|
| Status |
Public on Jun 11, 2024 |
| Title |
Myoblasts REST-cKO 3 |
| Sample type |
SRA |
| |
|
| Source name |
skeletal muscle/ cultured myoblasts
|
| Organism |
Mus musculus |
| Characteristics |
tissue: skeletal muscle/ cultured myoblasts
Sex: male
genotype: REST-cKO
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Muscle Stem Cells (ITGA7+/VCAM1+/CD11b-/CD45-/CD31-/Ly6a-) were isolated by Fluorescence Activated Cell Sorting (FACS) into SMART lysis buffer. EDL muscle was dissected and myofibers were isolated as previously described (Blackburn, D.M. et al. Journal of Biological Chemistry, 2019). After isolation and selection of a single myofiber, myofibers were lysed SMART lysis buffer and libraries generated as previously described (Blackburn, D.M. et al. Journal of Biological Chemistry, 2019).
RNA-Seq libraries were made using SMART-Seq for the conversion of cDNA followed by Nextera XT for incorporation of Illumina sequencing.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Illumina BaseSpace software was used for basecalling.
Data was analysed using the GenPipes pipeline v.3.1.5 (https://academic.oup.com/gigascience/article/8/6/giz037/5513895)
Assembly: mm10
Supplementary files format and content: The bigWig files are normalized genome-wide signal coverage tracks used for visual inspection of the peaks and comparison between conditions
|
| |
|
| Submission date |
May 06, 2024 |
| Last update date |
Jun 11, 2024 |
| Contact name |
Vahab D. Soleimani |
| E-mail(s) |
vahab.soleimani@mcgill.ca
|
| Organization name |
Jewish General Hospital
|
| Department |
Lady Davis Institute for Medical Research
|
| Street address |
3755 Chem. de la Côte-Sainte-Catherine
|
| City |
Montreal |
| State/province |
Quebec |
| ZIP/Postal code |
H3T 1E2 |
| Country |
Canada |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE266726 |
RNASeq of MuSCs and single myofibers |
|
| Relations |
| BioSample |
SAMN41238616 |
| SRA |
SRX24475682 |
