GEO series

Long-term live imaging reveals sexual dimorphism in the stem cell hierarchy of mouse epidermis [scRNA-Seq]

GSE294426 Mus musculus (mouse) Single-cell RNA-seq 1 samples Submitted 2026/08/07 Platform GPL24247

At a glance

Single-cell RNA-seq · mouse · 1 samples

What it is: Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
Organism: Mus musculus (mouse)
Samples: 1 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.

Summary (written by the submitters)

The epidermis is a stratified epithelium comprising proliferative basal cells and differentiated suprabasal cells that are continuously renewed throughout life. Conflicting theories have been proposed regarding the heterogeneity of basal cell layer, with some studies proposing that all proliferative cells have self-renewal potential during homeostasis while others posit a model in which stem cell differentiation occurs through an intermediate progenitor state with strictly limited proliferative potential.

Read the full summary ↓

To elucidate the heterogeneity and pattern of cell fate, we performed intravital timelapse imaging to track the fate of individual lineage-labeled cells over the long term in the ear skin interfollicular epidermis. Quantitative analysis of clonal dynamics supports a two-compartment model of epidermal homeostasis, with basal cells organized in a stem-progenitor cell hierarchy. Critical to these conclusions was the discovery of a sexual dimorphism in epidermal fate, with female mice showing a highly synchronized pattern of differentiation and delamination. Single-cell RNA sequencing, transcriptional profiling, and clonal analysis following castration revealed that male sex hormones promote SC differentiation and delamination. As well as providing insight into the functional identity of the SC population during homeostasis, our study highlights sex-specific differences in the regulation of epidermal stem and progenitor cell fate.

This dataset

Open GSE294426 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 GSE294426_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.

Also filed as BioProject PRJNA1249429 and SRA study SRP577819. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Samples in this study

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+ 1 more — browse all 1 samples with per-sample file links →

Datasets on a similar topic

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GSE253295 Sexual dimorphism in skin immunity is mediated by androgen-ILC2-dendritic cell axis 24 samples shares dimorphism, sexual
GSE255885 Deletion of Klotho enhancer deepens sexual dimorphism of gene expression without impacting female resistance to kidney injury [RNA exp2] 16 samples shares dimorphism, sexual
GSE253293 Sexual dimorphism in skin immunity is mediated by androgen-ILC2-dendritic cell axis [Bulk RNA-seq] 16 samples shares dimorphism, sexual
GSE336107 Androgens mediate sexual dimorphism in Pilarowski-Bjornsson Syndrome 16 samples shares dimorphism, sexual
GSE277228 Changing dynamics of the fibroblast differentiation hierarchy during mammary gland morphogenesis and tumorigenesis [scRNA-Seq I] 13 samples shares hierarchy, scrna-seq

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