The effect of STING antagonist SN-011 on the gene expression changes in the mouse brain 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: 3 × 3d-SN011 vs 3 × sham vs 3 × SN011 vs 3 × vehicleGroups 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
- Blocking cGAS-STING pathway promotes post-stroke functional recovery in an extended treatment window via facilitating remyelinationMed (New York, N.Y.) · 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 GSE236006_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 PRJNA988412 and SRA study SRP446347. 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.
- GSM7516702 3d-SN011-1 3d-SN011
- GSM7516703 3d-SN011-2 3d-SN011
- GSM7516704 3d-SN011-3 3d-SN011
- GSM7516705 sham1 sham
- GSM7516706 sham2 sham
- GSM7516707 sham3 sham
- GSM7516708 SN011-1 SN011
- GSM7516709 SN011-2 SN011
- GSM7516710 SN011-3 SN011
- GSM7516711 vehicle1 vehicle
- GSM7516712 vehicle2 vehicle
- GSM7516713 vehicle3 vehicle
- GSE226410 The effect of cGAS or STING knockout on gene expression changes in mouse brain after ischemic stroke 12 samples shares sting, ischemic, changes, stroke, brain
- GSE220043 Arresting the Bad Seed: HDAC3 Regulates Proliferation of Different Microglia after Ischemic Stroke 22 samples shares sting, ischemic, stroke
- GSE220041 Arresting the Bad Seed: HDAC3 Regulates Proliferation of Different Microglia after Ischemic Stroke [ATAC-seq] 10 samples shares sting, ischemic, stroke
- GSE319238 Single-cell transcriptomic analysis of microglia and brain cells after ischemic stroke 12 samples shares ischemic, stroke, brain
- GSE289792 Inhibition of microglial SLC2A5 attenuates brain injury following acute ischemic stroke [RNA-Seq] 12 samples shares ischemic, stroke, brain
- GSE343642 Single-cell RNA sequencing of peripheral blood and brain immune cells in mouse models of ischemic stroke 8 samples shares ischemic, stroke, brain
- GSE290224 Intermittent Fasting Reprograms Chromatin Accessibility to Modulate Gene Expression in Brain and Muscle 96 samples shares sting, brain
- GSE281365 Combustion products of burn pit constituents induce more changes in murine lungs with pre-existing asthma than naïve lungs 27 samples shares sting, changes
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.