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Transcriptome profiling of Gastrocnemius from mice following supplementation with the combination of nicotinamide and pyridoxine (NAM/PN)

GSE264284 Mus musculus (mouse) RNA-seq (gene expression) 38 samples Submitted 2024/11/18 Platform GPL17021
At a glance

RNA-seq (gene expression) · mouse · 38 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
38 samples: 8 conditions, mostly with about 6 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
Nicotinamide and pyridoxine stimulate muscle stem cell expansion and enhance regenerative capacity during agingThe Journal of clinical investigation · 2024
Summary (written by the submitters)
Nicotinamide and pyridoxine have been identified in an in vitro screening as potent modulators of Muscel Stem cell activity. To test the in vivo efficacy (of NAM/PN) on muscle regneration, we used a mouse model of muscle injury and regeneration. Transcriptomic analyses on whole muscles harvested 5 days after muscle injury were performed to better understand the effect of NAM/PN.
Published in
Nicotinamide and pyridoxine stimulate muscle stem cell expansion and enhance regenerative capacity during aging
Ancel S, Michaud J, Migliavacca E et al. · The Journal of clinical investigation 2024 · PMID 39531334 · doi:10.1172/JCI163648
This dataset
Open GSE264284 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 GSE264284_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 PRJNA1101866 and SRA study SRP502560. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39531334) ↗
Study design
8 conditions, mostly with about 6 replicates each
Control GA CL young ×6 Treated GA CL old ×6 Control GA CL old ×6 Control GA Injured young ×5 Treated GA CL young ×5 Treated GA Injured old ×4 Control GA Injured old ×3 Treated GA Injured young ×3

Supports a case/control comparison: 18 samples read as cases, 20 as controls.

How we read this: 8 replicated groups read from 38 sample titles; they account for 38 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

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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.