|
| Status |
Public on Dec 05, 2019 |
| Title |
Single cell RNA-seq tdTomato MPs 14 day post notexin injury |
| Sample type |
SRA |
| |
|
| Source name |
Mesenchymal Progenitors
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6J
tissue: Whole hindlimb muscle
cell type: Mesenchymal Progenitors
time: 14 day post notexin injury
|
| Treatment protocol |
Adult animals 8 weeks of age were injected with 2.5mg tamoxifen in 100uL sunflower oil daily for 5 consecutive days and allowed a ten day washout period before experments were performed.
|
| Growth protocol |
Mice were bred and raised to 8 weeks of age using standard approved animal care committee methodology.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
FACS purified cells were counted and inspected by hemocytometer before input to the 10X chromium library preparation pipeline and subsequent NGS.
10X Chromium Single Cell 3' v2
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Hic1CreERT2/CreERT2;Rosa26LSLtdTomato/+ MP NTX 14DPI
|
| Data processing |
Samples were demultiplexed using cellranger mkfastq with bclfastq2.
Samples were aligned and output matrices generated using cellranger count for alignment.
cellranger aggregate for alignment, matrix etc
Genome_build: mm10 with appended tdTomato and EGFP sequences
Supplementary_files_format_and_content: gene matrices, cell barcode and gene list are included as .mtx, .csv and .csv files, respectively
|
| |
|
| Submission date |
Feb 01, 2018 |
| Last update date |
Dec 08, 2019 |
| Contact name |
Tully Michael Underhill |
| E-mail(s) |
tunderhi@brc.ubc.ca
|
| Phone |
604-822-5833
|
| Organization name |
University of British Columbia
|
| Department |
Biomedical Research Centre
|
| Street address |
2222 Health Sciences Mall
|
| City |
Vancouver |
| State/province |
British Columbia |
| ZIP/Postal code |
V6T 1Z3 |
| Country |
Canada |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE110037 |
Single cell RNA sequencing time-course of mesenchymal progenitors during regeneration after notexin induced muscle injury |
| GSE110038 |
Hic1 defines quiescent mesenchymal progenitor subpopulations with distinct functions and fates in skeletal muscle regeneration |
|
| Relations |
| BioSample |
SAMN08455722 |
