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Acknowledgement to Reviewers of Genes in 2019
Open AccessArticle

Meta-Analysis of Dilated Cardiomyopathy Using Cardiac RNA-Seq Transcriptomic Datasets

1
Department of Physiology and Pharmacology, University of Toledo College of Medicine and Life Sciences, Toledo, OH 43614, USA
2
Bioinformatics Program, University of Toledo College of Medicine and Life Sciences, Toledo, OH 43614, USA
3
Clinical Pharmacology, William Harvey Research Institute, Barts and The London School of Medicine and Dentistry, Queen Mary University of London, London EC1M 6BQ, UK
4
National Institute of Health Research Barts Cardiovascular Biomedical Research Centre, Barts and the London School of Medicine and Dentistry, Queen Mary University of London, London EC1M 6BQ, UK
*
Author to whom correspondence should be addressed.
Genes 2020, 11(1), 60; https://doi.org/10.3390/genes11010060
Received: 18 November 2019 / Revised: 24 December 2019 / Accepted: 2 January 2020 / Published: 4 January 2020
(This article belongs to the Section Human Genomics and Genetic Diseases)
Dilated cardiomyopathy (DCM) is one of the most common causes of heart failure. Several studies have used RNA-sequencing (RNA-seq) to profile differentially expressed genes (DEGs) associated with DCM. In this study, we aimed to profile gene expression signatures and identify novel genes associated with DCM through a quantitative meta-analysis of three publicly available RNA-seq studies using human left ventricle tissues from 41 DCM cases and 21 control samples. Our meta-analysis identified 789 DEGs including 581 downregulated and 208 upregulated genes. Several DCM-related genes previously reported, including MYH6, CKM, NKX2–5 and ATP2A2, were among the top 50 DEGs. Our meta-analysis also identified 39 new DEGs that were not detected using those individual RNA-seq datasets. Some of those genes, including PTH1R, ADAM15 and S100A4, confirmed previous reports of associations with cardiovascular functions. Using DEGs from this meta-analysis, the Ingenuity Pathway Analysis (IPA) identified five activated toxicity pathways, including failure of heart as the most significant pathway. Among the upstream regulators, SMARCA4 was downregulated and prioritized by IPA as the top affected upstream regulator for several DCM-related genes. To our knowledge, this study is the first to perform a transcriptomic meta-analysis for clinical DCM using RNA-seq datasets. Overall, our meta-analysis successfully identified a core set of genes associated with DCM. View Full-Text
Keywords: dilated cardiomyopathy; heat failure; meta-analysis; RNA-seq; human dilated cardiomyopathy; heat failure; meta-analysis; RNA-seq; human
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Alimadadi, A.; Munroe, P.B.; Joe, B.; Cheng, X. Meta-Analysis of Dilated Cardiomyopathy Using Cardiac RNA-Seq Transcriptomic Datasets. Genes 2020, 11, 60.

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