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Regulatory T cells are essential for controlling autoimmune lacrimal gland pathogenic cells

GSE269883 Mus musculus (mouse) RNA-seq (gene expression) 10 samples Submitted 2025/02/19 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 10 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
10 samples: 10 samples, each with a distinct title — no replicated groupsGroups 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
Aged regulatory T cells fail to control autoimmune lacrimal gland pathogenic CD4(+) T cellsGeroScience · 2025
Summary (written by the submitters)
Purpose: CD25KO mice have severe autoimmune disease and are used as a model of Sjögren disease, a prototype autoimmune dry eye. CD25KO mice have severe inflammation and infiltrating lymphocytes to multiple self-tissues, including the exocrine glands. We investigated the immunological profile of CD25KO mice and compared it to wild-type (WT) mice.
Read the full summary ↓
Methods: 8-week-old WT and CD25KO mice were used. LGs (n=5) were submitted for RNA bulk sequencing. Tears washes were collected from mice and analyzed for protein expression using a luminex assay. A time course of adoptive transfer of CD25KO CD4+T cells was performed and LGs were evaluated by histology and qPCR. Co-adoptive transfer of CD25KO CD4+T cells with either 2M or 20M B6 CD25+GITR+T regulatory cells (Tregs) was performed in RAG1KO mice. LGs were evaluated in H&E-stained sections and by qPCR. Results: Investigation by RNA bulk sequencing found 3481 genes differentially expressed in CD25KO mice compared to B6, including upregulation of genes involved in T cell activation and Type I interferon signaling. CD25KO mice produced the same volume of tears as wild-type littermate controls, but had elevated protein expression of TNF, IFN-γ, and CCL5 and decreased protein expression of IL-12p40 and VEGF-A. Adoptive transfer recipients begin to develop inflammation and disease three weeks after adoptive transfer. In mice that received adoptive transfer of CD25KO CD4+ T cells, LGs had inflammation scores significantly higher than naive mice. They had increased expression of transcripts for inflammatory cytokines and chemokines. However, in recipient mice that received CD25KO CD4+T cells + 2M B6 Tregs, LGs had significantly reduced inflammatory scores and reduced expression of some inflammatory cytokines. Recipients of CD25KO CD4+T cells + 20M B6 Tregs had more inflamed lacrimal glands by both histology and qPCR, suggesting aged Tregs have less suppressive capacity.Conclusions: CD25KO mice have phenotypic and genetic changes resulting in increased inflammation, systemic autoimmunity and severe lymphocytic infiltration to the exocrine glands. These results are prominent in the tear film and LG. However, this autoimmunity can be controlled by addition of Tregs from healthy young mice, suggesting a possible avenue for therapeutic research.
Published in
Aged regulatory T cells fail to control autoimmune lacrimal gland pathogenic CD4(+) T cells
Scholand KK, Schaefer L, Govindarajan G et al. · GeroScience 2025 · PMID 40053297 · doi:10.1007/s11357-025-01576-y
This dataset
Open GSE269883 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 GSE269883_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 PRJNA1124068 and SRA study SRP513982. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40053297) ↗
Study design
10 samples, each with a distinct title — no replicated groups

Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Read from 10 sample titles: 10 distinct titles with little repetition. 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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