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The role of Treg-mediated IL-6R signaling in epithelial cell biology

GSE293157 Mus musculus (mouse) RNA-seq (gene expression) 11 samples Submitted 2025/12/31 Platform GPL21273
At a glance

RNA-seq (gene expression) · mouse · 11 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
11 samples: 3 × WT_H20 vs 3 × KO_DSS vs 3 × WT_DSS vs 2 × KO_H20Groups 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
Treg-specific IL-6R signaling: a novel role in the regulation of the intestinal epitheliumAmerican journal of physiology. Gastrointestinal and liver physiology · 2025
Summary (written by the submitters)
IL-6 has been shown to be crucial in promoting inflammation in the context of IBD. Our previous work demonstrated an impairment of the FOXP3-mediated interactions necessary for Tregs to suppress immune responses following incubation with IL-6. However, the precise role of IL-6 and its receptor (IL-6R) signaling in Tregs and the impact on other cell types during IBD pathogenesis remains to be studied.
Read the full summary ↓
Here we demonstrate that loss of the IL-6R on Tregs negatively impacts intestinal epithelial cell homeostasis, and suggests the alterations could be contributing to an exacerbated phenotype in an in vivo model of colitis.
Published in
Treg-specific IL-6R signaling: a novel role in the regulation of the intestinal epithelium
Klatt EE, Hamdan FH, Pérez I et al. · American journal of physiology. Gastrointestinal and liver physiology 2025 · PMID 40820933 · doi:10.1152/ajpgi.00131.2025
This dataset
Open GSE293157 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 GSE293157_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 PRJNA1242973 and SRA study SRP573722. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40820933) ↗
Study design
3 × WT_H20 vs 3 × KO_DSS vs 3 × WT_DSS vs 2 × KO_H20

Supports a between-group comparison across 11 samples.

How we read this: 4 replicated groups read from 11 sample titles; they account for 11 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

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.