The analysis of a ceRNA network and the correlation between lncRNA, miRNA, and mRNA in bladder cancer

Ranran Dai, You Zhou, Zhishan Chen, Zihao Zou, Ping Liu, Xingcheng Gao


Background: To explore the correlation between the lncRNA-miRNA-mRNA and ceRNA network through the differential expression analysis of lncRNAs, miRNAs and mRNAs in bladder cancer based on The Cancer Genome Atlas (TCGA) database combined with Gene Ontology (GO) and Kyoto Encyclopedia of Genes Genomes (KEGG) enrichment analysis.
Methods: Firstly, the expression profile data and corresponding clinical data of RNAs in bladder cancer were searched and downloaded from TCGA database, and aberrantly expressed long non-coding RNA (lncRNA), microRNA (miRNA), and messenger RNA (mRNA) were screened and found by using TCGA database. The relationship between lncRNA-miRNA-mRNA was established by comparing these lncRNAs, miRNAs, and mRNAs, while the ceRNA network was constructed. Combined with the analysis of the GO annotation and KEGG pathway, the effects of lncRNA-miRNA-mRNA interaction on the development of bladder cancer were explored.
Results: A total of 1,742 differentially expressed lncRNA, 511 differentially expressed miRNAs, and 4,373 differentially expressed mRNAs were identified, and 328 lncRNAs, 73 miRNAs, and 677 mRNAs were screened by survival analysis. With the lncRNA-miRNA-mRNA correlation analysis, a ceRNA network consisting of 45 lncRNAs, 14 miRNAs, and 29 mRNAs was successfully constructed. The GO annotation and functional enrichment of target gene mRNAs in the network are mainly concentrated in the signal pathways and include fatty acid biosynthesis, gap junction, insulin signaling pathway, and the MAPK signaling pathway biological processes such as positive regulation of cellular process and system development.
Conclusions: We successfully identified the target gene correlating lncRNA, miRNA, and mRNA, and constructed a ceRNA network. Our findings can provide a potential target for the study of the occurrence, development, diagnosis, treatment, and prognosis of bladder cancer.