Abstract
BackgroundA growing evidence suggests that long non-coding RNAs (lncRNAs) can function as a microRNA (miRNA) sponge in various diseases including oral cancer. However, the pathophysiological function of lncRNAs remains unclear.MethodsBased on the competitive endogenous RNA (ceRNA) theory, we constructed a lncRNA-miRNA-mRNA network in oral cancer with the human expression profiles GSE74530 from the Gene Expression Omnibus (GEO) database. We used topological analysis to determine the hub lncRNAs in the regulatory ceRNA network. Then, function enrichment analysis was performed using the clusterProfiler R package. Clinical information was downloaded from The Cancer Genome Atlas (TCGA) database and survival analysis was performed with Kaplan-Meier analysis.ResultsA total of 238 potential co-dysregulated competing triples were obtained in the lncRNA-associated ceRNA network in oral cancer, which consisted of 10 lncRNA nodes, 41 miRNA nodes and 122 mRNA nodes. Additionally, we found lncRNA HCG22 exhibiting superior potential as a diagnostic and prognostic marker of oral cancer.ConclusionsOur findings provide novel insights to understand the ceRNA regulation in oral cancer and identify a novel lncRNA as a potential molecular biomarker.
Highlights
A growing evidence suggests that long non-coding RNAs can function as a microRNA sponge in various diseases including oral cancer
As for the RNA degradation plot, it showed that the RNA integrity has a good quality (Fig. 1b), and all the 12 samples can be used for further analysis
A total of 16,434 Messenger RNAs (mRNA) and 1210 Long non-coding RNA (lncRNA) were identified in the microarray data using the human comprehensive gene annotation from GENCODE
Summary
A growing evidence suggests that long non-coding RNAs (lncRNAs) can function as a microRNA (miRNA) sponge in various diseases including oral cancer. NcRNAs include circular RNAs, microRNAs, intronic RNAs and long non-coding RNAs [10]. MicroRNAs (miRNAs) are representative ncRNAs of 18–25 nucleotides in length [11]. They regulate the expression of target genes by inhibiting their translation and accelerating their degradation [12], and have been shown to be involved in many different physiological and pathological processes, including the epithelial-mesenchymal transition, metabolism, survival and more. First confirmed in 2005, long non-coding RNAs (lncRNAs) represent another type of ncRNA and lack any protein-coding capacity [13]. The role of lncRNAs in the development of OSCC remains to be explored
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