Identification and characterization of noncoding RNAs-associated competing endogenous RNA networks in major depressive disorder
Major depressive disorder (MDD) is a common and serious mental illness. Many novel genes in MDD have been characterized by high-throughput methods such as microarrays or sequencing. Recently, noncoding RNAs (ncRNAs) were suggested to be involved in the complicated environmental-genetic regulatory ne...
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Published in | World journal of psychiatry Vol. 13; no. 2; pp. 36 - 49 |
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Main Authors | , , , |
Format | Journal Article |
Language | English |
Published |
United States
Baishideng Publishing Group Inc
19.02.2023
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Subjects | |
Online Access | Get full text |
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Summary: | Major depressive disorder (MDD) is a common and serious mental illness. Many novel genes in MDD have been characterized by high-throughput methods such as microarrays or sequencing. Recently, noncoding RNAs (ncRNAs) were suggested to be involved in the complicated environmental-genetic regulatory network of MDD occurrence; however, the interplay among RNA species, including protein-coding RNAs and ncRNAs, in MDD remains unclear.
To investigate the RNA expression datasets downloaded from a public database and construct a network based on differentially expressed long noncoding RNA (lncRNAs), microRNAs (miRNAs), and mRNAs between MDD and controls.
Gene expression data were searched in NCBI Gene Expression Omnibus using the search term "major depressive disorder." Six array datasets from humans were related to the search term: GSE19738, GSE32280, GSE38206, GSE52790, GSE76826, and GSE81152. These datasets were processed for initial assessment and subjected to quality control and differential expression analysis. Differentially expressed lncRNAs, miRNAs, and mRNAs were determined, Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analyses were performed, and protein-protein interaction network was generated. The results were analyzed for their association with MDD.
After analysis, 3 miRNAs, 12 lncRNAs, and 33 mRNAs were identified in the competing endogenous RNA network. Two of these miRNAs were earlier shown to be involved in psychiatric disorders, and differentially expressed mRNAs were found to be highly enriched in pathways related to neurogenesis and neuroplasticity as per Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analyses. The expression of hub gene fatty acid 2-hydroxylase was enriched, and the encoded protein was found to be involved in myelin formation, indicating that neurological development and signal transduction are involved in MDD pathogenesis.
The present study presents candidate ncRNAs involved in the neurogenesis and neuroplasticity pathways related to MDD. |
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Bibliography: | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 Author contributions: Zou ZL contributed to study design, manuscript preparation, inspection, and revision; Ye Y contributed to manuscript preparation; Bo Z contributed to study design; Zhang Y contributed to study design and manuscript preparation. Supported by the National Key Research and Development Program of China, No. 2020YFC2005500. Corresponding author: Yuan Zhang, MS, Assistant Professor, Personalized Drug Therapy Key Laboratory of Sichuan Province, Sichuan Academy of Medical Sciences & Sichuan Provincial People’s Hospital, No. 32 First Ring Road West 2, Chengdu 610072, Sichuan Province, China. 447415054@qq.com |
ISSN: | 2220-3206 2220-3206 |
DOI: | 10.5498/wjp.v13.i2.36 |