GEO series

Transcriptional control of Sulf1 by WT1 primes epicardial signalling and fate by modifying extracellular heparan sulfate status [CUT&Run]

GSE299998 Mus musculus (mouse) ChIP-seq / ATAC-seq (genome binding and open chromatin) 18 samples Submitted 2026/08/06 Platform GPL19057

At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 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: Mus musculus (mouse)
Samples: 18 samples: 18 samples, each with a distinct title — no replicated groupsGroups 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)

Considering the transcriptional correlations we observed between WT1 and 6-O-endosulfatases in the epicardium, we sought to elucidate whether WT1 regulates 6-O-endosulfatase expression directly and how its binding may differ between Sulf1 and Sulf2 in the epicardium. We employed CUT&RUN-seq experiments that mapped genome-wide binding sites of WT1 and histone modifications in cultured epicardial cells (MEC1).

Read the full summary ↓

We identified weak, although variable, binding of WT1 to the Sulf1 promoter and significant WT1 binding to an intronic enhancer, marked by active chromatin modification H3K27ac, located in intron 1 of the Sulf1 gene. Interestingly, the CUT&RUN-seq experiments also revealed significant binding of WT1 to the third intron of the Sulf2 gene, displaying chromatin accessibility without any histone marks or gene activity.

This dataset

Open GSE299998 in finder → Find more mouse 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 GSE299998_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 PRJNA1278682 and SRA study SRP592594. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

18 samples, each with a distinct title — no replicated groups

Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Read from 18 sample titles: 18 distinct titles with little repetition. 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

GSM9052113 MEC1 epicardial cells, Independent replicate sample 1, H3K4me3 antibody
GSM9052114 MEC1 epicardial cells, Independent replicate sample 2, H3K4me3 antibody
GSM9052115 MEC1 epicardial cells, Independent replicate sample 3, H3K4me3 antibody
GSM9052116 MEC1 epicardial cells, Independent replicate sample 4 H3K4me3 antibody
GSM9052117 MEC1 epicardial cells, Independent replicate sample 1, H3K27ac antibody
GSM9052118 MEC1 epicardial cells, Independent replicate sample 2, H3K27ac antibody
GSM9052119 MEC1 epicardial cells, Independent replicate sample 3, H3K27ac antibody
GSM9052120 MEC1 epicardial cells, Independent replicate sample 1, WT1 antibody
GSM9052121 MEC1 epicardial cells, Independent replicate sample 2, WT1 antibody
GSM9052122 MEC1 epicardial cells, Independent replicate sample 3, WT1 antibody
GSM9052123 MEC1 epicardial cells, Independent replicate sample 1, IgG antibody
GSM9052124 MEC1 epicardial cells, Independent replicate sample 2, IgG antibody
GSM9052125 MEC1 epicardial cells, Independent replicate sample 3, IgG antibody
GSM9052126 MEC1 epicardial cells, Independent replicate sample 4, IgG antibody
GSM9052127 MEC1 epicardial cells, Independent replicate sample 1, Input DNA
GSM9052128 MEC1 epicardial cells, Independent replicate sample 2, Input DNA
GSM9052129 MEC1 epicardial cells, Independent replicate sample 3, Input DNA
GSM9052130 MEC1 epicardial cells, Independent replicate sample 4, Input DNA

Datasets on a similar topic

GSE299995 Transcriptional control of Sulf1 by WT1 primes epicardial signalling and fate by modifying extracellular heparan sulfate status [ATAC-Seq] 4 samples shares sulf1, wt1, extracellular, epicardial, modifying, control, heparan
GSE274865 Epigenetic regulators of clonal hematopoiesis control CD8 T cell stemness during immunotherapy [CUT&Tag] 36 samples shares cut, control
GSE301940 CUT&Tag analysis of Isl1CKO and control pancreatic endocrine cells 11 samples shares cut, control
GSE291663 Lactate and histone H3K18 lactylation are associated with metabolic control of gene expression in the retina [explant_CUT&Tag] 10 samples shares cut, control
GSE282802 KMT2D controls cerebellar granule cell differentiation by temporally activating neuronal transcriptional factor genes [CUT&RUN] 10 samples shares cut, control
GSE255571 Chromatin remodeler CHD7 regulates neurogenic gene expression via controlling chromatin accessibility and modifications of histone marks H3K27me3 and H3K4me3 [Mouse CUT&Tag] 10 samples shares cut, control
GSE304211 H4K16ac contributes to chromatin compartment reorganization during mitotic and meiotic transitions [CUTnTAG] 128 samples shares cut
GSE297309 SKP1A-mediated degradation of PRC2 triggers activation of Polycomb-silenced gene [CUT&Tag] 108 samples shares cut

Search all mouse ChIP / ATAC / CUT&Tag datasets in GEO →

Share this dataset

Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.