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Journal of Traditional Chinese Medicine ›› 2017, Vol. 37 ›› Issue (04): 510-521.

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Competing endogenous RNA screening based on long noncoding RNA-messenger RNA co-expression profile in Hepatitis B virus-associated hepatocarcinogenesis

Wen Quan, Yang Yao, Chen Xianhua, Pan Xiaodong, Han Qi, Wang Dong, Deng Youcai, Li Xiaohui, Yan Jun, Zhou Jihong   

  1. Cancer Center, Research Institute of Surgery, Daping Hospital, Third Military Medical University;State Key Laboratory of Trauma, Burns and Combined Injury, Institute for Traffic Medicine, Research Institute of Surgery, Daping Hospital, Third Military Medical University;Institute of Materia Medica, College of Pharmacy, Third Military Medical University;Diagosis and Treatment Center for Servicemen, Southwest Hospital, Third Military Medical University;Institute of Hepatobiliary Surgery, Southwest Hospital, Third Military Medical University;
  • Accepted:2017-08-15 Online:2017-08-15 Published:2022-04-04
  • Supported by:
    Supported by the Natural Science Foundation of China:The roles and mechanisms of RXRαin HBx-induced DNMT3a up-regulation in hepatocellular carcinoma(No.81372272), The role of Foxo1-m TOR signal axis in regulating bioenergetic metabolism transition during NK Cell activation(No.81520108029)

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Abstract: OBJECTIVE: To profile the liver cancer specific long noncoding RNAs(lnc RNAs) and competing endogenous RNA(ce RNA) networks of Hepatitis B virus(HBV)-associated hepatocarcinogensis(HCG) and to examine the effect of compound K on the expression of identified ce RNA networks.METHODS: Based on lnc RNA and messenger RNA(m RNA) microarray data of HBV-associated liver cancer, the current study profiles the cancer specific lnc RNAs and ce RNA networks of HBV-associated HCG through comprehensive application of Reg RNA 2, mi RTar Base and Pearson correlation coefficient analysis. Compound K-treated liver cancer cells were harvested for analysis of transcriptional levels of both enoyl-Co A hydratase and 3-hydroxyacyl Co A dehydrogenase(EHHADH)-AS1 and ENTPD5.RESULTS: The results revealed that 11 Encyclopedia of DNA Elements annotated lnc RNAs were differentially expressed in the process of HBV-associated HCG. Among these lnc RNAs, 95 potential ce RNA networks with highly positively correlated expression profiles between the interacting lnc RNAs and m RNAs(Pearson correlation coefficient ≥ 0.7) were constructed. Of note, two HBV-associated ce RNA networks, EHHADH-AS1-hsa-mi R-4459-ectonucleoside triphosphate diphosphohydrolase 5 and LINC01018-hsa-mi RNA-574-5p-glucose-6-phosphatase catalytic subunit, with Pearson correlation coefficient ≥ 0.9, may play a critical role in hepatocellular carcinoma development, which was supported by experimental evidence. Interestingly, compound K, an intestinal bacterial metabolite of ginseng protopanaxadiol saponin, which has been proven to promote apoptosis of human hepatocellular carcinoma cells, was found to impede the down-regulation of EHHADH-AS1 in several liver cancer cell lines including Hep G3 B, Huh-7 and plc/prf/5 cells.CONCLUSION: Comprehensive application of co-expression network analysis and prediction of RNA interaction may be a feasible strategy to unravel the potential ce RNA networks involved in the process of human diseases.

Key words: Carcinoma,hepatocellular, Hepatitis B virus, RNA,long noncoding, RNA,messenger, Compound K

Cite this article

Wen Quan, Yang Yao, Chen Xianhua, Pan Xiaodong, Han Qi, Wang Dong, Deng Youcai, Li Xiaohui, Yan Jun, Zhou Jihong. Competing endogenous RNA screening based on long noncoding RNA-messenger RNA co-expression profile in Hepatitis B virus-associated hepatocarcinogenesis[J]. Journal of Traditional Chinese Medicine, 2017, 37(04): 510-521.