Open Access

Integrated bioinformatics analysis for the identification of potential key genes affecting the pathogenesis of clear cell renal cell carcinoma

  • Authors:
    • Hao Cui
    • Lei Xu
    • Zhi Li
    • Ke‑Zuo Hou
    • Xiao‑Fang Che
    • Bo‑Fang Liu
    • Yun‑Peng Liu
    • Xiu‑Juan Qu
  • View Affiliations

  • Published online on: June 5, 2020     https://doi.org/10.3892/ol.2020.11703
  • Pages: 1573-1584
  • Copyright: © Cui et al. This is an open access article distributed under the terms of Creative Commons Attribution License.

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Abstract

Clear cell renal cell carcinoma (CCRCC) is a typical type of RCC with the worst prognosis among the common epithelial neoplasms of the kidney. However, its molecular pathogenesis remains unknown. Therefore, the aim of the present study was to screen for effective and potential pathogenic biomarkers of CCRCC. The gene expression profile of the GSE16441, GSE36895, GSE40435, GSE46699, GSE66270 and GSE71963 datasets were downloaded from the Gene Expression Omnibus database. First, the limma package in R language was used to identify differentially expressed genes (DEGs) in each dataset. The robust and strong DEGs were explored using the robust rank aggregation method. A total of 980 markedly robust DEGs were identified (429 upregulated and 551 downregulated). According to Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis, these DEGs exhibited an obvious enrichment in various cancer‑related biological pathways and functions. The Search Tool for the Retrieval of Interacting Genes/Proteins database was used for the construction of a protein‑protein interaction (PPI) network, the Cytoscape MCODE plug‑in for module analysis and the cytoHubba plug‑in to identify hub genes from the aforementioned DEGs. A total of four key modules were identified in the PPI network. A total of six hub genes, including C‑X‑C motif chemokine ligand 12, bradykinin receptor B2, adenylate cyclase 7, calcium sensing receptor (CASR), kininogen 1 and lysophosphatidic acid receptor 5, were identified. The DEG results of the hub genes were verified using The Cancer Genome Atlas database, and CASR was found to be significantly associated with the prognosis of patients with CCRCC. In conclusion, the present study provided new insight and potential biomarkers for the diagnosis and prognosis of CCRCC.

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August-2020
Volume 20 Issue 2

Print ISSN: 1792-1074
Online ISSN:1792-1082

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APA
Cui, H., Xu, L., Li, Z., Hou, K., Che, X., Liu, B. ... Qu, X. (2020). Integrated bioinformatics analysis for the identification of potential key genes affecting the pathogenesis of clear cell renal cell carcinoma. Oncology Letters, 20, 1573-1584. https://doi.org/10.3892/ol.2020.11703
MLA
Cui, H., Xu, L., Li, Z., Hou, K., Che, X., Liu, B., Liu, Y., Qu, X."Integrated bioinformatics analysis for the identification of potential key genes affecting the pathogenesis of clear cell renal cell carcinoma". Oncology Letters 20.2 (2020): 1573-1584.
Chicago
Cui, H., Xu, L., Li, Z., Hou, K., Che, X., Liu, B., Liu, Y., Qu, X."Integrated bioinformatics analysis for the identification of potential key genes affecting the pathogenesis of clear cell renal cell carcinoma". Oncology Letters 20, no. 2 (2020): 1573-1584. https://doi.org/10.3892/ol.2020.11703