← BioTransfer GEO Dataset Finder
GEO series

CFP1-mediated H3K4me3 broad domains control early B cell lineage fate determination

GSE289627 Mus musculus (mouse) ChIP-seq / ATAC-seq (genome binding and open chromatin) 88 samples Submitted 2026/02/08 Platform GPL16417Platform GPL24247Platform GPL28330
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 88 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
88 samples: 27 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
CFP1-mediated H3K4me3 broad domains control early B cell lineage fate determinationNucleic acids research · 2026
SuperSeries — this record groups several sub-series.
Summary (written by the submitters)
This SuperSeries is composed of the SubSeries listed below.
Published in
CFP1-mediated H3K4me3 broad domains control early B cell lineage fate determination
Bai W, Yang Y, Zhao Y et al. · Nucleic acids research 2026 · PMID 41728956 · doi:10.1093/nar/gkag125
This dataset
Open GSE289627 in finder → Find more mouse 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 GSE289627_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 PRJNA1223847. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41728956) ↗
Study design
27 conditions, mostly in duplicate
CTCF AB CUT&Tag Pro-B cell Cfp1(fl/fl) Mb1-Cr… ×5 CFP1 AB ChIP-Seq Pro-B cell Cfp1(fl/fl) Rag1(… ×4 4C-Seq iEm Pro-B cell Cfp1(fl/fl) Rag1(-/-) b… ×3 4C-Seq iEm Pro-B cell Cfp1(fl/fl) Mb1-Cre Rag… ×3 H3K4me3 AB CUT&Tag CLP WT biol ×3 H3K4me3 AB CUT&Tag Pro-B cell WT biol ×3 H3K4me3 AB CUT&Tag Pre-B cell WT biol ×3 H3K4me3 AB CUT&Tag Mature B cell WT biol ×3 +36 more

Supports a between-group comparison across 71 samples.

How we read this: 27 replicated groups read from 88 sample titles; they account for 71 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

+ 48 more — browse all 88 samples with per-sample file links →

Datasets on a similar topic

Search all mouse 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.