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Original Research

Comprehensive Identification of Bridge Genes to Explain the Progression from Chronic Hepatitis B Virus Infection to Hepatocellular Carcinoma

, , , , , , & show all
Pages 1613-1624 | Published online: 21 Apr 2021

References

  • Wei Y, Ye W, Zhao W. Serum iron levels decreased in patients with HBV-related hepatocellular carcinoma, as a risk factor for the prognosis of HBV-related HCC. Front Physiol. 2018;9:66. doi:10.3389/fphys.2018.00066
  • Quoc NB, Phuong N, Ngan TK, Linh N, Cuong PH, Chau N. Expression of plasma hsa-miR122 in HBV-related hepatocellular carcinoma (HCC) in Vietnamese Patients. Microrna. 2018;7(2):92–99. doi:10.2174/2211536607666180427165114
  • Zhang G, Zhang G. Upregulation of FoxP4 in HCC promotes migration and invasion through regulation of EMT. Oncol Lett. 2019;17(4):3944–3951. doi:10.3892/ol.2019.10049
  • Zhang X, Kang C, Li N, et al. Identification of special key genes for alcohol-related hepatocellular carcinoma through bioinformatic analysis. PeerJ. 2019;7:e6375. doi:10.7717/peerj.6375
  • Lemoine M, Thursz MR. Battlefield against hepatitis B infection and HCC in Africa. J Hepatol. 2017;66(3):645–654. doi:10.1016/j.jhep.2016.10.013
  • Kulik L, El-Serag HB. Epidemiology and management of hepatocellular carcinoma. Gastroenterology. 2019;156(2):477–491.e1. doi:10.1053/j.gastro.2018.08.065
  • Rana MA, Ijaz B, Daud M, Tariq S, Nadeem T, Husnain T. Interplay of Wnt β-catenin pathway and miRNAs in HBV pathogenesis leading to HCC. Clin Res Hepatol Gastroenterol. 2019;43(4):373–386. doi:10.1016/j.clinre.2018.09.012
  • Christel P, Meunier A, Heller M, Torre JP, Peille CN. Mechanical properties and short-term in-vivo evaluation of yttrium-oxide-partially-stabilized zirconia. J Biomed Mater Res. 1989;23(1):45–61. doi:10.1002/jbm.820230105
  • Wang M, Xi D, Ning Q. Virus-induced hepatocellular carcinoma with special emphasis on HBV. Hepatol Int. 2017;11(2):171–180. doi:10.1007/s12072-016-9779-5
  • Busca A, Kumar A. Innate immune responses in hepatitis B virus (HBV) infection. Virol J. 2014;11(1):22. doi:10.1186/1743-422X-11-22
  • Wang L, Fan YX, Ding Y, et al. [The comparison of liver inflammation and fibrosis between chronic HBV and HCV infection]. Zhonghua Gan Zang Bing Za Zhi. 2017;25(6):419–423. Chinese. doi:10.3760/cma.j.issn.1007-3418.2017.06.006
  • Qin X, Li C, Guo T, et al. Upregulation of DARS2 by HBV promotes hepatocarcinogenesis through the miR-30e-5p/MAPK/NFAT5 pathway. J Exp Clin Cancer Res. 2017;36(1):148. doi:10.1186/s13046-017-0618-x
  • Reinehr R, Graf D, Fischer R, Schliess F, Häussinger D. Hyperosmolarity triggers CD95 membrane trafficking and sensitizes rat hepatocytes toward CD95L-induced apoptosis. Hepatology. 2002;36(3):602–614. doi:10.1053/jhep.2002.35447
  • Wang SM, Ooi LL, Hui KM. Identification and validation of a novel gene signature associated with the recurrence of human hepatocellular carcinoma. Clin Cancer Res. 2007;13(21):6275–6283. doi:10.1158/1078-0432.CCR-06-2236
  • David CC, Jacobs DJ. Principal component analysis: a method for determining the essential dynamics of proteins. Methods Mol Biol. 2014;1084:193–226. doi:10.1007/978-1-62703-658-0_11
