GEO series

Glycerol-3-phosphate activates ChREBP, FGF21 transcription and lipogenesis in Citrin Deficiency

GSE304958 Mus musculus (mouse) RNA-seq (gene expression) 40 samples Submitted 2025/08/08 Platform GPL34290

At a glance

RNA-seq (gene expression) · mouse · 40 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: 40 samples: 40 samples, each with a distinct title — no replicated groupsGroups 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: Glycerol-3-phosphate activates ChREBP, FGF21 transcription and lipogenesis in citrin deficiencyNature metabolism · 2025

Summary (written by the submitters)

Citrin Deficiency (CD) is caused by inactivation of SLC25A13, a mitochondrial membrane protein required to move electrons from cytosolic NADH to the mitochondrial matrix in hepatocytes. People with CD do not like sweets. We discovered that SLC25A13 loss causes accumulation of glycerol-3-phosphate (G3P), which activates carbohydrate response element binding protein (ChREBP) to transcribe FGF21, which acts in the brain to restrain intake of sweets and alcohol, and to transcribe key genes of de novo lipogenesis.

Read the full summary ↓

Mouse and human data establish G3P-ChREBP as a new mechanistic component of the Randle Cycle that contributes to metabolic dysfunction-associated steatotic liver disease (MASLD) and forms part of a system that communicates metabolic states from liver to brain in a manner that alters food and alcohol choices. The data provide a framework for understanding FGF21 induction in varied conditions, suggest ways to develop FGF21-inducing drugs, and suggest drug candidates for both lean MASLD and support of urea cycle function in CD.

Published in

Glycerol-3-phosphate activates ChREBP, FGF21 transcription and lipogenesis in citrin deficiency

Tiwari V, Jin B, Sun O et al. · Nature metabolism 2025 · PMID 41238906 · doi:10.1038/s42255-025-01399-3

This dataset

Open GSE304958 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 GSE304958_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 PRJNA1303593 and SRA study SRP607770. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41238906) ↗

Study design

40 samples, each with a distinct title — no replicated groups

Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Read from 40 sample titles: 40 distinct titles with little repetition. 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

GSM9160311 WT, Male, M1, 2 days water
GSM9160312 WT, Male, M2, 2 days water
GSM9160313 WT, Male, M3, 2 days water
GSM9160314 WT, Male, M4, 2 days water
GSM9160315 WT, Male, M001, 2 days 5%glycerol
GSM9160316 WT, Male, M002, 2 days 5% glycerol
GSM9160317 WT, Male, M003, 2 days 5% glycerol
GSM9160318 WT, Male, M004, 2 days 5% glycerol
GSM9160319 WT, Male, M005, 2 days 5% glycerol
GSM9160320 Slc25a13 -/-, Male, M004, 2 days water
GSM9160321 Slc25a13 -/-, Male, M012, 2 days water
GSM9160322 Slc25a13 -/-, Male, M187, 2 days water
GSM9160323 Slc25a13 -/-, Male, M188, 2 days water
GSM9160324 Slc25a13 -/-, Male, M189, 2 days water
GSM9160325 Slc25a13 -/-, Male, M190/20, 2 days water
GSM9160326 Slc25a13 -/-, Male, M191/20, 2 days water
GSM9160327 Slc25a13 -/-, Male, M022, 2 days 5% glycerol
GSM9160328 Slc25a13 -/-, Male, M024, 2 days 5% glycerol
GSM9160329 Slc25a13 -/-, Male, M025, 2 days 5% glycerol
GSM9160330 Slc25a13 -/-, Male, M026, 2 days 5% glycerol
GSM9160331 Slc25a13 -/-, Male, M009, 2 days 5% glycerol
GSM9160332 Slc25a13 -/-, Male, M010, 2 days 5% glycerol
GSM9160333 Slc25a13 -/-, Male, M011, 2 days 5% glycerol
GSM9160334 Gpd2 -/-, M035, Male, 2 days water
GSM9160335 Gpd2 -/-, M036, Male, 2 days water
GSM9160336 Gpd2 -/-, M090, Male, 2 days water
GSM9160337 Gpd2 -/-, M091, Male, 2 days water
GSM9160338 Gpd2 -/-, M039, Male, 2 days 5% glycerol
GSM9160339 Gpd2 -/-, M040, Male, 2 days 5% glycerol
GSM9160340 Gpd2 -/-, M092, Male, 2 days 5% glycerol
GSM9160341 Gpd2 -/-, M093, Male, 2 days 5% glycerol
GSM9160342 Gpd2 -/-, M095, Male, 2 days 5% glycerol
GSM9160343 Slc25a13 -/- Gpd2 -/-, Male, M105, 2 days water
GSM9160344 Slc25a13 -/- Gpd2 -/-, Male, M124, 2 days water
GSM9160345 Slc25a13 -/- Gpd2 -/-, Male, M253, 2 days water
GSM9160346 Slc25a13 -/- Gpd2 -/-, Male, M255, 2 days water
GSM9160347 Slc25a13 -/- Gpd2 -/-, Male, M119, 2 days 5% glycerol
GSM9160348 Slc25a13 -/- Gpd2 -/-, Male, M186, 2 days 5% glycerol
GSM9160349 Slc25a13 -/- Gpd2 -/-, Male, M191, 2 days 5% glycerol
GSM9160350 Slc25a13 -/- Gpd2 -/-, Male, M195, 2 days 5% glycerol

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