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Leukemia risk factor ARID5B Coordinates HDAC-Mediated Transcriptional Repression [CUT&Run]

GSE297398 Homo sapiens (human) ChIP-seq / ATAC-seq (genome binding and open chromatin) 47 samples Submitted 2026/05/19 Platform GPL24676
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 47 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
47 samples: 23 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
Leukemia risk factor ARID5B coordinates HDAC-mediated transcriptional repressionNucleic acids research · 2026
Summary (written by the submitters)
We employed a combination of proteomics, genomics and transcriptomics to describe the molecular mechanisms of ARID5B. We identify that ARID5B interacts with MIER1, C16ORF87, HDAC1 and HDAC2 forming a repressor complex. The former localizes to active regions of the genome, tethering HDAC1 and HDAC2 to enhancers and promoters. Genes actively repressed by the ARID5B repressor complex are involved in B cell-specific signaling.
Published in
Leukemia risk factor ARID5B coordinates HDAC-mediated transcriptional repression
Kutschat AP, Frommelt F, Santini BL et al. · Nucleic acids research 2026 · PMID 42328790 · doi:10.1093/nar/gkag628
This dataset
Open GSE297398 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 GSE297398_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 PRJNA1263762 and SRA study SRP586051. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42328790) ↗
Study design
23 conditions, mostly in duplicate
NALM6_Cas9_HDAC1 ×2 NALM6_Cas9_ARID5B ×2 NALM6_Cas9_H3K27me3 ×2 NALM6_Cas9_H3K27ac ×2 NALM6_Cas9_H3K9me2 ×2 NALM6_Cas9_H3K4me1 ×2 NALM6_Cas9_IgG_1mil_cells ×2 NALM6_ARID5B_KO_HDAC1 ×2 +16 more

Supports a between-group comparison across 46 samples.

How we read this: 23 replicated groups read from 47 sample titles; they account for 46 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

+ 7 more — browse all 47 samples with per-sample file links →

Datasets on a similar topic

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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.