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Gene expression profile at single cell level of Merkel cells from embryonic, neonatal and postnatal mouse skin

GSE213104 Mus musculus (mouse) Single-cell RNA-seq 1057 samples Submitted 2026/02/06 Platform GPL21493
At a glance

Single-cell RNA-seq · mouse · 1057 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
1057 samples: 361 × P1 vs 39 × P2Groups 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
Single cell analysis of developing Merkel cells reveals the emergence of non-coding RNA biotypes as a hallmark of terminal differentiationCell death and differentiation · 2026
Summary (written by the submitters)
Merkel cells (MCs) are neuroendocrine touch sensors in the epidermis. We used single cell RNA sequencing (scRNA-seq) to analyze the differentiation of MCs in mouse skin.
Published in
Single cell analysis of developing Merkel cells reveals the emergence of non-coding RNA biotypes as a hallmark of terminal differentiation
Miao L, Collado L, Barkdull S et al. · Cell death and differentiation 2026 · PMID 41634368 · doi:10.1038/s41418-026-01663-3
This dataset
Open GSE213104 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 GSE213104_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 PRJNA879195 and SRA study SRP396632. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41634368) ↗
Study design
361 × P1 vs 39 × P2

Supports a between-group comparison across 400 samples.

How we read this: 2 replicated groups read from the first 400 of 1057 sample titles; they account for 400 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

+ 1017 more — browse all 1057 samples with per-sample file links →

Datasets on a similar topic

Search all mouse RNA-seq datasets in GEO →

Share this dataset

Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.