GEO series

RNAseq data from myotubes after treatment with iAM373 in vitro

GSE201602 Mus musculus (mouse) RNA-seq (gene expression) 80 samples Submitted 2025/04/15 Platform GPL24676Platform GPL24247

At a glance

RNA-seq (gene expression) · mouse · 80 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: 80 samples
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: The bacterial quorum sensing peptide iAM373 is a novel inducer of sarcopeniaClinical and translational medicine · 2022

Summary (written by the submitters)

Sarcopenia represents an important health challenge with reduced quality of life and increased mortality. Gut microbiota have been suggested to contribute to this age-associated muscle wasting but the underlying mechanisms are still unclear. We uncovered the quorum sensing peptide iAM373 as a hitherto unknown contributor to sarcopenia.

Read the full summary ↓

The involved pathways resulting in a decreased muscle metabolism were explored by RNA sequencing of C2C12 and human myotubes after treatment with iAM373 or placebo. Gene-set enrichment analysis (GSEA) with terms from Gene ontology (GO) biological processes, and KEGG, Biocarta and Reactome canonical pathways revealed an enrichment in gene sets involved in striated muscle development and differentiation in iAM373 treated samples. Most of these gene sets were downregulated by iAM373. The proteasome degradation pathway was also enriched, i.e., upregulated in murine and human myotubes after QSP incubation.

Published in

The bacterial quorum sensing peptide iAM373 is a novel inducer of sarcopenia

De Spiegeleer A, Wynendaele E, Descamps A et al. · Clinical and translational medicine 2022 · PMID 36229976 · doi:10.1002/ctm2.1053

This dataset

Open GSE201602 in finder → Find more 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 GSE201602_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 PRJNA832290 and SRA study SRP372355. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 36229976) ↗

Samples in this study

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+ 80 more — browse all 80 samples with per-sample file links →

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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.