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Multi-tissue, multi-time-point transcriptomic atlas of aging in mice and rats [mouse]

GSE314817 Mus musculus (mouse) RNA-seq (gene expression) 2432 samples Submitted 2026/03/05 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 2432 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
2432 samples: 48 conditions, mostly with about 8 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
Multitissue, multi-time point transcriptomic atlas of aging in mice and ratsScience advances · 2026
Summary (written by the submitters)
In order to get a greater understanding as to the genes and signaling pathways which are up- or down-regulated in a consistent manner throughout the rodent lifespan, we generated a high N age-related gene expression atlas in mice and rats, by profiling 28 tissues in male and female C57BL/6J mice, and 32 tissues in male Sprague Dawley rats (> 5000 samples) over multiple time points.
Read the full summary ↓
We identified age-related genes and pathways that change either early in life, at mid-age, late in life, or linearly. Linear genes dominated many but not all tissues, and certain tissues (e.g. gut tissues) were relatively spared from age-related changes. We identified tissues that showed a strong sex bias or species bias. Given the expanse of our transcriptomic dataset, we hope this study will serve as a useful resource for understanding the timing, the tissue-specificity, the gender-specificity, and the species-specificity of age-related gene and pathway changes in male and female mice and male rats.
Published in
Multitissue, multi-time point transcriptomic atlas of aging in mice and rats
Shavlakadze T, Xiong K, Donne R et al. · Science advances 2026 · PMID 41984968 · doi:10.1126/sciadv.ady8401
This dataset
Open GSE314817 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 GSE314817_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 PRJNA1250527 and SRA study SRP578446. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41984968) ↗
Study design
48 conditions, mostly with about 8 replicates each
male_cerebellum_27 months ×10 female_cerebellum_27 months ×10 female_cerebellum_24 months ×10 male_cerebellum_24 months ×10 male_cortex_27 months ×10 female_cortex_27 months ×10 male_cortex_24 months ×10 female_cortex_24 months ×10 +40 more

Supports a between-group comparison across 400 samples.

How we read this: 48 replicated groups read from the first 400 of 2432 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

+ 2392 more — browse all 2432 samples with per-sample file links →

Datasets on a similar topic

Search all mouse 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.