Toward an understanding of the protein interaction network of the human liver

被引：175

作者：

Wang, Jian ^{[1
]}

Huo, Keke ^{[2
]}

Ma, Lixin ^{[3
]}

Tang, Liujun ^{[1
]}

Li, Dong ^{[1
]}

Huang, Xiaobi ^{[1
]}

Yuan, Yanzhi ^{[1
]}

Li, Chunhua ^{[3
]}

Wang, Wei ^{[2
]}

Guan, Wei ^{[1
]}

Chen, Hui ^{[1
]}

Jin, Chaozhi ^{[1
]}

Wei, Junchen ^{[1
]}

Zhang, Wanqiao ^{[1
]}

Yang, Yongsheng ^{[1
]}

Liu, Qiongming ^{[1
]}

Zhou, Ying ^{[1
]}

Zhang, Cuili ^{[1
]}

Wu, Zhihao ^{[1
]}

Xu, Wangxiang ^{[1
]}

Zhang, Ying ^{[1
]}

Liu, Tao ^{[1
]}

Yu, Donghui ^{[1
]}

Zhang, Yaping ^{[1
]}

Chen, Liang ^{[3
]}

Zhu, Dewu ^{[3
]}

Zhong, Xing ^{[3
]}

Kang, Lixin ^{[3
]}

Gan, Xiang ^{[3
]}

Yu, Xiaolan ^{[3
]}

Ma, Qi ^{[2
]}

Yan, Jing ^{[2
]}

Zhou, Li ^{[2
]}

Liu, Zhongyang ^{[1
]}

Zhu, Yunping ^{[1
]}

Zhou, Tao ^{[4
]}

He, Fuchu ^{[1
,5
]}

Yang, Xiaoming ^{[1
]}

机构：

[1] Beijing Inst Radiat Med, Beijing Proteome Res Ctr, State Key Lab Prote, Beijing 102206, Peoples R China

[2] Fudan Univ, Sch Life Sci, State Key Lab Genet Engn, Shanghai 200433, Peoples R China

[3] Hubei Univ, Inst Biochem & Mol Biol, Wuhan 430062, Peoples R China

[4] Natl Ctr Biomed Anal, Beijing, Peoples R China

[5] Fudan Univ, Inst Biomed Sci, Shanghai 200433, Peoples R China

来源：

MOLECULAR SYSTEMS BIOLOGY | 2011年 / 7卷

关键词：

human liver; network; protein-protein interaction; yeast two hybrid; NF-KAPPA-B; GENE-EXPRESSION; BIOLOGICAL FUNCTION; C-MYC; TISSUE; TRANSFORMATION; ACTIVATION; RESOURCE; ONTOLOGY; DATABASE;

D O I：

10.1038/msb.2011.67

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Proteome-scale protein interaction maps are available for many organisms, ranging from bacteria, yeast, worms and flies to humans. These maps provide substantial new insights into systems biology, disease research and drug discovery. However, only a small fraction of the total number of human protein-protein interactions has been identified. In this study, we map the interactions of an unbiased selection of 5026 human liver expression proteins by yeast two-hybrid technology and establish a human liver protein interaction network (HLPN) composed of 3484 interactions among 2582 proteins. The data set has a validation rate of over 72% as determined by three independent biochemical or cellular assays. The network includes metabolic enzymes and liver-specific, liver-phenotype and liver-disease proteins that are individually critical for the maintenance of liver functions. The liver enriched proteins had significantly different topological properties and increased our understanding of the functional relationships among proteins in a liver-specific manner. Our data represent the first comprehensive description of a HLPN, which could be a valuable tool for understanding the functioning of the protein interaction network of the human liver. Molecular Systems Biology 7: 536; published online 11 October 2011; doi:10.1038/msb.2011.67

引用

页数：10

共 38 条

[1] Gene Ontology: tool for the unification of biology [J].

Ashburner, M ;

Ball, CA ;

Blake, JA ;

Botstein, D ;

Butler, H ;

Cherry, JM ;

Davis, AP ;

Dolinski, K ;

Dwight, SS ;

Eppig, JT ;

Harris, MA ;

Hill, DP ;

Issel-Tarver, L ;

Kasarskis, A ;

Lewis, S ;

Matese, JC ;

Richardson, JE ;

Ringwald, M ;

Rubin, GM ;

Sherlock, G .

