Characterizing heterogeneous cis-regulatory elements in gene regulatory programs associated with breast cancer.

ABSTRACT:

Background

Cis-regulatory elements (CREs) control oncogene expression and malignant phenotypes. The high clinicopathological heterogeneity of cancer cannot be explained by gene expression alone, being attributed to CRE heterogeneity. However, characterizing cancer-associated CREs is challenging. To address this issue, we performed a single-cell epigenomic analysis of clinical specimens.

Methods

To map the multicellular ecosystem of breast cancer (BC) and identify candidate CREs (cCREs), we performed a single-cell assay for transposase-accessible chromatin with sequencing (scATAC-seq) of 38 prospectively collected BC samples with various clinicopathological characteristics.

Results

First, we performed single-cell chromatin accessibility profiling of a high-quality set

SUBMITTER: Hori C 

PROVIDER: S-EPMC12659144 | biostudies-literature | 2025 Nov

REPOSITORIES: biostudies-literature