| Info. | Vol.1 - No.3 (2007.09.20) |
|---|---|
| Title | Identification of Disease Specific Protein Interactions between the Gastric Cancer Causing Pathogen, H. pylori, and Human Hosts using Protein Network Modeling and Gene Chip Analysis |
| Authors | Wan Kyu Kim1,2, Kyuwan Kim2, Eunjung Lee2, Edward M. Marcotte1, Hyong-Ha Kim3 & Jung-Keun Suh2,4 |
| Institutions | 1Center for Systems and Synthetic Biology, Department of Chemistry and Biochemistry, Institute for Cellular and Molecular Biology, 2500 Speedway, University of Texas, Austin, Texas 78712, USA. 2LG Life Science R & D Park/Bio Institute 104-1, Moonji-Dong, Yuseong-Gu, Daejeon 305-380, Korea 3Division of Metrology for Quality Life, Korea Research Institute of Standards & Science, P.O. Box 102, Yuseong, Daejeon 305-600, Korea 4Korean German Institute of Technology Biotech Research Center, KGIT Mokdong Center, 905-27, Mok-dong, Yangcheon-gu, Seoul 158-050, Korea Correspondence and requests for materials should be addressed to J.-K. Suh (suhjung@kgit.re.kr) |
| Abstract | Proteins are traditionally known as the building blocks or functional units that make up the cellular physiology of living organisms. In the post-genomic view of a protein, however, it can function as an element within a protein network and its role can then be evaluated by protein-protein interaction analysis. The role of proteins within such a network can be defined by their cellular function within the functional modules of the network as well as their individual activity. In this study, we used a proteinprotein interaction modeling system to identify the functional modules and proteins involved in the pathogenic interaction between the gastric pathogen, H. pylori, and humans. We analyzed 1,590 H. pylori proteins against 10,257 human entries expressed in human gastric tissues and identified 4,349 potential protein-protein interactions between 159 H. pylori proteins and 108 human proteins. We then investigated the association of gastric cancer with the 108 human proteins found to have an interaction with the H. pylori proteins using a GeneChip database that we generated. Among the 108 human proteins, 93 (86%) were shown to be associated with gastric cancer, 91 of which were up-regulated and 2 of which were down-regulated by at least 4 fold in gastric cancer tissues. Additionally, 32 of the proteins were found to be gastric cancer-specific, whereas the remaining proteins were found to be associated with several other forms of cancer. Taken together, these results suggest that protein network modeling in conjunction with GeneChip technology can be a useful tool for the analysis of the complex relationship between human pathogens and their hosts. |
| Keyword | H. Pylori, Protein-protein interaction, Protein network modeling, Host-pathogen interaction, Gene Chip microarray |
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