Circadian rhythms in microglia mediate early life synaptic development in a sex-specific manner.
RNA-seq (gene expression) · mouse · 75 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
- 75 samples: 75 samples, each with a distinct title — no replicated groupsGroups 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.
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 GSE308220_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 PRJNA1329246 and SRA study SRP620805. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 75 sample titles: 75 distinct titles with little repetition. 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.
- GSM9240377 Microglia A1_001, WT male, ZT18. Data excluded from analysis due to poor library quality and mapping performance.
- GSM9240378 Microglia_B1_002, KO male, ZT18. Data excluded from analysis due to poor library quality and mapping performance.
- GSM9240379 Microglia_C1_003, KO female, ZT18. Data excluded from analysis due to poor library quality and mapping performance.
- GSM9240380 Microglia_D1_004, WT female, ZT18. Data excluded from analysis due to poor library quality and mapping performance.
- GSM9240381 Microglia_E1_005, KO male, ZT6. Data excluded from analysis due to poor coverage in Interactive Genome Viewer.
- GSM9240382 Microglia_F1_006, WT male, ZT6. Data excluded from analysis due to poor library quality and mapping performance.
- GSM9240383 Microglia_G1_007, KO male, ZT6. Data excluded from analysis due to poor library quality and mapping performance.
- GSM9240384 Microglia_H1_008, WT female, ZT6
- GSM9240385 Microglia_A2_009, WT female, ZT6. Data excluded from analysis due to poor library quality and mapping performance.
- GSM9240386 Microglia_B2_010, WT male, ZT18. Data excluded from analysis due to poor library quality and mapping performance.
- GSM9240387 Microglia_C2_011, KO male, ZT18. Data excluded from analysis due to poor library quality and mapping performance.
- GSM9240388 Microglia_D2_012, KO female, ZT18. Data excluded from analysis due to poor library quality and mapping performance.
- GSM9240389 Microglia_E2_013, WT female, ZT18. Data excluded from analysis due to poor library quality and mapping performance.
- GSM9240390 Microglia_F2_014, WT female, ZT18. Data excluded from analysis due to poor library quality and mapping performance.
- GSM9240391 Microglia_G2_015, KO female, ZT18
- GSM9240392 Microglia_H2_016, WT female, ZT18
- GSM9240393 Microglia_A3_017, WT male, ZT6
- GSM9240394 Microglia_B3_018, WT male, ZT6
- GSM9240395 Microglia_C3_019, KO male, ZT6
- GSM9240396 Microglia_D3_020, KO female, ZT6. Data excluded from analysis due to poor coverage in Interactive Genome Viewer.
- GSM9240397 Microglia_E3_021, KO female, ZT6. Data excluded from analysis due to poor coverage in Interactive Genome Viewer.
- GSM9240398 Microglia_F3_022, WT male, ZT18
- GSM9240399 Microglia_G3_023, WT male, ZT18
- GSM9240400 Microglia_H3_024, KO male, ZT6
- GSM9240401 Microglia_A4_025, KO male, ZT6
- GSM9240402 Microglia_B4_026, KO male, ZT6
- GSM9240403 Microglia_C4_027, WT male, ZT6
- GSM9240404 Microglia_D4_028, KO female, ZT6
- GSM9240405 Microglia_E4_029, WT female, ZT6
- GSM9240406 Microglia_F4_030, WT female, ZT6
- GSM9240407 Microglia_G4_031, WT male, ZT6
- GSM9240408 Microglia_H4_032, WT male, ZT6
- GSM9240409 Microglia_A5_033, KO female, ZT6
- GSM9240410 Microglia_B5_034, KO male, ZT18
- GSM9240411 Microglia_C5_035, WT female, ZT18
- GSM9240412 Microglia_D5_036, KO male, ZT6
- GSM9240413 Microglia_E5_037, KO female, ZT6
- GSM9240414 Microglia_F5_038, KO female, ZT6
- GSM9240415 Microglia_G5_039, KO male, ZT18
- GSM9240416 Microglia_H5_040, WT male, ZT18. Data excluded from analysis due to poor library quality and mapping performance.
+ 35 more — browse all 75 samples with per-sample file links →
- GSE336872 Pitx2-associated early-onset glaucoma alters corneal innervation and sensory function in a sex-specific manner [RNA-Seq Trigeminal Ganglion] 20 samples shares sex-specific, manner, early
- GSE226938 Early amyloid-induced changes in microglia gene expression in APP/PS1 mice [scRNA-seq] 36 samples shares microglia, early
- GSE248275 Adenosine triggers early astrocyte reactivity that provokes microglial reaction and drives the pathogenesis of sepsis-associated encephalopathy 18 samples shares microglia, early
- GSE290194 Repair-Associated Macrophages Increase after Early-phase Microglia Attenuation to Promote Ischemic Stroke Recovery [scRNA-Seq] 16 samples shares microglia, early
- GSE249978 Egr1 is a sex-specific regulator of neuronal chromatin, synaptic plasticity, and behaviour 52 samples shares sex-specific, synaptic
- GSE327880 Neuronal activation triggers rapid biphasic FMRP-mediated translational control linking synaptic and nuclear regulation 51 samples shares synaptic, mediate
- GSE264105 Plate-based scRNA-seq of plasma-positive microglia and plasma-negative microglia in young mice 1111 samples shares microglia
- GSE292261 A dynamic gene regulatory code drives synaptic development of hippocampal granule cells [SS2] 576 samples shares synaptic
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.