CeRNA Network Analysis Representing Characteristics of Different Tumor Environments Based on 1p/19q Codeletion in Oligodendrogliomas
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 (<i>IDH</i>) mutation and is associated with a clinically favorable overall survival (OS); however, the exact underly...
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| Format: | Article |
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MDPI AG
2020-09-01
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| Series: | Cancers |
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| Online Access: | https://www.mdpi.com/2072-6694/12/9/2543 |
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| author | Ju Won Ahn YoungJoon Park Su Jung Kang So Jung Hwang Kyung Gi Cho JaeJoon Lim KyuBum Kwack |
| author_facet | Ju Won Ahn YoungJoon Park Su Jung Kang So Jung Hwang Kyung Gi Cho JaeJoon Lim KyuBum Kwack |
| author_sort | Ju Won Ahn |
| collection | DOAJ |
| description | 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 (<i>IDH</i>) 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. |
| first_indexed | 2024-03-10T16:30:53Z |
| format | Article |
| id | doaj.art-9ca973d7a75a4968934a3668402decc8 |
| institution | Directory Open Access Journal |
| issn | 2072-6694 |
| language | English |
| last_indexed | 2024-03-10T16:30:53Z |
| publishDate | 2020-09-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Cancers |
| spelling | doaj.art-9ca973d7a75a4968934a3668402decc82023-11-20T12:49:41ZengMDPI AGCancers2072-66942020-09-01129254310.3390/cancers12092543CeRNA Network Analysis Representing Characteristics of Different Tumor Environments Based on 1p/19q Codeletion in OligodendrogliomasJu Won Ahn0YoungJoon Park1Su Jung Kang2So Jung Hwang3Kyung Gi Cho4JaeJoon Lim5KyuBum Kwack6Department of Biomedical Science, College of Life Science, CHA University, Seongnam 13488, KoreaDepartment of Biomedical Science, College of Life Science, CHA University, Seongnam 13488, KoreaDepartment of Biomedical Science, College of Life Science, CHA University, Seongnam 13488, KoreaDepartment of Neurosurgery, Bundang CHA Medical Center, CHA University School of Medicine, Seongnam 13496, KoreaDepartment of Neurosurgery, Bundang CHA Medical Center, CHA University School of Medicine, Seongnam 13496, KoreaDepartment of Neurosurgery, Bundang CHA Medical Center, CHA University School of Medicine, Seongnam 13496, KoreaDepartment of Biomedical Science, College of Life Science, CHA University, Seongnam 13488, KoreaOligodendroglioma (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 (<i>IDH</i>) 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.https://www.mdpi.com/2072-6694/12/9/2543oligodendrogliomas1p/19q codeletionlong non-coding RNAceRNA network analysistumor microenvironment |
| spellingShingle | Ju Won Ahn YoungJoon Park Su Jung Kang So Jung Hwang Kyung Gi Cho JaeJoon Lim KyuBum Kwack CeRNA Network Analysis Representing Characteristics of Different Tumor Environments Based on 1p/19q Codeletion in Oligodendrogliomas Cancers oligodendrogliomas 1p/19q codeletion long non-coding RNA ceRNA network analysis tumor microenvironment |
| title | CeRNA Network Analysis Representing Characteristics of Different Tumor Environments Based on 1p/19q Codeletion in Oligodendrogliomas |
| title_full | CeRNA Network Analysis Representing Characteristics of Different Tumor Environments Based on 1p/19q Codeletion in Oligodendrogliomas |
| title_fullStr | CeRNA Network Analysis Representing Characteristics of Different Tumor Environments Based on 1p/19q Codeletion in Oligodendrogliomas |
| title_full_unstemmed | CeRNA Network Analysis Representing Characteristics of Different Tumor Environments Based on 1p/19q Codeletion in Oligodendrogliomas |
| title_short | CeRNA Network Analysis Representing Characteristics of Different Tumor Environments Based on 1p/19q Codeletion in Oligodendrogliomas |
| title_sort | cerna network analysis representing characteristics of different tumor environments based on 1p 19q codeletion in oligodendrogliomas |
| topic | oligodendrogliomas 1p/19q codeletion long non-coding RNA ceRNA network analysis tumor microenvironment |
| url | https://www.mdpi.com/2072-6694/12/9/2543 |
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