← BioTransfer GEO Dataset Finder
GEO series

A stress response axis in tumor-associated macrophages dictates phenotype heterogeneity and immunotherapy evasion

GSE290434 Mus musculus (mouse) RNA-seq (gene expression) 21 samples Submitted 2025/10/10 Platform GPL34290Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 21 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
21 samples: 6 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
Stress-NRF2 response axis polarizes tumor macrophages and undermines immunotherapyJournal for immunotherapy of cancer · 2025
SuperSeries — this record groups several sub-series.
Summary (written by the submitters)
This SuperSeries is composed of the SubSeries listed below.
Published in
Stress-NRF2 response axis polarizes tumor macrophages and undermines immunotherapy
Schaer DJ, Schulthess-Lutz N, Baselgia L et al. · Journal for immunotherapy of cancer 2025 · PMID 41176316 · doi:10.1136/jitc-2025-013063
This dataset
Open GSE290434 in finder → Find more mouse 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 GSE290434_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 PRJNA1228016 and SRA study SRP565307. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41176316) ↗
Study design
6 conditions, mostly in duplicate
colon carcinoma MC38 tumor from Keap1 knockou… ×2 colon carcinoma MC38 tumor from Keap1 wild-ty… ×2 sample ×2 colon carcinoma MC38 cells and Keap1 knockout… ×2 colon carcinoma MC38 cells and Keap1 wild-typ… ×2 colon carcinoma MC38 cells and Keap1 wild-typ… ×2 mouse MC38 tumor treated with aCD ×1 MC38 tumors treated intravenously (i.v.) with… ×1 +7 more

Supports a case/control comparison: 9 samples read as cases, 1 as controls.

How we read this: 6 replicated groups read from 21 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
Datasets on a similar topic

Search all mouse datasets in GEO →

Share this dataset

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.