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Dose-dependent Effects of Estrogen on Genomic Regulation in Breast Cancer Cells [PRO-seq]

GSE298770 Homo sapiens (human) Other 15 samples Submitted 2026/04/18 Platform GPL30173
At a glance

human · 15 samples

Organism
Homo sapiens (human)
Samples
15 samples: 5 conditions, mostly in triplicateGroups 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.
Paper
Dose-dependent hormone actions at estrogen receptor enhancers specify distinct molecular and biological outcomesScience advances · 2026
Summary (written by the submitters)
Estrogen is the primary mitogen for ER+ BC cells. However, most studies prior to this examining the genomic effects of E2-regulated signaling in cell-based assays used supraphysiological levels of hormone. While this has allowed us to understand the extremes of E2 signaling, it has limited our ability to examine cellular functions which operate at lower hormone concentrations.
Read the full summary ↓
In particular, the genomic actions of ligand-bound ERa through transcriptional enhancer formation and function are not understood at physiological E2 doses. Here, we use an integrated genomic approach with RNA-seq, PRO-seq, ChIP-seq, and ATAC-seq to identify gene sets that express preferentially at either picomolar or nanomolar concentrations of E2. Expression of these genes is regulated mainly at the transcriptional level and is associated with distinct enhancer features, including chromatin accessibility and H3K27ac enrichment, as well as differential binding of FOXA1 and GATA3 co-transcription factors.
Published in
Dose-dependent hormone actions at estrogen receptor enhancers specify distinct molecular and biological outcomes
Kim HB, Nandu T, Kim YJ et al. · Science advances 2026 · PMID 42234735 · doi:10.1126/sciadv.aec2424
This dataset
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Download · which file do I need?

Direct links to NCBI, 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.

All supplementary files ↗
3 · The original raw files

Whole study · RAW.tar

Everything the authors deposited as one archive (GSE298770_RAW.tar), including the raw array or instrument files. Can be large; the picker in step 2 takes just the samples you need.

Whole study · RAW.tar ↓

Also filed as BioProject PRJNA1271075. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42234735) ↗
Study design
5 conditions, mostly in triplicate
MCF-7_PRO-seq_DMSO 30min ×3 MCF-7_PRO-seq_10 pM E2 30min ×3 MCF-7_PRO-seq_100 pM E2 30min ×3 MCF-7_PRO-seq_1 nM E2 30min ×3 MCF-7_PRO-seq_10 nM E2 30min ×3

Supports a between-group comparison across 15 samples.

How we read this: 5 replicated groups read from 15 sample titles; they account for 15 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
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