GEO series

Nuclear envelope rupture causes RNA polymerase loss in LMNA cardiomyopathy

GSE325163 Mus musculus (mouse) ChIP-seq / ATAC-seq (genome binding and open chromatin) 12 samples Submitted 2026/04/03 Platform GPL34328

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: 12 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.

Summary (written by the submitters)

Localized rupture of the nuclear envelope has been reported in various pathologies, including cancer, neurodegenerative disease, myocardial infarction, as well as dilated cardiomyopathy caused by Lamin A/C gene mutations (LMNA-DCM). Whether and how nuclear rupture contributes to disease remains unclear. Here, we report that nuclear rupture causes global transcriptional deficiency in a mouse model of LMNA-DCM.

Read the full summary ↓

We observed that ruptured nuclei lost chromatin-bound RNA polymerase II, leading to downregulation of numerous genes essential for cardiomyocyte structure and function. Notably, over one third of ruptured nuclei resealed and regained transcription. Resealing involved the ESCRT-III membrane remodeling complex and was cardioprotective, as its blockade increased rupture frequency and accelerated cardiomyopathy. However, resealing was ineffective: resealed nuclei re-ruptured at twice the resealing rate and ten-fold faster than the de novo rupture rate. A mathematical model predicted a steady accumulation of ruptured nuclei despite ongoing resealing. Consistently, a human LMNA-mutant heart contained numerous ruptured nuclei at the time of disease presentation. These findings link nuclear rupture to organ deterioration through global transcriptional deficiency and suggested rupture repair as a critical modifier of nuclear rupture-associated conditions.

This dataset

Open GSE325163 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 GSE325163_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 PRJNA1438739 and SRA study SRP684564. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

12 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 12 sample titles: 12 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

GSM9596880 Pol II ChIP, cardiomyocytes, Mouse 88137, Lmna CKO rep 1
GSM9596881 Pol II ChIP, cardiomyocytes, Mouse 87902, Lmna WT rep 1
GSM9596882 Pol II ChIP, cardiomyocytes, Mouse 87903, Lmna WT rep 2
GSM9596883 Pol II ChIP, cardiomyocytes, Mouse 87907, Lmna CKO rep 2
GSM9596884 Pol II ChIP, cardiomyocytes, Mouse 87920, Lmna CKO rep 3
GSM9596885 Pol II ChIP, cardiomyocytes, Mouse 87989, Lmna WT rep 3
GSM9596886 Input, cardiomyocytes, Mouse 88137, Lmna CKO rep 1
GSM9596887 Input, cardiomyocytes, Mouse 87902, Lmna WT rep 1
GSM9596888 Input, cardiomyocytes, Mouse 87903, Lmna WT rep 2
GSM9596889 Input, cardiomyocytes, Mouse 87907, Lmna CKO rep 2
GSM9596890 Input, cardiomyocytes, Mouse 87920, Lmna CKO rep 3
GSM9596891 Input, cardiomyocytes, Mouse 87989, Lmna WT rep 3

Datasets on a similar topic

GSE241590 Pervasive nuclear envelope ruptures precede ECM signaling and disease onset without activating cGAS-STING in Lamin-cardiomyopathy mice 163 samples shares cardiomyopathy, envelope, nuclear, rupture
GSE241587 Pervasive nuclear envelope ruptures precede ECM signaling and disease onset without activating cGAS-STING in Lamin cardiomyopathy mice [sci-RNA-seq] 96 samples shares cardiomyopathy, envelope, nuclear, rupture
GSE241577 Pervasive nuclear envelope ruptures precede ECM signaling and disease onset without activating cGAS-STING in Lamin-cardiomyopathy mice [mRNA-seq] 46 samples shares cardiomyopathy, envelope, nuclear, rupture
GSE285024 Actin polymerization by WASp limits nuclear envelope rupture and inflammation in macrophages 10 samples shares envelope, nuclear, rupture
GSE240745 Lamin C supplementation as therapeutic target for treatment of Lmna Dilated Cardiomyopathy (DCM) and risk of Lamin A toxicity 18 samples shares lmna, cardiomyopathy
GSE222656 RNA-seq and Cut & Tag analyses of mouse 2-cell embryos in which lamin B1 dissociation from the nuclear envelope is inhibited 40 samples shares envelope, nuclear
GSE233372 An IDR-dependent mechanism for nuclear receptor control of mediator interaction with RNA polymerase II 36 samples shares polymerase, nuclear
GSE284743 Downregulation of SENP1 impairs nuclear condensation of MEF2C and deteriorates ischemic cardiomyopathy 6 samples shares cardiomyopathy, nuclear

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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.