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KMID : 1132720040020030134
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Genomics & Informatics
2004 Volume.2 No. 3 p.134 ~ p.141
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In silico Prediction of Angiogenesis?related Genes in Human Hepatocellular Carcinoma
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Kang Seung-Hui
Park Jeong-Ae
Hong Soon-Sun
Kim Kyu-Won
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Abstract
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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.
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KEYWORD
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HCC, hepatocellular carcinoma, bioinformatics, angiogenesis, hmmer, blast
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