RNA Sequencing Analysis of Brain Transcriptomes of Ischemic Stroke Treated With or Without Lactate
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: 12 samples, each with a distinct title — no replicated groupsGroups 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
- Astrocyte-derived lactate aggravates brain injury of ischemic stroke in mice by promoting the formation of protein lactylationTheranostics · 2024
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 GSE183439_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 PRJNA760783 and SRA study SRP335687. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 12 sample titles: 12 distinct titles with little repetition. 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.
- GSM5557636 A1_Sham_rep 1
- GSM5557637 A2_Sham_rep 2
- GSM5557638 A3_Sham_rep 3
- GSM5557639 A4_Sham_rep 4
- GSM5557640 B1_Ischemia 6 h + Veh_rep1
- GSM5557641 B2_Ischemia 6 h + Veh_rep2
- GSM5557642 B3_Ischemia 6 h + Veh_rep3
- GSM5557643 B4_Ischemia 6 h + Veh_rep4
- GSM5557644 C1_Ischemia 6 h + Lactate_rep1
- GSM5557645 C2_Ischemia 6 h + Lactate_rep2
- GSM5557646 C3_Ischemia 6 h + Lactate_rep3
- GSM5557647 C4_Ischemia 6 h + Lactate_rep4
- GSE343642 Single-cell RNA sequencing of peripheral blood and brain immune cells in mouse models of ischemic stroke 8 samples shares ischemic, stroke, brain
- 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
- GSE98816 Single cell RNA-seq of mouse brain vascular transcriptomes 3186 samples shares transcriptomes, brain
- GSE293533 Bulk RNA sequencing of bone marrow CD8+ T cells in BMF mice treated with or without baricitinib at different time points 16 samples shares treated, without
- 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
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.