上海交通大学学报（医学版）

上海交通大学学报（医学版） ›› 2019, Vol. 39 ›› Issue (7): 698-.doi: 10.3969/j.issn.1674-8115.2019.07.003

• 论著·基础研究 • 上一篇    下一篇

缺血性心肌病差异表达基因的生物信息学分析

张鹏 1，常争艳 2，杨磊 1，薛松 1，连锋 1   

  1. 1. 上海交通大学医学院附属仁济医院心外科，上海 200127；2. 同济大学附属第十人民医院病理科，上海 200072
  • 出版日期:2019-07-28 发布日期:2019-08-26
  • 通讯作者: 连锋，电子信箱：dr.lianfeng@hotmail.com。
  • 作者简介:张鹏（1989—），男，硕士生；电子信箱： wangyizp2009@126.com。
  • 基金资助:
    国家自然科学基金 (81873461)；上海交通大学医工交叉研究基金（YG2015MS51）；专科疾病临床“五新”转化项目（16CR3086B）

Bioinformatics analysis of differentially expressed genes in ischemic cardiomyopathy

ZHANG Peng1, CHANG Zheng-yan2, YANG Lei1, XUE Song1, LIAN Feng1   

  1. 1. Department of Cardiovascular Surgery, Renji Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai 200127; 2. Department of Pathology, Shanghai Tenth Peoples Hospital of Tongji University, Shanghai 200072
  • Online:2019-07-28 Published:2019-08-26
  • Supported by:
    National Natural Science Foundation of China, 81873461; Shanghai Jiao Tong University Medicine-Engineering Cross Research Foundation,YG2015MS51; Specialized Disease Clinical“Five New”Transformation Project, 16CR3086B

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摘要： 目的 ·应用生物信息学方法探讨缺血性心肌病（ ischemic cardiomyopathy，ICM）中差异表达的相关基因，构建竞争性内源 RNA（competing endogenous RNA，ceRNA）调控网络。方法 ·从基因表达数据库中下载数据集，筛选出 ICM样本与正常样本差异表达的 mRNA和长链非编码 RNA（lncRNA），并进行 GO（Gene Ontology）功能分析和 KEGG（Kyoto Encyclopedia of Genes and Genomes）通路分析。分析差异表达的 mRNA和 lncRNA，运用生物信息学方法进行 miRNA预测分析，构建 ceRNA调控网络。结果 · GO功能分析和 KEGG通路分析结果表明，差异表达基因在代谢途径、氧化磷酸化、细胞外基质受体相互作用等通路显著富集，并与内质网应激、纤维化、胶原的分解代谢过程、炎症反应功能密切相关。构建了 ICM lncRNA相关的 ceRNA调控网络，包含 26个 mRNA、2个 lncRNA和 15个 miRNA。结论 ·采用生物信息学方法能够有效分析 ICM差异表达的基因，并成功构建了缺血性心肌病 ceRNA调控网络。

关键词: 缺血性心肌病, 差异表达基因, 长链非编码 RNA, 生物信息学, 竞争性内源 RNA

Abstract:

Objective · To screen differentially expressed genes in ischemic cardiomyopathy (ICM)bioinformatics analysis and construct the regulatory network of competing endogenous RNA (ceRNA). Methods · Data sets were downloaded Gene Expression Omnibus (GEO) database to screen the differentially expressed mRNAs and lncRNAs between normal samples and ICM ones. Then, GO (Gene Ontology) analysis and KEGG (Kyoto Encyclopedia of Genes and Genomes) pathway analysis were performed. The differentially expressed mRNAs and lncRNAs were analyzed to predict related miRNAsbioinformatics methods, and then to construct ceRNA regulatory network. Results · GO analysis and KEGG pathways analysis results showed that the differentially expressed genes were enriched in the pathways such as metabolic pathway, oxidative phosphorylation, and extracellular matrix receptor interaction, and they were closely related to the functions such as endoplasmic reticulum stress, fibrosis, collagen catabolic process, and inflammatory response. A ceRNA regulatory network containing 26 mRNAs, 2 lncRNAs and 15 miRNAs was constructed. Conclusion · The bioinformatics method can be used to analyze the differentially expressed genes of ICM, and the regulatory network of ceRNA of ICM has been successfully constructed.

Key words: ischemic cardiomyopathy (ICM), differentially expressed gene, long non-coding RNA (lncRNA), bioinformatics analysis, competing endogenous RNA (ceRNA)

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