← BioTransfer GEO Dataset Finder
GEO series

Chaperone-mediated autophagy sustains muscle stem cell regenerative functions but declines with age

GSE286877 Mus musculus (mouse) RNA-seq (gene expression) 24 samples Submitted 2025/10/15 Platform GPL30172
At a glance

RNA-seq (gene expression) · mouse · 24 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
24 samples: 6 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
Chaperone-mediated autophagy sustains muscle stem cell regenerative functions but declines with ageNature metabolism · 2025
Summary (written by the submitters)
Proteostasis supports stemness and its loss correlates with the functional decline of diverse stem cell types. Here we identify that chaperone-mediated autophagy (CMA), a selective autophagy pathway, is necessary for the regenerative capacity of muscle stem cells (MuSCs) throughout life. We show that CMA is active in MuSCs, while genetic loss of CMA in MuSCs or failure of CMA in normally aged cells causes a proliferative impairment, resulting in defective skeletal muscle regeneration.
Read the full summary ↓
Reactivation of CMA in old MuSCs boosts their proliferative capacity and improves their regenerative ability. Using comparative proteomics to identify CMA substrates, we uncovered actin cytoskeleton and glycolytic metabolism as key processes altered in aged mice and human MuSCs. Our findings reveal CMA to be a decisive stem-cell-fate regulator, with implications for fostering muscle regeneration in old age.
Published in
Chaperone-mediated autophagy sustains muscle stem cell regenerative functions but declines with age
Ramírez-Pardo I, Campanario S, Chavda B et al. · Nature metabolism 2025 · PMID 41339968 · doi:10.1038/s42255-025-01411-w
This dataset
Open GSE286877 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 GSE286877_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 PRJNA1210477 and SRA study SRP557197. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41339968) ↗
Study design
6 conditions, mostly with about 4 replicates each
MuSCs,L2A-Pax7CreER, uninjured (0), ×4 MuSCs,L2A-WT, 1 dpi, ×4 MuSCs,L2A-Pax7CreER, 1 dpi, ×4 MuSCs,L2A-WT, 4 dpi, ×4 MuSCs,L2A-Pax7CreER, 4 dpi, ×4 MuSCs,L2A-WT, uninjured (0), ×3 MuSCs, L2A-WT, uninjured (0), ×1

Supports a between-group comparison across 23 samples.

How we read this: 6 replicated groups read from 24 sample titles; they account for 23 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

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.