Integrative Analysis of Transcriptome-Wide Association Study and mRNA Expression Profiles Identified Candidate Genes and Pathways Associated With Acute Myocardial Infarction

Guanzhong Chen; Liwei Liu; Huanqiang Li; Zhubin Lun; Ziling Mai; Wenguang Lai; Enzhao Chen; Chunyun Zhou; Sijia Yu; Junqing Yang; Shiqun Chen; Jiyan Chen; Yong Liu

doi:10.3389/fgene.2021.616492

Integrative Analysis of Transcriptome-Wide Association Study and mRNA Expression Profiles Identified Candidate Genes and Pathways Associated With Acute Myocardial Infarction

Front Genet. 2021 Feb 2:12:616492. doi: 10.3389/fgene.2021.616492. eCollection 2021.

Authors

Guanzhong Chen^{1

2}, Liwei Liu^{1

3}, Huanqiang Li¹, Zhubin Lun^{1

4}, Ziling Mai^{1

5}, Wenguang Lai^{1

5}, Enzhao Chen¹, Chunyun Zhou¹, Sijia Yu^{1

3}, Junqing Yang¹, Shiqun Chen¹, Jiyan Chen^{1

2

3}, Yong Liu^{1

2

3}

Affiliations

¹ Guangdong Provincial Key Laboratory of Coronary Heart Disease Prevention, Department of Cardiology, Guangdong Provincial People's Hospital, Guangdong Cardiovascular Institute, Guangdong Academy of Medical Sciences, Guangzhou, China.
² Guangdong Provincial People's Hospital, School of Medicine, South China University of Technology, Guangzhou, China.
³ The Second School of Clinical Medicine, Southern Medical University, Guangzhou, China.
⁴ The First School of Clinical Medicine, Guangdong Medical University, Zhanjiang, China.
⁵ Guangdong Provincial People's Hospital, School of Biology and Biological Engineering, South China University of Technology, Guangzhou, China.

Abstract

Background: Acute myocardial infarction (AMI), characterized by an event of myocardial necrosis, is a common cardiac emergency worldwide. However, the genetic mechanisms of AMI remain largely elusive.

Methods: A genome-wide association study dataset of AMI was obtained from the CARDIoGRAMplusC4D project. A transcriptome-wide association study (TWAS) was conducted using the FUSION tool with gene expression references of the left ventricle and whole blood. Significant genes detected by TWAS were subjected to Gene Ontology (GO) enrichment analysis. Then the TWAS results of AMI were integrated with mRNA expression profiling to identify common genes and biological processes. Finally, the identified common genes were validated by RT-qPCR analysis.

Results: TWAS identified 1,050 genes for the left ventricle and 1,079 genes for whole blood. Upon comparison with the mRNA expression profile, 4 common genes were detected, including HP (P_TWAS = 1.22 × 10^-3, P_GEO = 4.98 × 10^-2); CAMP (P_TWAS = 2.48 × 10^-2, P_GEO = 2.36 × 10^-5); TNFAIP6 (P_TWAS = 1.90 × 10^-2, P_GEO = 3.46 × 10^-2); and ARG1 (P_TWAS = 8.35 × 10^-3, P_GEO = 4.93 × 10^-2). Functional enrichment analysis of the genes identified by TWAS detected multiple AMI-associated biological processes, including autophagy of mitochondrion (GO: 0000422) and mitochondrion disassembly (GO: 0061726).

Conclusion: This integrative study of TWAS and mRNA expression profiling identified multiple candidate genes and biological processes for AMI. Our results may provide a fundamental clue for understanding the genetic mechanisms of AMI.

Keywords: acute myocardial infarction; biological process; genome-wide association study; mRNA expression profiles; transcriptome-wide association study.