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BMC Cardiovascular Disorders

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Open Access 01-12-2020 | Cardiomyopathy | Research article

Identification of candidate genes in ischemic cardiomyopathy by gene expression omnibus database

Authors: Haiming Dang, Yicong Ye, Xiliang Zhao, Yong Zeng

Published in: BMC Cardiovascular Disorders | Issue 1/2020

Abstract

Background

Ischemic cardiomyopathy (ICM) is one of the most usual causes of death worldwide. This study aimed to find the candidate gene for ICM.

Methods

We studied differentially expressed genes (DEGs) in ICM compared to healthy control. According to these DEGs, we carried out the functional annotation, protein-protein interaction (PPI) network and transcriptional regulatory network constructions. The expression of selected candidate genes were confirmed using a published dataset and Quantitative real time polymerase chain reaction (qRT-PCR).

Results

From three Gene Expression Omnibus (GEO) datasets, we acquired 1081 DEGs (578 up-regulated and 503 down-regulated genes) between ICM and healthy control. The functional annotation analysis revealed that cardiac muscle contraction, hypertrophic cardiomyopathy, arrhythmogenic right ventricular cardiomyopathy and dilated cardiomyopathy were significantly enriched pathways in ICM. SNRPB, BLM, RRS1, CDK2, BCL6, BCL2L1, FKBP5, IPO7, TUBB4B and ATP1A1 were considered the hub proteins. PALLD, THBS4, ATP1A1, NFASC, FKBP5, ECM2 and BCL2L1 were top six transcription factors (TFs) with the most downstream genes. The expression of 6 DEGs (MYH6, THBS4, BCL6, BLM, IPO7 and SERPINA3) were consistent with our integration analysis and GSE116250 validation results.

Conclusions

The candidate DEGs and TFs may be related to the ICM process. This study provided novel perspective for understanding mechanism and exploiting new therapeutic means for ICM.

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Title: Identification of candidate genes in ischemic cardiomyopathy by gene expression omnibus database
Authors: Haiming Dang
Yicong Ye
Xiliang Zhao
Yong Zeng
Publication date: 01-12-2020
Publisher: BioMed Central
Keyword: Cardiomyopathy
Published in: BMC Cardiovascular Disorders / Issue 1/2020
Electronic ISSN: 1471-2261
DOI: https://doi.org/10.1186/s12872-020-01596-w

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Identification of candidate genes in ischemic cardiomyopathy by gene expression omnibus database

Abstract

Background

Methods

Results

Conclusions

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