Linking trajectories of cerebrovascular remodeling and dysfunction to cross-species brain vessel transcriptome in Alzheimer’s disease
RNA-seq (gene expression) · mouse · 24 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
- 24 samples: 6 × APP-Male vs 6 × APP-Female vs 6 × WT-Male vs 6 × WT-FemaleGroups 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 GSE291921_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 PRJNA1235782 and SRA study SRP570311. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 4 replicated groups read from 24 sample titles; they account for 24 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.
- GSM8844390 APP-Male-1 APP-Male
- GSM8844391 APP-Male-2 APP-Male
- GSM8844392 APP-Male-3 APP-Male
- GSM8844393 APP-Male-4 APP-Male
- GSM8844394 APP-Male-5 APP-Male
- GSM8844395 APP-Male-6 APP-Male
- GSM8844396 APP-Female-1 APP-Female
- GSM8844397 APP-Female-2 APP-Female
- GSM8844398 APP-Female-3 APP-Female
- GSM8844399 APP-Female-4 APP-Female
- GSM8844400 APP-Female-5 APP-Female
- GSM8844401 APP-Female-6 APP-Female
- GSM8844402 WT-Male-1 WT-Male
- GSM8844403 WT-Male-2 WT-Male
- GSM8844404 WT-Male-3 WT-Male
- GSM8844405 WT-Male-4 WT-Male
- GSM8844406 WT-Male-5 WT-Male
- GSM8844407 WT-Male-6 WT-Male
- GSM8844408 WT-Female-1 WT-Female
- GSM8844409 WT-Female-2 WT-Female
- GSM8844410 WT-Female-3 WT-Female
- GSM8844411 WT-Female-4 WT-Female
- GSM8844412 WT-Female-5 WT-Female
- GSM8844413 WT-Female-6 WT-Female
- GSE291086 Neuronal ABCA7 deficiency aggravates mitochondrial dysfunction and neurodegeneration in Alzheimer’s disease 24 samples shares dysfunction, alzheimer
- GSE302245 Locus Coeruleus noradrenergic axon loss drives olfactory dysfunction in Alzheimer's disease 16 samples shares dysfunction, alzheimer
- GSE312968 Reversible Fibroblast Trajectories Regulated by MR Underlie Diastolic Dysfunction 12 samples shares trajectories, dysfunction
- GSE329430 Bone marrow myelopoiesis dysfunction in Alzheimer’s disease 20 samples shares dysfunction, alzheimer
- GSE309251 Western diet-induced MASH in PWK/PhJ mice identifies disruptions in amino acid and sphingolipid metabolism contributing to cardiac dysfunction 347 samples shares dysfunction
- GSE319035 P21+TREM2+-Senescent Macrophages Fuel Inflammaging and Metabolic Dysfunction-Associated Steatotic Liver Disease [NAFLD_time_course] 77 samples shares dysfunction
- GSE297195 Age-dependent Transcriptional and Circuit Alterations in the brain Underlie Post-Anesthesia Neurobehavioral Dysfunction 66 samples shares dysfunction
- GSE275176 Transcriptomic alterations associated with the progression of metabolic dysfunction-associated steatotic liver disease in CC042 Collaborative Cross mice. 60 samples shares dysfunction
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.