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Transcriptional Regulation of Microglial Metabolic and Activation States by P2RY12

GSE296508 Mus musculus (mouse) RNA-seq (gene expression) 57 samples Submitted 2025/07/16 Platform GPL24247Platform GPL30172
At a glance

RNA-seq (gene expression) · mouse · 57 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
57 samples: 5 conditions, mostly with about 5 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.
Summary (written by the submitters)
Microglia are the resident immune cells of the CNS and integral to maintaining homeostasis. They rapidly respond to injury or infection within the CNS by altering their morphology, proliferating, and releasing cytokines and other signaling molecules. Microglia also play critical roles in development, regulating synaptic pruning and debris clearance.
Read the full summary ↓
In disease, they are powerful mediators of neuroinflammation. Understanding the molecular pathways involved in microglial function is pivotal for advancing neurobiological research and developing effective strategies for CNS disorders. In this context, P2RY12 is a G protein-coupled receptor (GPCR) that is enriched in microglia in the brain parenchyma and is part of the transcriptional signature of homeostatic, ramified microglia. However, P2RY12 is downregulated in activated microglia and in neurological conditions. The downstream effects of P2RY12 downregulation in disease-associated microglia and how they influence microglial activation remain inadequately understood. In this study, we apply transcriptional and histological methods to explore the changes to microglia upon a genetic P2RY12 loss. Our findings reveal that P2RY12-deficient microglia experience alterations in distinct metabolic pathways while preserving overall homeostatic microglial transcriptional identity. P2RY12 deficiency dysregulates signature genes involved in homeostatic iron metabolism. Importantly, the Glutathione Peroxidase 4 (GPX4)-Glutathione (GSH) antioxidant pathway related to ferroptosis susceptibility is impaired upon microglial activation with LPS treatment. These results highlight the critical role of P2RY12 in regulating microglial immune and metabolic responses under both homeostatic and inflammatory conditions, providing insights into its involvement in CNS pathophysiology.
This dataset
Open GSE296508 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 GSE296508_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 PRJNA1259521 and SRA study SRP583405. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
5 conditions, mostly with about 5 replicates each
S ×33 FKO ×5 MKO ×5 MWT ×4 FWT ×4 MWT_1 ×1 FWT_3 ×1 FKO_3 ×1 +3 more

Supports a between-group comparison across 51 samples.

How we read this: 5 replicated groups read from 57 sample titles; they account for 51 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

+ 17 more — browse all 57 samples with per-sample file links →

Datasets on a similar topic

Search all mouse RNA-seq datasets in GEO →

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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.