|
| Status |
Public on May 20, 2020 |
| Title |
Skeletal Muscle, M-M-11 |
| Sample type |
SRA |
| |
|
| Source name |
Basal_Young_Adult
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: control
tissue: Skeletal Muscle (vastus lateralis muscle)
age: 27
Sex: Female
subject_id: YA-03
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Skeletal muscle samples were homogenized in a Bead Ruptor Elite bead mill homogenizer cooled by liquid nitrogen to 10°C for 2 x 20 seconds at 4.2 m/s. Muscle homogenates were processed using the Agencourt RNAdvance Tissue Kit on a BioMek FXP Laboratory Automation Workstation
cDNA libraries were constructed from 250 ng of total RNA using the Universal Plus mRNA-Seq kit from NuGEN
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
The RNA-seq fastq files were aligned with STAR v2.5.1b with the human GENCODE annotation.
featureCounts v1.5.0-p1 is used to summarize the reads for all genes and samples.
Genome_build: hg38
Supplementary_files_format_and_content: tab delimited file including the counts of reads for all genes and for all samples
|
| |
|
| Submission date |
Nov 07, 2019 |
| Last update date |
May 20, 2020 |
| Contact name |
Yongchao Ge |
| E-mail(s) |
yongchao.ge@gmail.com
|
| Organization name |
Icahn School of Medicine at Mount Sinai
|
| Department |
Neurology
|
| Street address |
One Gustave L Levy Place #1137
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10029 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE140089 |
Rehabilitative Impact of Exercise Training on Human Skeletal Muscle Transcriptional Programs in Parkinson’s Disease |
|
| Relations |
| Reanalysis of |
GSM3666162 |
| BioSample |
SAMN13231745 |
| SRA |
SRX7115128 |
