Potentially critical roles of TNPO1, RAP1B, ZDHHC17, and PPM1B in the progression of coronary atherosclerosis through microarray data analysis

Objective This study aimed to identify more potentially critical genes associated with atherosclerotic coronary artery disease (CAD). Materials and Methods Gene expression profile of GSE12288 was downloaded from the Gene Expression Omnibus (GEO) database. Differentially expressed genes (DEGs) were s...

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Bibliographic Details
Published in:Journal of cellular biochemistry 2019-03, Vol.120 (3), p.4301-4311
Main Authors: Zhang, Xiaohui, Sun, Renhua, Liu, Liping
Format: Article
Language:English
Subjects:
Acyltransferases - genetics
Adaptor Proteins, Signal Transducing - genetics
Annotations
Arteriosclerosis
Atherosclerosis
Atherosclerotic coronary artery disease (CAD)
beta Karyopherins - genetics
Cardiovascular disease
Coronary artery
Coronary artery disease
Coronary Artery Disease - genetics
Coronary Artery Disease - pathology
Data Analysis
Data processing
Databases, Genetic
differentially expressed genes (DEG)
Disease Progression
DNA microarrays
Elongation
functional enrichment analysis
Gene expression
Gene Expression Profiling
Gene Regulatory Networks
Genes
Heart diseases
Humans
Immune system
Intracellular
Localization
MicroRNAs - genetics
miRNA
Nerve Tissue Proteins - genetics
Network analysis
Oligonucleotide Array Sequence Analysis
Protein Interaction Maps
Protein Phosphatase 2C - genetics
Protein transport
Proteins
rap GTP-Binding Proteins - genetics
Ribonucleic acid
RNA
Signal transduction
Signal Transduction - genetics
Transcriptome
Transduction
Translation elongation
weighed gene coexpression network analysis (WGCNA)
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Summary:Objective This study aimed to identify more potentially critical genes associated with atherosclerotic coronary artery disease (CAD). Materials and Methods Gene expression profile of GSE12288 was downloaded from the Gene Expression Omnibus (GEO) database. Differentially expressed genes (DEGs) were screened in atherosclerotic CAD samples compared with controls, followed by weighed gene coexpression network analysis (WGCNA) by which the most significant module was identified. Gene coexpression network was constructed based on genes in the most significant module, and functional annotation was also performed. In addition, microRNAs (miRNAs) that were directly associated with CAD were screened from the literature, and the miRNA‐target regulatory network was constructed based on genes in the most significant module, followed by Gene Ontology (GO) and pathway enrichment analysis. Furthermore, we used another data set of GSE42148 from the GEO database to perform data validation. Results WGCNA analysis showed that the turquoise module may have the most important role in atherosclerotic CAD. Genes in this module were involved in translational elongation and intracellular signal transduction. Besides, we identified five confirmed CAD‐related miRNAs. TNPO1, RAP1B, and ZDHHC17 could be targeted by four of these miRNAs. Genes such as PPM1B could be regulated by three miRNAs. Moreover, TNPO1 and ZDHHC17 were involved in the GO terms associated with protein localization and transport and the immune system; RAP1B and PPM1B were linked with intracellular signal transduction‐related pathways. In addition, PPM1B and ZDHHC17 had accordantly significant expression changes in another data set GSE42148. Conclusion TNPO1, RAP1B, ZDHHC17, and PPM1B may play essential roles in the progression of coronary atherosclerosis.
ISSN:0730-2312
1097-4644
DOI:10.1002/jcb.27715