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Potential of an in vitro mouse testicular organ culture system as a platform for mechanism-based evaluation of testicular toxicity

GSE314869 Mus musculus (mouse) RNA-seq (gene expression) 17 samples Submitted 2026/05/12 Platform GPL34290
At a glance

RNA-seq (gene expression) · mouse · 17 samples

What it is
RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
Organism
Mus musculus (mouse)
Samples
17 samples: 6 × ve(MAA) vs 6 × 1mM MAA vs 5 × 4mM MAAGroups 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
An adverse outcome pathway-aligned ex vivo mouse testicular organ culture platform for mechanistic integration of multi-level endpoints with recovery assessmentToxicological sciences : an official journal of the Society of Toxicology · 2026
Summary (written by the submitters)
This study examined testicular toxicity induced by methoxyacetic acid (MAA) using an in vitro mouse testicular organ culture system. Testis tissues were cultured for 4 weeks and then exposed to MAA (1–4 mM) for 24 hours. Higher MAA concentrations reduced germ-cell viability and spermatocyte populations, accompanied by increased apoptosis. RNA-seq analysis revealed early transcriptional perturbations at 1 mM and broad suppression of cell-cycle and meiotic pathways at 4 mM. These findings characterize dose-dependent molecular and cellular changes associated with MAA-induced testicular toxicity.
Published in
An adverse outcome pathway-aligned ex vivo mouse testicular organ culture platform for mechanistic integration of multi-level endpoints with recovery assessment
Nakagiri H, Kodama K, Terasaka S et al. · Toxicological sciences : an official journal of the Society of Toxicology 2026 · PMID 41903202 · doi:10.1093/toxsci/kfag037
This dataset
Open GSE314869 in finder → Find more mouse RNA-seq 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 GSE314869_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.

Also filed as BioProject PRJNA1393016 and SRA study SRP657631. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41903202) ↗
Study design
6 × ve(MAA) vs 6 × 1mM MAA vs 5 × 4mM MAA

Supports a between-group comparison across 17 samples.

How we read this: 3 replicated groups read from 17 sample titles; they account for 17 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
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.