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Cholesterol-rich diet exacerbates steatohepatitis in the STAM mouse model

GSE319011 Mus musculus (mouse) RNA-seq (gene expression) 19 samples Submitted 2026/03/19 Platform GPL28457
At a glance

RNA-seq (gene expression) · mouse · 19 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
19 samples: 5 × Liver, HFHC, STZ, 8 weeks, vs 5 × Liver, HFHC, STZ, 12 weeks, vs 5 × Liver, HF, STZ, 8 weeks, vs 4 × Liver, HF, STZ, 12 weeks,Groups 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
Cholesterol-rich diet exacerbates steatohepatitis in the STAM mouse modelScientific reports · 2026
Summary (written by the submitters)
Metabolic dysfunction-associated steatotic liver disease (MASLD) is a widespread chronic liver disorder spanning simple steatosis to metabolic dysfunction-associated steatohepatitis (MASH) and fibrosis. Suitable animal models are crucial for therapeutic development, yet many fail to reproduce progression to fibrosing MASH. Here, we employed the STAM model in male C57BL/6J mice to simulate MASLD and investigated whether a high-fat, high-cholesterol (HFHC) diet would intensify disease progression compared with the standard high-fat (HF) diet.
Read the full summary ↓
HFHC feeding in the STAM model accelerated hepatic lipid accumulation, crown-like structure formation, inflammation, and fibrosis, as demonstrated by histological analyses. Transcriptomic profiling and pathway enrichment confirmed activation of lipid and cholesterol metabolism, regulation of TNF production, and inflammatory signaling. Reactome analysis further indicated alterations in extracellular matrix formation and immune system pathways, consistent with advanced fibrotic progression. In summary, integration of HFHC feeding with the STAM model produced a more severe liver phenotype that better mirrors the pathological spectrum of MASLD.
Published in
Cholesterol-rich diet exacerbates steatohepatitis in the STAM mouse model
Jonas W, Gottmann P, Jähnert M et al. · Scientific reports 2026 · PMID 41922430 · doi:10.1038/s41598-026-45979-z
This dataset
Open GSE319011 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 GSE319011_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 PRJNA1421175 and SRA study SRP676071. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41922430) ↗
Study design
5 × Liver, HFHC, STZ, 8 weeks, vs 5 × Liver, HFHC, STZ, 12 weeks, vs 5 × Liver, HF, STZ, 8 weeks, vs 4 × Liver, HF, STZ, 12 weeks,

Supports a between-group comparison across 19 samples.

How we read this: 4 replicated groups read from 19 sample titles; they account for 19 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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