|
| Status |
Public on Jun 05, 2023 |
| Title |
A22B_repeat |
| Sample type |
SRA |
| |
|
| Source name |
tibialis anterior
|
| Organism |
Mus musculus |
| Characteristics |
age: adult (6 months old)
type: Second NextSeq550 Run
|
| Treatment protocol |
N/A
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total cellular RNA was extracted using Trizol Reagent (Life Technologies, CA) according to the manufacturer’s recommendations.
Poly-A plus RNA was enriched from ~0.1 ug of total RNA and used to generate libraries using the NEBNext Ultra II Kit.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 550 |
| |
|
| Data processing |
Base calling was using Illumina's bcl2fastq2-v2.20 converter
A genome index was built with STAR (v2.5.4b) using the mouse mm10 genome .
Reads were aligned to the mouse reference using the STAR software version 2.5.4b with the parameters recommended for the ENCODE consortium.
Read counts per gene were produced with the --quantMode GeneCounts function of STAR. Small non-coding RNAs were not counted.
Differential gene expression was analyzed with the R (version 3.5.1) software DESeq2 (version 1.22.2)
Genome_build: mm10
Supplementary_files_format_and_content: Tab delimited table of raw read counts per gene
|
| |
|
| Submission date |
Jun 09, 2020 |
| Last update date |
Jun 05, 2023 |
| Contact name |
Ted G. Graber |
| E-mail(s) |
[email protected]
|
| Phone |
252-744-6234
|
| Organization name |
East Carolina University
|
| Department |
Physical Therapy
|
| Lab |
Graber Neuromuscular Physiology Lab
|
| Street address |
600 Moye BLVD., Mail Route 668
|
| City |
Greenville |
| State/province |
NC |
| ZIP/Postal code |
27834 |
| Country |
USA |
| |
|
| Platform ID |
GPL21626 |
| Series (1) |
| GSE152133 |
Transcriptome Alterations Associated with Age-Related Decline in Physical Function |
|
| Relations |
| BioSample |
SAMN15189923 |
| SRA |
SRX8511367 |
