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Circulating, cell-free methylated DNA reveals cellular sources of allograft injury after liver transplant

GSE262275 Homo sapiens (human) DNA methylation 148 samples Submitted 2025/03/02 Platform GPL24676
At a glance

DNA methylation · human · 148 samples

What it is
DNA methylationChemical marks on DNA that help switch genes on or off.
Organism
Homo sapiens (human)
Samples
148 samples: 125 distinct titles, 20 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
Circulating cell-free DNA methylation patterns indicate cellular sources of allograft injury after liver transplantNature 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
Circulating cell-free DNA methylation patterns indicate cellular sources of allograft injury after liver transplant
McNamara ME, Jain SS, Oza K et al. · Nature communications 2025 · PMID 40527875 · doi:10.1038/s41467-025-60507-9
This dataset
Open GSE262275 in finder → Find more human methylation 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 GSE262275_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 PRJNA1090942. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40527875) ↗
Study design
125 distinct titles, 20 of them repeated
LTR139-FC-POD ×4 LTR123-POD ×3 LTR109-POD ×2 LTR111-POD ×2 LTR112-POD ×2 LTR113-POD ×2 LTR114-POD ×2 LTR116-POD ×2 +12 more

How we read this: Read from 148 sample titles: 125 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

+ 108 more — browse all 148 samples with per-sample file links →

Datasets on a similar topic

Search all human methylation 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.