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PU.1-Activated Genomic Regions Define Low-risk MDS Subsets Characterized by Immune Dysregulation and Disease Progression.

GSE298020 Homo sapiens (human) ChIP-seq / ATAC-seq (genome binding and open chromatin) 493 samples Submitted 2026/01/29 Platform GPL24676
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 493 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)
Topic
Myelodysplastic syndromesThis series is part of our curated briefing on it.
Samples
493 samples: 6 conditions, mostly with about 42 replicates eachGroups 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
PU.1-activated genomic regions define low-risk MDS subsets characterized by immune dysregulation and disease progressionBlood · 2026
SuperSeries — this record groups several sub-series.
Summary (written by the submitters)
This SuperSeries is composed of the SubSeries listed below.
Published in
PU.1-activated genomic regions define low-risk MDS subsets characterized by immune dysregulation and disease progression
Vallelonga V, Gandolfi F, Zampini M et al. · Blood 2026 · PMID 41538708 · doi:10.1182/blood.2025030760
This dataset
Open GSE298020 in finder → Find more human RNA-seq datasets → Myelodysplastic syndromes landscape →
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 GSE298020_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 PRJNA1267114 and SRA study SRP604274. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41538708) ↗
Study design
6 conditions, mostly with about 42 replicates each
LR_patient_sample ×167 AML_patient_sample ×105 H3K27Ac_LR_patient_sample ×42 HR_patient_sample ×42 H3K27Ac_AML_patient_sample ×27 H3K27Ac_HR_patient_sample ×17

Supports a between-group comparison across 400 samples.

How we read this: 6 replicated groups read from the first 400 of 493 sample titles; they account for 400 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

+ 453 more — browse all 493 samples with per-sample file links →

More Myelodysplastic syndromes datasets

Search all human RNA-seq datasets in GEO →

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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.