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The nonsense-mediated mRNA decay (NMD) pathway safeguards telomeres in pluripotent stem cells

GSE300187 Mus musculus (mouse) RNA-seq (gene expression) 12 samples Submitted 2026/02/10 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 12 samples

What it is
RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
Organism
Mus musculus (mouse)
Samples
12 samples: 3 × mES cells, Trf2f/f, vs 3 × mES cells, Trf2f/f, Smg5-/-, vs 3 × mES cells, Trf2f/f, Smg6-/-, vs 3 × mES cells, Trf2f/f,Upf1HM,Groups 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
Nonsense-mediated mRNA decay safeguards telomeres in pluripotent stem cellsNature cell biology · 2026
Summary (written by the submitters)
Telomeres are repetitive DNA sequences that cap chromosome ends and are bound by the Shelterin complex to prevent aberrant activation of DNA damage signaling. While TRF2, a core Shelterin component, is essential for repressing non-homologous end joining (NHEJ) in somatic cells, it is dispensable for telomere protection in mouse embryonic stem cells (mESCs).
Read the full summary ↓
To uncover compensatory pathways, we performed a synthetic lethal genome-wide CRISPR/Cas9 screen in TRF2-deficient mESCs and identified multiple components of the nonsense-mediated mRNA decay (NMD) pathway as essential for cell viability. We show that NMD promotes telomere protection by regulating the abundance of TRF1, another Shelterin component, at telomeres. Specifically, NMD limits the accumulation of a TRF1 mRNA isoform that encodes a dominant-negative protein variant. These findings reveal a previously unrecognized role for mRNA surveillance in maintaining telomere integrity in pluripotent cells.
Published in
Nonsense-mediated mRNA decay safeguards telomeres in pluripotent stem cells
Markiewicz-Potoczny M, Lee SY, Chatterjee S et al. · Nature cell biology 2026 · PMID 41876871 · doi:10.1038/s41556-026-01912-0
This dataset
Open GSE300187 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 GSE300187_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.

Also filed as BioProject PRJNA1279188 and SRA study SRP592997. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41876871) ↗
Study design
3 × mES cells, Trf2f/f, vs 3 × mES cells, Trf2f/f, Smg5-/-, vs 3 × mES cells, Trf2f/f, Smg6-/-, vs 3 × mES cells, Trf2f/f,Upf1HM,

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

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