Screening of genes related to acute coronary syndrome and identification of functional modules in the PPI network
W-J Shangguan1, L-M Tang, H Li
1Department of Traditional Chinese Medicine, Renji Hospital, Shanghai Jiaotong University School of Medicine, Shanghai, China. lihe1972@hotmail.com.
Insights
Researchers identified key genes, including CD, CXCL, and CCL, as potential biomarkers for acute coronary syndrome (ACS). These findings highlight the role of the immune system in ACS development, suggesting new avenues for diagnosis and treatment.
Area of Science:
- Cardiovascular Biology
- Molecular Diagnostics
- Immunogenomics
Background:
- Acute coronary syndrome (ACS) presents a significant global health challenge, necessitating rapid diagnosis and intervention.
- Obstruction of coronary arteries underlies ACS, impacting millions of individuals annually.
- Identifying novel biomarkers is crucial for improving ACS management.
Purpose of the Study:
- To identify novel gene biomarkers associated with acute coronary syndrome (ACS).
- To investigate gene expression differences between normal and diseased blood vessels in ACS patients.
- To explore the functional pathways and interactions of differentially expressed genes in ACS.
Main Methods:
- Utilized gene expression data (GSE19339) from the Gene Expression Omnibus (GEO) database.
- Performed differential gene expression analysis using R language.
- Applied bioinformatics tools (WebGestalt, STRING, Cytoscape) for functional enrichment and network analysis of differentially expressed genes (DEGs).
Main Results:
- Identified 480 differentially expressed genes (DEGs) between normal and ACS samples, predominantly linked to blood vessel development.
- Constructed a protein-protein interaction (PPI) network and identified two key functional modules.
- Discovered CD, CXCL, CCL, and ICAM1 genes as critical nodes within these modules, all associated with immune responses.
Conclusions:
- Suggests that CD, CXCL, CCL, and IL genes hold potential as diagnostic biomarkers for acute coronary syndrome (ACS).
- Indicates a significant role for the immune response system in the pathogenesis of ACS.
- Emphasizes the need for further experimental validation of these findings.
Background:
Acute coronary syndrome (ACS), referring to any group of symptoms attributed to obstruction of the coronary arteries, affects millions of patients annually and requires immediate diagnosis and therapy.
Objective:
The purpose of this study was to find more biomarkers through identifying the genes which are related to ACS with samples from normal and diseased blood vessel.
Materials And Methods:
We downloaded the gene expression profile of GSE19339 from GEO (Gene Expression Omnibus) database, including 4 samples for normal and 4 for ACS. Then, the preprocessing of the data and analysis of differentially expressed genes (DEGs) were conducted with R language. WebGestalt was used to analyze the functions of the DEGs and STRING was applied to build the protein-protein interaction (PPI) network. At last, we used two plugins of Cytoscape to map the functional modules on the base of the PPI network.
Results:
A total of 480 genes were identified as DEGs between normal and disease samples, which were most significantly related to blood vessel development. After the partition of the PPI network, we got two functional modules, and CD, CXCL, CCL and ICAM1 genes were found served as the nodes of the two modules. These genes were all related to the immune response system.
Conclusions:
Our present findings suggest that CD, CXCL, CCL and IL genes may be used as biomarkers in the research of ACS and the immune response system may also play an important role in the pathogenesis of ACS. However, further experiments are still needed to confirm our result.
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