GEO series

Dermal fibroblasts respond to interleukin-4 and 13 and promote T-cell recruitment in atopic dermatitis

GSE307681 Mus musculus (mouse) Single-cell RNA-seq 12 samples Submitted 2025/12/05 Platform GPL24247

At a glance

Single-cell RNA-seq · mouse · 12 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: Mus musculus (mouse)
Samples: 12 samples: 3 × 3T3-L1, control, vs 3 × 3T3-L1, IL4IL13, vs 3 × 3T3-L1, Inf, vs 3 × 3T3-L1, IL4IL13 + Inf,Groups 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: Dermal fibroblasts respond to IL-4 and IL-13 and promote T cell recruitment in atopic dermatitisThe Journal of clinical investigation · 2026

Summary (written by the submitters)

Atopic dermatitis (AD) is a chronic inflammatory skin disease characterized by type 2 immune responses. While immune cells and keratinocytes are established contributors to AD pathogenesis, the role of dermal fibroblasts remains less defined. Here, we investigated whether fibroblasts contribute to T cell recruitment by producing chemokines in response to type 2 cytokines.

Read the full summary ↓

Single-cell RNA sequencing (scRNA-seq) of human AD skin and murine models, including IL-4 receptor-deficient mice, revealed transcriptionally distinct fibroblast clusters, with IL-4Rα-dependent populations expressing high levels of chemokines. In vitro, IL-4/IL-13 synergized with inflammatory cytokines(Inf; TNFa + IL-17A + IL-1b) to induce fibroblast expression of CCR3 ligands, including Ccl8. Conditioned media from stimulated fibroblasts promoted T cell migration in a CCR3-dependent manner. Furthermore, pharmacologic inhibition of CCR3 reduced T cell infiltration and skin inflammation in two AD mouse models. These findings demonstrate that dermal fibroblasts are not passive structural cells but active participants in type 2 inflammation, contributing to the pathogenesis of AD by producing chemokines that facilitate T cell recruitment. Targeting the fibroblast–CCR3 axis may represent a novel therapeutic strategy for AD.

Published in

Dermal fibroblasts respond to IL-4 and IL-13 and promote T cell recruitment in atopic dermatitis

Numata T, Shia M, Nakamura Y et al. · The Journal of clinical investigation 2026 · PMID 41569693 · doi:10.1172/JCI196108

This dataset

Open GSE307681 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 GSE307681_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 PRJNA1322518 and SRA study SRP619223. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41569693) ↗

Study design

3 × 3T3-L1, control, vs 3 × 3T3-L1, IL4IL13, vs 3 × 3T3-L1, Inf, vs 3 × 3T3-L1, IL4IL13 + Inf,

Supports a between-group comparison across 12 samples.

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

GSM9229216 3T3-L1, control, 1 3T3-L1, control,
GSM9229217 3T3-L1, control, 2 3T3-L1, control,
GSM9229218 3T3-L1, control, 3 3T3-L1, control,
GSM9229219 3T3-L1, IL4IL13, 1 3T3-L1, IL4IL13,
GSM9229220 3T3-L1, IL4IL13, 2 3T3-L1, IL4IL13,
GSM9229221 3T3-L1, IL4IL13, 3 3T3-L1, IL4IL13,
GSM9229222 3T3-L1, Inf, 1 3T3-L1, Inf,
GSM9229223 3T3-L1, Inf, 2 3T3-L1, Inf,
GSM9229224 3T3-L1, Inf, 3 3T3-L1, Inf,
GSM9229225 3T3-L1, IL4IL13 + Inf, 1 3T3-L1, IL4IL13 + Inf,
GSM9229226 3T3-L1, IL4IL13 + Inf, 2 3T3-L1, IL4IL13 + Inf,
GSM9229227 3T3-L1, IL4IL13 + Inf, 3 3T3-L1, IL4IL13 + Inf,

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