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Identification of Bronchial Epithelial Genes Associated with Type-2 Eosinophilic Inflammation in Asthma

GSE264325 Homo sapiens (human) RNA-seq (gene expression) 54 samples Submitted 2025/01/06 Platform GPL16791
At a glance

RNA-seq (gene expression) · human · 54 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
Homo sapiens (human)
Samples
54 samples: 48 distinct titles, 6 of them repeatedGroups 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
Identification of bronchial epithelial genes associated with type 2 eosinophilic inflammation in asthmaThe Journal of allergy and clinical immunology · 2025
Summary (written by the submitters)
Airway inflammation has a critical role in asthma pathogenesis and pathophysiology. Yet, the molecular pathways contributing to airway inflammation are not fully known, particularly Type-2 (T2) inflammation characterized by both eosinophilia and FeNO levels. Here, we seek to identify genes whose level of expression in epithelial brushing samples is associated with both bronchoalveolar lavage (BAL) eosinophilia and generation of FeNO.
Read the full summary ↓
We used a segmental allergen bronchoprovocation (SBP-Ag) procedure in asthma subjects, and RNA-sequencing (RNA-seq) analyses of BAL cells and brushing samples before and 48 h after SBP-Ag. Allergen bronchoprovocation increased FeNO levels which correlated with eosinophilia but not neutrophilia. Thirteen genes were identified in brushing samples, whose expression changed in response to SBP-Ag and correlated with both airway eosinophilia and FeNO levels after SBP-Ag. Among these 13 genes, the epithelial cell product, CDH26 was a candidate to contribute to the amplification of T2 inflammation as reflected by eosinophilia and FeNO, and causal mediation analyses with pro-T2 and pro-eosinophilic cytokine mediators in BAL fluids. Among the genes associated with reduced eosinophila and FeNO, HEY2 is known to enhance cell proliferation, migration, invasion, and EMT, as well as to reduce apoptosis. This unbiased RNA-seq analysis in subjects with allergic asthma has revealed several epithelial cell genes that may be critical for the development or augmentation of T2 inflammation in asthma, particularly CDH26.
Published in
Identification of bronchial epithelial genes associated with type 2 eosinophilic inflammation in asthma
Esnault S, Dill-McFarland KA, Altman MC et al. · The Journal of allergy and clinical immunology 2025 · PMID 39793714 · doi:10.1016/j.jaci.2024.12.1089
This dataset
Open GSE264325 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 GSE264325_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 PRJNA1101975 and SRA study SRP502656. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39793714) ↗
Study design
48 distinct titles, 6 of them repeated
BE_MA1001_pre ×2 BE_MA1001_post ×2 BE_MA1028_pre ×2 BE_MA1028_post ×2 BE_MA1092_pre ×2 BE_MA1092_post ×2

How we read this: Read from 54 sample titles: 48 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

+ 14 more — browse all 54 samples with per-sample file links →

Datasets on a similar topic

Search all human RNA-seq datasets in GEO →

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