|
| Status |
Public on Dec 05, 2019 |
| Title |
Lineage negative fraction replicate 4 |
| Sample type |
SRA |
| |
|
| Source name |
lineage negative mononuclear cell fraction
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6J
tissue: Whole hindlimb muscle
cell population: lineage negative mononuclear cell fraction
|
| 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 |
Lin - 4
Lin - 4.FPKM
Supplemental_Table_1_RNA-seq_Mononuclear_fractions.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) |
| GSE110013 |
Transcript sequencing of mononuclear fractions from dissociated murine skeletal muscle |
| GSE110038 |
Hic1 defines quiescent mesenchymal progenitor subpopulations with distinct functions and fates in skeletal muscle regeneration |
|
| Relations |
| BioSample |
SAMN08452279 |
