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Research Article

Identification of novel blood-based HCC-specific diagnostic biomarkers for human hepatocellular carcinoma

, , , , &
Pages 1908-1916 | Received 26 Mar 2019, Accepted 12 Apr 2019, Published online: 10 May 2019

References

  • Bray F, Ferlay J, Soerjomataram I, et al. Global cancer statistics 2018: Globocan estimates of incidence and mortality worldwide for 36 cancers in 185 countries. CA Cancer J Clin. 2018;68:394–424.
  • Jeong SW, Jang JY, Chung RT. Hepatitis C virus and hepatocarcinogenesis. Clin Mol Hepatol. 2012;18:347–356.
  • Lin MV, King LY, Chung RT. Hepatitis C virus-associated cancer. Annu Rev Pathol. 2015;10:345–370.
  • Dutkowski P, Linecker M, DeOliveira ML, et al. Challenges to liver transplantation and strategies to improve outcomes. Gastroenterology. 2015;148:307–323.
  • Intaraprasong P, Siramolpiwat S, Vilaichone RK. Advances in management of hepatocellular carcinoma. Asian Pac J Cancer Prev. 2016;17:3697–3703.
  • Takeda H, Takai A, Inuzuka T, et al. Genetic basis of hepatitis virus-associated hepatocellular carcinoma: linkage between infection, inflammation, and tumorigenesis. J Gastroenterol. 2017;52:26–38.
  • Bruix J, Llovet JM. Prognostic prediction and treatment strategy in hepatocellular carcinoma. Hepatology. 2002;35:519–524.
  • Gan W, Huang JL, Zhang MX, et al. New nomogram predicts the recurrence of hepatocellular carcinoma in patients with negative preoperative serum Afp subjected to curative resection. J Surg Oncol. 2018;117:1540–1547.
  • Mehta AS, Lau DT, Wang M, et al. Application of the Doylestown algorithm for the early detection of hepatocellular carcinoma. PLoS One. 2018;13:e0203149.
  • Langfelder P, Horvath S. WGCNA: an R package for weighted correlation network analysis. BMC Bioinformatics. 2008;9:559.
  • Shi M, Chen MS, Sekar K, et al. A blood-based three-gene signature for the non-invasive detection of early human hepatocellular carcinoma. Eur J Cancer. 2014;50:928–936.
  • Barrett T, Wilhite SE, Ledoux P, et al. NCBI Geo: archive for functional genomics data sets–update. Nucleic Acids Res. 2012;41:D991–5.
  • Giulietti M, Occhipinti G, Principato G, et al. Weighted gene co-expression network analysis reveals key genes involved in pancreatic ductal adenocarcinoma development. Cell Oncol. 2016;39:379–388.
  • Langfelder P, Horvath S. Fast R functions for robust correlations and hierarchical clustering. J Stat Softw. 2012;46:1–17.
  • Tripathi S, Pohl MO, Zhou Y, et al. Meta- and orthogonal integration of influenza "Omics" data defines a role for Ubr4 in virus budding. Cell Host Microbe. 2015;18:723–735.
  • Kanehisa M, Goto S. Kegg: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 2000;28:27–30.
  • Fabregat A, Jupe S, Matthews L, et al. The reactome pathway knowledgebase. Nucleic Acids Res. 2018;46:D649–D55.
  • Gene ontology consortium: going forward. Nucleic Acids Res. 2015;43:D1049–D1056.
  • Killcoyne S, Carter GW, Smith J, Boyle J, et al. Cytoscape: a community-based framework for network modeling. Methods Mol Biol. 2009;563:219–239.
  • Shannon P, Markiel A, Ozier O. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res. 2003;13:2498–2504.
  • Han JD, Bertin N, Hao T, et al. Evidence for dynamically organized modularity in the yeast protein-protein interaction network. Nature. 2004;430:88–93.
  • Szklarczyk D, Franceschini A, Wyder S, et al. V10: protein-protein interaction networks, integrated over the tree of life. Nucleic Acids Res. 2015;43:D447–52.
  • Bader GD, Hogue CW. An automated method for finding molecular complexes in large protein interaction networks. BMC Bioinformatics. 2003;4:2.
  • Chin CH, Chen SH, Wu HH, et al. Cytohubba: identifying hub objects and sub-networks from complex interactome. BMC Syst Biol. 2014;8( Suppl 4):S11.
  • Rhodes DR, Kalyana-Sundaram S, Mahavisno V, et al. Oncomine 3.0: genes, pathways, and networks in a collection of 18,000 cancer gene expression profiles. Neoplasia. 2007;9:166–180.
  • Rhodes DR, Yu J, Shanker K, et al. Oncomine: a cancer microarray database and integrated data-mining platform. Neoplasia. 2004;6:1–6.
  • Lánczky A, Nagy Á, Bottai G, et al. Mirpower: a web-tool to validate survival-associated Mirnas utilizing expression data from 2178 breast cancer patients. Breast Cancer Res Treat. 2016;160:439–446.
  • Freitas N, Cunha C. Mechanisms and signals for the nuclear import of proteins. Curr Genomics. 2009;10:550–557.
  • Kalderon D, Roberts BL, Richardson WD, et al. A short amino acid sequence able to specify nuclear location. Cell. 1984;39:499–509.
  • Eckhardt SG, Milich DR, McLachlan A. Hepatitis B virus core antigen has two nuclear localization sequences in the arginine-rich carboxyl terminus. J Virol. 1991;65:575–582.
  • Yin L, Wang Y, Guo X, et al. Comparison of gene expression in liver regeneration and hepatocellular carcinoma formation. CMAR. 2018;10:5691–5708.
  • Fan S, Liang Z, Gao Z, et al. Identification of the key genes and pathways in prostate cancer. Oncol Lett. 2018;16:6663–6669.
  • Zhu CQ, Ding K, Strumpf D, et al. Prognostic and predictive gene signature for adjuvant chemotherapy in resected non-small-cell lung cancer. J Clin Oncol. 2010;28:4417–4424.
  • Carles J, Monzo M, Artells R, et al. Xpc, Xpd/Ercc2, Umps, Cyp1b1 and Xrcc5, single nucleotide polymorphisms (Snps) in head and neck cancer. JCO. 2004;22:5588–5588.
  • Lopez SM, Agoulnik AI, Zhang M, et al. Nuclear receptor corepressor 1 expression and output declines with prostate cancer progression. Clin Cancer Res. 2016;22:3937–3949.
  • Fozzatti L, Park JW, Zhao L, et al. Oncogenic actions of the nuclear receptor corepressor (Ncor1) in a mouse model of thyroid cancer. PLoS One. 2013;8:e67954.
  • Lima TI, Valentim RR, Araujo HN, et al. Role of Ncor1 in mitochondrial function and energy metabolism. Cell Biol Int. 2018;42:734–741.
  • Ou-Yang Q, Lin XM, Zhu YJ, et al. Distinct role of nuclear receptor corepressor 1 regulated de novo fatty acids synthesis in liver regeneration and hepatocarcinogenesis in mice. Hepatology. 2018;67:1071–1087.
  • Chiosea S, Jelezcova E, Chandran U, et al. Overexpression of dicer in precursor lesions of lung adenocarcinoma. Cancer Res. 2007;67:2345–2350.
  • Merritt WM, Lin YG, Han LY, et al. Dicer, Drosha, and outcomes in patients with ovarian cancer. N Engl J Med. 2008;359:2641–2650.
  • Chiosea S, Jelezcova E, Chandran U, et al. Up-regulation of dicer, a component of the microrna machinery, in prostate adenocarcinoma. Am J Pathol. 2006;169:1812–1820.