← BioTransfer GEO Dataset Finder
GEO series

Mitochondrial respiration in microglia is essential for response to demyelinating injury but not proliferation

GSE269239 Mus musculus (mouse) RNA-seq (gene expression) 64 samples Submitted 2024/06/10 Platform GPL30172Platform GPL19057
At a glance

RNA-seq (gene expression) · mouse · 64 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
64 samples: 12 conditions, mostly with about 4 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.
Paper
Mitochondrial respiration in microglia is essential for response to demyelinating injury but not proliferationNature metabolism · 2024
Summary (written by the submitters)
Microglia are necessary for CNS function during development and play roles in aging, Alzheimer’s Disease (AD) and the response to demyelinating injury. Mitochondrial respiratory chain (RC) is necessary for conventional T cell proliferation6 and macrophage-dependent immune responses. However, whether mitochondrial RC is essential for microglia proliferation or function is not known.
Read the full summary ↓
We conditionally deleted the mitochondrial complex III subunit Rieske Iron-Sulfur Protein (RISP) in the microglia of adult mice to assess the requirement of microglial RC for survival, proliferation, and adult CNS function in vivo. Surprisingly, mitochondrial RC function was not required for survival or proliferation of microglia in vivo. RNA-seq analysis showed that loss of RC function in microglia caused changes in gene expression distinct from aged or disease-associated microglia (DAM). Microglia-specific loss of mitochondrial RC function is not sufficient to induce cognitive decline. Amyloid-β plaque coverage decreased and microglial interaction with Amyloid-β plaques increased in the hippocampus of 5xFAD mice with mitochondrial RC-deficient microglia. Microglia-specific loss of mitochondrial RC function did impair remyelination following an acute, reversible demyelinating event. Thus, mitochondrial respiration in microglia is dispensable for proliferation but is essential to maintain a proper response to CNS demyelinating injury.
Published in
Mitochondrial respiration in microglia is essential for response to demyelinating injury but not proliferation
Stoolman JS, Grant RA, Poor TA et al. · Nature metabolism 2024 · PMID 39048801 · doi:10.1038/s42255-024-01080-1
This dataset
Open GSE269239 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 GSE269239_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 PRJNA1120790 and SRA study SRP512197. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39048801) ↗
Study design
12 conditions, mostly with about 4 replicates each
RISP_KO_treatment_Naïve_ageGroup_Adult ×13 RISP_Het_treatment_Naïve_ageGroup_Adult ×13 RISP_KO_treatment_Cuprizone_ageGroup_Adult ×6 RISP_WT_treatment_Naïve_ageGroup_Adult ×5 RISP_WT_treatment_PLX3397 Depletion_ageGroup_… ×4 RISP_Het_treatment_PLX3397 Repopulation_ageGr… ×4 RISP_KO_treatment_PLX3397 Repopulation_ageGro… ×4 RISP_WT_treatment_PLX3397 Repopulation_ageGro… ×4 +4 more

Supports a between-group comparison across 64 samples.

How we read this: 12 replicated groups read from 64 sample titles; they account for 64 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

+ 24 more — browse all 64 samples with per-sample file links →

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.