GEO series

Epigenomic profiling of H3K27ac in mouse brain regions under morphine and LPS exposure

GSE332794 Mus musculus (mouse) ChIP-seq / ATAC-seq (genome binding and open chromatin) 206 samples Submitted 2026/06/17 Platform GPL34290

At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 206 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: 206 samples: 51 conditions, mostly in duplicateGroups 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.

Summary (written by the submitters)

We profiled genome-wide H3K27ac chromatin modifications across four brain regions (hippocampus, prefrontal cortex, striatum, and hypothalamus) in male and female C57BL/6NTac mice using a perinatal morphine exposure model of Neonatal Opioid Withdrawal Syndrome (NOWS). Mice received morphine or saline perinatally, then were challenged with LPS or saline in adulthood, yielding four groups (SAL-SAL, SAL-LPS, MOR-SAL, MOR-LPS).

Read the full summary ↓

NeuN+ neuronal nuclei (~10,000 per replicate) were isolated by FACS and profiled by MOWChIP-seq (Illumina NovaSeq X Plus, paired-end 150 nt). H3K27ac ChIP-seq identified differentially acetylated enhancers and promoters enriched in immune and metabolic pathways, with the hypothalamus exhibiting the most pronounced chromatin remodeling.

This dataset

Open GSE332794 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 GSE332794_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 PRJNA1469104 and SRA study SRP702673. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

51 conditions, mostly in duplicate

H3K27ac ChIP-seq hippocampus, SAL-LPS, female… ×3 H3K27ac ChIP-seq hypothalamus, SAL-LPS, femal… ×3 H3K27ac ChIP-seq hypothalamus, SAL-LPS, male,… ×3 H3K27ac ChIP-seq hypothalamus, SAL-SAL, femal… ×3 H3K27ac ChIP-seq striatum, MOR-LPS, female, r… ×3 H3K27ac ChIP-seq striatum, SAL-LPS, female, r… ×3 H3K27ac ChIP-seq striatum, SAL-SAL, female, r… ×3 H3K27ac ChIP-seq prefrontal cortex, SAL-SAL, … ×3 +139 more

Supports a between-group comparison across 110 samples.

How we read this: 51 replicated groups read from 206 sample titles; they account for 110 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