  • Ritchie ME, Phipson B, Wu D, et al. limma powers differential expression analyses for RNA-sequencing and microarray studies. Nucleic Acids Res. 2015;43(7):e47. doi:10.1093/nar/gkv007
  • Love MI, Huber W, Anders S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 2014;15(12):550. doi:10.1186/s13059-014-0550-8
  • Subramanian A, Tamayo P, Mootha VK, et al. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A. 2005;102(43):15545–15550. doi:10.1073/pnas.0506580102
  • Szklarczyk D, Morris JH, Cook H, et al. The STRING database in 2017: quality-controlled protein-protein association networks, made broadly accessible. Nucleic Acids Res. 2017;45(D1):D362–362D368. doi:10.1093/nar/gkw937
  • Kellman P, Chung YC, Simonetti OP, McVeigh ER, Arai AE. Multi-contrast delayed enhancement provides improved contrast between myocardial infarction and blood pool. J Magn Reson Imaging. 2005;22(5):605–613. doi:10.1002/jmri.20426
  • Doncheva NT, Morris JH, Gorodkin J, Jensen LJ. Cytoscape StringApp: network analysis and visualization of proteomics data. J Proteome Res. 2019;18(2):623–632. doi:10.1021/acs.jproteome.8b00702
  • Maraziotis IA, Dimitrakopoulou K, Bezerianos A. An in silico method for detecting overlapping functional modules from composite biological networks. BMC Syst Biol. 2008;2(1):93. doi:10.1186/1752-0509-2-93
  • Yu G, Wang LG, Han Y, He QY. clusterProfiler: an R package for comparing biological themes among gene clusters. OMICS. 2012;16(5):284–287. doi:10.1089/omi.2011.0118
  • Robin X, Turck N, Hainard A, et al. pROC: an open-source package for R and S+ to analyze and compare ROC curves. BMC Bioinform. 2011;12(1):77. doi:10.1186/1471-2105-12-77
  • Burley SK, Berman HM, Kleywegt GJ, Markley JL, Nakamura H, Velankar S. Protein Data Bank (PDB): the single global macromolecular structure archive. Methods Mol Biol. 2017;1607:627–641. doi:10.1007/978-1-4939-7000-1_26
  • Macindoe G, Mavridis L, Venkatraman V, Devignes MD, Ritchie DW. HexServer: an FFT-based protein docking server powered by graphics processors. Nucleic Acids Res. 2010;38(Web Server):W445–W449. doi:10.1093/nar/gkq311
  • Mooers B. Shortcuts for faster image creation in PyMOL. Protein Sci. 2020;29(1):268–276. doi:10.1002/pro.3781
  • Pazgan-Simon M, Simon KA, Jarowicz E, Rotter K, Szymanek-Pasternak A, Zuwała-Jagiełło J. Hepatitis B virus treatment in hepatocellular carcinoma patients prolongs survival and reduces the risk of cancer recurrence. Clin Exp Hepatol. 2018;4(3):210–216. doi:10.5114/ceh.2018.78127
  • Zhuang L, Yang Z, Meng Z. Upregulation of BUB1B, CCNB1, CDC7, CDC20, and MCM3 in tumor tissues predicted worse overall survival and disease-free survival in hepatocellular carcinoma patients. Biomed Res Int. 2018;2018:7897346. doi:10.1155/2018/7897346
  • Yan H, Li Z, Shen Q, et al. Aberrant expression of cell cycle and material metabolism related genes contributes to hepatocellular carcinoma occurrence. Pathol Res Pract. 2017;213(4):316–321. doi:10.1016/j.prp.2017.01.019
  • Chen Z, Chen J, Huang X, et al. Identification of potential key genes for hepatitis B virus-associated hepatocellular carcinoma by bioinformatics analysis. J Comput Biol. 2019;26(5):485–494. doi:10.1089/cmb.2018.0244
  • Lerchner H, Ehgartner EM, Faschinger C, Hesse W. [Re-keratoplasty in a case of Sjögren syndrome]. Fortschr Ophthalmol. 1988;85(6):679–681. German.
