Identification of Epigenetic Regulatory Networks of Gene Methylation-miRNA-Transcription Factor Feed-Forward Loops in Basal-like Breast Cancer.

ABSTRACT: Basal-like breast cancer (BLBC) is associated with poor prognosis, high recurrence rates, and limited therapeutic options, largely due to its molecular heterogeneity and complexity, which include epigenetic alterations. This study investigated epigenetic regulatory networks in BLBC by analyzing DNA methylation in distal cis-regulatory regions and its impact on genes, transcription factors (TFs), and microRNAs (miRNAs) expression. Data from TCGA were processed using the ELMER and DESeq2 tools to identify differentially methylated regions and differentially expressed genes, TFs, and miRNAs. The FANMOD algorithm was used to identify the regulatory interactions uncovering the feed-forward loops (FFLs). The analysis identified 110 TF-mediated FFLs, 43 miRNA-mediated FFLs, and five composite FFL

SUBMITTER: Okano LM 

PROVIDER: S-EPMC12384104 | biostudies-literature | 2025 Aug

REPOSITORIES: biostudies-literature