CeRNA Network Analysis Representing Characteristics of Different Tumor Environments Based on 1p/19q Codeletion in Oligodendrogliomas

• Published in: Cancers Vol. 12; no. 9; p. 2543
• Main Authors: Ahn, Ju Won, Park, YoungJoon, Kang, Su Jung, Hwang, So Jung, Cho, Kyung Gi, Lim, JaeJoon, Kwack, KyuBum
• Format: Journal Article
• Language: English
• Published: Switzerland MDPI AG 07.09.2020; MDPI
• Subjects: Brain cancer; Carcinogenesis; Central nervous system; Channel gating; Collagen; Epigenetics; Extracellular matrix; Gene expression; Genetic aspects; Genomes; Glioma; Health aspects; Insulin; Insulin secretion; Isocitrate dehydrogenase; Medical prognosis; Methods; Microenvironments; MicroRNAs; miRNA; Mutation; Nervous system; Non-coding RNA; Oligodendroglioma; Ontology; Phosphatase; Potassium channels; Proteins; RNA sequencing; Roles; Software; Tumors; Visualization; United States; ceRNA network analysis; long non-coding RNA; oligodendrogliomas; tumor microenvironment; 1p/19q codeletion
• ISSN: 2072-6694; 2072-6694
• DOI: 10.3390/cancers12092543

Oligodendroglioma (OD) is a subtype of glioma occurring in the central nervous system. The 1p/19q codeletion is a prognostic marker of OD with an isocitrate dehydrogenase ( ) mutation and is associated with a clinically favorable overall survival (OS); however, the exact underlying mechanism remains unclear. Long non-coding RNAs (lncRNAs) have recently been suggested to regulate carcinogenesis and prognosis in cancer patients. Here, we performed in silico analyses using low-grade gliomas from datasets obtained from The Cancer Genome Atlas to investigate the effects of ceRNA with 1p/19q codeletion on ODs. Thus, we selected modules of differentially expressed genes that were closely related to 1p/19q codeletion traits using weighted gene co-expression network analysis and constructed 16 coding RNA-miRNA-lncRNA networks. The ceRNA network participated in ion channel activity, insulin secretion, and collagen network and extracellular matrix (ECM) changes. In conclusion, ceRNAs with a 1p/19q codeletion can create different tumor microenvironments via potassium ion channels and ECM composition changes; furthermore, differences in OS may occur. Moreover, if extrapolated to gliomas, our results can provide insights into the consequences of identical gene expression, indicating the possibility of tracking different biological processes in different subtypes of glioma.