Elucidating the Role of Prefrontal Cortex Damage in Persistent Cognitive Impairment Following Traumatic Brain Injury: Behavioral and Molecular Insights
RNA-seq (gene expression) · mouse · 12 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
- 12 samples: 6 × tCI vs 6 × pCIGroups 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.
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 GSE280953_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 PRJNA1181525 and SRA study SRP542814. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 2 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.
- GSM8607927 tCI_52 tCI
- GSM8607928 tCI_48 tCI
- GSM8607929 tCI_40 tCI
- GSM8607930 tCI_35 tCI
- GSM8607931 tCI_28 tCI
- GSM8607932 tCI_24 tCI
- GSM8607933 pCI_51 pCI
- GSM8607934 pCI_45 pCI
- GSM8607935 pCI_44 pCI
- GSM8607936 pCI_37 pCI
- GSM8607937 pCI_30 pCI
- GSM8607938 pCI_23 pCI
- GSE286904 Persistent large-scale changes in alternative splicing in prefrontal cortical neuron types following psychedelic exposure 118 samples shares prefrontal, persistent, following
- GSE261887 Phlorizin ameliorates cognitive and behavioral impairments via the microbiota-gut-brain axis in diet-induced obese mice 18 samples shares impairment, behavioral, cognitive
- GSE246244 Designed macrocyclic peptide rescues behavioral impairment and brain pathology in an Alzheimer’s disease mouse model 71 samples shares impairment, behavioral
- GSE261492 Hypertension Promotes Neuroinflammation, Brain Injury and Cognitive Impairment 48 samples shares impairment, cognitive
- GSE262632 Sex-dependent APOE4 Neutrophil-microglia interactions drive cognitive impairment in Alzheimer's Disease 39 samples shares impairment, cognitive
- GSE249105 Targeting neuronal FTL1 rescues cognitive impairments in aging 25 samples shares impairment, cognitive
- GSE243748 SEX-DEPENDENT APOE4 NEUTROPHIL-MICROGLIA INTERACTIONS DRIVE COGNITIVE IMPAIRMENT IN ALZHEIMER'S DISEASE [Mouse_Neutro_Spleen_APOE3_4] 18 samples shares impairment, cognitive
- GSE243749 SEX-DEPENDENT APOE4 NEUTROPHIL-MICROGLIA INTERACTIONS DRIVE COGNITIVE IMPAIRMENT IN ALZHEIMER'S DISEASE [Neutrophils_Spleen_Brain_E3_E4] 13 samples shares impairment, cognitive
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.