Genomics & Informatics

Korea Genome Organization (한국유전체학회)
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In silica Prediction of Angiogenesis-related Genes in Human Hepatocellular Carcinoma

  • Kang, Seung-Hui (College of Pharmacy and Research Institute of Pharmaceutical Sciences, Seoul National University, Interdisciplinary Program in Bioinformatics, Seoul National University) ;
  • Park, Jeong-Ae (College of Pharmacy and Research Institute of Pharmaceutical Sciences, Seoul National University) ;
  • Hong, Soon-Sun (College of Pharmacy and Research Institute of Pharmaceutical Sciences, Seoul National University) ;
  • Kim, Kyu-Won (College of Pharmacy and Research Institute of Pharmaceutical Sciences, Seoul National University, Interdisciplinary Program in Bioinformatics, Seoul National University)
  • Published : 2004.09.01
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Abstract

Hepatocellular carcinoma (HCC) is one of the most common malignancies worldwide and a typical hypervascular tumor. Therefore, it is important to find factors related to angiogenesis in the process of HCC malignancy. In order to find angiogenesis-related factors in HCC, we used combined methods of in silico prediction and an experimental assay. We analyzed 1457 genes extracted from cDNA microarray of HCC patients by text-mining, sequence similarity search and domain analysis. As a result, we predicted that 16 genes were likely to be involved in angiogenesis and then the effects of these genes were confirmed by hypoxia response element(HRE)-luciferase assay. For instant, we classified osteopontin into a potent angiogenic factor and coagulation factor XII into a significant anti­angiogenic factor. Collectively, we suggest that using a combination of in silico prediction and experimental approaches, we can identify HCC-specific angiogenesis­related factors effectively and rapidly.

Keywords

References

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