GSM9753374 H3K27ac ChIP-seq hippocampus, MOR-LPS, female, replicate 12-0
GSM9753375 Input control hippocampus, MOR-LPS, female
GSM9753376 H3K27ac ChIP-seq hippocampus, MOR-LPS, female, replicate 15-3
GSM9753377 H3K27ac ChIP-seq hippocampus, MOR-LPS, female, replicate 16-4
GSM9753378 H3K27ac ChIP-seq hippocampus, MOR-LPS, female, replicate 18-1
GSM9753379 H3K27ac ChIP-seq hippocampus, MOR-LPS, male, replicate 13-2
GSM9753380 Input control hippocampus, MOR-LPS, male
GSM9753381 H3K27ac ChIP-seq hippocampus, MOR-LPS, male, replicate 14-2
GSM9753382 H3K27ac ChIP-seq hippocampus, MOR-LPS, male, replicate 17-1
GSM9753383 H3K27ac ChIP-seq hippocampus, MOR-LPS, male, replicate 6-0 H3K27ac ChIP-seq hippoc…
GSM9753384 H3K27ac ChIP-seq hippocampus, MOR-LPS, male, replicate 6-4 H3K27ac ChIP-seq hippoc…
GSM9753385 H3K27ac ChIP-seq hippocampus, MOR-LPS, male, replicate 8-3
GSM9753386 H3K27ac ChIP-seq hippocampus, MOR-SAL, female, replicate 12-1
GSM9753387 Input control hippocampus, MOR-SAL, female
GSM9753388 H3K27ac ChIP-seq hippocampus, MOR-SAL, female, replicate 15-0
GSM9753389 H3K27ac ChIP-seq hippocampus, MOR-SAL, female, replicate 16-1
GSM9753390 H3K27ac ChIP-seq hippocampus, MOR-SAL, female, replicate 7-2 H3K27ac ChIP-seq hippoc…
GSM9753391 H3K27ac ChIP-seq hippocampus, MOR-SAL, female, replicate 7-3 H3K27ac ChIP-seq hippoc…
GSM9753392 H3K27ac ChIP-seq hippocampus, MOR-SAL, male, replicate 13-1
GSM9753393 Input control hippocampus, MOR-SAL, male
GSM9753394 H3K27ac ChIP-seq hippocampus, MOR-SAL, male, replicate 14-1
GSM9753395 H3K27ac ChIP-seq hippocampus, MOR-SAL, male, replicate 17-4
GSM9753396 H3K27ac ChIP-seq hippocampus, MOR-SAL, male, replicate 6-1
GSM9753397 H3K27ac ChIP-seq hippocampus, MOR-SAL, male, replicate 8-0 H3K27ac ChIP-seq hippoc…
GSM9753398 H3K27ac ChIP-seq hippocampus, MOR-SAL, male, replicate 8-2 H3K27ac ChIP-seq hippoc…
GSM9753399 H3K27ac ChIP-seq hippocampus, SAL-LPS, female, replicate 10-0 H3K27ac ChIP-seq hippoc…
GSM9753400 Input control hippocampus, SAL-LPS, female
GSM9753401 H3K27ac ChIP-seq hippocampus, SAL-LPS, female, replicate 10-2 H3K27ac ChIP-seq hippoc…
GSM9753402 H3K27ac ChIP-seq hippocampus, SAL-LPS, female, replicate 10-4 H3K27ac ChIP-seq hippoc…
GSM9753403 H3K27ac ChIP-seq hippocampus, SAL-LPS, female, replicate 2-0 H3K27ac ChIP-seq hippoc…
GSM9753404 H3K27ac ChIP-seq hippocampus, SAL-LPS, female, replicate 2-2 H3K27ac ChIP-seq hippoc…
GSM9753405 H3K27ac ChIP-seq hippocampus, SAL-LPS, female, replicate 4-0 H3K27ac ChIP-seq hippoc…
GSM9753406 H3K27ac ChIP-seq hippocampus, SAL-LPS, female, replicate 4-2 H3K27ac ChIP-seq hippoc…
GSM9753407 H3K27ac ChIP-seq hippocampus, SAL-LPS, male, replicate 1-0 H3K27ac ChIP-seq hippoc…
GSM9753408 Input control hippocampus, SAL-LPS, male
GSM9753409 H3K27ac ChIP-seq hippocampus, SAL-LPS, male, replicate 1-2 H3K27ac ChIP-seq hippoc…
GSM9753410 H3K27ac ChIP-seq hippocampus, SAL-LPS, male, replicate 11-0
GSM9753411 H3K27ac ChIP-seq hippocampus, SAL-LPS, male, replicate 3-3
GSM9753412 H3K27ac ChIP-seq hippocampus, SAL-LPS, male, replicate 5-0 H3K27ac ChIP-seq hippoc…
GSM9753413 H3K27ac ChIP-seq hippocampus, SAL-LPS, male, replicate 5-2 H3K27ac ChIP-seq hippoc…

+ 166 more — browse all 206 samples with per-sample file links →

Datasets on a similar topic

GSE332798 Transcriptomic profiling of morphine and LPS exposure across mouse brain regions 208 samples shares lps, morphine, exposure, regions, brain
GSE250279 25-hydroxycholesterol mediates brain cytokine production and neutrophil infiltration in a mouse model of LPS-induced neuroinflammation. 40 samples shares lps, brain
GSE290810 ALS/FTD-linked TBK1 deficiency in microglia induces an aged-like microglial signature and drives social recognition deficits [FACS_SpinalCord_Microglia & LPS_Brain_SpinalCord] 35 samples shares lps, brain
GSE222536 Arsenite exposure disturbs maternal-to-zygote transition by attenuating H3K27ac during mouse preimplantation development 12 samples shares h3k27ac, exposure
GSE289162 Plasticity of epigenomic aging creates vulnerabilities to early-life environmental exposures, reshaping adult cell- and direction-specific trajectories 54 samples shares epigenomic, exposure
GSE308599 Spatial dynamics of brain development and neuroinflammation [Epigenomic_data] 28 samples shares epigenomic, brain
GSE294772 Single-Cell Epigenomics Uncovers Heterochromatin Instability and Transcription Factor Dysfunction during Mouse Brain Aging [snATAC-Seq] [10X Multiome] 142 samples shares epigenomic, brain
GSE244385 Short-term cold exposure induces persistent epigenomic memory in brown fat [RNA-Seq] 24 samples shares epigenomic, exposure

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

Share this dataset

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.