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An edge-based protein complex identification algorithm with gene co-expression data (PCIA-GeCo)

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成果类型:
期刊论文
作者:
Zhao, Junmin*;Hu, Xiaohua;He, Tingting(何婷婷);Li, Peng;Zhang, Ming;...
通讯作者:
Zhao, Junmin
作者机构:
[Zhao, Junmin] Henan Univ Urban Construct, Pingdingshan 467036, Peoples R China.
[He, Tingting; Shen, Xianjun; Hu, Xiaohua; Li, Peng; Zhang, Ming] Cent China Normal Univ, Sch Comp, Wuhan 430079, Peoples R China.
[Zhao, Junmin] Natl Engn Res Ctr E Learning, Wuhan 430079, Peoples R China.
通讯机构:
[Zhao, Junmin] N
Natl Engn Res Ctr E Learning, Wuhan 430079, Peoples R China.
语种:
英文
关键词:
Biological network;gene co-express;protein complex;weighted PPI network
期刊:
IEEE Transactions on NanoBioscience
ISSN:
1536-1241
年:
2014
卷:
13
期:
2
页码:
80-88
基金类别:
NSF of ChinaNational Natural Science Foundation of China (NSFC) [90920005, 61003192]; Major Project of State Language Commission in the Twelfth Five-year Plan Period [ZDI125-1]; Project in the National Science & Technology Pillar Program in the Twelfth Five-year Plan Period [2012BAK24B01]; Program of Introducing Talents of Discipline to UniversitiesMinistry of Education, China - 111 Project [B07042]; NSF of Hubei Province [2011CDA034]; self-determined research Funds of CCNU from the colleges' basic research and operation of MOE [CCNU10A02009, CCNU10C01005]; NSFNational Science Foundation (NSF) [IIP1160960, CCF0905291]
机构署名:
本校为其他机构
院系归属:
计算机学院
国家数字化学习工程技术研究中心
摘要:
Recent studies have shown that protein complex is composed of core proteins and attachment proteins, and proteins inside the core are highly co-expressed. Based on this new concept, we reconstruct weighted PPI network by using gene expression data, and develop a novel protein complex identification algorithm from the angle of edge (PCIA-GeCo). First, we select the edge with high co-expressed coefficient as seed to form the preliminary cores. Then, the preliminary cores are filtered according to the weighted density of complex core to obtain the unique core. Finally, the protein complexes are g...

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