Gene Expression Profile Of Clear Cell Renal Cell Carcinoma By RNA-seq

Renal cell carcinoma (RCC) is one of the most lethal urological cancers. Clear cell RCC(ccRCC) is the major subtype of RCC and has a high lethality rate. In the past years a hugenumber of researches focused on ccRCC and many genes action on ccRCC has been found bygene expression profile, but still no research by RNA-seq exits. For its advantages over othertechnologies, we choose RNA-seq as our approach for transcriptome profiling. We sequencedthe whole transcriptomes of ccRCC tissue compared with normal kidney of the same patientby SOLiD high-throughput sequencing system, and obtained46.6and40.8million reads,respectively. We identified7219differentially expressed genes with1985are down-regulatedand5234are up-regulated in ccRCC library. The down-regulated genes are mostly related tometabolic process and localization, while up-regulated genes are cellular process, biologicalregulation, multicellular organismal process and so on. We further analyzed the pathwaysignatures of ccRCC and found out that metabolic pathways, including energy metabolicpathway, liquid metabolic pathways and Kreb-TCA cycle, are significantly down-regulated.The apoptosis pathway is also down-regulated especially the caspase-independent pathway.Genes in cell cycle pathway is up-regulated, especially P53, P21, P16, CDK2, E2F, CDC6,ORC and MCM. These results could provide basic information for the diagnosis andtreatment of ccRCC.We quantitativly analyzed their expression in human ccRCC primary tumor tissue at thebasis of expanding sample size. Realtime PCR method was used to detect these Genesexpression in4cases of ccRCC patients' primary tumor tissue to testify SOLID results inhuman ccRCC tissue.