GEO series

Sex differences in Non-Alcoholic Steatohepatitis (NASH) in mice evoked by a fructose-palmitate-cholesterol (FPC)-enriched diet [bulk_liver]

GSE256501 Mus musculus (mouse) Single-nucleus RNA-seq 12 samples Submitted 2024/09/24 Platform GPL17021

At a glance

Single-nucleus RNA-seq · mouse · 12 samples

What it is: Single-nucleus RNA-seqGene activity measured in individual nuclei (used when whole cells are hard to isolate, for example from frozen tissue). Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
Organism: Mus musculus (mouse)
Samples: 12 samples: 3 × Male, NASH, vs 3 × Male, SC, vs 3 × Female, SC, vs 3 × Female, NASH,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: Sex differences in murine MASH induced by a fructose-palmitate-cholesterol-enriched dietJHEP reports : innovation in hepatology · 2025

Summary (written by the submitters)

To study sex differences in the response to NASH in mice, single nucleus RNA sequencing of livers was performed. Single nucleus RNAseq demonstrated enrichment of differentially-expressed genes particularly in hepatocytes and stellate cells in females versus males fed FPC-NASH. Multiple regulons (transcription factors and target genes) implicated in lipid and other metabolic processes and hormone signaling (hepatocytes) and cell-cell communication and cell adhesion (stellate cells) were noted, which were enriched in female versus male FPC-NASH diet.

Read the full summary ↓

Bulk liver RNAseq and RNAseq of isolated hepatocytes and hepatic stellate cells were analyzed as validation experiments.

Published in

Sex differences in murine MASH induced by a fructose-palmitate-cholesterol-enriched diet

Arivazhagan L, Delbare S, Wilson RA et al. · JHEP reports : innovation in hepatology 2025 · PMID 39911943 · doi:10.1016/j.jhepr.2024.101222

This dataset

Open GSE256501 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 GSE256501_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.

Also filed as BioProject PRJNA1079798 and SRA study SRP491432. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39911943) ↗

Study design

3 × Male, NASH, vs 3 × Male, SC, vs 3 × Female, SC, vs 3 × Female, NASH,

Supports a between-group comparison across 12 samples.

How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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

GSM8101947 Male, NASH, rep1 Male, NASH,
GSM8101948 Male, NASH, rep2 Male, NASH,
GSM8101949 Male, NASH, rep3 Male, NASH,
GSM8101950 Male, SC, rep1 Male, SC,
GSM8101951 Male, SC, rep2 Male, SC,
GSM8101952 Male, SC, rep3 Male, SC,
GSM8101953 Female, SC, rep1 Female, SC,
GSM8101954 Female, SC, rep2 Female, SC,
GSM8101955 Female, SC, rep3 Female, SC,
GSM8101956 Female, NASH, rep1 Female, NASH,
GSM8101957 Female, NASH, rep2 Female, NASH,
GSM8101958 Female, NASH, rep3 Female, NASH,

Datasets on a similar topic

GSE256502 Sex differences in Non-Alcoholic Steatohepatitis (NASH) in mice evoked by a fructose-palmitate-cholesterol (FPC)-enriched diet [bulk_isolated_cells] 31 samples shares nash, fpc, fructose-palmitate-cholesterol, steatohepatitis, non-alcoholic, differences, enriched, evoked
GSE256503 Sex differences in Non-Alcoholic Steatohepatitis (NASH) in mice evoked by a fructose-palmitate-cholesterol (FPC)-enriched diet [single_nucleus] 4 samples shares nash, fpc, fructose-palmitate-cholesterol, steatohepatitis, non-alcoholic, differences, enriched, evoked
GSE256505 Sex differences in Non-Alcoholic Steatohepatitis (NASH) in mice evoked by a fructose-palmitate-cholesterol (FPC)-enriched diet 49 samples shares nash, fpc, fructose-palmitate-cholesterol, steatohepatitis, non-alcoholic, differences, enriched, evoked
GSE218073 Membrane phospholipid remodeling modulates nonalcoholic steatohepatitis progression by regulating mitochondrial homeostasis [LKO_NASH] 10 samples shares nash, steatohepatitis
GSE233051 A cyclic peptide-grafted Fc with hepatocyte growth factor functionality ameliorates hepatic fibrosis in a non-alcoholic steatohepatitis mouse model. 36 samples shares steatohepatitis, non-alcoholic
GSE264747 DC-SIGN+ Macrophages alleviates Non-Alcoholic Steatohepatitis by modulating inflammatory cytokine secretion 13 samples shares steatohepatitis, non-alcoholic
GSE191293 The role of XBP1 in regulating the progression of non-alcoholic steatohepatitis 12 samples shares steatohepatitis, non-alcoholic
GSE236832 Inhibition of adipose triglyceride lipase alleviates non-alcoholic steatohepatitis in diabetic mice via impaired PPARa signalling favouring hydrophilic bile acid composition 9 samples shares steatohepatitis, non-alcoholic

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