Chinese Journal of Tissue Engineering Research ›› 2011, Vol. 15 ›› Issue (35): 6615-6618.doi: 10.3969/j.issn.1673-8225.2011.35.037

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Mining gene functional modules associated with rheumatoid arthritis and their corresponding topological properties analysis

Hua Lin, Zhou Ping, Liu Hong   

  1. School of Biomedical Engineering, Capital Medical University, Beijing  100069, China
  • Received:2011-03-16 Revised:2011-07-06 Online:2011-08-27 Published:2011-08-27
  • About author:Hua Lin☆, Doctor, Lecturer, School of Biomedical Engineering, Capital Medical University, Beijing 100069, China hualin7750@yahoo.com.cn
  • Supported by:

    the Science and Technology General Program of Beijing Education Committee, No. KM201210025*

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Abstract:

BACKGROUND: Rheumatoid arthritis (RA) is a complex polygene genetic disease. High throughput SNP genotype data made traditional genetics analysis get into trouble to identify important markers associated with disease.
OBJECTIVE: To mine gene functional modules associated with RA and to perform their corresponding topological properties analysis.
METHODS: For GWA data set-Wellcome Trust Case Control Consortium (WTCCC) for RA, we extracted risk SNPs firstly and mapped these risk SNPs to genes with UCSC database. The acquired risk genes were mapped to protein-protein interaction network and the gene function modules were extracted by analyzing the structure of network. Especially, for some significant risk gene modules, we focused on their topological properties analysis.
RESULTS AND CONCLUSION: When comparing the network topological properties of the gene function modules with pathways from the KEGG database, we found that they clearly differ from those of most disease-related KEGG pathways.

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