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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
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|
|
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
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|
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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 |