Analysis of Differentially Expressed Genes in Coronary Artery Disease by Integrated Microarray Analysis

• Published in: Biomolecules (Basel, Switzerland) Vol. 10; no. 1; p. 35
• Main Authors: Balashanmugam, Meenashi Vanathi, Shivanandappa, Thippeswamy Boreddy, Nagarethinam, Sivagurunathan, Vastrad, Basavaraj, Vastrad, Chanabasayya
• Format: Journal Article
• Language: English
• Published: Switzerland MDPI AG 25.12.2019; MDPI
• Subjects: Cardiovascular disease; Coronary artery; Coronary artery disease; Coronary vessels; Correlation analysis; Datasets; Degranulation; differentially expressed genes; DNA microarrays; Ethanol; Forebrain; Gene expression; Genomes; Heart diseases; hub genes; miRNA; Molecular modelling; Myc protein; Ontology; pathway enrichment analyses; Protein interaction; protein-protein interaction network; Proteins; Software; VHL protein; United States > US; coronary artery disease; differentially expressed genes; protein-protein interaction network; pathway enrichment analyses; hub genes
• ISSN: 2218-273X; 2218-273X
• DOI: 10.3390/biom10010035

Coronary artery disease (CAD) is a major cause of end-stage cardiac disease. Although profound efforts have been made to illuminate the pathogenesis, the molecular mechanisms of CAD remain to be analyzed. To identify the candidate genes in the advancement of CAD, microarray dataset GSE23766 was downloaded from the Gene Expression Omnibus database. The differentially expressed genes (DEGs) were identified, and pathway and gene ontology (GO) enrichment analyses were performed. The protein-protein interaction network was constructed and the module analysis was performed using the Biological General Repository for Interaction Datasets (BioGRID) and Cytoscape. Additionally, target genes-miRNA regulatory network and target genes-TF regulatory network were constructed and analyzed. There were 894 DEGs between male human CAD samples and female human CAD samples, including 456 up regulated genes and 438 down regulated genes. Pathway enrichment analyses revealed that DEGs (up and down regulated) were mostly enriched in the superpathway of steroid hormone biosynthesis, ABC transporters, oxidative ethanol degradation III and Complement and coagulation cascades. Similarly, geneontology enrichment analyses revealed that DEGs (up and down regulated) were mostly enriched in the forebrain neuron differentiation, filopodium membrane, platelet degranulation and blood microparticle. In the PPI network and modules (up and down regulated), MYC, NPM1, TRPC7, UBC, FN1, HEMK1, IFT74 and VHL were hub genes. In the target genes-miRNA regulatory network and target genes-TF regulatory network (up and down regulated), TAOK1, KHSRP, HSD17B11 and PAH were target genes. In conclusion, the pathway and GO ontology enriched by DEGs may reveal the molecular mechanism of CAD. Its hub and target genes, MYC, NPM1, TRPC7, UBC, FN1, HEMK1, IFT74, VHL, TAOK1, KHSRP, HSD17B11 and PAH were expected to be new targets for CAD. Our finding provided clues for exploring molecular mechanism and developing new prognostics, diagnostic and therapeutic strategies for CAD.