Vogel A, Meyer T, Sapisochin G, et al. Hepatocellular Carcinoma Lancet. 2022;400:1345–62.
Mittal S, Sada YH, El-Serag HB, et al. Temporal trends of nonalcoholic fatty liver disease-related hepatocellular carcinoma in the veteran affairs population. Clin Gastroenterol Hepatol. 2015;13:594–601. e1.
Global Burden of Disease, Cancer C, Fitzmaurice C, Allen C, et al. Global, Regional, and National Cancer incidence, mortality, years of Life Lost, Years lived with disability, and disability-adjusted life-years for 32 Cancer groups, 1990 to 2015: a systematic analysis for the global burden of Disease Study. JAMA Oncol. 2017;3:524–48.
Yang JD, Larson JJ, Watt KD, et al. Hepatocellular Carcinoma is the most common indication for Liver Transplantation and Placement on the Waitlist in the United States. Clin Gastroenterol Hepatol. 2017;15:767–75. e3.
Stras WA, Wasiak D, Lagiewska B, et al. Recurrence of Hepatocellular Carcinoma after Liver Transplantation: risk factors and predictive models. Ann Transpl. 2022;27:e934924.
Forner A, Llovet JM, Bruix J. Hepatocellular carcinoma. Lancet. 2012;379:1245–55.
Xu XF, Xing H, Han J, et al. Risk factors, patterns, and outcomes of late recurrence after liver resection for Hepatocellular Carcinoma: a Multicenter Study from China. JAMA Surg. 2019;154:209–17.
Singal AG, Llovet JM, Yarchoan M et al. AASLD practice guidance on prevention, diagnosis, and treatment of hepatocellular carcinoma. Hepatology. 2023.
Agopian VG, Harlander-Locke M, Zarrinpar A, et al. A novel prognostic nomogram accurately predicts hepatocellular carcinoma recurrence after liver transplantation: analysis of 865 consecutive liver transplant recipients. J Am Coll Surg. 2015;220:416–27.
Ding X, He M, Chan AWH, et al. Genomic and epigenomic features of primary and recurrent Hepatocellular Carcinomas. Gastroenterology. 2019;157:1630–45. e6.
Article CAS PubMed Google Scholar
Xue R, Li R, Guo H, et al. Variable Intra-tumor genomic heterogeneity of multiple lesions in patients with Hepatocellular Carcinoma. Gastroenterology. 2016;150:998–1008.
Liu T, Shi Q, Yang L, et al. Long non-coding RNAs HERH-1 and HERH-4 facilitate cyclin A2 expression and accelerate cell cycle progression in advanced hepatocellular carcinoma. BMC Cancer. 2021;21:957.
Article CAS PubMed PubMed Central Google Scholar
Zou J, Huss M, Abid A, et al. A primer on deep learning in genomics. Nat Genet. 2019;51:12–8.
Article CAS PubMed Google Scholar
Vandesompele J, De Preter K, Pattyn F, et al. Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biol. 2002;3:RESEARCH0034.
Article PubMed PubMed Central Google Scholar
Storey JD, Tibshirani R. Statistical significance for genomewide studies. Proc Natl Acad Sci U S A. 2003;100:9440–5.
Article CAS PubMed PubMed Central Google Scholar
Storey JD. The positive false discovery rate: a bayesian interpretation and the < i > q-value. Annals Stat. 2003;31:2013–35. 23.
Harris MA, Clark J, Ireland A, et al. The Gene Ontology (GO) database and informatics resource. Nucleic Acids Res. 2004;32:D258–61.
Article CAS PubMed Google Scholar
Slenter DN, Kutmon M, Hanspers K, et al. WikiPathways: a multifaceted pathway database bridging metabolomics to other omics research. Nucleic Acids Res. 2018;46:D661–7.
Article CAS PubMed Google Scholar
Kuleshov MV, Jones MR, Rouillard AD, et al. Enrichr: a comprehensive gene set enrichment analysis web server 2016 update. Nucleic Acids Res. 2016;44:W90–7.
Article CAS PubMed PubMed Central Google Scholar
Szklarczyk D, Gable AL, Lyon D, et al. STRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets. Nucleic Acids Res. 2019;47:D607–13.
Article CAS PubMed Google Scholar
Shannon P, Markiel A, Ozier O, et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res. 2003;13:2498–504.
Article CAS PubMed PubMed Central Google Scholar
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.
Article PubMed PubMed Central Google Scholar
Chicco D, Jurman G. The advantages of the Matthews correlation coefficient (MCC) over F1 score and accuracy in binary classification evaluation. BMC Genomics. 2020;21:6.
Article PubMed PubMed Central Google Scholar
Newman AM, Liu CL, Green MR, et al. Robust enumeration of cell subsets from tissue expression profiles. Nat Methods. 2015;12:453–7.
Article CAS PubMed PubMed Central Google Scholar
Steen CB, Liu CL, Alizadeh AA, et al. Profiling cell type abundance and expression in bulk tissues with CIBERSORTx. Methods Mol Biol. 2020;2117:135–57.
Article CAS PubMed PubMed Central Google Scholar
Newman AM, Steen CB, Liu CL, et al. Determining cell type abundance and expression from bulk tissues with digital cytometry. Nat Biotechnol. 2019;37:773–82.
Article CAS PubMed PubMed Central Google Scholar
Cancer Genome Atlas Research N, Weinstein JN, Collisson EA, et al. The Cancer Genome Atlas Pan-cancer analysis project. Nat Genet. 2013;45:1113–20.
Nair V, Hinton G. Rectified Linear Units Improve Restricted Boltzmann Machines Vinod Nair, 2010.
Duchi J, Hazan E, Singer Y. Adaptive subgradient methods for online learning and stochastic optimization. J Mach Learn Res. 2011;12:2121–59.
Bruni D, Angell HK, Galon J. The immune contexture and immunoscore in cancer prognosis and therapeutic efficacy. Nat Rev Cancer. 2020;20:662–80.
Article CAS PubMed Google Scholar
Giraldo NA, Sanchez-Salas R, Peske JD, et al. The clinical role of the TME in solid cancer. Br J Cancer. 2019;120:45–53.
Hiam-Galvez KJ, Allen BM, Spitzer MH. Systemic immunity in cancer. Nat Rev Cancer. 2021;21:345–59.
Article CAS PubMed PubMed Central Google Scholar
Yang L, Li A, Lei Q, et al. Tumor-intrinsic signaling pathways: key roles in the regulation of the immunosuppressive tumor microenvironment. J Hematol Oncol. 2019;12:125.
Article PubMed PubMed Central Google Scholar
Altorki NK, Markowitz GJ, Gao D, et al. The lung microenvironment: an important regulator of tumour growth and metastasis. Nat Rev Cancer. 2019;19:9–31.
Article CAS PubMed PubMed Central Google Scholar
Wang D, Yang L, Yue D, et al. Macrophage-derived CCL22 promotes an immunosuppressive tumor microenvironment via IL-8 in malignant pleural effusion. Cancer Lett. 2019;452:244–53.
留言 (0)