Identification of an RNA binding protein-related gene signature in hepatocellular carcinoma patients
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(2020) 26:125 Wang et al. Mol Med https://doi.org/10.1186/s10020-020-00252-5
Open Access
RESEARCH ARTICLE
Identification of an RNA binding protein‑related gene signature in hepatocellular carcinoma patients Li Wang, Na Zhou, Jialin Qu, Man Jiang and Xiaochun Zhang*
Abstract Background: Hepatocellular carcinoma (HCC) is a common malignant primary cancer with high mortality. Previous studies have demonstrated that RNA binding proteins (RBPs) are involved in the biological processes of cancers, including hepatocellular cancer. Methods: In this study, we aimed to identify the clinical value of RNA-binding proteins for hepatocellular carcinoma. We obtained gene expression and clinical data of hepatocellular carcinoma patients from the TCGA and ICGC databases. The prognostic value of RBP-related genes in patients with hepatocellular carcinoma and their function were studied by comprehensive bioinformatics analyses. The gene signature of SMG5, EZH2, FBLL1, ZNF239, and IGF2BP3 was generated by univariate and multivariate Cox regression and LASSO regression analyses. We built and verified a prognostic nomogram based on RBP-related genes. The gene signature was validated by the ICGC database. The expression of RBP-related genes was validated by the Oncomine database, the Human Protein Atlas and Kaplan– Meier plotter. Result: Most RBP-related genes were significantly different in cancer and normal tissues. The survival of patients in the different groups was significantly different. The gene signature showed good performance for predicting the survival of HCC patients by having a better area under the receiver operating characteristic curve than other clinicopathological parameters. Conclusion: Gene signatures based on RNA-binding proteins can be independent risk factors for hepatocellular carcinoma patients. Keywords: Gene signature, Nomogram, RNA binding proteins, TCGA database, ICGC database Background Hepatocellular carcinoma (HCC) is a common cancer with high mortality (Nakano et al. 2020). Cancer of the liver and intrahepatic bile ducts was responsible for an estimated 841,000 new cases and approximately 780,000 deaths in 2018 alone (Park 2015). Moreover, the overall 1- and 3-year survival rates are only 36% and 17%,
*Correspondence: [email protected] Precision Medicine Center of Oncology, The Affiliated Hospital of Qingdao University, Qingdao University, 16 Jiangsu Road, Qingdao 266003, China
respectively, in hepatocellular carcinoma patients (ElSerag 2004). Although we have made great progress in radiofrequency ablation, systemic therapy, liver transplantation, targeted therapies, and immunotherapy for treating HCC, the prognosis of HCC remains poor (Zheng 2015). Moreover, patients with the same tumor stage may have different prognoses because of individual differences. Therefore, it is essential to explore alternative biomarkers to predict the prognosis of hepatocellular carcinoma. RNA binding proteins are a type of protein that can interact with various types of RNAs, including
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