to randomized versions of the same network. We found that for the BioPlex network, edges between proteins with intermediate degrees were strongly suppressed, whereas edges between low-connected proteins were favored. Finally, the degrees of essential genes were compared with the degrees of non-essential genes and randomly selected proteins. There were no significant differences between the groups.
authors.affiliation: College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China.
authors.forename: Lei
authors.initials: L
authors.lastname: Yang
authors.affiliation: College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China.
authors.forename: Shiyuan
authors.initials: S
authors.lastname: Wang
authors.affiliation: College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China.
authors.forename: Meng
authors.initials: M
authors.lastname: Zhou
authors.affiliation: College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China.
authors.forename: Xiaowen
authors.initials: X
authors.lastname: Chen
authors.affiliation: The National Research Center for Animal Transgenic Biotechnology, Inner Mongolia University, Hohhot 010021, China.
authors.forename: Yongchun
authors.initials: Y
authors.lastname: Zuo
authors.affiliation: College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China. Electronic address: lvyingli_hmu@163.com.
authors.forename: Yingli
authors.initials: Y
authors.lastname: Lv
mesh_terms: D053263:Gene Regulatory Networks; D006801:Humans; D008957:Models, Genetic; D020543:Proteome / Q000235:genetics*
chemical_list: D020543:Proteome
keywords: Correlation profile; Protein interactions; Random networks; Topological pattern