← BioTransfer GEO Dataset Finder
GEO series

An atlas of the aging mouse transcriptome and proteome reveals the features of age-related post-transcriptional dysregulation

GSE225576 Mus musculus (mouse) RNA-seq (gene expression) 128 samples Submitted 2024/09/18 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 128 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
128 samples: 32 conditions, mostly with about 4 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
An atlas of the aging mouse proteome reveals the features of age-related post-transcriptional dysregulationNature communications · 2024
Summary (written by the submitters)
We've collected bulk RNA-Seq and TMT-labeled proteomic data of aorta, brain, heart, kidney, liver, lung, muscle (gastrocnemius muscle), and skin of 6-, 15-, 24-, and 30-months old male C57BL/6J mice. The tissues used for transcriptomic analysis and proteomic analysis were collected from the same mice. All analyses were conducted with 4 biological replicates.
Published in
An atlas of the aging mouse proteome reveals the features of age-related post-transcriptional dysregulation
Takasugi M, Nonaka Y, Takemura K et al. · Nature communications 2024 · PMID 39353907 · doi:10.1038/s41467-024-52845-x
This dataset
Open GSE225576 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 GSE225576_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 PRJNA936435 and SRA study SRP423294. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39353907) ↗
Study design
32 conditions, mostly with about 4 replicates each
Brain_6mo ×4 Brain_15mo ×4 Brain_24mo ×4 Brain_30mo ×4 Heart_6mo ×4 Heart_15mo ×4 Heart_24mo ×4 Heart_30mo ×4 +24 more

Supports a between-group comparison across 128 samples.

How we read this: 32 replicated groups read from 128 sample titles; they account for 128 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

+ 88 more — browse all 128 samples with per-sample file links →

Datasets on a similar topic

Search all mouse RNA-seq 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.