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In Vitro Fertilization induces reproductive changes in male mouse offspring and has multigenerational effects

GSE280286 Mus musculus (mouse) DNA methylation 116 samples Submitted 2025/03/31 Platform GPL32159Platform GPL24247Platform GPL30650
At a glance

DNA methylation · mouse · 116 samples

What it is
DNA methylationChemical marks on DNA that help switch genes on or off.
Organism
Mus musculus (mouse)
Samples
116 samples: 22 conditions, mostly with about 5 replicates eachGroups are read from the sample names, not from the paper. Check the list below.
Data you can get
A processed expression table (series matrix) and the array files, from NCBI.
Paper
In vitro fertilization induces reproductive changes in male mouse offspring and has multigenerational effectsJCI insight · 2025
SuperSeries — this record groups several sub-series.
Summary (written by the submitters)
This SuperSeries is composed of the SubSeries listed below.
Published in
In vitro fertilization induces reproductive changes in male mouse offspring and has multigenerational effects
Rhon-Calderon EA, Hemphill CN, Savage AJ et al. · JCI insight 2025 · PMID 40036079 · doi:10.1172/jci.insight.188931
This dataset
Open GSE280286 in finder → Find more mouse 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 GSE280286_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 PRJNA1177752 and SRA study SRP540788. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40036079) ↗
Study design
22 conditions, mostly with about 5 replicates each
RNA library from F2 12 weeks IVF Testis Male ×7 Genomic DNA from 39 weeks Natural Sperm ×6 Genomic DNA from 39 weeks IVF Sperm ×6 RNA library from E18.5 IVF Testis ×6 RNA library from 39 weeks IVF Testis ×6 RNA library from F2 12 weeks IVF Liver Female ×6 RNA library from Natural F2 male E18.5 Placen… ×6 RNA library from IVF F2 male E18.5 Placenta ×6 +14 more

Supports a between-group comparison across 116 samples.

How we read this: 22 replicated groups read from 116 sample titles; they account for 116 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

+ 76 more — browse all 116 samples with per-sample file links →

Datasets on a similar topic

Search all mouse 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.