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Extragenous ILC2s infiltration into the brain after ischemic stroke

GSE302993 Mus musculus (mouse) RNA-seq (gene expression) 23 samples Submitted 2025/07/23 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 23 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
23 samples: 6 × ILC2s, MCAO, blood, 1d, vs 6 × ILC2s, MCAO, blood, 5d, vs 6 × ILC2s, MCAO, brain, 5d, vs 5 × ILC2s, base,Groups 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.
Paper
Brain-infiltrating ILC2s boost poststroke angiogenic initiation through α-CGRP productionThe Journal of experimental medicine · 2025
Summary (written by the submitters)
Group 2 innate lymphoid cells (ILC2s) are key players in immune regulation and tissue repair in barrier immunity, but they are rarely seen in the brain. We investigated whether ILC2s in the peripheral circulation during the acute phase could infiltrate the brain parenchyma. We first transfer ILC2s intravenously into the MCAO mice and performed RNA sequencing of ILC2s isolated from the blood and the brain at different time points after MCAO.
Published in
Brain-infiltrating ILC2s boost poststroke angiogenic initiation through α-CGRP production
Ping A, Yang F, Lu L et al. · The Journal of experimental medicine 2025 · PMID 40853291 · doi:10.1084/jem.20241830
This dataset
Open GSE302993 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 GSE302993_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 PRJNA1293316 and SRA study SRP601765. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40853291) ↗
Study design
6 × ILC2s, MCAO, blood, 1d, vs 6 × ILC2s, MCAO, blood, 5d, vs 6 × ILC2s, MCAO, brain, 5d, vs 5 × ILC2s, base,

Supports a between-group comparison across 23 samples.

How we read this: 4 replicated groups read from 23 sample titles; they account for 23 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

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