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FGF signalling orchestrates cell-cell junctions and cell fate decisions in salivary gland branching morphogenesis

GSE319068 Mus musculus (mouse) RNA-seq (gene expression) 12 samples Submitted 2026/04/30 Platform GPL30172
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: 5 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.
Summary (written by the submitters)
The function of the organs in our body is intrinsically related to their form, acquired during embryonic development. Many epithelial organs such as lung, kidney, pancreas or salivary glands branch out during morphogenesis to optimise the available surface of the epithelium. In the embryo, Fibroblast Growth Factor (FGF) ligands secreted by the surrounding mesenchyme control both elongation and branching of the epithelium.
Read the full summary ↓
However, the intracellular pathways activated downstream the receptor and the specific transcriptional changes that occur in the epithelial cells upon signalling are not completely understood. Using the murine Salivary Gland (SG) as a model for branching morphogenesis, we have taken advantage of its ease of ex vivo culture to identify the molecular players downstream of FGF during branching. We compared the morphological and transcriptional changes that occur by pharmaceutical inhibition vs genetic deletion of FGF receptors and found a dependence of FGF for the correct coordination of nerves and blood vessels growth with gland epithelium. We furthermore identified a role of FGF in establishing cell-cell junctions, crucial for epithelium architecture and integrity. Moreover, we found that FGF signalling via ERK induced bud cell fate at the expense of duct, positioning FGF at the top of the cell fate decision. Altogether, our approach uncovers the many roles of FGF signalling in salivary gland branching morphogenesis.
This dataset
Open GSE319068 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 GSE319068_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 PRJNA1422037 and SRA study SRP676139. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
5 conditions, mostly in duplicate
Salivary Gland, dmso_2 ×3 Salivary Gland, su_6 ×3 Salivary Gland, het_9 ×2 Salivary Gland, hom_10 ×2 Salivary Gland, wt_3 ×2

Supports a between-group comparison across 12 samples.

How we read this: 5 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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