Hubs with Network Motifs Organize Modularity Dynamically in the Protein-Protein Interaction Network of Yeast

doi:10.1371/journal.pone.0001207

CSpace > 应用数学研究所

	Hubs with Network Motifs Organize Modularity Dynamically in the Protein-Protein Interaction Network of Yeast
	Jin, Guangxu 1,2; Zhang, Shihua1,2 ; Zhang, Xiang-Sun1 ; Chen, Luonan 3,4,5,6
	2007-11-21
发表期刊	PLOS ONE
ISSN	1932-6203
卷号	2 期号:11 页码:9
摘要	Background. It has been recognized that modular organization pervades biological complexity. Based on network analysis, 'party hubs' and 'date hubs' were proposed to understand the basic principle of module organization of biomolecular networks. However, recent study on hubs has suggested that there is no clear evidence for coexistence of 'party hubs' and 'date hubs'. Thus, an open question has been raised as to whether or not 'party hubs' and 'date hubs' truly exist in yeast interactome. Methodology. In contrast to previous studies focusing on the partners of a hub or the individual proteins around the hub, our work aims to study the network motifs of a hub or interactions among individual proteins including the hub and its neighbors. Depending on the relationship between a hub's network motifs and protein complexes, we define two new types of hubs, 'motif party hubs' and 'motif date hubs', which have the same characteristics as the original 'party hubs' and 'date hubs' respectively. The network motifs of these two types of hubs display significantly different features in spatial distribution (or cellular localizations), co-expression in microarray data, controlling topological structure of network, and organizing modularity. Conclusion. By virtue of network motifs, we basically solved the open question about 'party hubs' and 'date hubs' which was raised by previous studies. Specifically, at the level of network motifs instead of individual proteins, we found two types of hubs, motif party hubs (mPHs) and motif date hubs (mDHs), whose network motifs display distinct characteristics on biological functions. In addition, in this paper we studied network motifs from a different viewpoint. That is, we show that a network motif should not be merely considered as an interaction pattern but be considered as an essential function unit in organizing modules of networks.
DOI	10.1371/journal.pone.0001207
语种	英语
资助项目	National Natural Science Foundation of China[10631070] ; Ministry of Science and Technology, China[2006CB503905]
WOS研究方向	Science & Technology - Other Topics
WOS类目	Multidisciplinary Sciences
WOS记录号	WOS:000207459200020
出版者	PUBLIC LIBRARY SCIENCE
引用统计
文献类型	期刊论文
条目标识符	http://ir.amss.ac.cn/handle/2S8OKBNM/5045
专题	应用数学研究所
通讯作者	Zhang, Xiang-Sun
作者单位	1.Chinese Acad Sci, Acad Math & Syst Sci, Beijing, Peoples R China 2.Chinese Acad Sci, Grad Univ, Beijing, Peoples R China 3.Shanghai Univ, Inst Syst Biol, Shanghai, Peoples R China 4.Osaka Sangyo Univ, Dept Elect Engn & Elect, Osaka, Japan 5.Japan Sci & Technol Corp JST, Aihara Complex Modelling Project, Exploratory Res Adv Technol, Tokyo, Japan 6.Univ Tokyo, Inst Ind Sci, Tokyo, Japan
推荐引用方式 GB/T 7714	Jin, Guangxu,Zhang, Shihua,Zhang, Xiang-Sun,et al. Hubs with Network Motifs Organize Modularity Dynamically in the Protein-Protein Interaction Network of Yeast[J]. PLOS ONE,2007,2(11):9.
APA	Jin, Guangxu,Zhang, Shihua,Zhang, Xiang-Sun,&Chen, Luonan.(2007).Hubs with Network Motifs Organize Modularity Dynamically in the Protein-Protein Interaction Network of Yeast.PLOS ONE,2(11),9.
MLA	Jin, Guangxu,et al."Hubs with Network Motifs Organize Modularity Dynamically in the Protein-Protein Interaction Network of Yeast".PLOS ONE 2.11(2007):9.