基于GEO数据库筛选心脏肥大差异表达mRNA及其网络构建

Screening and Network Construction of Differentially Expressed mRNAs in Cardiac Hypertrophy Based on GEO Database

目的基于GEO数据库筛选心脏肥大的差异表达mRNA,构建其相关的长链非编码RNA(lncRNA)的竞争内源性RNA(ceRNA)调控网络。方法检索GEO数据库中心脏肥大的相关芯片数据集GSE60291,通过R语言分析差异表达mRNA;采用GO功能和KEGG富集分析差异表达mRNA的功能与机制;在lncRNA相关疾病中检索与心脏肥大相关的lncRNA,通过Starbase数据库预测lncRNA的靶向miRNA,构建lncRNA-miRNA ceRNA网络,在miRNet预测相关miRNA的靶向mRNA并构建miRNA-mRNA ceRNA调控网络,在此基础上构建lncRNA-miRNA-mRNA ceRNA调控网络。结果获得心脏肥大的差异mRNA 104个、lncRNA 6个及其关联miRNA 37个和靶向mRNA 16724个;差异mRNA与靶向mRNA中获得86个相同的差异表达mRNA;GO分析及KEGG富集分析显示差异基因主要通过ATP酶活性、肌肉组织发育、前突触、黏着斑、MAPK信号通路、细胞周期、细胞凋亡等生物过程参与心脏肥大的发病。结论筛选获得心脏肥大的差异表达mRNA并成功构建其调控网络,将为心脏肥大的防治提供潜在的新靶点。

Objective To screen the differentially expressed mRNAs in cardiac hypertrophy based on GEO database,and to construct a long non-coding RNA(lncRNA)-associated competing endogenous RNA(ceRNA)regulation network.Methods The GSE60291 chip data set related to cardiac hypertrophy in the GEO database was retrieved to analyze the differentially expressed mRNAs by R language.The function and mechanism of differentially expressed mRNAs were analyzed using GO function and KEGG pathway enrichment analysis.The lncRNAs related to cardiac hypertrophy were retrieved,and the target miRNAs of lncRNAs were predicted using the Starbase database to construct the lncRNA-miRNA ceRNA network.The targeted mRNAs of the related miRNAs were predicted by miRNET and the regulatory network of miRNA-mRNA ceRNA was constructed.On this basis,the cRNA regulatory network of lncRNA-miRNA-mRNA was constructed.Results 104 differential mRNA of cardiac hypertrophy,six lncRNAs,37 associated miRNAs and 16724 target mRNAs were retrieved.The target mRNAs were intersected with the 104 differentially expressed mRNAs to obtain 86 differentially expressed mRNAs with identical mRNAs.GO and KEGG enrichment analysis showed that the differential genes were mainly involved in the pathogenesis of cardiac hypertrophy through biological processes such as ATPase activity,muscle tissue development,presynapsis,adhesive spots,MAPK signaling pathway,cell cycle and apoptosis.Conclusion Differential expression mRNAs in cardiac hypertrophy were screened and the regulatory network was successfully constructed.Our results will provide potential new targets for the prevention and treatment of cardiac hypertrophy.