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Screening differentially expressed genes in hepatocellular carcinoma by cross-species and cross-carcinogenic factors strategy based on RNA-Seq
Jun-Lin Shi, Wang Luo, Yuan Li, Chun Yang, Yan-Ping Tang, Ke-Zhi Li, Ji Cao
Jun-Lin Shi, Wang Luo, Yuan Li, Chun Yang, Yan-Ping Tang, Ke-Zhi Li, Ji Cao, Department of Experimental Pathology, Tumor Hospital of Guangxi Medical University, Nanning 530021, Guangxi Zhuang Autonomous, China
Jun-Lin Shi, Center for Translational Medicine of Guangxi Medical University; Graduate School of Guangxi Medical University, Nanning 530021, Guangxi Zhuang Autonomous Region, China
Supported by: National Natural Science Foundation of China, Nos. 30960428 and 81260080; Youth Foundation of Guangxi Medical University, No. GXMUYSF2014023.
Correspondence to: Ji Cao, Researcher, Department of Experimental Pathology, Tumor Hospital of Guangxi Medical University, 71 Hedi Road, Nanning 530021, Guangxi Zhuang Autonomous, China. caojicn@163.com
Received: February 1, 2016 Revised: February 26, 2016 Accepted: March 8, 2016 Published online: April 18, 2016
AIM: To identify key molecules involved in progression of hepatocellular carcinoma (HCC) by cross-species (human and tupaia) and cross-carcinogenic factors (HBV and AFB1) strategy based on RNA sequencing (RNA-Seq).
METHODS: The transcripts in human and tupaia HCC, tumor adjacent liver tissue (para-HCC) and normal liver tissue were thoroughly analyzed by RNA sequencing. Tupaia HCC was induced by HBV infection or aflatoxin B1 (AFB1). Differentially expressed genes were collected between these tissues, and common differential genes which cross human and Tupaia as well as HBV and AFB1 carcinogenic factors were identified.
RESULTS: Compared to human para-HCC and normal liver tissues, 68 differential genes were screened in human HCC, among which 14 were up-regulated and 54 down-regulated. Compared to Tupaia para-HCC and normal liver tissues, 314 differential genes were screened in HBV induced Tupaia HCC, and 20 were screened in AFB1 induced Tupaia HCC. There were 11 common differential genes between HBV and AFB1 induced Tupaia HCC, all of which were down-regulated. There were 2 common differential genes between human HCC and Tupaia HCC, and they were apolipoprotein F (APOF) and insulin-like growth factor binding protein, acid labile subunit (IGFALS), both of which were down-regulated in HCC.
CONCLUSION: The cross-species, cross-carcinogenic factors screening strategy based on RNA-Seq may promote the process of identifying key molecules for human HCC. APOF and IGFALS may be important factors for HCC.
Citation: Shi JL, Luo W, Li Y, Yang C, Tang YP, Li KZ, Cao J. Screening differentially expressed genes in hepatocellular carcinoma by cross-species and cross-carcinogenic factors strategy based on RNA-Seq. Shijie Huaren Xiaohua Zazhi 2016; 24(11): 1664-1675
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