Exploration of dilated cardiomyopathy for biomarkers and immune microenvironment: evidence from RNA-seq

Fang, Chenggang; Lv, Zhan; Yu, Zhimin; Wang, Kexin; Xu, Chengkai; Li, Yixuan; Wang, Yanggan

doi:10.1186/s12872-022-02759-7

Cited by 10 publications

(7 citation statements)

References 42 publications

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“…Different from previous studies 19 , 20 , our enrichment analysis, in this study, for DEGs revealed that multiple enrichment items were significantly involved in immune response. Regulation of memory T cell differentiation, including regulation of T cell mediated cytotoxicity and immunological memory formation, has been mainly enriched in biological process.…”

Section: Discussioncontrasting

confidence: 99%

Identification of key immune-related genes in dilated cardiomyopathy using bioinformatics analysis

et al. 2023

Sci Rep

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Dilated cardiomyopathy (DCM) is characterized by the left ventricular dilatation and impaired myocardial systolic dysfunction with high mortality and morbidity. However, the underlying mechanisms remain elusive. We first identified the differentially expressed genes (DEGs) between the DCM and control group using two expression profiles from GSE3585 and GSE84796. Enrichment analysis was conducted to explore the potential mechanisms underlying DCM. A total of four algorithms, including key module of MCODE, degree, maximum neighborhood component (MNC), and maximal clique centrality (MCC), were used to identify the hub genes within Cytoscape. The correlation between hub genes and infiltrated immune cells was evaluated to determine potential immune-related genes. The expression analysis and diagnosis value analysis of potential immune-related genes were performed. Finally, the expression analysis with GSE57338 and relationship analysis with the comparative toxicogenomics database (CTD) were performed to identify the key immune-related genes in DCM. A total of 80 DEGs were screened for DCM. Enrichment analysis revealed that DEGs were involved in the immune-related pathological process. Immune infiltration analysis indicated a potentially abnormal immune response in DCM. Four up-regulated genes (COL1A2, COL3A1, CD53, and POSTN) were identified as potential immune-related genes. Finally, three genes (COL1A2, COL3A1, and POSTN) were determined as the key immune-related genes in DCM via expression analysis with a validation set (GSE57338) and relationship analysis with CTD. Our study suggested that the upregulated COL1A2, COL3A1, and POSTN might be the key immune-related genes for DCM. Further studies are needed to validate the underlying mechanisms.

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Section: Discussioncontrasting

confidence: 99%

Identification of key immune-related genes in dilated cardiomyopathy using bioinformatics analysis

et al. 2023

Sci Rep

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“…In this study, similar to previous studies [19,20] , our enrichment analysis for DEGs revealed that multiple enrichment items were signi cantly involved in immune response. Regulation of memory T cell differentiation, including regulation of T cell mediated cytotoxicity, immunological memory formation, and so forth, has been mainly enriched in biological process.…”

Section: Discussionsupporting

confidence: 88%

Identification of key immune-related genes in dilated cardiomyopathy using bioinformatics analysis

et al. 2022

Preprint

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Background:Dilated cardiomyopathy (DCM) is characterized by the left ventricular dilatation and impaired myocardial systolic dysfunction with high mortality and morbidity. However, the underlying mechanisms remain elusive.Methods:Differentially expressed genes (DEGs) analysis was performed using two expression profiles from GSE3585 and GSE8479. Enrichment analysis to explore the potential mechanisms underlying DCM was conducted. A total of four algorithms were used within Cytoscape to identify the hub genes. Correlation analysis between hub genes and infiltrated immune cells to identify potential immune-related genes. The expression analysis and diagnosis value analysis of potential immune-related genes were performed. Finally, the expression analysis with GSE57338 and relationship analysis with the comparative toxicogenomics database (CTD) were performed for identification of the key immune-related genes in DCM. Results:A total of 80 DEGs were screened for DCM. Enrichment analysis revealed that DEGs were involved in immune-related pathological process. Immune infiltration analysis indicated a potential immune response abnormal in DCM. Four up-regulated genes, including COL1A2, COL3A1, CD53, and POSTN, were identified as potential immune-related genes. Finally, three genes (COL1A2, COL3A1, and POSTN) were determined as the key immune-related genes in DCM via expression analysis with a validation set (GSE57338) and relationship analysis with CTD.Conclusions:Our study suggested that the upregulated COL1A2, COL3A1, and POSTN might be the key immune-related genes for DCM. Further studies are needed to validate the underlying mechanisms.

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“…Our study also observed significant changes in memory CD4 + T cells, CD8 + T cells, and naïve B cell populations in DCM, which were independently verified by Fang et al (2022) [23]; however, these populations were not present in the blood of recent-onset cardiomyopathy or PPCM [11]. This suggests that the B and T cell responses identified in this study may not be systemic (i.e., specific to the myocardium), and the result of prolonged cardiac inflammation may be contributing to the end-stage DCM pathogenesis.…”

Section: Immune Cell Signatures Of Ppcm and Dcmsupporting

confidence: 90%

Transcriptomic Comparison of Human Peripartum and Dilated Cardiomyopathy Identifies Differences in Key Disease Pathways

Taylor

Yeung

Ashton

et al. 2023

JCDD

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Peripartum cardiomyopathy (PPCM) is a rare form of acute onset heart failure that presents in otherwise healthy pregnant women around the time of delivery. While most of these women respond to early intervention, about 20% progress to end-stage heart failure that symptomatically resembles dilated cardiomyopathy (DCM). In this study, we examined two independent RNAseq datasets from the left ventricle of end-stage PPCM patients and compared gene expression profiles to female DCM and non-failing donors. Differential gene expression, enrichment analysis and cellular deconvolution were performed to identify key processes in disease pathology. PPCM and DCM display similar enrichment in metabolic pathways and extracellular matrix remodeling suggesting these are similar processes across end-stage systolic heart failure. Genes involved in golgi vesicles biogenesis and budding were enriched in PPCM left ventricles compared to healthy donors but were not found in DCM. Furthermore, changes in immune cell populations are evident in PPCM but to a lesser extent compared to DCM, where the latter is associated with pronounced pro-inflammatory and cytotoxic T cell activity. This study reveals several pathways that are common to end-stage heart failure but also identifies potential targets of disease that may be unique to PPCM and DCM.

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Exploration of dilated cardiomyopathy for biomarkers and immune microenvironment: evidence from RNA-seq

Cited by 10 publications

References 42 publications

Identification of key immune-related genes in dilated cardiomyopathy using bioinformatics analysis

Identification of key immune-related genes in dilated cardiomyopathy using bioinformatics analysis

Identification of key immune-related genes in dilated cardiomyopathy using bioinformatics analysis

Transcriptomic Comparison of Human Peripartum and Dilated Cardiomyopathy Identifies Differences in Key Disease Pathways

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