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scRNA-seq of mouse cochlea organoid cells

GSE326100 Mus musculus (mouse) Single-cell RNA-seq 768 samples Submitted 2026/04/07 Platform GPL19057
At a glance

Single-cell RNA-seq · mouse · 768 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
768 samples: 7 conditions, mostly with about 80 replicates eachGroups 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
Galectin and Myc enable cochlear progenitor expansion in vitro and in vivobioRxiv : the preprint server for biology · 2026
Summary (written by the submitters)
Neonatal mouse cochlear epithelium retains regenerative capacity, attributed to the greater epithelial ridge (GER) cells. GER cells proliferate to form organoids and give rise to nascent hair cells and supporting cells. To investigate the growth-promoting pathways in GER cells, we generated organoids from highly enriched mouse GER cells and performed single-cell RNA sequencing.
Read the full summary ↓
Data analysis revealed changes in gene expression in GER-derived cells during the early growth phase of organoid development. Integrating single-cell RNA sequencing data with in vitro and in vivo functional assays, we identified galectins and Myc activity as essential regulators of GER cell proliferation.
Published in
Galectin and Myc enable cochlear progenitor expansion in vitro and in vivo
Kubota M, Abitbol JM, Lee PK et al. · bioRxiv : the preprint server for biology 2026 · PMID 42282633 · doi:10.64898/2026.06.03.729765
This dataset
Open GSE326100 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 GSE326100_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 PRJNA1443350 and SRA study SRP686985. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42282633) ↗
Study design
7 conditions, mostly with about 80 replicates each
Day3.organoid.Rep1_Cell ×88 Day7.organoid.Rep3_Cell ×80 Day7.organoid.Rep4_Cell ×80 Day1.organoid.Rep1_Cell ×55 Day7.organoid.Rep1_Cell ×41 Day7.organoid.Rep2_Cell ×40 Day7.organoid.Rep5_Cell ×16

Supports a between-group comparison across 400 samples.

How we read this: 7 replicated groups read from the first 400 of 768 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

+ 728 more — browse all 768 samples with per-sample file links →

Datasets on a similar topic

Search all mouse RNA-seq datasets in GEO →

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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.