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Influence of GPR35 deficiency on the ileal and macrophage transcriptome

GSE252926 Mus musculus (mouse) RNA-seq (gene expression) 20 samples Submitted 2025/02/07 Platform GPL17021Platform GPL13112
At a glance

RNA-seq (gene expression) · mouse · 20 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
20 samples: 5 × Ileum, wild type vs 5 × Ileum, GPR35 knockout vs 5 × macrophage, wild type vs 5 × macrophage, GPR35 knockoutGroups 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
GPR35 prevents osmotic stress induced cell damageCommunications biology · 2025
Summary (written by the submitters)
Mutations in GPR35 (G protein coupled receptor 35) are linked to ulcerative colitis and primary sclerosing cholangitis. How GPR35, which interacts with the Na/K-ATPase to determine ion transport, influences the transcriptome of macrophages and the ileum is unknown. Here compare transcript expression in bone marrow-derived macrophages and isolated ileum from mice deficient in GPR35 (knockout) with wild type mice by bulk RNA sequencing.
Published in
GPR35 prevents osmotic stress induced cell damage
Elias JE, Debela M, Sewell GW et al. · Communications biology 2025 · PMID 40121360 · doi:10.1038/s42003-025-07848-9
This dataset
Open GSE252926 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 GSE252926_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 PRJNA1063257 and SRA study SRP483512. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40121360) ↗
Study design
5 × Ileum, wild type vs 5 × Ileum, GPR35 knockout vs 5 × macrophage, wild type vs 5 × macrophage, GPR35 knockout

Supports a case/control comparison: 10 samples read as cases, 10 as controls.

How we read this: 4 replicated groups read from 20 sample titles; they account for 20 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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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.