Meta-analysis of integrated ChIP-seq and transcriptome data revealed genomic regions affected by estrogen receptor alpha in breast cancer.

ABSTRACT:

Background

The largest group of patients with breast cancer are estrogen receptor-positive (ER⁺) type. The estrogen receptor acts as a transcription factor and triggers cell proliferation and differentiation. Hence, investigating ER-DNA interaction genomic regions can help identify genes directly regulated by ER and understand the mechanism of ER action in cancer progression.

Methods

In the present study, we employed a workflow to do a meta-analysis of ChIP-seq data of ER⁺ cell lines stimulated with 10 nM and 100 nM of E2. All publicly available data sets were re-analyzed with the same platform. Then, the known and unknown batch effects were removed. Finally, the meta-analysis was performed to obtain meta-differentially bound sites in estrogen-treated M

SUBMITTER: Piryaei Z 

PROVIDER: S-EPMC10503144 | biostudies-literature | 2023 Sep

REPOSITORIES: biostudies-literature