Construction of microRNA and transcription factor regulatory network based on gene expression data in cardiomyopathy

Abstract

BackgroundCardiomyopathy is a progressive myocardial disorder. Here, we attempted to reveal the possible mechanism of cardiomyopathy at the transcription level with the roles of microRNAs (miRNAs) and transcription factors (TFs) taken into account.MethodWe firstly identified differentially expressed genes (DEGs) between cardiomyopathy patients and controls with data from the gene expression omnibus (GEO) database. DEGs were associated with the canonical pathways, molecular and cellular functions, physiological system development and function in the Ingenuity Knowledge Base by using the Ingenuity Pathway Analysis (IPA) software. TFs and miRNAs that DEGs significantly enriched were identified and a double-factor regulatory network was constructed.ResultsA total of 1,680 DEGs were identified. The DEGs were enriched for various pathways, with glucocorticoid receptor signaling as the most significant. A double-factor regulatory network was constructed, including seven TFs and two miRNAs. A subnetwork under the regulation of MEF2C and SRF was also constructed to illustrate their regulatory effects on cardiac functions.ConclusionOur results may provide new understanding of cardiomyopathy and may facilitate further therapeutic studies.

Identification of a novel microRNA profile in pediatric patients with cancer treated with anthracycline chemotherapy

“…In addition, individual miRs were clustered with respect to predominant functional pathways constructed by ingenuity pathway analysis (Qiagen) (25,38). Although it must be recognized that posttranscriptional regulation by individual miRs encompasses multiple targets, predominant functional domains relevant to myocardial remodeling and function can be developed through ingenuity pathway analysis (7,14,44,53) and are shown in Table 1. For each functional domain, a composite fold change of all associated miRs relative to referent normal was calculated using the comparative C T method.…”

Life Course Impact of Glucocorticoids During Pregnancy on Muscle Development and Function

“…Increasing evidence show that miRNAs regulate generation of glucocorticoids in adrenal gland and in contrast, glucocorticoids also regulate cell survival, proliferation, and function partially through regulation of miRNA expression ( Clayton et al, 2018 ). For example, in humans, miRNA-30c-5p and miRNA-125b-5p regulated expression of genes involved in cardiomyogenesis or cardiac function via glucocorticoid-mediated signaling pathway ( Wang et al, 2014 ).…”

Glucocorticoids and programming of the microenvironment in heart

“…It was found that differentially expressed genes between cardiomyopathy patients and healthy donors were enriched for various pathways, of which GR signaling is the most significant. miRNA-30c-5p and miRNA-125b-5p play an essential role in the regulatory network of differentially expressed genes related to glucocorticoid signaling, which is implicated in cardiomyogenesis or cardiac function (Wang et al 2014).…”