GEO series

Class A Scavenger receptors promote tumor progression and induce a unique macrophage phenotype in a mouse model of spontaneous breast cancer

GSE271529 Mus musculus (mouse) Single-cell RNA-seq 2 samples Submitted 2024/12/31 Platform GPL19057

At a glance

Single-cell RNA-seq · mouse · 2 samples

What it is: Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
Organism: Mus musculus (mouse)
Samples: 2 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.

Summary (written by the submitters)

Tumor-associated macrophages (TAMs) are a critical component of the immune response to cancer, and their role in modulating cancer progression is well-recognized. Macrophages express pattern-recognition receptors, including Class A Scavenger Receptors (SR-A), that are pivotal in regulating macrophage activation and polarization to different phenotypes.

Read the full summary ↓

While evidence links an increased prevalence of SR-A-expressing TAMs to worse patient outcomes in certain cancers, a definitive role for SR-A in cancer remains to be fully established. Using mouse models of spontaneous breast cancer, we found that the absence of SR-A expression significantly delayed the development of palpable tumors and decreased the number of lung metastases in tumor-bearing mice. Next, we utilized a soluble SR-A protein to demonstrate that SR-A binds specifically to glycans on the surface of breast cancer cells. We used single-cell RNA sequencing of isolated TAMs to understand how SR-A promotes breast cancer progression. We identified a distinct SR-A-dependent TAM subpopulation characterized by high arginase (Arg1) gene expression and low expression of MHCII and other immune response-related genes. The gene-expression profile and signaling-pathway activity of TAMs in this subpopulation indicate that SR-A induces a tumor-supportive TAM phenotype in the tumor microenvironment. Together, our findings demonstrate a specific role for SR-A in binding to glycans on breast cancer cells, inducing a tumor-supportive TAM phenotype, and promoting breast cancer progression. These results shed light on the complex interplay between TAMs and cancer cells, and provide new insights into potential targets for therapeutic intervention in breast cancer.

This dataset

Open GSE271529 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 GSE271529_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.

Also filed as BioProject PRJNA1132171 and SRA study SRP518146. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Samples in this study

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

+ 2 more — browse all 2 samples with per-sample file links →

Datasets on a similar topic

GSE220691 Kidney Single-Cell Atlas Reveals Macrophage Heterogeneity in Progression and Regression of Cisplatin Induced AKI. 22 samples shares progression, macrophage, induce
GSE179812 Macrophage Heterogeneity in Progression and Regression Phases of Cisplatin Induced AKI Mice Model - A single-cell RNA sequencing study 17 samples shares progression, macrophage, induce
GSE271267 Tumoral Interferon Beta Induces an Immune-Stimulatory Phenotype in Tumor-Associated Macrophages in Melanoma Brain Metastases 12 samples shares macrophage, phenotype, induce
GSE220675 Kidney Single-Cell Atlas Reveals Macrophage Heterogeneity in Progression and Regression of Cisplatin Induced AKI [scRNA-seq] 11 samples shares progression, macrophage, induce
GSE241850 Psychological stress-induced ALKBH5 deficiency promotes tumour innervation and pancreatic cancer progression via extracellular vesicle transfer of m6A-modified RNAs 57 samples shares progression, promote, induce
GSE300757 Efferocytosis induces proangiogenic function and chromatin remodeling in tumor-associated macrophages 127 samples shares macrophage, induce
GSE316139 Studying the role of humanized-TLR8 on immune cell dynamics in the placental microenvironment in a spontaneous mouse model of aPL-induced pregnancy loss 57 samples shares spontaneous, induce
GSE306718 Macrophage Cluster of Differentiation 163 promotes post-infarction cardiac repair and preserves left ventricular function via osteopontin 37 samples shares macrophage, promote

Search all mouse RNA-seq 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.