Dynamic astrocytic gene expression profiles after ischemic stroke
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 conditions, mostly in duplicateGroups 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
- Transcriptome Analysis Reveals Dynamic Microglial-Induced A1 Astrocyte Reactivity via C3/C3aR/NF-κB Signaling After Ischemic StrokeMolecular neurobiology · 2024
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 GSE238125_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 PRJNA997998 and SRA study SRP451098. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 6 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.
- GSM7658905 Astrocyte Sham rep1 Astrocyte Sham
- GSM7658906 Astrocyte Sham rep2 Astrocyte Sham
- GSM7658907 Astrocyte day1 rep1 Astrocyte day1
- GSM7658908 Astrocyte day1 rep2 Astrocyte day1
- GSM7658909 Astrocyte day3 rep1 Astrocyte day3
- GSM7658910 Astrocyte day3 rep2 Astrocyte day3
- GSM7658911 Astrocyte day7 rep1 Astrocyte day7
- GSM7658912 Astrocyte day7 rep2 Astrocyte day7
- GSM7658913 Astrocyte day21 rep1 Astrocyte day21
- GSM7658914 Astrocyte day21 rep2 Astrocyte day21
- GSM7658915 Astrocyte day60 rep1 Astrocyte day60
- GSM7658916 Astrocyte day60 rep2 Astrocyte day60
- GSE276260 H2O2-induced astrocytic collagen triggers neuronal death in ischemic stroke [RNA-seq] 9 samples shares astrocytic, ischemic, stroke
- GSE280862 Loss of Sarm1 Mitigates Axonal Degeneration and Promotes Neuronal Regeneration After Ischemic Stroke 15 samples shares ischemic, stroke
- GSE290194 Repair-Associated Macrophages Increase after Early-phase Microglia Attenuation to Promote Ischemic Stroke Recovery [scRNA-Seq] 16 samples shares ischemic, stroke
- GSE265949 Effect of endothelial YAP/TAZ on neuroinflammation and outcome after ischemic stroke in mice 16 samples shares ischemic, stroke
- GSE319237 Transcriptomic profiling of mouse microglia after ischemic stroke 15 samples shares ischemic, stroke
- GSE319238 Single-cell transcriptomic analysis of microglia and brain cells after ischemic stroke 12 samples shares ischemic, stroke
- GSE303725 Effects of attenuating astrocytic Ca2+ activity in the medial prefrontal cortex with iβARK on transcriptional profiles in wild-type mice. 17 samples shares astrocytic, profiles
- GSE343642 Single-cell RNA sequencing of peripheral blood and brain immune cells in mouse models of ischemic stroke 8 samples shares ischemic, stroke
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.