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Clinical response to azacitidine in MDS is associated with distinct DNA methylation changes in HSPCs

GSE275000 Homo sapiens (human) DNA methylation 104 samples Submitted 2025/04/01 Platform GPL24676
At a glance

DNA methylation · human · 104 samples

What it is
DNA methylationChemical marks on DNA that help switch genes on or off.
Organism
Homo sapiens (human)
Topic
Myelodysplastic syndromesThis series is part of our curated briefing on it.
Samples
104 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
Clinical response to azacitidine in MDS is associated with distinct DNA methylation changes in HSPCsNature communications · 2025
SuperSeries — this record groups several sub-series.
Summary (written by the submitters)
This SuperSeries is composed of the SubSeries listed below.
Published in
Clinical response to azacitidine in MDS is associated with distinct DNA methylation changes in HSPCs
Thoms JAI, Yan F, Hampton HR et al. · Nature communications 2025 · PMID 40360497 · doi:10.1038/s41467-025-59796-x
This dataset
Open GSE275000 in finder → Find more human methylation 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 GSE275000_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 beta-value tables or raw IDAT files among the supplementary files.

Also filed as BioProject PRJNA1148925 and SRA study SRP526818. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40360497) ↗
Study design
26 conditions, mostly in duplicate
P24_C1D ×2 P19_C1D ×2 P04_C1D ×2 P27_C1D ×2 P09_C1D ×2 P09_C7D ×2 P38_C1D ×2 P10_C1D ×2 +70 more

Supports a between-group comparison across 52 samples.

How we read this: 26 replicated groups read from 104 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

+ 64 more — browse all 104 samples with per-sample file links →

More Myelodysplastic syndromes datasets

Search all human methylation 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.