Bioinformatics Analysis of Differentially Expressed Genes and miRNAs in Low-Grade Gliomas. (November 2020)

• Record Type: Journal Article
• Authors: Bendahou, Mohammed Amine; Ibrahimi, Azeddine; Boutarbouch, Mahjouba
• Is Part Of: Cancer informatics. Volume 19(2020)
• Publication Date: 2020-11
• Subjects: Low-grade glioma -- transcriptomics -- epigenetics -- network -- miRNA -- gene expression -- lncRNA -- TCGA; Bioinformatics -- Periodicals; Biology -- Data processing -- Periodicals; Cancer -- Periodicals; Cancer -- Research -- Periodicals; Computational biology -- Periodicals; 570.285
• DOI: 10.1177/1176935120969692
• Languages: English
• ISSNs: 1176-9351

Abstract

Low-grade glioma is the most common type of primary intracranial tumor. In the last 3 years, new observations of molecular precursors in adults with gliomas have led to a modification in the histopathologic classification of these brain tumors. Among the biomarkers that have been highlighted, we have the micro RNAs (miRNAs) which play a crucial role in the regulation of gene expression and the long noncoding RNAs (lncRNAs) controlling various cellular and metabolic pathways. In our study, large-scale data on sequenced RNA and miRNAs from 516 patients were obtained from the Cancer Genome Atlas database by the TCGAbiolinks package. We identified the differential expression of miRNAs and genes using the Limma package and then we used the ClusterProfiler package for annotations of the biological pathways of the expressed genes, the survival package to estimate the survival analysis, and the GDCRNATools package to determine miRNAs-genes and miRNAs-lncRNAs interactions. We obtained a significant correlation between the miRNAs identified and the overall survival of the patients (log-rank P < .05) and we have theoretically proposed a novel network of miRNAs involved in low-grade gliomas, specifically astrocytomas and oligodendrogliomas, which combine both genes and lncRNAs.