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Analysis of chromatin occupancy in erythroid cells by CUT&RUN following CRISPR editing of BCL11A enhancer

GSE292753 Homo sapiens (human) ChIP-seq / ATAC-seq (genome binding and open chromatin) 33 samples Submitted 2025/11/13 Platform GPL30173
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 33 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
33 samples: 25 distinct titles, 8 of them repeatedGroups 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
Silencing of BCL11A by disrupting enhancer-dependent epigenetic insulationBlood · 2026
Summary (written by the submitters)
The mechanisms underlying the remarkable efficacy of CRISPR-mediated BCL11A enhancer ablation remain poorly understood. Here, we employ CUT&RUN to investigate active and repressive histone modifications, as well as cohesin and CTCF binding, to uncover epigenetic changes under various editing conditions.
Published in
Silencing of BCL11A by disrupting enhancer-dependent epigenetic insulation
Wang K, Wang J, Feng R et al. · Blood 2026 · PMID 41191525 · doi:10.1182/blood.2025030211
This dataset
Open GSE292753 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 GSE292753_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 PRJNA1241195 and SRA study SRP572823. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41191525) ↗
Study design
25 distinct titles, 8 of them repeated
CD34_AAVS_H3K27me3_CUT&Run ×2 CD34_sg1617_H3K27me3_CUT&Run ×2 HUDEP-2_H3K27me3_CUT&Run ×2 HUDEP-2_EnhKO_H3K27me3_CUT&Run ×2 HUDEP-2_SMC1_CUT&Run ×2 HUDEP-2_CTCF_CUT&Run ×2 HUDEP-2_C-12andC-7KO_CTCF_CUT&Run ×2 HUDEP-2_C-12andC-7KO_H3K27me3_CUT&Run ×2

How we read this: Read from 33 sample titles: 25 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
Datasets on a similar topic

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