GEO series

CSF-1R inhibition alters macrophage polarization and blocks gliomagenesis

GSE37475 Mus musculus (mouse) Expression microarray 16 samples Submitted 2013/09/20 Platform GPL8321

At a glance

Expression microarray · mouse · 16 samples

What it is: Expression microarrayGene activity read on a chip (the older technology that RNA-seq replaced).
Organism: Mus musculus (mouse)
Samples: 16 samples: 8 × TAMs_Vehicle vs 8 × TAMs_BLZ945Groups are read from the sample names, not from the paper. Check the list below.
Data you can get: A processed expression table (series matrix) and the array files, from NCBI.

Summary (written by the submitters)

Glioblastoma multiforme (GBM), the most common and aggressive primary brain tumor in adults, can be divided into several molecular subtypes including proneural GBM. Most clinical strategies aimed at directly targeting glioma cells in these tumors have failed. A promising alternative is to target stromal cells in the brain microenvironment, such as tumor-associated microglia and macrophages (TAMs).

Read the full summary ↓

Macrophages are dependent upon colony stimulating factor (CSF)-1 for differentiation and survival; therefore, we used an inhibitor of its receptor, CSF-1R, to target macrophages in a mouse proneural GBM model. CSF-1R inhibition dramatically increased survival in mice and regressed established GBMs. Tumor cell apoptosis was significantly increased, and proliferation and tumor grade markedly decreased. Surprisingly, TAMs were not depleted in tumors treated with the CSF-1R inhibitor. Instead, analysis of gene expression in TAMs isolated from treated tumors revealed a decrease in alternatively activated/ M2 macrophage markers, consistent with impaired tumor-promoting functions. These gene signatures were also associated with better survival specifically in the proneural subtype of patient gliomas. Collectively, these results establish macrophages as valid therapeutic targets in proneural gliomas, and highlight the clinical potential for CSF-1R inhibitors in GBM.

This dataset

Open GSE37475 in finder → Find more mouse microarray datasets →

Download · which file do I need?

Direct links to NCBI, 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.

All supplementary files ↗

3 · The original raw files

Whole study · RAW.tar

Everything the authors deposited as one archive (GSE37475_RAW.tar), including the raw array or instrument files. Can be large; the picker in step 2 takes just the samples you need.

Whole study · RAW.tar ↓

What the files usually look like: For arrays the series matrix is normally the normalised expression table you want; the raw array files (CEL and similar) are in the RAW.tar.

Also filed as BioProject PRJNA160215. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 24056773) ↗

Study design

8 × TAMs_Vehicle vs 8 × TAMs_BLZ945

Supports a between-group comparison across 16 samples.

How we read this: 2 replicated groups read from 16 sample titles; they account for 16 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

GSM920744 TAMs_Vehicle_rep1 TAMs_Vehicle
GSM920745 TAMs_Vehicle_rep2 TAMs_Vehicle
GSM920746 TAMs_Vehicle_rep3 TAMs_Vehicle
GSM920747 TAMs_Vehicle_rep4 TAMs_Vehicle
GSM920748 TAMs_Vehicle_rep5 TAMs_Vehicle
GSM920749 TAMs_Vehicle_rep6 TAMs_Vehicle
GSM920750 TAMs_Vehicle_rep7 TAMs_Vehicle
GSM920751 TAMs_Vehicle_rep8 TAMs_Vehicle
GSM920752 TAMs_BLZ945_rep1 TAMs_BLZ945
GSM920753 TAMs_BLZ945_rep2 TAMs_BLZ945
GSM920754 TAMs_BLZ945_rep3 TAMs_BLZ945
GSM920755 TAMs_BLZ945_rep4 TAMs_BLZ945
GSM920756 TAMs_BLZ945_rep5 TAMs_BLZ945
GSM920757 TAMs_BLZ945_rep6 TAMs_BLZ945
GSM920758 TAMs_BLZ945_rep7 TAMs_BLZ945
GSM920759 TAMs_BLZ945_rep8 TAMs_BLZ945

Datasets on a similar topic

GSE283547 Suppression of Notch during efferocytosis prevents macrophages inflammatory polarization [RNA-seq.HumanMouse] 40 samples shares polarization, macrophage
GSE325329 Transcriptomic profiling of macrophages that phagocytosed apoptotic Treg or conventional CD4⁺ T (Tconv) cells under different polarization conditions [RNA-Seq] 28 samples shares polarization, macrophage
GSE337190 CAR-NKT cells induce low cytokine release syndrome by targeting hyperinflammatory macrophages with mitigation from GM-SCF inhibition. 24 samples shares inhibition, macrophage
GSE335147 Mitochondrial profiling across macrophage states reveals inhibition of IL-4/IL-13 reprogramming by the integrated stress response 24 samples shares inhibition, macrophage
GSE266962 Targeting Immunoproteasome in Macrophages Suppresses M1 Polarization and Ameliorates Experimental Emphysema via Activating NRF1 and NRF2-P62 Axis 24 samples shares polarization, macrophage
GSE241629 Inhibition of Notch4 with Novel Neutralizing Antibodies Reduces Tumor Growth in Multiple Tumor Types and Targets Endothelium and Tumor Associated Macrophages in a Mouse Breast Cancer Model [RiboTag RNA-seq] 20 samples shares inhibition, macrophage
GSE290919 Transcriptome analysis of Kdm7a-deficient RAW264.7 cells during macrophage polarization. 18 samples shares polarization, macrophage
GSE298836 Loss of Histone Methyltransferase Ezh2 Exacerbates Polarization of Macrophages toward M2-Like Phenotypes by Hepatocellular Carcinoma [RNA-Seq] 14 samples shares polarization, macrophage

Search all mouse microarray 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.