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Mechanistic basis of gene regulation by SRCAP and H2A.Z (ChIP-Seq)

GSE269304 Mus musculus (mouse) ChIP-seq / ATAC-seq (genome binding and open chromatin) 102 samples Submitted 2026/01/06 Platform GPL34475Platform GPL19057
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 102 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
102 samples: 26 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.
Paper
Mechanisms of gene regulation by SRCAP and H2A.ZNature communications · 2026
Summary (written by the submitters)
Discriminating regulatory functions of chromatin composition from those of chromatin-modifying complexes is a central problem in gene regulation. This question remains unexplored in the context of histone variants and their dedicated chromatin remodelers. Here we dissect the distinct and cell cycle-dependent functions of Snf2 Related CREBBP Activator Protein (SRCAP) and H2A.Z in gene regulation of pluripotent stem cells.
Read the full summary ↓
Using acute degradation of endogenous SRCAP, we uncover dynamic changes of H2A.Z occupancy and continuous requirement of SRCAP over the cell cycle. We also engineered an SRCAP mutant, defective for H2A.Z deposition, allowing us to distinguish H2A.Z-dependent and independent functions of SRCAP. We discover that SRCAP exhibits essential H2A.Z-independent functions in inhibiting DNA binding of dozens of pioneer transcription factors at enhancers by steric hindrance. In contrast, H2A.Z acts mainly as a transcriptional repressor gatekeeping the expression of lineage-specific genes. Our study establishes the catalytic-independent role of a chromatin remodeler in broadly regulating transcription factor binding, and demonstrates how a chromatin remodeler-histone variant pair orchestrates transcription to maintain self-renewal and plasticity of pluripotent stem cells.
Published in
Mechanisms of gene regulation by SRCAP and H2A.Z
Tollenaere A, Ugur E, Dalla Longa S et al. · Nature communications 2026 · PMID 41792122 · doi:10.1038/s41467-026-70087-x
This dataset
Open GSE269304 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 GSE269304_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 PRJNA1120930 and SRA study SRP512300. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41792122) ↗
Study design
26 conditions, mostly in duplicate
SYAT unt H2A ×2 SYAT IAA2h H2A ×2 SYAT IAA4h H2A ×2 SYAT IAA6h H2A ×2 SYAT IAA8h H2A ×2 AS H2AZ ×2 M H2AZ ×2 EG1 H2AZ ×2 +68 more

Supports a between-group comparison across 52 samples.

How we read this: 26 replicated groups read from 102 sample titles; they account for 52 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

+ 62 more — browse all 102 samples with per-sample file links →

Datasets on a similar topic

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