GEO series

PCBP1 binding to single-stranded poly-cytosine motifs enhances cGAS sensing and impairs breast cancer development

GSE307616 Mus musculus (mouse) RNA-seq (gene expression) 11 samples Submitted 2025/10/15 Platform GPL24247

At a glance

RNA-seq (gene expression) · mouse · 11 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: 11 samples: 11 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.
Paper: PCBP1 binding to single-stranded poly-cytosine motifs enhances cGAS sensing and impairs breast cancer developmentCommunications biology · 2026

Summary (written by the submitters)

The cGAS-STING pathway plays a central role in controlling tumor progression through nucleic acid sensing and type I Interferon production. Here, we identify Poly(rC) Binding Protein 1 (PCBP1) as a tumor suppressor that amplifies cGAS-STING signaling in breast cancer. Using patient datasets and a transgenic mouse model with conditional PCBP1 knockout in mammary epithelial cells, we show that PCBP1 expression correlates with improved survival, reduced tumor burden, increased type I IFN and ISG expression, and elevated cytotoxic T cell infiltration.

Read the full summary ↓

Mechanistically, PCBP1 binds cytosine-rich single-stranded motifs via its KH domains and increases cGAS affinity to these nucleic acids. Disruption of the conserved GXXG motif impairs PCBP1's nucleic acid binding and cGAS activation. Although cGAS is a double-stranded DNA sensor with no intrinsic sequence specificity, we uncover that the single-stranded nucleic-acid binding protein PCBP1 enhances cGAS sensing by engaging sequence-specific motifs, acting as an important nucleic acid co-sensor that impairs tumorigenesis.

Published in

PCBP1 binding to single-stranded poly-cytosine motifs enhances cGAS sensing and impairs breast cancer development

Fréreux C, Karam JAQ, Howley BV et al. · Communications biology 2026 · PMID 41501525 · doi:10.1038/s42003-025-09456-z

This dataset

Open GSE307616 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 GSE307616_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 PRJNA1322403 and SRA study SRP618868. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41501525) ↗

Study design

11 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 11 sample titles: 11 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

GSM9228063 Sample 1_PyMT_PCBP1_KO(1)
GSM9228064 Sample 2_PyMT_PCBP1_KO(2)
GSM9228065 Sample 3_PyMT_PCBP1_KO(3)
GSM9228066 Sample 4_PyMT_PCBP1_KO(4)
GSM9228067 Sample 5_PyMT_PCBP1_KO(5)
GSM9228068 Sample 6_PyMT_PCBP1_KO(6)
GSM9228069 Sample 7_PyMT_PCBP1_WT(1)
GSM9228070 Sample 8_PyMT_PCBP1_WT(2)
GSM9228071 Sample 9_PyMT_PCBP1_WT(3)
GSM9228072 Sample 10_PyMT_PCBP1_WT(4)
GSM9228073 Sample 11_PyMT_PCBP1_WT(5)

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