PdgfrB signaling impairs skeletal muscle regeneration
RNA-seq (gene expression) · mouse · 15 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
- 15 samples: 5 × Myocont vs 5 × Myopb vs 5 × myopbaGroups 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
- Suppressing PDGFRβ Signaling Enhances Myocyte Fusion to Promote Skeletal Muscle RegenerationbioRxiv : the preprint server for biology · 2024
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 GSE279532_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 PRJNA1173208 and SRA study SRP538716. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 15 samples.
How we read this: 3 replicated groups read from 15 sample titles; they account for 15 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.
- GSM8574737 Myocont 1 Myocont
- GSM8574738 Myocont 2 Myocont
- GSM8574739 Myocont 3 Myocont
- GSM8574740 Myocont 4 Myocont
- GSM8574741 Myocont 5 Myocont
- GSM8574742 Myopb1 Myopb
- GSM8574743 Myopb2 Myopb
- GSM8574744 Myopb3 Myopb
- GSM8574745 Myopb4 Myopb
- GSM8574746 Myopb5 Myopb
- GSM8574747 myopba1 myopba
- GSM8574748 myopba2 myopba
- GSM8574749 myopba3 myopba
- GSM8574750 myopba4 myopba
- GSM8574751 myopba5 myopba
- GSE329069 Deletion of P311 enhances regeneration in aged skeletal muscle 9 samples shares regeneration, skeletal, muscle
- GSE255246 Intrauterine hyperglycemia during late gestation caused mitochondrial dysfunction in skeletal muscle of male offspring through CREB/PGC1A signaling 10 samples shares skeletal, muscle
- GSE237747 Transcriptomic profiling across 20 CC-RIX genetic backgrounds with and without high-fat high-sugar (HFHS) diet, and with and without metformin [skeletal muscle] 703 samples shares skeletal, muscle
- GSE267727 Transcriptome profiling of non-islet metabolic tissues in ~500 DO mouse liver, adipose, heart, and skeletal muscle tissue from mice fed high-fat, high-sugar diet [heart] 482 samples shares skeletal, muscle
- GSE266549 Transcriptome profiling of non-islet metabolic tissues in ~500 DO mouse liver, adipose, and skeletal muscle tissue from mice fed high-fat, high-sugar diet. [Adipose] 468 samples shares skeletal, muscle
- GSE253735 Loss of skeletal muscle Bmal1 +/- Exercise Training [Mouse liver, heart, inguinal white adipose and lung tissues 64 samples shares skeletal, muscle
- GSE266918 RNA-seq expression analysis of liver, adipose, skeletal muscle, heart, and pancreatic islets from DO founder strain mice fed high-fat, high-sugar diet. [heart] 63 samples shares skeletal, muscle
- GSE266923 RNA-seq expression analysis of liver, adipose, skeletal muscle, heart, and pancreatic islets from DO founder strain mice fed high-fat, high-sugar diet. [liver] 61 samples shares skeletal, 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.