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Fibro-Adipogenic Progenitor cells from murine SMA muscles are intrinsically adipogenic

GSE322566 Mus musculus (mouse) RNA-seq (gene expression) 14 samples Submitted 2026/03/05 Platform GPL24247

At a glance

RNA-seq (gene expression) · mouse · 14 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: 14 samples: 4 × SMA-3dpi-Glycerol vs 4 × WT-3dpi-Glycerol vs 3 × SMA-FAPs vs 3 × WT-FAPsGroups 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: Fibro-adipogenic progenitor cells from murine SMA muscles are intrinsically adipogenicProceedings of the National Academy of Sciences of the United States of America · 2026

Summary (written by the submitters)

Spinal muscular atrophy is a neurodegenerative disorder caused by mutations in the SMN1 gene. Although classically viewed as a neurogenic disease, SMA patients exhibit poor skeletal muscle regeneration and increased fatty-fibrotic infiltration. Fibro-Adipogenic progenitors are mesenchymal precursor cells that contribute to muscle remodeling and underly fat and fibrosis formation.

Read the full summary ↓

Because FAPs transiently express Smn1 during regeneration, FAPs were examined in muscles from adult SMA and control mice to determine if reduced Smn activity altered their properties. We performed a non-biased screen of FAPs following BaCl2-induced injury using an in-situ cell surface proteomic strategy that probed the cellular membrane and environment of FAPs in early regeneration. Proteomic profiling revealed early adipogenic priming in SMA tissues, with increased levels of perilipin-4 and adipocyte lipid-binding proteins. Significantly more adipocytes accumulated in SMA muscles after glycerol injection versus controls. Further, SMA FAPs produced more fat than control FAPs when transplanted into glycerol injured muscles lacking FAPs. RNA sequencing of FAPs isolated after BaCl2 or glycerol injury identified transcriptional enrichment of lipid biosynthesis and dysregulated lipid metabolism in SMA FAPs. Primary FAPs isolated from SMA muscles mirrored heightened adipocyte formation, which was normalized by increasing Smn activity with Risdiplam. Conversely, adipogenesis of primary FAPs from control muscles was enhanced when subjected to siRNA Smn1 knockdown. Together, these findings demonstrate that reduced Smn activity potentiates intrinsic adipogenic bias in FAPs that may contribute to pathological fat deposition in SMA muscle.

Published in

Fibro-adipogenic progenitor cells from murine SMA muscles are intrinsically adipogenic

Luo YE, Abe-Teh Z, Alsaghir T et al. · Proceedings of the National Academy of Sciences of the United States of America 2026 · PMID 41886383 · doi:10.1073/pnas.2525423123

This dataset

Open GSE322566 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 GSE322566_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 PRJNA1430551 and SRA study SRP680236. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41886383) ↗

Study design

4 × SMA-3dpi-Glycerol vs 4 × WT-3dpi-Glycerol vs 3 × SMA-FAPs vs 3 × WT-FAPs

Supports a between-group comparison across 14 samples.

How we read this: 4 replicated groups read from 14 sample titles; they account for 14 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

GSM9555004 SMA-FAPs-1 SMA-FAPs
GSM9555005 SMA-FAPs-2 SMA-FAPs
GSM9555006 SMA-FAPs-3 SMA-FAPs
GSM9555007 WT-FAPs-1 WT-FAPs
GSM9555008 WT-FAPs-2 WT-FAPs
GSM9555009 WT-FAPs-3 WT-FAPs
GSM9555010 SMA-3dpi-Glycerol-1 SMA-3dpi-Glycerol
GSM9555011 SMA-3dpi-Glycerol-2 SMA-3dpi-Glycerol
GSM9555012 SMA-3dpi-Glycerol-3 SMA-3dpi-Glycerol
GSM9555013 SMA-3dpi-Glycerol-4 SMA-3dpi-Glycerol
GSM9555014 WT-3dpi-Glycerol-1 WT-3dpi-Glycerol
GSM9555015 WT-3dpi-Glycerol-2 WT-3dpi-Glycerol
GSM9555016 WT-3dpi-Glycerol-3 WT-3dpi-Glycerol
GSM9555017 WT-3dpi-Glycerol-4 WT-3dpi-Glycerol

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