Transcription Factor and miRNA Interplays Can Manifest the Survival of ccRCC Patients

Abstract

Clear cell renal cell carcinoma (ccRCC) still remains a higher mortality rate in worldwide. Obtaining promising biomakers is very crucial for improving the diagnosis and prognosis of ccRCC patients. Herein, we firstly identified eight potentially prognostic miRNAs (hsa-miR-144-5p, hsa-miR-223-3p, hsa-miR-365b-3p, hsa-miR-3613-5p, hsa-miR-9-5p, hsa-miR-183-5p, hsa-miR-335-3p, hsa-miR-1269a). Secondly, we found that a signature containing these eight miRNAs showed obviously superior to a single miRNA in the prognostic effect and credibility for predicting the survival of ccRCC patients. Thirdly, we discovered that twenty-two transcription factors (TFs) interact with these eight miRNAs, and a signature combining nine TFs (TFAP2A, KLF5, IRF1, RUNX1, RARA, GATA3, IKZF1, POU2F2, and FOXM1) could promote the prognosis of ccRCC patients. Finally, we further identified eleven genes (hsa-miR-365b-3p, hsa-miR-223-3p, hsa-miR-1269a, hsa-miR-144-5p, hsa-miR-183-5p, hsa-miR-335-3p, TFAP2A, KLF5, IRF1, MYC, IKZF1) that could combine as a signature to improve the prognosis effect of ccRCC patients, which distinctly outperformed the eight-miRNA signature and the nine-TF signature. Overall, we identified several new prognosis factors for ccRCC, and revealed a potential mechanism that TFs and miRNAs interplay cooperatively or oppositely regulate a certain number of tumor suppressors, driver genes, and oncogenes to facilitate the survival of ccRCC patients.

Long Non-coding RNA LINC01094 Promotes the Development of Clear Cell Renal Cell Carcinoma by Upregulating SLC2A3 via MicroRNA-184

“…However, the diagnosis of ccRCC is yet confronted with problems such as lacking biomarkers. Therefore, more effective therapy for improving the diagnosis and prognosis of patients with ccRCC is a prerequisite to developing promising molecular biomarkers ( Qin et al, 2019 ).…”

Bioinformatics analysis reveals the ceRNA co-expression network in tumor microenvironment and prognostic biomarkers in Sarcomas

“…For the 2 miRNAs (hsa-miR-9-5p and hsa-miR-183-5p) and 3 lncRNAs (CTD-2228K2.7, HOTAIRM1 and NCF1C), the expression of hsa-miR-9-5p could be downregulated by lncRNA TUG1, and TUG1 overturned the effect of miR-9-5p on the proliferation, colony formation, cell cycle arrest, and apoptosis in bone SARCs cells [40]. Hsa-miR-183-5p was the rst found in SARCs, highly expressed hsa-miR-183-5p might be associated with a poor prognosis for Clear cell renal cell carcinoma patients [41]. In addition, it was also considered as the optimal diagnostic biomarkers for hepatocellular carcinoma [42].…”

Weighted Gene Co-Expression Network Analysis to Construct Competitive Endogenous RNAs Network in Chromogenic Renal Cell Carcinoma

“…Previous studies involving cRCC have reported the importance of the six miRNAs (hsa-mir-222, hsa-mir-204, hsa-mir-206, hsa-mir-183, hsa-mir-372, hsa-mir-221) in the ceRNA network. In particular, hsa-mir-206, hsa-mir-204, and hsa-mir-372 were found to suppress cancer through corresponding biological functions [50][51][52], and hsa-mir-183 was considered to be a potential oncogene [53]. Kaplan-Meier analysis also showed that high expression of LINC00520 had an effect on OS.…”