  • Chai N, Xie HH, Yin JP, et al. FOXM1 promotes proliferation in human hepatocellular carcinoma cells by transcriptional activation of CCNB1. Biochem Biophys Res Commun. 2018;500(4):924–929. doi:10.1016/j.bbrc.2018.04.201
  • Li Q, Liu X, Jin K, et al. NAT10 is upregulated in hepatocellular carcinoma and enhances mutant p53 activity. BMC Cancer. 2017;17(1):605. doi:10.1186/s12885-017-3570-4
  • Liu LP, Yang M, Peng QZ, et al. UBE2T promotes hepatocellular carcinoma cell growth via ubiquitination of p53. Biochem Biophys Res Commun. 2017;493(1):20–27. doi:10.1016/j.bbrc.2017.09.091
  • McQuade RD, Ford D, Duffy RA, Chipkin RE, Iorio LC, Barnett A. Serotonergic component of SCH 23390: in vitro and in vivo binding analyses. Life Sci. 1988;43(23):1861–1869. doi:10.1016/s0024-3205(88)80003-1
  • Hirokawa N, Tanaka Y. Kinesin superfamily proteins (KIFs): various functions and their relevance for important phenomena in life and diseases. Exp Cell Res. 2015;334(1):16–25. doi:10.1016/j.yexcr.2015.02.016
  • Tang H, Zhang J, Yu Z, et al. Mir-452-3p: a potential tumor promoter that targets the CPEB3/EGFR axis in human hepatocellular carcinoma. Technol Cancer Res Treat. 2017;16(6):1136–1149. doi:10.1177/1533034617735931
  • Zou CD, Zhao WM, Wang XN, et al. MicroRNA-107: a novel promoter of tumor progression that targets the CPEB3/EGFR axis in human hepatocellular carcinoma. Oncotarget. 2016;7(1):266–278. doi:10.18632/oncotarget.5689
  • Dong W, He B, Qian H, et al. RAB26-dependent autophagy protects adherens junctional integrity in acute lung injury. Autophagy. 2018;14(10):1677–1692. doi:10.1080/15548627.2018.1476811
  • Hu DG, Marri S, McKinnon RA, Mackenzie PI, Meech R. Deregulation of the genes that are involved in drug absorption, distribution, metabolism, and excretion in hepatocellular carcinoma. J Pharmacol Exp Ther. 2019;368(3):363–381. doi:10.1124/jpet.118.255018
  • Sun M, Zhao X, Liang L, Pan X, Lv H, Zhao Y. Sialyltransferase ST3GAL6 mediates the effect of microRNA-26a on cell growth, migration, and invasion in hepatocellular carcinoma through the protein kinase B/mammalian target of rapamycin pathway. Cancer Sci. 2017;108(2):267–276. doi:10.1111/cas.13128
  • Suzuki J, Denning DP, Imanishi E, Horvitz HR, Nagata S. Xk-related protein 8 and CED-8 promote phosphatidylserine exposure in apoptotic cells. Science. 2013;341(6144):403–406. doi:10.1126/science.1236758
  • Calais G, Chauvet B, Garand G, Beutter P, Reynaud-Bougnoux A, Le Floch O. [Cancer of the tonsillar region. Role of irradiation in treatment]. Ann Radiol (Paris). 1989;32(7–8):555–559. French.
  • Chen Z, Yu C, Zhan L, Pan Y, Chen L, Sun C. LncRNA CRNDE promotes hepatic carcinoma cell proliferation, migration and invasion by suppressing miR-384. Am J Cancer Res. 2016;6(10):2299–2309.
  • Zhang F, Wang Q, Ye L, Feng Y, Zhang X. Hepatitis B virus X protein upregulates expression of calpain small subunit 1 via nuclear factor-kappaB/p65 in hepatoma cells. J Med Virol. 2010;82(6):920–928. doi:10.1002/jmv.21753
  • He B, Peng F, Li W, Jiang Y. Interaction of lncRNA-MALAT1 and miR-124 regulates HBx-induced cancer stem cell properties in HepG2 through PI3K/Akt signaling. J Cell Biochem. 2019;120(3):2908–2918. doi:10.1002/jcb.26823
  • Liu D, Zhu Y, Pang J, Weng X, Feng X, Guo Y. Knockdown of long non-coding RNA MALAT1 inhibits growth and motility of human hepatoma cells via modulation of miR-195. J Cell Biochem. 2018;119(2):1368–1380. doi:10.1002/jcb.26297
  • Xiong Q, Wu S, Wang J, et al. Hepatitis B virus promotes cancer cell migration by downregulating miR-340-5p expression to induce STAT3 overexpression. Cell Biosci. 2017;7:16. doi:10.1186/s13578-017-0144-8
  • He Y, Zhang H, Yin J, et al. IkappaBalpha gene promoter polymorphisms are associated with hepatocarcinogenesis in patients infected with hepatitis B virus genotype C. Carcinogenesis. 2009;30(11):1916–1922. doi:10.1093/carcin/bgp226
  • Zhang Q, Ji XW, Hou XM, et al. Effect of functional nuclear factor-kappaB genetic polymorphisms on hepatitis B virus persistence and their interactions with viral mutations on the risk of hepatocellular carcinoma. Ann Oncol. 2014;25(12):2413–2419. doi:10.1093/annonc/mdu451