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IL-23 tunes inflammatory functions of human MAIT cells

GSE270795 Homo sapiens (human) Single-cell RNA-seq 27 samples Submitted 2025/01/09 Platform GPL24676
At a glance

Single-cell RNA-seq · human · 27 samples

What it is
Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
Organism
Homo sapiens (human)
Samples
27 samples: 12 conditions, mostly in duplicateGroups 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
IL-23 tunes inflammatory functions of human mucosal-associated invariant T cellsiScience · 2025
Summary (written by the submitters)
IL-23 signaling plays a key role in the pathogenesis of chronic inflammatory and infectious diseases, yet the cellular targets and signaling pathways affected by this cytokine remain poorly understood. We show that IL-23 receptors are expressed on the large majority of human MAIT, but not of conventional T cells, suggesting that these innate-like T cells are critical mediators of IL-23 functions.
Read the full summary ↓
In this study, we investigated the effects of IL-23 on human MAIT cell transcriptional and chromatin accessibility profiles, using RNA- and CITE-seq and ATAC-seq, respectively. Protein and transcriptional profiling at the population and single cell level demonstrates that stimulation with IL-23 or the structurally related cytokine IL-12 drives distinct functional profiles, revealing a high level of plasticity of MAIT cells. IL-23, in particular, affects key molecules and pathways related to autoimmunity and cytotoxic functions. Integrated analysis of transcriptomic and chromatin accessibility shows that AP-1 transcription factors constitute a key regulatory node of the IL-23 pathway in MAIT cells.
Published in
IL-23 tunes inflammatory functions of human mucosal-associated invariant T cells
Camard L, Stephen T, Yahia-Cherbal H et al. · iScience 2025 · PMID 40008359 · doi:10.1016/j.isci.2025.111898
This dataset
Open GSE270795 in finder → Find more human 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 GSE270795_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 PRJNA1128181 and SRA study SRP516123. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40008359) ↗
Study design
12 conditions, mostly in duplicate
MAIT cells ADT dono ×3 MAIT cells GEX dono ×3 MAIT cells VDJ dono ×3 MAIT cells ADT donor 2 + IL ×2 MAIT cells GEX donor 2 + IL ×2 MAIT cells VDJ donor 2 + IL ×2 MAIT cells ADT donor 3 + IL ×2 MAIT cells GEX donor 3 + IL ×2 +4 more

Supports a between-group comparison across 27 samples.

How we read this: 12 replicated groups read from 27 sample titles; they account for 27 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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