|
| Status |
Public on Nov 20, 2019 |
| Title |
single_myofiber_from_old_mouse_SFR1 |
| Sample type |
SRA |
| |
|
| Source name |
single myofiber from old mouse
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
age: old (19 months)
tissue: Extensor digitorum longus myofibers
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from single myofibers using SMART-Seq reaction buffer in RNAse free water
RNA libraries were prepared using the Illumina protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Illumina BaseSpace software was used for basecalling.
Sequenced reads were mapped to mm10 whole genome using hisat2 (v 2.1.0).
htseq-counts (v 0.11.2) (non stranded option) was used with Gencode.vM23 annotation to obtain reads mapped to genes in mm10.
Count tables from htseq-counts, were used by Deseq2 (v 1.24.0) to identify differentially expressed genes.
Genome_build: mm10
Supplementary_files_format_and_content: tab delimited files have read counts for genes in mm10, csv file has differentially expressed genes identified by deseq2
|
| |
|
| Submission date |
Oct 08, 2019 |
| Last update date |
Nov 20, 2019 |
| Contact name |
Vahab Soleimani |
| E-mail(s) |
[email protected]
|
| Organization name |
McGill University
|
| Department |
Human Genetics
|
| Street address |
3640 rue University
|
| City |
Montreal |
| State/province |
QC |
| ZIP/Postal code |
H3A 0C7 |
| Country |
Canada |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE138591 |
Single myofiber RNA-seq of young and old mice |
|
| Relations |
| BioSample |
SAMN12994806 |
| SRA |
SRX6965469 |
