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Sirtuin 7 regulates dosage compensation and safeguards the female X-chromosome

GSE256287 Mus musculus (mouse) ChIP-seq / ATAC-seq (genome binding and open chromatin) 182 samples Submitted 2026/03/30 Platform GPL34290Platform GPL21103Platform GPL30172Platform GPL24247Platform GPL23479
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 182 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
182 samples: 71 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.
Paper
SIRT7 regulates dosage compensation and safeguards the female X chromosomeNature · 2026
Summary (written by the submitters)
Sirtuins are deacetylases implicated in stress responses and longevity in mammals. Although their differential impact on disease for the two sexes have been noted, underlying reasons are not known. Here, using Sirtuin 7 (SIRT7) as a model in mice, we probe mechanisms leading to sex differences and find that Sirt7-/- females have decreased fitness throughout the lifespan.
Read the full summary ↓
Intriguingly, SIRT7 preferentially localizes to the sex chromosomes. In females, SIRT7 loss affects “X-chromosome inactivation” (XCI), the 1st arm of dosage compensation that equalizes X-linked gene expression between males and females. Xist is overexpressed and gene silencing becomes more efficient. Surprisingly, however, SIRT7 loss has greatest impact on the active X (Xa). The Xa becomes hyperacetylated on H3K36ac, structurally disorganized, prone to DNA damage, and overexpressed. Increased Xa expression leads to genome imbalance and augmented “X-chromosome upregulation” (XCU) — the 2nd arm of dosage compensation that balances X-chromosome versus autosomal gene expression. These data reveal an essential crosstalk between sirtuins and the sex chromosomes, with SIRT7 safeguarding X-chromosome integrity and dosage balance with autosomes. We propose that the sex bias in Sirtuin 7 biology can be explained in part by unequal effects on the sex chromosomes. This SuperSeries is composed of the SubSeries listed below.
Published in
SIRT7 regulates dosage compensation and safeguards the female X chromosome
Simonet NG, Thackray JK, Kesner B et al. · Nature 2026 · PMID 42271055 · doi:10.1038/s41586-026-10645-x
This dataset
Open GSE256287 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 GSE256287_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 PRJNA1078859 and SRA study SRP490820. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42271055) ↗
Study design
71 conditions, mostly in duplicate
Input_S7KO_TTF ×4 Input_S7WT_TTF ×4 INPUT_S7KO ×3 INPUT_WT ×3 RNA-seq_S7KO_TTF ×3 RNA-seq_S7WT_TTF ×3 MEF_Female_KO ×3 MEF_Female_WT ×3 +89 more

Supports a between-group comparison across 156 samples.

How we read this: 71 replicated groups read from 182 sample titles; they account for 156 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

+ 142 more — browse all 182 samples with per-sample file links →

Datasets on a similar topic

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