NATURE GENETICS, 2000, 25 (01) :25-29

[2] Computing topological parameters of biological networks [J].

Assenov, Yassen ;

Ramirez, Fidel ;

Schelhorn, Sven-Eric ;

Lengauer, Thomas ;

Albrecht, Mario .

BIOINFORMATICS, 2008, 24 (02) :282-284

[3] Tissue specificity and the human protein interaction network [J].

Bossi, Alice ;

Lehner, Ben .

MOLECULAR SYSTEMS BIOLOGY, 2009, 5

[4] Library of molecular associations: curating the complex molecular basis of liver diseases [J].

Buchkremer, Stefan ;

Hendel, Jasmin ;

Krupp, Markus ;

Weinmann, Arndt ;

Schlamp, Kai ;

Maass, Thorsten ;

Staib, Frank ;

Galle, Peter R. ;

Teufel, Andreas .

BMC GENOMICS, 2010, 11

[5] The human disease network [J].

Goh, Kwang-Il ;

Cusick, Michael E. ;

Valle, David ;

Childs, Barton ;

Vidal, Marc ;

Barabasi, Albert-Laszlo .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2007, 104 (21) :8685-8690

[6] NF-κB and STAT3 - key players in liver inflammation and cancer [J].

He, Guobin ;

Karin, Michael .

CELL RESEARCH, 2011, 21 (01) :159-168

[7] The multifunctional GIT family of proteins [J].

Hoefen, RJ ;

Berk, BC .

JOURNAL OF CELL SCIENCE, 2006, 119 (08) :1469-1475

[8] Detection of the inferred interaction network in hepatocellular carcinoma from EHCO (Encyclopedia of Hepatocellular Carcinoma genes Online) [J].

Hsu, Chun-Nan ;

Lai, Jin-Mei ;

Liu, Chia-Hung ;

Tseng, Huei-Hun ;

Lin, Chih-Yun ;

Lin, Kuan-Ting ;

Yeh, Hsu-Hua ;

Sung, Ting-Yi ;

Hsu, Wen-Lian ;

Su, Li-Jen ;

Lee, Sheng-An ;

Chen, Chang-Han ;

Lee, Gen-Cher ;

Lee, D. T. ;

Shiue, Yow-Ling ;

Yeh, Chang-Wei ;

Chang, Chao-Hui ;

Kao, Cheng-Yan ;

Huang, Chi-Ying F. .

BMC BIOINFORMATICS, 2007, 8 (1)

[9] First Insight into the Human Liver Proteome from PROTEOMESKY-LIVERHu 1.0, a Publicly Available Database [J].

Jiang, Ying ;

Ying, Wantao ;

Wu, Songfeng ;

Chen, Ming ;

Guan, Wei ;

Yang, Dong ;

Song, Yanping ;

Liu, Xin ;

Li, Jianqi ;

Hao, Yunwei ;

Sun, Aihua ;

Geng, Chao ;

Li, Hao ;

Mi, Wei ;

Zhang, Yangjun ;

Zhang, Jiyang ;

Chen, Xilin ;

Li, Lei ;

Gong, Yan ;

Li, Tao ;

Ma, Jie ;

Li, Dong ;

Yuan, Xiaoyan ;

Zhang, Xuequn ;

Xue, Xiaofang ;

Zhu, Yunping ;

Qian, Xiaohong ;

He, Fuchu ;

Zhong, Fan ;

Shen, Huali ;

Lin, Chengzhao ;

Lu, Haojie ;

Liu, Xiaohui ;

Wei, Liming ;

Cao, Jing ;

Yun, Dong ;

Zhang, Jie ;

Gao, Mingxia ;

Fan, Huizhi ;

Zhang, Yang ;

Cheng, Gang ;

Yu, Yanyan ;

Xie, Liqi ;

Wang, Hong ;

Zhang, Xiangmin ;

He, Fuchu ;

Yang, Pengyuan ;

Shi, Liang ;

Tong, Wei ;

Li, Xiaolei .

JOURNAL OF PROTEOME RESEARCH, 2010, 9 (01) :79-94

[10] The KEGG resource for deciphering the genome [J].

Kanehisa, M ;

Goto, S ;

Kawashima, S ;

Okuno, Y ;

Hattori, M .

NUCLEIC ACIDS RESEARCH, 2004, 32 :D277-D280

← 1 2 3 4 →