摘要
背景:越来越多证据表明N6-甲基腺苷(N6-methyladenosine,m6A)调节因子与骨关节炎密切相关,被认为是防治骨关节炎新方向,但具体作用机制不明。目的:通过对骨关节炎基因芯片数据集进行生物信息学分析,探讨m6A对骨关节炎的作用,解析骨关节炎发病机制。方法:首先利用R软件提取GEO数据库中GSE1919数据集中骨关节炎相关m6A调节因子及其表达量,进而对提取结果行基因差异分析及GO、KEGG富集分析;接着对PPI网络拓扑学分析结果和机器学习结果取交集得到m6A关键调节因子,并通过体外细胞实验验证。结果与结论:①提取得到16个骨关节炎相关m6A调节因子表达量,通过差异分析获得ZC3H13、YTHDC1、YTHDF3、HNRNPC等11个m6A差异调节因子;②GO富集分析显示,骨关节炎相关m6A差异调节因子在生物过程中主要于mRNA转运、RNA分解代谢、胰岛素样生长因子受体信号通路调控等发挥作用;③KEGG富集分析显示,差异调节因子主要参与p53、白细胞介素17和AMPK信号通路;④综合PPI网络拓扑学分析和机器学习结果获得m6A关键调节因子——YTHDC1;⑤体外细胞实验结果表明,m6A关键调节因子——YTHDC1在对照组与骨关节炎组中表达存在显著差异(P<0.05);⑥结果显示,YTHDC1与骨关节炎发生发展密切相关,有望成为m6A治疗骨关节炎的分子靶点。
BACKGROUND:Increasing evidence suggests that N6-methyladenosine(m6A)regulators are closely associated with osteoarthritis and are considered to be a new direction in the prevention and treatment of osteoarthritis,but their specific mechanism of action is unknown.OBJECTIVE:To conduct a bioinformatics analysis of the osteoarthritis gene microarray dataset in order to explore the role of m6A in osteoarthritis and analyze the pathogenesis of osteoarthritis.METHODS:The m6A regulators associated with osteoarthritis and their expression were first extracted from the GSE1919 dataset in the GEO database using R software,and then the results were analyzed by gene difference analysis and GO and KEGG enrichment analyses.Subsequently,the results of protein-protein interaction network topology analysis and machine learning results were intersected to obtain the m6A Hub regulators,which were validated by in vitro cellular experiments.RESULTS AND CONCLUSION:A total of 16 osteoarthritis-related m6A regulators were extracted and 11 m6A differential regulators,including ZC3H13,YTHDC1,YTHDF3 and HNRNPC,were obtained by differential analysis.GO enrichment analysis showed that osteoarthritis-related m6A differential regulators played a role in the biological processes such as mRNA transport,RNA catabolism,and regulation of insulin-like growth factor receptor signaling pathway.(3)KEGG enrichment analysis showed that the differential regulators were mainly involved in the p53,interleukin-17 and AMPK signaling pathways.The combined protein-protein interaction network topology analysis and machine learning results obtained the m6A Hub regulator-YTHDC1.(5)The results of in vitro cellular experiments showed that there was a significant difference in the expression of m6A key regulator between the control and experimental groups(P<0.05).To conclude,YTHDC1 is closely related to the development of osteoarthritis,which is expected to be a molecular target of m6A for the treatment of osteoarthritis.
作者
袁长深
廖书宁
李哲
官岩兵
吴思萍
胡琪
梅其杰
段戡
Yuan Changshen;Liao Shuning;Li Zhe;Guan Yanbing;Wu Siping;Hu Qi;Mei Qijie;Duan Kan(Orthopedic Department of the Limbs,The First Affiliated Hospital of Guangxi University of Chinese Medicine,Nanning 530023,Guangxi Zhuang Autonomous Region,China;Guangxi University of Chinese Medicine,Nanning 530000,Guangxi Zhuang Autonomous Region,China)
出处
《中国组织工程研究》
CAS
2024年第11期1724-1729,共6页
Chinese Journal of Tissue Engineering Research
基金
国家自然科学基金(82060875),项目负责人:袁长深
国家自然科学基金(82160912),项目负责人:段戡。
关键词
骨关节炎
N6-甲基腺苷
生物信息学
机器学习
调节因子
软骨细胞
实验验证
osteoarthritis
N6-methyladenosine
bioinformatics
machine learning
regulator factor
chondrocyte
experimental verification
