|
| Status |
Public on Feb 16, 2019 |
| Title |
trained_baseline_NE_6 |
| Sample type |
SRA |
| |
|
| Source name |
muscle vastus lateralis
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: skeletal muscle
individual: 6
age: 22
training status: trained
time point: baseline
exercised/non-exercised muscle: non-exercised (NE)
Sex: male
|
| Treatment protocol |
An exercise session (60 min, one-legged knee extension, ~65% of maximal power in the one-legged ramp test) started 2 h 35 min after a standardized breakfast. The participants ate a standardized lunch 1 h 20 min after the exercise session. This test session was repeated after an aerobic training programme (2 month, 1 h/day, 5 sessions/week) comprised training sessions on cycle ergometer (60 min) that alternated between continuous and intermittent exercise.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Samples from the vastus lateralis muscle were taken using a microbiopsy technique and were frozen in liquid nitrogen; RNA was extracted from the samples using an RNeasy mini kit (Qiagen) with DNase treatment (Fermentas, Lithuania)
Libraries were constructed from 300 ng of RNA using a NEB Next Ultra II RNA kit. Poly-A mRNA was isolated using magnetic particles associated with 24-dT oligonucleotides by means of NEB Next Poly(A) mRNA Magnetic Isolation Module.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
8P0
|
| Data processing |
Quality control and trimming were performed using Trimmomatic v0.36
High-quality reads were mapped to the reference human genome GRCh38 and exon–exon junctions were identified using HISAT v2.1.0
Reads were counted for known exons of each gene using HTseq v0.6.1
Normalization of read counts provided by DESeq method
Genome_build: GRCh38
Supplementary_files_format_and_content: Two tab-delimited text files include normalized read counts and FPKM for each sample
|
| |
|
| Submission date |
Oct 04, 2018 |
| Last update date |
Feb 16, 2019 |
| Contact name |
Pavel Makhnovsky |
| E-mail(s) |
maxpauel@gmail.com
|
| Organization name |
Institute of Biomedical Problems of the Russian Academy of Sciences
|
| Lab |
Laboratory of muscle physiology
|
| Street address |
76A Khoroshevskoye shosse
|
| City |
Moscow |
| ZIP/Postal code |
123007 |
| Country |
Russia |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE120862 |
Contractile activity-specific transcriptome response to acute endurance exercise and training in human skeletal muscle |
|
| Relations |
| BioSample |
SAMN10180059 |
| SRA |
SRX4801261 |
