Spatial transcriptomics and scRNA-sequencing on gastrocnemius muscle form B6-mdx and D2-mdx mice
Spatial transcriptomics · mouse · 8 samples
- What it is
- Spatial transcriptomicsGene activity measured with its position in a tissue section.
- Organism
- Mus musculus (mouse)
- Samples
- 8 samples: 8 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
- Stimulation of EGFR signaling in fibro-adipogenic precursors decreases adipogenesis in Duchenne muscular dystrophySkeletal muscle · 2026
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 GSE297388_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: Spatial studies usually ship Space Ranger style folders (count matrix plus tissue images). Look for them among the supplementary files.
Also filed as BioProject PRJNA1263731 and SRA study SRP586050. 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 8 sample titles: 8 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.
- GSM8989875 C_S3
- GSM8989876 D_S4
- GSM8989877 D-GA-B6mdx_S3
- GSM8989878 C-GA-D2-mdx_S1
- GSM8989879 BM_S2
- GSM8989880 BW_S1
- GSM8989881 DM_S4
- GSM8989882 DW_S3
- GSE266882 Analysis of gastrocnemius muscle transcriptome from chow fed control and skeletal muscle HuR knockout mice with and without voluntary wheel running 56 samples shares gastrocnemius, muscle
- GSE267211 Transcriptomics analysis of white adipose tissue, gastrocnemius muscle and liver tissues from Ogg1Tg mice. 6 samples shares gastrocnemius, muscle
- GSE263106 Effect of muscle-specific Pex5 depletion on gene expression in gastrocnemius muscle 36 samples shares gastrocnemius, muscle
- GSE325832 RNA-seq analysis of skeletal muscle from control (Cre) and Terf2 knockout (KO) mice in gastrocnemius-plantaris-soleus (GPS) and tibialis anterior (TA) 35 samples shares gastrocnemius, muscle
- GSE226676 Splicing changes in gastrocnemius muscle from 3-month-old HSALR mice 16 samples shares gastrocnemius, muscle
- GSE263105 Effect of muscle-specific Pex5 depletion on gene expression in gastrocnemius muscle in 18 months-old mice 14 samples shares gastrocnemius, muscle
- GSE263104 Effect of muscle-specific Pex5 depletion on gene expression in gastrocnemius muscle in 9 months-old mice 13 samples shares gastrocnemius, muscle
- GSE249868 Effect of Calcipotriol on gene expression in gastrocnemius muscle of SKO mice. 12 samples shares gastrocnemius, muscle
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.