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Targeting melanoma cell-intrinsic beta2 integrin inhibits ICAM-1-mediated tumor progression

GSE261845 Mus musculus (mouse) RNA-seq (gene expression) 20 samples Submitted 2025/12/31 Platform GPL21103
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: 6 conditions, mostly with about 4 replicates eachGroups 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
Targeting the tumor cell-intrinsic ITGB2 axis inhibits melanoma progressionMolecular cancer · 2025
Summary (written by the submitters)
Integrin b2 is an essential mediator of immune cell activation and trafficking via interaction with intercellular adhesion molecule (ICAM)-1. Expression of b2 integrins is thought to be restricted to cells of the hematopoietic lineage. Here we demonstrate nonhematopoietic expression and CD44-dependent induction and activation of integrin b2 by malignant melanoma cells.
Read the full summary ↓
Tumor cell-b2 in patient primary melanomas correlates with sentinel lymph node metastases, mediates adhesion to ICAM-1, and promotes tumor progression in preclinical models of human and murine melanoma. Consistently, inhibition of melanoma cell-intrinsic b2 integrin using blocking antibodies or CRISPR/Cas9-based b2 gene knockout potently suppresses ICAM-1-dependent melanoma cell adhesion, tumor growth, and metastatic dissemination. Melanoma cell-b2:ICAM-1 interaction stimulates downstream Wnt pathway components, including non-canonical Wnt5a, the pharmacologic inhibition of which reverses protumorigenic melanoma-b2 integrin activity. This work identifies a tumor cell-intrinsic integrin b2:ICAM-1 protumorigenic axis as a bona fide cancer therapeutic target in melanoma.
Published in
Targeting the tumor cell-intrinsic ITGB2 axis inhibits melanoma progression
Rasbach E, Migayron L, Brandenburg A et al. · Molecular cancer 2025 · PMID 41413567 · doi:10.1186/s12943-025-02527-z
This dataset
Open GSE261845 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 GSE261845_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 PRJNA1089202 and SRA study SRP496205. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41413567) ↗
Study design
6 conditions, mostly with about 4 replicates each
YUMM52-in-C57BL6WT-Cas9-control ×4 YUMM52-in-ICAM1ko-Cas9-control ×4 YUMM52-in-NSG-Cas9-control ×4 YUMM52-in-C57BL6WT-CD18KO ×3 YUMM52-in-NSG-CD18KO ×3 YUMM52-in-ICAM1ko-CD18KO ×2

Supports a between-group comparison across 20 samples.

How we read this: 6 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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