GEO series

Gene expression profiling of neutrophils isolated from bone marrow, spleen and tumor of H16sc-IS1-tumor-bearing mice treated with anti-IL1RAP or untreated.

GSE268240 Mus musculus (mouse) RNA-seq (gene expression) 24 samples Submitted 2025/04/03 Platform GPL24247

At a glance

RNA-seq (gene expression) · mouse · 24 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: 24 samples
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: HPV16-Expressing Tumors Release Multiple IL1 Ligands to Orchestrate Systemic Immunosuppression Whose Disruption Enables Efficacy of a Therapeutic VaccineCancer discovery · 2025

Summary (written by the submitters)

It is well established that symptomatic cancers evade immune destruction by coalescing lesional and tumor microenvironments to suppress adaptive immunity. Additionally, mouse models of cervical and other cancers have revealed a capability of tumors to systemically induce the expansion of myeloid cells that cripple T cell development in spleen and lymph nodes, further impairing immune responses.

Read the full summary ↓

We show that HPV16-driven cervical cancers release into the circulatory system four immunoregulatory ligands – IL1α, IL1ß, IL33, and IL36ß – that bias the bone marrow toward granulocytic myelopoiesis, producing immunosuppressive neutrophils and myeloid progenitors differentially populating spleens and tumors to facilitate immune evasion. A pan-IL1 receptor antagonist, anti-IL1RAP, attenuates this myeloid expansion and complements an HPV-E7 peptide vaccine plus anti-CTLA4 to elicit anti-tumor immunity. Evidence for similar systemic activity of these four IL1 ligands in human cervical and other cancers encourages multi-targeting this signaling axis to broaden the scope of cancer immunotherapy.

Published in

HPV16-Expressing Tumors Release Multiple IL1 Ligands to Orchestrate Systemic Immunosuppression Whose Disruption Enables Efficacy of a Therapeutic Vaccine

Lecointre M, Guillot J, Marcone R et al. · Cancer discovery 2025 · PMID 40287949 · doi:10.1158/2159-8290.CD-25-0382

This dataset

Open GSE268240 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 GSE268240_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 PRJNA1115920 and SRA study SRP509831. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40287949) ↗

Samples in this study

The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.

+ 24 more — browse all 24 samples with per-sample file links →

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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.