Impaired removal of dying brain cells by microglia in GPR34 deficient mice
RNA-seq (gene expression) · mouse · 125 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
- 125 samples: 39 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.
- Paper
- Impaired removal of dying brain cells by microglia in Gpr34 deficient miceJournal of neuroinflammation · 2026
Read the full summary ↓
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.
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.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE317348_RAW.tar (it can run to tens of gigabytes).
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.
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 PRJNA1406772 and SRA study SRP665687. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 113 samples.
How we read this: 39 replicated groups read from 125 sample titles; they account for 113 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.
- GSM9470283 Hipp 3month KO Mouse samp05_1
- GSM9470284 MC 3month KO Mouse samp05_1
- GSM9470285 SSC 3month KO Mouse samp05_1
- GSM9470286 Hipp 3month KO Mouse 5_2 Hipp 3month KO Mouse 5
- GSM9470287 MC 3month KO Mouse 5_2 MC 3month KO Mouse 5
- GSM9470288 SSC 3month KO Mouse 5_2 SSC 3month KO Mouse 5
- GSM9470289 Hipp 3month KO Mouse 5_3 Hipp 3month KO Mouse 5
- GSM9470290 MC 3month KO Mouse 5_3 MC 3month KO Mouse 5
- GSM9470291 SSC 3month KO Mouse 5_3 SSC 3month KO Mouse 5
- GSM9470292 Hipp 3month WT Mouse 5_4
- GSM9470293 MC 3month WT Mouse 5_4
- GSM9470294 SSC 3month WT Mouse 5_4
- GSM9470295 Hipp 3month WT Mouse 7_1 Hipp 3month WT Mouse 7
- GSM9470296 MC 3month WT Mouse 7_1 MC 3month WT Mouse 7
- GSM9470297 SSC 3month WT Mouse 7_1 SSC 3month WT Mouse 7
- GSM9470298 Hipp 3month KO Mouse 7_2 Hipp 3month KO Mouse 7
- GSM9470299 MC 3month KO Mouse 7_2 MC 3month KO Mouse 7
- GSM9470300 SSC 3month KO Mouse 7_2 SSC 3month KO Mouse 7
- GSM9470301 Hipp 3month KO Mouse 7_3 Hipp 3month KO Mouse 7
- GSM9470302 MC 3month KO Mouse 7_3 MC 3month KO Mouse 7
- GSM9470303 SSC 3month KO Mouse 7_3 SSC 3month KO Mouse 7
- GSM9470304 Hipp 3month WT Mouse 7_4 Hipp 3month WT Mouse 7
- GSM9470305 MC 3month WT Mouse 7_4 MC 3month WT Mouse 7
- GSM9470306 SSC 3month WT Mouse 7_4 SSC 3month WT Mouse 7
- GSM9470307 NA NA NA Mouse NA
- GSM9470308 Hipp 3month WT Mouse 81_1 Hipp 3month WT Mouse 81
- GSM9470309 SSC 3month WT Mouse 81_1 SSC 3month WT Mouse 81
- GSM9470310 Hipp 3month WT Mouse 81_2 Hipp 3month WT Mouse 81
- GSM9470311 MC 3month WT Mouse 81_2
- GSM9470312 SSC 3month WT Mouse 81_2 SSC 3month WT Mouse 81
- GSM9470313 SSC 18day KO Mouse 88_10 SSC 18day KO Mouse 88
- GSM9470314 MC 18day KO Mouse 88_10 MC 18day KO Mouse 88
- GSM9470315 MC 18day WT Mouse 88_11 MC 18day WT Mouse 88
- GSM9470316 SSC 18day WT Mouse 88_11 SSC 18day WT Mouse 88
- GSM9470317 MC 18day WT Mouse 88_1 MC 18day WT Mouse 88
- GSM9470318 SSC 18day WT Mouse 88_1 SSC 18day WT Mouse 88
- GSM9470319 MC 18day KO Mouse 88_2 MC 18day KO Mouse 88
- GSM9470320 SSC 18day KO Mouse 88_2 SSC 18day KO Mouse 88
- GSM9470321 MC 18day KO Mouse 88_5 MC 18day KO Mouse 88
- GSM9470322 SSC 18day KO Mouse 88_5 SSC 18day KO Mouse 88
+ 85 more — browse all 125 samples with per-sample file links →
- GSE327428 GPR34 regulation of disease-associated microglial states in mice 96 samples shares gpr34, microglia
- GSE293041 Single-cell transcriptome analysis of wildtype, TREM2 knockout, GPR34 knock-out or TREM2/GPR34 double knock-out primary microglia from wildtype and APP knock-in mice (8 months) 10 samples shares gpr34, microglia
- GSE252343 Hofbauer cells and fetal brain microglia share transcriptional profiles and responses to maternal diet-induced obesity 34 samples shares microglia, brain
- GSE319238 Single-cell transcriptomic analysis of microglia and brain cells after ischemic stroke 12 samples shares microglia, brain
- GSE255329 The retrotransposable element-silencing factor Daxx controls microglia identity and function in the adult brain 93 samples shares microglia, brain
- GSE302808 Depletion of Peripheral Monocytes Alters Long-Term Gene Expression in Microglia in a Murine Model of Traumatic Brain Injury 84 samples shares microglia, brain
- GSE300113 Heterogenous microglial reactivity contrasts with stable vascular transcriptional programs in mouse models of Alzheimer’s, CADASIL, and Traumatic Brain Injury (Main dataset) 59 samples shares microglia, brain
- GSE276647 Gene expression profile of microglia following traumatic brain injury and nasal anti-CD3 treatment at acute and chronic timepoints 54 samples shares microglia, brain
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.