Identification of the Potential Prognosis Biomarkers in Hepatocellular Carcinoma: An Analysis Based on WGCNA and PPI

References

• Siegel R, Miller K, Jemal AJ. Cancer statistics, 2016. CA Cancer J Clin. 2020;70(1):7–30. doi:10.3322/caac.21590
   PubMed Web of Science ®Google Scholar
• Bray F, Ferlay J, Soerjomataram I, Siegel R, Torre L, Jemal AJ. Global cancer statistics 2018: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries. CA Cancer J Clin. 2018;68(6):394–424. doi:10.3322/caac.21492
   PubMed Web of Science ®Google Scholar
• Wang W, Wei CJG. Advances in the early diagnosis of hepatocellular carcinoma. Genes Dis. 2020;7(3):308–319. doi:10.1016/j.gendis.2020.01.014
   PubMed Web of Science ®Google Scholar
• Yang N, Ekanem N, Sakyi C, Ray SJ. Hepatocellular carcinoma and microRNA: new perspectives on therapeutics and diagnostics. Adv Drug Deliv Rev. 2015;81:62–74. doi:10.1016/j.addr.2014.10.029
   PubMed Web of Science ®Google Scholar
• Bai K, He S, Shu L, et al. Identification of cancer stem cell characteristics in liver hepatocellular carcinoma by WGCNA analysis of transcriptome stemness index. Cancer Med. 2020;9(12):4290–4298. doi:10.1002/cam4.3047
   PubMed Web of Science ®Google Scholar
• Zhang Q, Wang J, Liu M, et al. Weighted correlation gene network analysis reveals a new stemness index-related survival model for prognostic prediction in hepatocellular carcinoma. Aging (Albany NY). 2020;12(13):13502–13517. doi:10.18632/aging.103454
   PubMedGoogle Scholar
• Wei Z, Liu Y, Qiao S, et al. Identification of the potential therapeutic target gene UBE2C in human hepatocellular carcinoma: an investigation based on GEO and TCGA databases. Oncol Lett. 2019;17(6):5409–5418. doi:10.3892/ol.2019.10232
   PubMed Web of Science ®Google Scholar
• Ritchie M, 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
   PubMed Web of Science ®Google Scholar
• Reiner-Benaim AJ. FDR control by the BH procedure for two-sided correlated tests with implications to gene expression data analysis. Biom J. 2007;49(1):107–126. doi:10.1002/bimj.200510313
   PubMed Web of Science ®Google Scholar
• Horvath S, Dong JJ, Miyano S. Geometric interpretation of gene coexpression network analysis. PLoS Comput Biol. 2008;4(8):e1000117. doi:10.1371/journal.pcbi.1000117
   PubMed Web of Science ®Google Scholar
• Xu N, Chen S, Lin T, et al. Development and validation of hub genes for lymph node metastasis in patients with prostate cancer. J Cell Mol Med. 2020;24(8):4402–4414. doi:10.1111/jcmm.15098
   PubMed Web of Science ®Google Scholar
• Tang D, Zhao X, Zhang L, Wang Z, Wang CJ. Identification of hub genes to regulate breast cancer metastasis to brain by bioinformatics analyses. J Cell Biochem. 2019;120(6):9522–9531. doi:10.1002/jcb.28228
   PubMed Web of Science ®Google Scholar
• Wang Y, Chen L, Wang G, et al. Fifteen hub genes associated with progression and prognosis of clear cell renal cell carcinoma identified by coexpression analysis. J Cell Physiol. 2019;234(7):10225–10237. doi:10.1002/jcp.27692
   PubMed Web of Science ®Google Scholar
• Jiang C, Wu S, Jiang L, et al. Network-based approach to identify biomarkers predicting response and prognosis for HER2-negative breast cancer treatment with taxane-anthracycline neoadjuvant chemotherapy. PeerJ. 2019;7:e7515. doi:10.7717/peerj.7515
   PubMed Web of Science ®Google Scholar
• Liu X, Huang Q, Yin X, et al. Strong correlation between the expression of CHEK1 and clinicopathological features of patients with multiple myeloma. Crit Rev Eukaryot Gene Expr. 2020;30(4):349–357. doi:10.1615/CritRevEukaryotGeneExpr.2020027084
