Spatiotemporal transcriptomic map of glial cell response in a mouse model of acute brain ischemia [bulk RNA-Seq]
Single-cell RNA-seq · mouse · 48 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
- 48 samples: 48 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.
- Paper
- Spatiotemporal transcriptomic map of glial cell response in a mouse model of acute brain ischemiaProceedings of the National Academy of Sciences of the United States of America · 2024
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 GSE233811_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: 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 PRJNA978035 and SRA study SRP440484. 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 48 sample titles: 48 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.
- GSM7437165 MCAO_12h_A
- GSM7437166 MCAO_12h_B
- GSM7437167 MCAO_12h_C
- GSM7437168 MCAO_12h_D
- GSM7437169 MCAO_12h_E
- GSM7437170 MCAO_12h_SH_A
- GSM7437171 MCAO_12h_SH_B
- GSM7437172 MCAO_12h_SH_C
- GSM7437173 MCAO_12h_SH_D
- GSM7437174 MCAO_24h_A
- GSM7437175 MCAO_24h_B
- GSM7437176 MCAO_24h_C
- GSM7437177 MCAO_24h_D
- GSM7437178 MCAO_24h_SH_A
- GSM7437179 MCAO_24h_SH_B
- GSM7437180 MCAO_24h_SH_C
- GSM7437181 MCAO_24h_SH_D
- GSM7437182 MCAO_3D_A
- GSM7437183 MCAO_3D_B
- GSM7437184 MCAO_3D_C
- GSM7437185 MCAO_3D_D
- GSM7437186 MCAO_3D_E
- GSM7437187 MCAO_3D_SH_A
- GSM7437188 MCAO_3D_SH_B
- GSM7437189 MCAO_3D_SH_C
- GSM7437190 MCAO_3D_SH_D
- GSM7437191 MCAO_3h_A
- GSM7437192 MCAO_3h_B
- GSM7437193 MCAO_3h_C
- GSM7437194 MCAO_3h_D
- GSM7437195 MCAO_3h_E
- GSM7437196 MCAO_3h_SH_A
- GSM7437197 MCAO_3h_SH_B
- GSM7437198 MCAO_3h_SH_C
- GSM7437199 MCAO_3h_SH_D
- GSM7437200 MCAO_7D_A
- GSM7437201 MCAO_7D_B
- GSM7437202 MCAO_7D_C
- GSM7437203 MCAO_7D_D
- GSM7437204 MCAO_7D_E
+ 8 more — browse all 48 samples with per-sample file links →
- GSE326452 Bulk RNA-seq of mouse brain following closed head injury: role of IL-1R1 signaling 200 samples shares rna-seq, brain, bulk
- GSE311449 Single cell RNA-seq of mouse brain vascular cells with Smart-seq2 method 391 samples shares rna-seq, brain
- GSE319614 Bulk RNA-seq transcriptome profiling of hippocampus across 17 autism spectrum disorder mouse models 269 samples shares rna-seq, bulk
- GSE341480 Spatiotemporal Clonal Architecture of the Newborn Mouse Forebrain 186 samples shares spatiotemporal, 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 glial, brain
- GSE228960 Bulk RNA-Seq from kidneys of uninephrectomized db/db mice as a model of severe diabetic kidney disease 28 samples shares rna-seq, bulk
- GSE280373 Spatiotemporal dynamics of the cardioimmune niche during lesion repair [scRNA-seq] 28 samples shares spatiotemporal, rna-seq
- GSE271662 RNA-seq of Mouse Spinal Cord after Lateral Compression Spinal Cord Injury followed by Delayed Atorvastatin or Vehicle Treatment [Bulk RNA-seq of mice spinal cords] 16 samples shares rna-seq, bulk
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.