Single-nucleus RNA-seq of mouse cortex following CCI-induced traumatic brain injury across multiple time points
Single-nucleus RNA-seq · mouse · 12 samples
- What it is
- Single-nucleus RNA-seqGene activity measured in individual nuclei (used when whole cells are hard to isolate, for example from frozen tissue).
- Organism
- Mus musculus (mouse)
- Samples
- 12 samples: 3 × Mouse_STBI_group1 vs 3 × Mouse_STBI_group2 vs 3 × Mouse_STBI_group3 vs 3 × Mouse_CtrlGroups 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 GSE277487_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 PRJNA1162272 and SRA study SRP533280. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM8523257 Mouse_STBI_group1_1 Mouse_STBI_group1
- GSM8523258 Mouse_STBI_group1_2 Mouse_STBI_group1
- GSM8523259 Mouse_STBI_group1_3 Mouse_STBI_group1
- GSM8523260 Mouse_STBI_group2_1 Mouse_STBI_group2
- GSM8523261 Mouse_STBI_group2_2 Mouse_STBI_group2
- GSM8523262 Mouse_STBI_group2_3 Mouse_STBI_group2
- GSM8523263 Mouse_STBI_group3_1 Mouse_STBI_group3
- GSM8523264 Mouse_STBI_group3_2 Mouse_STBI_group3
- GSM8523265 Mouse_STBI_group3_3 Mouse_STBI_group3
- GSM8523266 Mouse_Ctrl_1 Mouse_Ctrl
- GSM8523267 Mouse_Ctrl_2 Mouse_Ctrl
- GSM8523268 Mouse_Ctrl_3 Mouse_Ctrl
- GSE280953 Elucidating the Role of Prefrontal Cortex Damage in Persistent Cognitive Impairment Following Traumatic Brain Injury: Behavioral and Molecular Insights 12 samples shares following, traumatic, cortex, injury
- GSE332646 Bulk RNA-seq of juvenile mouse liver following NDMA or saline treatment in WT and Mgmt-/- genotypes across multiple timepoints 214 samples shares following, multiple, rna-seq
- GSE326452 Bulk RNA-seq of mouse brain following closed head injury: role of IL-1R1 signaling 200 samples shares following, rna-seq, injury
- GSE306281 RNA-seq of kidney transcriptome following UUO injury 75 samples shares following, rna-seq, injury
- GSE276647 Gene expression profile of microglia following traumatic brain injury and nasal anti-CD3 treatment at acute and chronic timepoints 54 samples shares following, traumatic, injury
- GSE330728 Single-nucleus RNA-seq atlas of 17 ASD-risk mouse lines under early-postnatal fluoxetine or lithium exposure (4-plex On-Chip Multiplexed) 53 samples shares single-nucleus, multiple, rna-seq
- GSE269748 A single-cell atlas deconstructs heterogeneity across multiple models in murine traumatic brain injury and identifies novel cell-specific targets 36 samples shares traumatic, multiple, injury
- GSE228309 RNA sequencing transcriptome analysis of lesional to perilesional cortex at 5 days after traumatic brain injury 24 samples shares traumatic, cortex, injury
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.