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Dietary protein defends lean mass and maintains metabolic benefits of glucagon receptor agonist G108 in mice

GSE273658 Mus musculus (mouse) RNA-seq (gene expression) 16 samples Submitted 2024/09/09 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 16 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
16 samples: 4 × Liver, vehicle treatment, standard protein diet, mouse vs 4 × Liver, vehicle treatment, high protein diet, mouse vs 4 × Liver, G108 treatment, standard protein diet, mouse vs 4 × Liver, G108 treatment, high protein diet, mouseGroups 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
Dietary protein defends lean mass and maintains the metabolic benefits of glucagon receptor agonism in miceMolecular metabolism · 2024
Summary (written by the submitters)
Glucagon has long been proposed as a component of multi-agonist obesity therapeutics due to its ability to induce energy expenditure and cause weight loss. However, chronic glucagon-receptor agonism has been associated with a reduction in circulating amino acids and loss of lean mass. Importantly, it is currently not known whether the metabolic benefits of glucagon can be maintained in contexts that permit the defence of lean mass.
Published in
Dietary protein defends lean mass and maintains the metabolic benefits of glucagon receptor agonism in mice
Lopes T, Hope DC, Ramos-Pittol JM et al. · Molecular metabolism 2024 · PMID 39236784 · doi:10.1016/j.molmet.2024.102024
This dataset
Open GSE273658 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 GSE273658_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 PRJNA1142576 and SRA study SRP523399. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39236784) ↗
Study design
4 × Liver, vehicle treatment, standard protein diet, mouse vs 4 × Liver, vehicle treatment, high protein diet, mouse vs 4 × Liver, G108 treatment, standard protein diet, mouse vs 4 × Liver, G108 treatment, high protein diet, mouse

Supports a between-group comparison across 16 samples.

How we read this: 4 replicated groups read from 16 sample titles; they account for 16 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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