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Splice isoforms of the histone variants macroH2A1 differentially regulate hippocampal gene expression and memory formation

GSE332710 Mus musculus (mouse) ChIP-seq / ATAC-seq (genome binding and open chromatin) 33 samples Submitted 2026/06/30 Platform GPL21103Platform GPL34328
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 33 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
33 samples: 8 conditions, mostly with about 4 replicates eachGroups 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)
Histone variants are critical components of neural chromatin and emerging regulators of long-term memory formation and neural gene expression. We previously showed that deleting the macrodomain-bearing histone macroH2A1 in mouse hippocampus impairs long-term memory. Here, we expand on this finding by discriminating between alternative splice isoforms of mH2A1, mH2A1.1 and mH2A1.2, which bear structurally distinct macrodomains.
Read the full summary ↓
We characterized the genomic localization of mH2A1.1 and mH2A1.2 using isoform-specific antibodies, and evaluated the effects of isoform-specific knockdown via shRNA on hippocampal transcription and hippocampal-dependent memory.
This dataset
Open GSE332710 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 GSE332710_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 PRJNA1468969 and SRA study SRP702580. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
8 conditions, mostly with about 4 replicates each
C57BL/6J, Scr, HC, ×5 C57BL/6J, macroH2A1.1 (ChIP), ×4 C57BL/6J, macroH2A1.2 (ChIP), ×4 C57BL/6J, Scr, CFC+60, ×4 C57Bl/6J, mH2A1.1 KD, HC, ×4 C57Bl/6J, mH2A1.1 KD, CFC+60, ×4 C57Bl/6J, mH2A1.2 KD, CFC+60, ×4 C57Bl/6J, mH2A1.2 KD, HC, ×3 +1 more

Supports a between-group comparison across 32 samples.

How we read this: 8 replicated groups read from 33 sample titles; they account for 32 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

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