|
| Status |
Public on Mar 21, 2023 |
| Title |
Pax7Cre_Run1 |
| Sample type |
SRA |
| |
|
| Source name |
Myogenic progenitor cells
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Skeletal muscle
cell type: Myogenic progenitor cells
genotype: WT (Pax7Cre)
treatment: Cardiotoxin-induced muscle regeneration
|
| Treatment protocol |
Intramuscular injection of Cardiotoxin was performed under anaesthesia to induce muscle regeneration.
|
| Growth protocol |
12-week-old mice were used for the experiment.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
On day 6 of CTX-induced skeletal muscle regeneration, TA muscles of both hindlimb legs were dissected, digested, and subjected to flow cytometry. After exclusion of doublets and dead cells, myogenic progenitor cells were sorted based on the expression of alpa7 integrin and the exclusion of CD45/CD31/sca1. Subsequently, single cell suspension was generated using Chromium.
Chromium Single Cell 3' Reagent Kits User Guide (v3.1 Chemistry).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
10x snRNAseq
Single cell RNA
|
| Data processing |
Mapping was performed by cellranger.
Cellbender was used to remove empty droplets and ambient RNA.
scDblFinder was used to exclude potential doublets.
Downstream analysis was performed by Seurat.
Assembly: GRCm39
Supplementary files format and content: Raw count matrices from Cell Ranger. barcodes.tsv, features.tsv, matrix.mtx files.
|
| |
|
| Submission date |
Apr 08, 2022 |
| Last update date |
Apr 06, 2023 |
| Contact name |
Genome Informatics |
| E-mail(s) |
fgcz.gi@gmail.com
|
| Organization name |
ETH ZURICH / University of Zurich
|
| Department |
Functional Genomics Center Zurich (FGCZ)
|
| Street address |
Winterthurerstrasse 190
|
| City |
Zurich |
| ZIP/Postal code |
8057 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE200501 |
A myogenin+/CD74+ adult muscle stem cell population during regeneration of skeletal muscle lacking miR-501 |
|
| Relations |
| BioSample |
SAMN34098437 |
| SRA |
SRX19893963 |
