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Long-chain fatty acid β-oxidation regulates embryonic development by H3K18 acetylation in mice [CUT&Tag]

GSE304392 Mus musculus (mouse) ChIP-seq / ATAC-seq (genome binding and open chromatin) 12 samples Submitted 2025/08/05 Platform GPL28330
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 12 samples

What it is
ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
Organism
Mus musculus (mouse)
Samples
12 samples: 3 × mouse 8-Cell embryo - Control vs 3 × mouse 8-Cell embryo - TMZ vs 3 × mouse Morula embryo - Control vs 3 × mouse Morula embryo - TMZGroups 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
Long-chain fatty acid β-oxidation regulates embryonic development by H3K18 acetylation in miceFrontiers in cell and developmental biology · 2025
Summary (written by the submitters)
Fatty acids are not only important as energy sources, but also playing crucial roles in maintaining cellular homeostasis.Inhibition of long-chain fatty acid β-oxidation (LCFAO) results in preimplantation developmental arrest, downregulated expressions of S phase-related genes, and loss of H3K18ac modification. By profiling the landscape of H3K18ac, we show that H3K18ac is enriched on the promoter regions of S phase-related genes and correlates with their expression.
Read the full summary ↓
Taken together, we demonstrate that LCFAO could regulate mouse preimplantation development by H3K18ac, providing new evidence for metabolic-epigenetic crosstalk in regulating embryonic development.
Published in
Long-chain fatty acid β-oxidation regulates embryonic development by H3K18 acetylation in mice
Zheng K, Cui H, Tang Z et al. · Frontiers in cell and developmental biology 2025 · PMID 41415208 · doi:10.3389/fcell.2025.1683028
This dataset
Open GSE304392 in finder → Find more mouse ChIP / ATAC / CUT&Tag 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 GSE304392_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: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.

Also filed as BioProject PRJNA1301242 and SRA study SRP606272. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41415208) ↗
Study design
3 × mouse 8-Cell embryo - Control vs 3 × mouse 8-Cell embryo - TMZ vs 3 × mouse Morula embryo - Control vs 3 × mouse Morula embryo - TMZ

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
Datasets on a similar topic

Search all mouse ChIP / ATAC / CUT&Tag datasets in GEO →

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