Transcriptional Evidence for Transient Regulation of Muscle Regeneration by Brown Adipose Transplant in the Rotator Cuff
RNA-seq (gene expression) · mouse · 32 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
- 32 samples: 32 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 GSE254333_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 PRJNA1066850 and SRA study SRP484737. 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 32 sample titles: 32 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.
- GSM8037895 satelite cells, CTL, D3 [sample.ctl_3d_2b_p5]
- GSM8037896 satelite cells, CTL, D3, biol rep 1 [sample.ctl_3d_3a_p5]
- GSM8037897 satelite cells, CTL, D3, biol rep 2 [sample.ctl_3d_3b_p5]
- GSM8037898 satelite cells, CTL, D3, biol rep 3 [sample.ctl_d3_p5]
- GSM8037899 satelite cells, CTL, D7 [sample.ctl_1a_sc]
- GSM8037900 satelite cells, CTL, D7, biol rep 1 [sample.ctl_1b_sc]
- GSM8037901 satelite cells, CTL, D7, biol rep 2 [sample.ctl3_sc_1027]
- GSM8037902 satelite cells, CTL, D7, biol rep 3 [sample.ctl5_sc]
- GSM8037903 satelite cells, BAT, D3 [sample.bat_3d_2b_p5]
- GSM8037904 satelite cells, BAT, D3, biol rep 1 [sample.bat_3d_3a_p5]
- GSM8037905 satelite cells, BAT, D3, biol rep 2 [sample.bat_3d_3b_p5]
- GSM8037906 satelite cells, BAT, D3, biol rep 3 [sample.bat_d3_p5]
- GSM8037907 satelite cells, BAT, D7 [sample.bat_1a_sc]
- GSM8037908 satelite cells, BAT, D7, biol rep 1 [sample.bat_1b_sc]
- GSM8037909 satelite cells, BAT, D7, biol rep 2 [sample.bat3_sc_1027]
- GSM8037910 satelite cells, BAT, D7, biol rep 3 [sample.bat5_sc]
- GSM8037911 fibro-adipogenic progenitors, CTL, D3 [sample.ctl_d3_p6]
- GSM8037912 fibro-adipogenic progenitors, CTL, D3, biol rep 1 [sample.ctl_3d_2b_p6]
- GSM8037913 fibro-adipogenic progenitors, CTL, D3, biol rep 2 [sample.ctl_3d_3a_p6]
- GSM8037914 fibro-adipogenic progenitors, CTL, D3, biol rep 3 [sample.ctl_3d_3b_p6]
- GSM8037915 fibro-adipogenic progenitors, CTL, D7 [sample.ctl_1a_fap]
- GSM8037916 fibro-adipogenic progenitors, CTL, D7, biol rep 1 [sample.ctl_1b_fap]
- GSM8037917 fibro-adipogenic progenitors, CTL, D7, biol rep 2 [sample.ctl3_fap_1027]
- GSM8037918 fibro-adipogenic progenitors, CTL, D7, biol rep 3 [sample.ctl5_fap]
- GSM8037919 fibro-adipogenic progenitors, BAT, D3 [sample.bat_d3_p6]
- GSM8037920 fibro-adipogenic progenitors, BAT, D3, biol rep 1 [sample.bat_3d_2b_p6]
- GSM8037921 fibro-adipogenic progenitors, BAT, D3, biol rep 2 [sample.bat_3d_3a_p6]
- GSM8037922 fibro-adipogenic progenitors, BAT, D3, biol rep 3 [sample.bat_3d_3b_p6]
- GSM8037923 fibro-adipogenic progenitors, BAT, D7 [sample.bat_1a_fap]
- GSM8037924 fibro-adipogenic progenitors, BAT, D7, biol rep 1 [sample.bat_1b_fap]
- GSM8037925 fibro-adipogenic progenitors, BAT, D7, biol rep 2 [sample.bat3_fap_1027]
- GSM8037926 fibro-adipogenic progenitors, BAT, D7, biol rep 3 [sample.bat5_fap]
- GSE306935 The Integrated Stress Response Pathway Improves Aged Murine Muscle Stem Cell Activation and in vivo Regeneration 12 samples shares regeneration, muscle
- GSE304280 α7nAChR activation reduces inflammation and apoptosis, promoting muscle regeneration through the AKT-FOXO1 pathway. 12 samples shares regeneration, muscle
- GSE329069 Deletion of P311 enhances regeneration in aged skeletal muscle 9 samples shares regeneration, muscle
- GSE248916 Metabolic Promotion of Adult and Aging Skeletal Muscle Regeneration by the Serine Biosynthesis Pathway 30 samples shares regeneration, muscle
- GSE254129 Macrophage histone lactylation during ischemia induced-muscle regeneration [CUT&Tag] 16 samples shares regeneration, muscle
- GSE267938 Functional optic tract rewiring via subtype- and target-specific axonal regeneration and presynaptic activity enhancement 256 samples shares regeneration
- GSE276182 NF-κB activation in astrocytes critically affects wound regeneration after traumatic brain injury 51 samples shares regeneration
- GSE226579 Stem Cell Activity-Coupled Suppression of Endogenous Retrovirus Governs Adult Tissue Regeneration [RNA-seq] 47 samples shares regeneration
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.