Candidate methylated genes in osteoarthritis explored by bioinformatics analysis
Candidate methylated genes in osteoarthritis explored by bioinformatics analysis
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DOI：
10.1016/j.knee.2016.09.020
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发表时间：
2016-12-01
期刊：
影响因子：
1.9
通讯作者：
Lu, Chao
中科院分区：
文献类型：
--
作者：
Liu, Jie;Hao, Yangquan;Lu, Chao
背景：本研究旨在探索与骨关节炎（OA）相关的潜在新基因。方法：从gene expression Omnibus （GEO）数据库下载GSE48422基因表达谱。该数据集包括五个关节炎软骨样本和五个非关节炎软骨样本。女性OA患者。鉴定了两种样品之间的差异甲基化基因（dmg），并对其进行了功能分析和蛋白-蛋白相互作用（PPI）分析。此外，利用比较毒物基因组学数据库（CTD）进一步鉴定这些dmg中oa相关基因。结果：在关节炎软骨样本中共鉴定出965个高甲基化基因和112个低甲基化基因。高甲基化基因（如ADCY4和ADCY6）与钙信号通路和促性腺激素释放激素信号通路显著相关，而低甲基化基因与哺乳动物雷帕霉素信号通路靶点有关。在PPI网络中，ADCY4、ADCY6和GPR17等几个基因具有较高的程度，并且它们之间存在相互作用。此外，565个dmg被预测与OA相关，其中5个（如COMP和EDIL3）先前被确定为OA标志物。结论：新发现ADCY4、ADCY6和GPR17基因甲基化以及促性腺激素释放激素信号通路与OA有潜在关联。它们可能是新的OA标记物。B.V(C) 2016 Elsevier B.V.版权所有
Background: This study aimed to explore potential novel genes correlated with osteoarthritis (OA).Methods: The gene expression profile of GSE48422 was downloaded from the Gene Expression Omnibus (GEO) database. This dataset included five arthritic cartilage samples and five non arthritic cartilage samples from five. female OA patients. Differentially methylated genes (DMGs) between the two kinds of samples were identified, followed by their functional analysis and protein-protein interaction (PPI) analysis. Furthermore, the Comparative Toxicogenomics Database (CTD) was used to further identify OA-related genes among these DMGs.Results: In total, 965 hypermethylated genes and 112 hypomethylated genes were identified in the arthritic cartilage samples. The hypermethylated genes (e.g., ADCY4 and ADCY6) were significantly related to the calcium signaling pathway and gonadotropin-releasing hormone signaling pathway, while the hypomethylated genes were implicated in the mammalian target of rapamycin signaling pathway. In the PPI network, several genes had a higher degree, such as ADCY4, ADCY6 and GPR17, and they interacted with each other. Additionally, 565 DMGs were predicted to be associated with OA, and five of them (e.g., COMP and EDIL3) were previously identified as OA markers.Conclusions: The methylation of genes ADCY4, ADCY6 and GPR17, as well as the gonadotropin-releasing hormone signaling pathway, was newly found to be potentially associated with OA. They may be novel OA markers. B.V(C) 2016 Elsevier B.V. All rights reserved.