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Fibrotic Liver-Derived Organoids Provide a Physiologically Relevant Model of Liver Fibrosis

GSE300437 Mus musculus (mouse) RNA-seq (gene expression) 27 samples Submitted 2025/11/20 Platform GPL34328
At a glance

RNA-seq (gene expression) · mouse · 27 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
27 samples: 9 conditions, mostly in triplicateGroups 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
Disease-derived liver organoids as a preclinical screening platform identify Sargassum japonica as an anti-fibrotic candidateScientific reports · 2026
Summary (written by the submitters)
We have performed a comparison of gene expression profiles between in vitro and in vivo liver fibrosis organoid models to assess their resemblance to in vivo fibrotic liver tissue and to evaluate the therapeutic effects of Sargassum japonica (S. japonica) on liver fibrosis.
Published in
Disease-derived liver organoids as a preclinical screening platform identify Sargassum japonica as an anti-fibrotic candidate
Heo J, Chae DH, Park HS et al. · Scientific reports 2026 · PMID 41844827 · doi:10.1038/s41598-026-43852-7
This dataset
Open GSE300437 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 GSE300437_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 PRJNA1280959 and SRA study SRP594041. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41844827) ↗
Study design
9 conditions, mostly in triplicate
healthy mouse, liver tissue ×3 carbon tetrachloride induced fibrosis mouse, … ×3 carbon tetrachloride induced fibrosis mouse, … ×3 healthy, mineral oil (vehicle control for car… ×3 carbon tetrachloride induced fibrosis mouse l… ×3 carbon tetrachloride induced fibrosis mouse l… ×3 healthy mouse liver-derived liver organoid ×3 healthy mouse liver-derived liver organoid, T… ×3 +1 more

Supports a case/control comparison: 12 samples read as cases, 9 as controls.

How we read this: 9 replicated groups read from 27 sample titles; they account for 27 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

Search all mouse RNA-seq datasets in GEO →

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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.