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Effect of stem cell-derived exosome treatments on gene expression during corneal cell differentiation

GSE316045 Mus musculus (mouse) RNA-seq (gene expression) 12 samples Submitted 2026/01/16 Platform GPL24247
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: 3 × control group vs 3 × model mouse with DED vs 3 × mouse with DED treated by exosome eye drop vs 3 × mouse with DED treated by exosome i.vGroups 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
UCMSC-derived exosomes ameliorate dry eye disease pathogenesis by modulating neutrophils on Th17/Treg balanceScientific reports · 2026
Summary (written by the submitters)
To investigate the therapeutic mechanisms of stem cell-derived exosomes in dry eye disease (DED), we conducted a comparative transcriptomic analysis in a murine model. C57BL/6 mice were divided into four experimental groups: (1) Control group (untreated healthy mice); (2) DED model group (induced dry eye disease without treatment); (3) Exosome eye drop group (DED mice treated with topical stem cell-derived exosome eye drops); and (4) Exosome intravenous group (DED mice treated with systemic exosome infusion).
Read the full summary ↓
After the treatment period, corneal tissues were harvested from each group and subjected to RNA sequencing (RNA-seq) to assess genome-wide gene expression changes. Our analysis revealed distinct transcriptional profiles across groups, highlighting key pathways modulated by exosome administration via both delivery routes. This study provides systematic insights into the molecular responses of corneal cells to exosome-based therapy and offers a basis for optimizing delivery strategies for ocular surface regeneration.
Published in
UCMSC-derived exosomes ameliorate dry eye disease pathogenesis by modulating neutrophils on Th17/Treg balance
Gong Y, Ding Y, Yang J et al. · Scientific reports 2026 · PMID 41644660 · doi:10.1038/s41598-026-38010-y
This dataset
Open GSE316045 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 GSE316045_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 PRJNA1400516 and SRA study SRP661009. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41644660) ↗
Study design
3 × control group vs 3 × model mouse with DED vs 3 × mouse with DED treated by exosome eye drop vs 3 × mouse with DED treated by exosome i.v

Supports a case/control comparison: 6 samples read as cases, 3 as controls.

How we read this: 4 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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