GEO series

RNA-binding protein Cpeb1 is a marker of healthy adult β cells in mice but is dispensable β cell identity and function

GSE298468 Mus musculus (mouse) RNA-seq (gene expression) 20 samples Submitted 2025/06/02 Platform GPL34290

At a glance

RNA-seq (gene expression) · mouse · 20 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: 20 samples
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: The RNA-binding protein CPEB1 marks healthy adult β cells in mice but is dispensable for β cell identity and functionScientific reports · 2025

Summary (written by the submitters)

RNA binding proteins (RBPs) are increasingly being recognized as important regulators of pancreatic β-cells’ identity and function. We identified the poly-A binding RBP, Cpeb1, as a potential new regulator linked to β-cell failure in diabetes based on its enrichment in mature, healthy adult β-cells and its sharp decrease in β-cells in type 1 diabetes (T1D) and type 2 diabetes (T2D).

Read the full summary ↓

While Cpeb1 is known to regulate an extensive range of biological processes and its involvement in regulating genes involved in insulin signaling and apoptosis in the liver has been reported, Cpeb1 function in β-cells is unknown. Here, we have used two independent genetic models, namely β-cell-specific and whole body Cpeb1 deletions, to assess the role of Cpeb1 in β-cells. We show Cpeb1 function is dispensable for β-cell function and identity. Using bulk RNA sequencing on islets of both models, we also show that Cpeb1 regulates markedly different sets of genes between male and female islets, both at the transcriptional and at the polyadenylation levels.

Published in

The RNA-binding protein CPEB1 marks healthy adult β cells in mice but is dispensable for β cell identity and function

Nimkulrat SD, Wagner MR, Waters BJ et al. · Scientific reports 2025 · PMID 41390575 · doi:10.1038/s41598-025-32403-1

This dataset

Open GSE298468 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 GSE298468_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 PRJNA1269507 and SRA study SRP588708. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41390575) ↗

Samples in this study

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+ 20 more — browse all 20 samples with per-sample file links →

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