GSDMD-mediated metabolic crosstalk licenses a pro-regenerative niche for tissue repair
RNA-seq (gene expression) · mouse · 10 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
- 10 samples: 10 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.
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 GSE250049_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 PRJNA1051656 and SRA study SRP477674. 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 10 sample titles: 10 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.
- GSM7971945 Gsdmd cKO muscle
- GSM7971946 Gsdmd cKO muscle 2dpi
- GSM7971947 Gsdmd cKO muscle 10dpi
- GSM7971948 Gsdmd WT control muscle
- GSM7971949 Gsdmd WT muscle 2dpi
- GSM7971950 Gsdmd WT muscle 10dpi
- GSM7971951 control muscle with control treatment 3dpi
- GSM7971952 control muscle with control treatment 10dpi
- GSM7971953 control muscle with EET treatment 3dpi
- GSM7971954 control muscle with EET treatment 10dpi
- GSE254600 Basal-to-inflammatory transition enhances basal cell carcinoma (BCC) therapy resistance via crosstalk with a pro-inflammatory stromal niche [RNA-seq] 22 samples shares crosstalk, niche
- GSE326801 Astrocyte-microglia crosstalk via CSF1 and IFNb promotes central nervous system repair 14 samples shares crosstalk, repair
- GSE248314 Basal-to-inflammatory transition enhances basal cell carcinoma (BCC) therapy resistance via crosstalk with a pro-inflammatory stromal niche 34 samples shares crosstalk, niche
- GSE208359 Itaconate mediates an immunometabolic crosstalk between osteoclasts and osteoblasts 24 samples shares crosstalk
- GSE319015 mtDNA leakage promotes neuron-glia crosstalk to induce epilepsy by cGAS-STING-driven neuroinflammation and serine metabolic reprogramming 10 samples shares crosstalk
- GSE304862 Semaglutide and exercise synergy in obesity: preserving muscle mass and uncovering organ crosstalk 209 samples shares crosstalk
- GSE276761 IL-10-dependent Treg-microglia crosstalk induced by nasal anti-CD3 mAb ameliorates traumatic brain injury by modulating microglial phagocytosis and neuroinflammation. 136 samples shares crosstalk
- GSE327253 IL15 — Driven Crosstalk Between Liver Sinusoidal Endothelial Cells and CD8⁺ Tissue-Resident Memory T Cells Promotes Inflammation in Alcohol-Associated Hepatitis 12 samples shares crosstalk
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.