GSDME-controlled pyroptosis promotes muscle repair by coordinating tissue resident macrophages and fibro-adipogenic progenitors [RNA-seq]
RNA-seq (gene expression) · mouse · 27 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
- 27 samples: 9 conditions, mostly in triplicateGroups 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
- GSDME-IL-18 pyroptotic axis prevents myosteatosis by expanding tissue-resident macrophages to promote muscle regenerationThe Journal of clinical investigation · 2026
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 GSE271087_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 PRJNA1129589 and SRA study SRP516926. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 27 samples.
How we read this: 9 replicated groups read from 27 sample titles; they account for 27 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.
- GSM8368419 muscle, WT-CTX-Day1-1 muscle, WT-CTX-Day1
- GSM8368420 muscle, WT-CTX-Day1-2 muscle, WT-CTX-Day1
- GSM8368421 muscle, WT-CTX-Day1-3 muscle, WT-CTX-Day1
- GSM8368422 muscle, KO-CTX-Day1-1 muscle, KO-CTX-Day1
- GSM8368423 muscle, KO-CTX-Day1-2 muscle, KO-CTX-Day1
- GSM8368424 muscle, KO-CTX-Day1-3 muscle, KO-CTX-Day1
- GSM8368425 muscle, WT-CTX-Day4-1 muscle, WT-CTX-Day4
- GSM8368426 muscle, WT-CTX-Day4-2 muscle, WT-CTX-Day4
- GSM8368427 muscle, WT-CTX-Day4-3 muscle, WT-CTX-Day4
- GSM8368428 muscle, KO-CTX-Day4-1 muscle, KO-CTX-Day4
- GSM8368429 muscle, KO-CTX-Day4-2 muscle, KO-CTX-Day4
- GSM8368430 muscle, KO-CTX-Day4-3 muscle, KO-CTX-Day4
- GSM8368431 muscle, WT-CTX-Day7-1 muscle, WT-CTX-Day7
- GSM8368432 muscle, WT-CTX-Day7-2 muscle, WT-CTX-Day7
- GSM8368433 muscle, WT-CTX-Day7-3 muscle, WT-CTX-Day7
- GSM8368434 muscle, KO-CTX-Day7-1 muscle, KO-CTX-Day7
- GSM8368435 muscle, KO-CTX-Day7-2 muscle, KO-CTX-Day7
- GSM8368436 muscle, KO-CTX-Day7-3 muscle, KO-CTX-Day7
- GSM8368437 muscle, WT-CTX-Day14-1 muscle, WT-CTX-Day14
- GSM8368438 muscle, WT-CTX-Day14-2 muscle, WT-CTX-Day14
- GSM8368439 muscle, WT-CTX-Day14-3 muscle, WT-CTX-Day14
- GSM8368440 muscle, KO-CTX-Day14-1 muscle, KO-CTX-Day14
- GSM8368441 muscle, KO-CTX-Day14-2 muscle, KO-CTX-Day14
- GSM8368442 muscle, KO-CTX-Day14-3 muscle, KO-CTX-Day14
- GSM8368443 muscle, WT-Con1-1 muscle, WT-Con1
- GSM8368444 muscle, WT-Con1-2 muscle, WT-Con1
- GSM8368445 muscle, WT-Con1-3 muscle, WT-Con1
- GSE279117 HIF1α deletion promotes mitochondrial repurposing in bone marrow-derived macrophages, but not in tissue-resident alveolar macrophages 24 samples shares macrophages, promotes, resident
- GSE319684 Timecourse of FACS sorted Ly6C+ monocytes, tissue resident alveolar macrophages (trAMs), monocyte derived alveolar macrophages (bmAMs) and epithelial cells from SARS-CoV-2 (maVie16) vs. IAV (PR8) infected mouse lungs 176 samples shares macrophages, resident
- GSE300925 Lyn expression in macrophages promotes TLR activation and restricts proliferation in an isoform-independent manner 48 samples shares macrophages, promotes
- GSE302734 Single-Cell RNA Sequencing Unravels Interactions between Macrophages and Fibroadipogenic Progenitors during Ectopic Bone Formation in FOP Mice 12 samples shares macrophages, progenitors
- GSE300299 Chikungunya virus persists in joint-associated macrophages and promotes chronic disease in mice [scRNA-seq] 12 samples shares macrophages, promotes
- GSE284505 Chronic sleep deprivation promotes experimental autoimmune uveitis through STAT1 phosphorylation, ISG15 expression and enhanced pathogenicity of macrophages 12 samples shares macrophages, promotes
- GSE127881 IRF5 produced by kidney macrophages promotes polycystic kidney disease 12 samples shares macrophages, promotes
- GSE263545 Resident and recruited macrophages differentially contribute to cardiac healing after myocardial ischemia [scRNA-seq] 10 samples shares macrophages, resident
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.