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As the third most deadly cancer worldwide, hepatocellular carcinoma (HCC) has been extensively studied in recent years. The vast amount of published data could provide a spurious platform for comprehensive analysis of HCC carcinogenesis. Here we tried to integrate the published HCC expression profiling and chromosome aberration data in order to find out important chromosome regions and HCC genes. HCC data including differentially expressed microarray genes, published experimental results, lose of heterozygosity (LOH) and comparative genomic hybridization (CGH) were displayed according to their chromosome positions. Our results indicate that chromosome regions of concordance between LOH and CGH occurred in 1p36, 1q21-22, 4q13-24, 4q34-35, 8p23-21, 8q22, 8q24, 9p23-21, 10q24-16, 11q13, 13q12-21, 16q21-23, 17p13-12, 17q22-24 and 20q13.1-13.2, whereas 1q22-25, 6q12-21, 22q13 were regions of disconcordance. More than 300 differential expressed genes selected from microarray and experimental data were divided into different categories according to gene ontology (GO) analysis. Notable GO categories were signal transduction (81 genes), cell proliferation (78 genes) and response to stimulus (57 genes). In conclusion, the collection and integration of published HCC data will be an invaluable resource. With a global view of gene expression and genetic alteration data in HCC genome, this database could provide insight for further HCC research. Furthermore, this comprehensive database could serve as a step toward the dissection of HCC tumorigenesis pathway and the foundation of HCC systems biology.

[Proc Amer Assoc Cancer Res, Volume 46, 2005]