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RNA‑seq analysis of microglia from Fpr2 knockout and wild‑type mice following LPS‑induced acute inflammation

GSE334556 Mus musculus (mouse) RNA-seq (gene expression) 9 samples Submitted 2026/08/03 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 9 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
9 samples: 3 × Microglia, KO_LPS vs 3 × Microglia, WT_LPS vs 3 × Microglia, WT_SalineGroups 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)
To investigate the molecular mechanisms by which formyl peptide receptor 2 (FPR2) regulates microglial activation and neuroinflammation in an LPS‑induced acute depression model, we performed RNA‑sequencing of microglia isolated from three groups of mice: wild‑type saline‑treated (WT‑Saline), wild‑type LPS‑treated (WT‑LPS), and Fpr2 knockout LPS‑treated (Fpr2‑/‑‑LPS).
Read the full summary ↓
Transcriptomic profiling revealed that LPS challenge induced widespread changes in immune‑ and inflammation‑related pathways, including the NLR signaling pathway, cytokine‑cytokine receptor interaction, and chemokine signaling. FPR2 deficiency partially reversed these LPS‑induced alterations, particularly suppressing the upregulation of genes involved in the NLRP3 inflammasome pathway (e.g., Nlrp3, Il1b, Csf1). These RNA‑seq data provide a global view of how FPR2 deletion reshapes the microglial transcriptome under inflammatory conditions and support the conclusion that FPR2 acts upstream of the CSF1/NLRP3 axis to mediate depressive‑like behaviors.
This dataset
Open GSE334556 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 GSE334556_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 PRJNA1475451 and SRA study SRP707235. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
3 × Microglia, KO_LPS vs 3 × Microglia, WT_LPS vs 3 × Microglia, WT_Saline

Supports a between-group comparison across 9 samples.

How we read this: 3 replicated groups read from 9 sample titles; they account for 9 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

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.