鉴定与原发性开角型青光眼相关的 lncRNA-miRNA-mRNA 调控网络。
Identification of lncRNA-miRNA-mRNA regulatory network associated with primary open angle glaucoma.
机构信息
Department of Ophthalmology, Shanghai General Hospital (Shanghai First People's Hospital), Shanghai Jiao Tong University School of Medicine, Shanghai, China.
National Clinical Research Center for Eye Diseases, Shanghai, China.
出版信息
BMC Ophthalmol. 2020 Mar 16;20(1):104. doi: 10.1186/s12886-020-01365-5.
BACKGROUND
Primary open angle glaucoma (POAG) is a multifactorial disorder characterized by a progressive permanent degeneration of retinal ganglion cell (RGCs) death. An increasing number of studies have suggested that long noncoding RNAs (lncRNAs) have the ability to regulate gene expression; however, thus far, the mechanisms and functions of lncRNAs in the development of POAG are still unclear.
METHODS
Using the data from Gene Expression Omnibus (GEO), differentially expressed lncRNAs and differentially expressed mRNAs between POAG patients and controls were identified. Then, the lncRNA-miRNA-mRNA competing endogenous RNA (ceRNA) network was constructed, and the key lncRNAs in POAG were identified. A Gene Ontology (GO) analysis and a Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis were performed to assess the enriched biological functions of mRNA in the ceRNA network.
RESULTS
During this study, a POAG-related ceRNA network with 37 miRNA nodes, 248 lncRNA nodes, 178 mRNA nodes, and 1985 edges was constructed. In addition, four lncRNAs (DNAJC27-AS1, AF121898, OIP5-AS1, and SNX29P2) were established as hub RNAs in this ceRNA network. The functional assay showed that 18 GO terms and 17 pathways were enriched.
CONCLUSION
This study provides novel insights into the lncRNA-related ceRNA network in POAG, and the four lncRNAs were identified in the development of POAG.
背景
原发性开角型青光眼（POAG）是一种多因素疾病，其特征是视网膜神经节细胞（RGCs）的进行性永久性退化和死亡。越来越多的研究表明，长非编码 RNA（lncRNA）具有调节基因表达的能力；然而，迄今为止，lncRNA 在 POAG 发展中的机制和功能仍不清楚。
方法
使用基因表达综合数据库（GEO）中的数据，鉴定 POAG 患者和对照之间差异表达的 lncRNA 和差异表达的 mRNA。然后构建 lncRNA-miRNA-mRNA 竞争内源性 RNA（ceRNA）网络，并鉴定 POAG 中的关键 lncRNA。进行基因本体论（GO）分析和京都基因与基因组百科全书（KEGG）通路分析，以评估 ceRNA 网络中 mRNA 的富集生物学功能。
结果
在这项研究中，构建了一个具有 37 个 miRNA 节点、248 个 lncRNA 节点、178 个 mRNA 节点和 1985 个边缘的 POAG 相关 ceRNA 网络。此外，还确定了四个作为 ceRNA 网络中枢纽 RNA 的 lncRNA（DNAJC27-AS1、AF121898、OIP5-AS1 和 SNX29P2）。功能分析表明，有 18 个 GO 术语和 17 个通路被富集。
结论
本研究为 POAG 中的 lncRNA 相关 ceRNA 网络提供了新的见解，并鉴定了在 POAG 发生发展中起作用的四个 lncRNA。
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