Innate immune pathways drive early inflammation in the intravascular space in stroke patients with large vessel occlusion
RNA-seq (gene expression) · human · 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
- Homo sapiens (human)
- 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.
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 GSE285659_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 PRJNA1205383 and SRA study SRP554807. 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.
- GSM8706435 arterial, 1, PBMCSs GEX
- GSM8706436 arterial, 1, PBMCSs ADT
- GSM8706437 ischemic, 1, PBMCSs GEX
- GSM8706438 ischemic 1, PBMCSs ADT
- GSM8706439 arterial, 2, PBMCSs GEX
- GSM8706440 arterial, 2, PBMCSs ADT
- GSM8706441 ischemic, 2, PBMCSs GEX
- GSM8706442 ischemic 2, PBMCSs ADT
- GSM8706443 arterial, 3, PBMCSs GEX
- GSM8706444 arterial, 3, PBMCSs ADT
- GSM8706445 ischemic, 3, PBMCSs GEX
- GSM8706446 ischemic 3, PBMCSs ADT
- GSE130955 Global skin gene expression profile of early diffuse cutaneous systemic sclerosis shows a prominent innate and adaptive immunity profile 91 samples shares innate, early
- GSE328649 Lineage 2-Beijing Mycobacterium tuberculosis strains suppress BCG-trained innate immunity early after infection 39 samples shares innate, early
- GSE272396 Endogenously produced itaconate negatively regulates innate-driven cytokine production and drives global ubiquitination in human macrophages 36 samples shares innate, drive
- GSE244125 Endonucleolytic RNA cleavage drives changes in gene expression during the innate immune response 27 samples shares innate, drive
- GSE334767 Human keratinocytes and fibroblasts coordinate early cutaneous innate defense against Candida auris 24 samples shares innate, early
- GSE232550 Innate immune memory after brain injury drives inflammatory cardiac dysfunction II 20 samples shares innate, drive
- GSE97168 Innate Immune Landscape in Early Lung Adenocarcinoma by Paired Single-Cell Analyses 10 samples shares innate, early
- GSE234654 DDX6 reshapes the cancer RNA editome to suppress RNA-induced innate immunity 57 samples shares innate
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.