← BioTransfer GEO Dataset Finder
GEO series

A transient neurodevelopmental microglial state governs cortical maturation and is disrupted by neonatal inflammation in mouse

GSE337230 Mus musculus (mouse) Single-cell RNA-seq 13 samples Submitted 2026/07/01 Platform GPL24247
At a glance

Single-cell RNA-seq · mouse · 13 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
13 samples: 6 conditions, mostly in duplicateGroups 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)
We performed single-cell RNA sequencing of CD45+ brain immune cells isolated from neonatal mouse cortex under control and neonatal inflammation (LPS) conditions at multiple developmental stages. The study aims to characterize developmental microglial states and their disruption by inflammatory insult during early postnatal brain maturation.
This dataset
Open GSE337230 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 GSE337230_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 PRJNA1329933 and SRA study SRP620912. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
6 conditions, mostly in duplicate
CD45+ brain immune cells, P3 control ×3 CD45+ brain immune cells, P7 control ×2 CD45+ brain immune cells, P12 control ×2 CD45+ brain immune cells, P3 LPS ×2 CD45+ brain immune cells, P7 LPS ×2 CD45+ brain immune cells, P12 LPS ×2

Supports a between-group comparison across 13 samples.

How we read this: 6 replicated groups read from 13 sample titles; they account for 13 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 →

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.