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The impact of Fulvestrant on Estrogen Receptor-Driven Chromatin Dynamics in breast cancer cells points to a disconnect between chromatin opening and histone acetylation [CUT&Tag]

GSE301553 Homo sapiens (human) ChIP-seq / ATAC-seq (genome binding and open chromatin) 18 samples Submitted 2026/05/25 Platform GPL21697
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 18 samples

What it is
ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
Organism
Homo sapiens (human)
Samples
18 samples: 9 conditions, mostly in duplicateGroups are read from the sample names, not from the paper. Check the list below.
Data you can get
A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Summary (written by the submitters)
Background: Epigenetic dysregulations are linked to various diseases, including cancer. Among them, breast cancer is the second leading cause of cancer-related deaths in women with 50% of mortalities attributable to estrogen receptor-positive (ER+) tumors. Endocrine therapies targeting the Estrogen Receptor (ER) such as Tamoxifen, Fulvestrant and Aromatase inhibitors, are widely used in the clinic.
Read the full summary ↓
Among these therapeutic agents, Fulvestrant has been shown to fully antagonize ER activity, primarily through the rapid degradation and elimination of ER from target tissues. However, recent findings indicate that ER, when engaged with Fulvestrant, retains the ability to translocate to the nucleus and bind DNA whereas appearing transcriptionally inert. Results: In this study we aimed to further investigate the effects of Fulvestrant and Estradiol, an ER natural ligand, on ER cistrome, chromatin accessibility, and H3K27ac genome-wide patterns in an ER+ breast cancer cell line. Using the innovative CUT&Tag technology, we first confirmed that both Fulvestrant and Estradiol promote ER binding to DNA. Our findings revealed that Estradiol not only enhances chromatin accessibility but also increases H3K27ac levels at ER binding sites. In contrast, while Fulvestrant does not significantly alter chromatin accessibility, it can induce increases in H3K27ac levels at a subset of ER binding sites. Our observations suggest that Fulvestrant may modulate breast cancer transcriptional landscape by impacting H3K27ac dynamics, even in the absence of changes in chromatin accessibility. Conclusions: This study provides new insights on the mechanistic impact of Fulvestrant on Estrogen Receptor activity and their potential implications on target gene expression, particularly highlighting a novel putative role of H3K27ac dynamics in these processes.
This dataset
Open GSE301553 in finder → Find more human ChIP / ATAC / CUT&Tag datasets →
Download · which file do I need?

Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.

1 · Just have a look

Processed table

The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE301553_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

Raw sequencing reads

The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.

Raw reads on ENA ↗

What the files usually look like: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.

Also filed as BioProject PRJNA1285436 and SRA study SRP597889. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
9 conditions, mostly in duplicate
Estrogen receptor CUT&Tag, DMSO control, ×2 H3K27ac CUT&Tag, DMSO control, ×2 IgG CUT&Tag (input), DMSO control, ×2 Estrogen receptor CUT&Tag, Estradiol treatmen… ×2 H3K27ac CUT&Tag, Estradiol treatment, ×2 IgG CUT&Tag (input), Estradiol treatment, ×2 Estrogen receptor CUT&Tag, Fulvestrant treatm… ×2 H3K27ac CUT&Tag, Fulvestrant treatment, ×2 +1 more

Supports a between-group comparison across 18 samples.

How we read this: 9 replicated groups read from 18 sample titles; they account for 18 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.

Samples in this study
Datasets on a similar topic

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