The interactome as a tree - an attempt to visualize the protein-protein interaction network in yeast

doi:10.1093/nar/gkh814

	The interactome as a tree - an attempt to visualize the protein-protein interaction network in yeast
	Lu, HC ; Zhu, XP ; Liu, HF ; Skogerbo, G ; Zhang, JF ; Zhang, Y ; Cai, L ; Zhao, Y ; Sun, SW ; Xu, JY ; Bu, DB ; Chen, RS
	2004
发表期刊	NUCLEIC ACIDS RESEARCH
ISSN	0305-1048
卷号	32 期号:16 页码:4804-4811
摘要	The refinement and high-throughput of protein interaction detection methods offer us a protein-protein interaction network in yeast. The challenge coming along with the network is to find better ways to make it accessible for biological investigation. Visualization would be helpful for extraction of meaningful biological information from the network. However, traditional ways of visualizing the network are unsuitable because of the large number of proteins. Here, we provide a simple but information-rich approach for visualization which integrates topological and biological information. In our method, the topological information such as quasi-cliques or spoke-like modules of the network is extracted into a clustering tree, where biological information spanning from protein functional annotation to expression profile correlations can be annotated onto the representation of it. We have developed a software named PINC based on our approach. Compared with previous clustering methods, our clustering method ADJW performs well both in retaining a meaningful image of the protein interaction network as well as in enriching the image with biological information, therefore is more suitable in visualization of the network.
DOI	10.1093/nar/gkh814
收录类别	SCI
语种	英语
WOS研究方向	Biochemistry & Molecular Biology
WOS类目	Biochemistry & Molecular Biology
WOS记录号	WOS:000224207500010
出版者	OXFORD UNIV PRESS
引用统计	被引频次：39[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://119.78.100.204/handle/2XEOYT63/9898
专题	中国科学院计算技术研究所期刊论文_英文
通讯作者	Bu, DB
作者单位	1.Chinese Acad Sci, Comp Technol Inst, Bioinformat Res Grp, Key Lab Intelligent Informat Proc, Beijing, Peoples R China 2.Chinese Acad Sci, Inst Biophys, Bioinformat Lab, Beijing, Peoples R China
推荐引用方式 GB/T 7714	Lu, HC,Zhu, XP,Liu, HF,et al. The interactome as a tree - an attempt to visualize the protein-protein interaction network in yeast[J]. NUCLEIC ACIDS RESEARCH,2004,32(16):4804-4811.
APA	Lu, HC.,Zhu, XP.,Liu, HF.,Skogerbo, G.,Zhang, JF.,...&Chen, RS.(2004).The interactome as a tree - an attempt to visualize the protein-protein interaction network in yeast.NUCLEIC ACIDS RESEARCH,32(16),4804-4811.
MLA	Lu, HC,et al."The interactome as a tree - an attempt to visualize the protein-protein interaction network in yeast".NUCLEIC ACIDS RESEARCH 32.16(2004):4804-4811.