   PubMed Web of Science ®Google Scholar
• Di Leo G, Sardanelli FJ. Statistical significance: p value, 0.05 threshold, and applications to radiomics-reasons for a conservative approach. European Radiology Experimental. 2020;4(1):18. doi:10.1186/s41747-020-0145-y
   PubMedGoogle Scholar
• Chen L, Zhang Y, Wang S, Zhang Y, Huang T, Cai YJ. Prediction and analysis of essential genes using the enrichments of gene ontology and KEGG pathways. PLoS One. 2017;12(9):e0184129. doi:10.1371/journal.pone.0184129
   PubMed Web of Science ®Google Scholar
• Ma X, Zhou L, Zheng S. Transcriptome analysis revealed key prognostic genes and microRNAs in hepatocellular carcinoma. PeerJ. 2020;8:e8930. doi:10.7717/peerj.8930
   PubMed Web of Science ®Google Scholar
• Cui H, Shan H, Miao M, et al. Identification of the key genes and pathways involved in the tumorigenesis and prognosis of kidney renal clear cell carcinoma. Sci Rep. 2020;10(1):4271. doi:10.1038/s41598-020-61162-4
   PubMed Web of Science ®Google Scholar
• Gilberto S, Peter MJ. Dynamic ubiquitin signaling in cell cycle regulation. J Cell Biol. 2017;216(8):2259–2271. doi:10.1083/jcb.201703170
   PubMed Web of Science ®Google Scholar
• Zheng K, He Z, Kitazato K, Wang YJT. Selective autophagy regulates cell cycle in cancer therapy. Theranostics. 2019;9(1):104–125. doi:10.7150/thno.30308
   PubMed Web of Science ®Google Scholar
• Liu X, Li Y, Meng L, et al. Reducing protein regulator of cytokinesis 1 as a prospective therapy for hepatocellular carcinoma. Cell Death Dis. 2018;9(5):534. doi:10.1038/s41419-018-0555-4
   PubMed Web of Science ®Google Scholar
• Kang S, Chun TJE. Structural heterogeneity of the mammalian polycomb repressor complex in immune regulation. Exp Mol Med. 2020;52(7):1004–1015. doi:10.1038/s12276-020-0462-5
   PubMed Web of Science ®Google Scholar
• Ge Z, Leighton J, Wang Y, et al. Integrated genomic analysis of the ubiquitin pathway across cancer types. Cell Rep. 2018;23(1):213–226.e3. doi:10.1016/j.celrep.2018.03.047
   PubMed Web of Science ®Google Scholar
• Zhang W, Zhang J, Xu C, et al. Ubiquitin-specific protease 7 is a drug-able target that promotes hepatocellular carcinoma and chemoresistance. Cancer Cell Int. 2020;20:28. doi:10.1186/s12935-020-1109-2
   PubMed Web of Science ®Google Scholar
• Bufalieri F, Lospinoso Severini L, Caimano M, Infante P, Di Marcotullio LJC. DUBs activating the hedgehog signaling pathway: a promising therapeutic target in cancer. Cancers (Basel). 2020;12(6):1518. doi:10.3390/cancers12061518
   PubMed Web of Science ®Google Scholar
• Swan R, Poh L, Cowell I, Austin CJ. Small molecule inhibitors confirm ubiquitin-dependent removal of TOP2-DNA covalent complexes. Mol Pharmacol. 2020;98(3):222–233. doi:10.1124/mol.119.118893
   PubMed Web of Science ®Google Scholar
• Lyu W, Shu Y, Liu Y, Dong PJ. Topoisomerase II alpha promotes gallbladder cancer proliferation and metastasis through activating phosphatidylinositol 3-kinase/protein kinase B/mammalian target of rapamycin signaling pathway. Chin Med J (Engl). 2020;133:2321–2329. doi:10.1097/cm9.0000000000001075
   PubMed Web of Science ®Google Scholar
• Xiong G, Li L, Chen X, et al. Up-regulation of CKAP2L expression promotes lung adenocarcinoma invasion and is associated with poor prognosis. Onco Targets Ther. 2019;12:1171–1180. doi:10.2147/ott.S182242
   PubMed Web of Science ®Google Scholar
• Sui X, Kong N, Ye L, et al. p38 and JNK MAPK pathways control the balance of apoptosis and autophagy in response to chemotherapeutic agents. Cancer Lett. 2014;344(2):174–179. doi:10.1016/j.canlet.2013.11.019
   PubMed Web of Science ®Google Scholar