Bioinformatics Analysis Reveals Diagnostic Markers and Vital Pathways Involved in Acute Coronary Syndrome.

IF 1.8 4区医学 Q3 CARDIAC & CARDIOVASCULAR SYSTEMS

Cardiology Research and Practice Pub Date : 2020-11-06 eCollection Date: 2020-01-01 DOI:10.1155/2020/3162581

Mingshuang Li, Conglin Ren, Chenxia Wu, Xinyao Li, Xinyi Li, Wei Mao

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引用次数: 4

Abstract

Background Acute coronary syndrome (ACS) has a high incidence and mortality rate. Early detection and intervention would provide clinical benefits. This study aimed to reveal hub genes, transcription factors (TFs), and microRNAs (miRNAs) that affect plaque stability and provide the possibility for the early diagnosis and treatment of ACS. Methods We obtained gene expression matrix GSE19339 for ACS patients and healthy subjects from public database. The differentially expressed genes (DEGs) were screened using Limma package in R software. The biological functions of DEGs were shown by Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), and Gene Set Enrichment Analysis (GSEA). Protein-protein interaction (PPI) network was mapped in Cytoscape, followed by screening of hub genes based on the Molecular Complex Detection (MCODE) plug-in. Functional Enrichment analysis tool (FunRich) and Database for Annotation, Visualization and Integrated Discovery (DAVID) were used to predict miRNAs and TFs, respectively. Finally, GSE60993 expression matrix was chosen to plot receiver operating characteristic (ROC) curves with the aim of further assessing the reliability of our findings. Results We obtained 176 DEGs and further identified 16 hub genes by MCODE. The results of functional enrichment analysis showed that DEGs mediated inflammatory response and immune-related pathways. Among the predicted miRNAs, hsa-miR-4770, hsa-miR-5195, and hsa-miR-6088 all possessed two target genes, which might be closely related to the development of ACS. Moreover, we identified 11 TFs regulating hub gene transcriptional processes. Finally, ROC curves confirmed three genes with high confidence (area under the curve > 0.9), including VEGFA, SPP1, and VCAM1. Conclusion This study suggests that three genes (VEGFA, SPP1, and VCAM1) were involved in the molecular mechanisms of ACS pathogenesis and could serve as biomarkers of disease progression.

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生物信息学分析揭示急性冠脉综合征的诊断标志物和生命通路。

背景:急性冠脉综合征(ACS)发病率高，死亡率高。早期发现和干预将提供临床益处。本研究旨在揭示影响斑块稳定性的枢纽基因、转录因子(TFs)和microRNAs (miRNAs)，为ACS的早期诊断和治疗提供可能。方法:从公共数据库中获取ACS患者和健康人的基因表达矩阵GSE19339。用R软件中的Limma包筛选差异表达基因(DEGs)。基因本体(GO)、京都基因与基因组百科全书(KEGG)和基因集富集分析(GSEA)显示了DEGs的生物学功能。在Cytoscape中绘制蛋白-蛋白相互作用(PPI)网络，然后基于分子复合物检测(MCODE)插件筛选枢纽基因。使用功能富集分析工具(FunRich)和数据库注释、可视化和集成发现(DAVID)分别预测mirna和tf。最后，选择GSE60993表达矩阵绘制受试者工作特征(ROC)曲线，以进一步评估研究结果的可靠性。结果:共获得176个deg，并通过MCODE进一步鉴定出16个枢纽基因。功能富集分析结果表明，DEGs介导炎症反应和免疫相关途径。在预测的mirna中，hsa-miR-4770、hsa-miR-5195和hsa-miR-6088均具有两个靶基因，这可能与ACS的发展密切相关。此外，我们还发现了11个调节枢纽基因转录过程的TFs。最后，ROC曲线确定了3个高置信度(曲线下面积> 0.9)的基因，分别是VEGFA、SPP1和VCAM1。结论:本研究提示3个基因(VEGFA、SPP1和VCAM1)参与了ACS发病的分子机制，并可作为疾病进展的生物标志物。

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来源期刊

Cardiology Research and Practice Medicine-Cardiology and Cardiovascular Medicine

CiteScore

4.40

自引率

0.00%

发文量

审稿时长

13 weeks

期刊介绍： Cardiology Research and Practice is a peer-reviewed, Open Access journal that publishes original research articles, review articles, and clinical studies that focus on the diagnosis and treatment of cardiovascular disease. The journal welcomes submissions related to systemic hypertension, arrhythmia, congestive heart failure, valvular heart disease, vascular disease, congenital heart disease, and cardiomyopathy.