Integrated analysis of the functions of RNA binding proteins in clear cell renal cell carcinoma

Xiaoliang Hua; Juan Chen; Shengdong Ge; Haibing Xiao; Li Zhang; Chaozhao Liang

doi:10.1016/j.ygeno.2020.10.016

Integrated analysis of the functions of RNA binding proteins in clear cell renal cell carcinoma

Genomics. 2021 Jan;113(1 Pt 2):850-860. doi: 10.1016/j.ygeno.2020.10.016. Epub 2020 Oct 22.

Authors

Xiaoliang Hua¹, Juan Chen², Shengdong Ge¹, Haibing Xiao¹, Li Zhang³, Chaozhao Liang⁴

Affiliations

¹ Department of Urology, The First Affiliated Hospital of Anhui Medical University, Hefei, China; Anhui Province Key Laboratory of Genitourinary Diseases, Anhui Medical University, Hefei, China; The Institute of Urology, Anhui Medical University, Hefei, China.
² The Ministry of Education Key Laboratory of Laboratory Medical Diagnostics, the College of Laboratory Medicine, Chongqing Medical University, 400016, Chongqing, China.
³ Department of Urology, The First Affiliated Hospital of Anhui Medical University, Hefei, China; Anhui Province Key Laboratory of Genitourinary Diseases, Anhui Medical University, Hefei, China; The Institute of Urology, Anhui Medical University, Hefei, China. Electronic address: lzhang@ahmu.edu.cn.
⁴ Department of Urology, The First Affiliated Hospital of Anhui Medical University, Hefei, China; Anhui Province Key Laboratory of Genitourinary Diseases, Anhui Medical University, Hefei, China; The Institute of Urology, Anhui Medical University, Hefei, China. Electronic address: liang_chaozhao@ahmu.edu.cn.

PMID: 33169673
DOI: 10.1016/j.ygeno.2020.10.016

Abstract

RNA binding proteins (RBPs) dysregulation is involved in the processes of various tumors. However, the roles of RBPs in clear cell renal cell carcinoma (ccRCC) remain poorly understand. In present study, we first performed consensus clustering and identified two clusters, of which cluster 2 was closely correlated with the malignancy of ccRCC. Differentially expressed RBPs between normal and tumor tissues were obtained, comprising 71 up-regulated and 44 down-regulated ones. Then, ten hub genes were selected and validated using The Human Protein Atlas database and receiver operating characteristic curves, showing good diagnostic value for cancers. Besides, we identified ten RBPs with the most useful prognostic values, and were used to construct a risk score model. The model could be used to stratify patients with different prognosis and phenotype distributions. The model showed good performance and can be used as a complementation for clinical factors to guide clinical practice in the future.

Keywords: Bioinformatics; Biomarker; Clear cell renal cell carcinoma; Prognostic model; RNA binding proteins.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Biomarkers, Tumor / genetics
Biomarkers, Tumor / metabolism
Carcinoma, Renal Cell / genetics*
Carcinoma, Renal Cell / metabolism
Carcinoma, Renal Cell / pathology
Gene Expression Regulation, Neoplastic
Humans
Kidney Neoplasms / genetics*
Kidney Neoplasms / metabolism
Kidney Neoplasms / pathology
Prognosis
RNA-Binding Proteins / genetics
RNA-Binding Proteins / metabolism*

Substances

Biomarkers, Tumor
RNA-Binding Proteins