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Sample GSM2976423 Query DataSets for GSM2976423
Status Public on Dec 05, 2019
Title RNA-seq tdTomato MPs 7 day post injury
Sample type SRA
 
Source name Mesenchymal Progenitors
Organism Mus musculus
Characteristics strain: C57BL/6J
tissue: Whole hindlimb muscle
cell type: Mesenchymal Progenitors
time: 7 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 centrifuged, resuspended in RNAzol lysis reagent and further processed as per manufacturers instructions to obtain RNA for library preparation and subsequent NGS.
tru seq stranded mRNA
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description Hic1CreERT2/CreERT2;Rosa26LSLtdTomato/+ MP NTX 7DPI
7 DPI tdTomato MPs.FPKM
Supplemental_Table_4_RNA-seq_MP_muscle_injury.xlsx
Data processing Basecalls were made using RTA v2.1.
Demultiplexing was achieved using bcl2fastq2.
Alignment was performed using Tophat 2 with Bowtie 2.
FPKM values were generated using Cufflinks.
Genome_build: mm10
Supplementary_files_format_and_content: Excel file includes FPKM values for each sample
 
Submission date Feb 01, 2018
Last update date Dec 05, 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)
GSE110015 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 SAMN08452363

Supplementary data files not provided
Raw data are available in SRA
Processed data are available on Series record

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