|
| Status |
Public on Nov 04, 2014 |
| Title |
muscle_T1_13_rep2 |
| Sample type |
genomic |
| |
|
| Source name |
vastus lateralis muscle, before training, subject 13
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: vastus lateralis muscle
slide: 6164621122
array: R01C02
batch: B
group: T1
subject: 13
gender: male
|
| Treatment protocol |
Healthy, sedentary subjects performed supervised one-legged, knee-extension exercise training for three months. Skeletal muscle biopsies from the vastus lateralis were taken at rest, before and after the training period.
|
| Growth protocol |
none
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was isolated with the Gentra Puregene Tissue Kit (Qiagen) from 5-10 mg muscle tissue
|
| Label |
Cy3 and Cy5
|
| Label protocol |
Standard Illumina Protocol
|
| |
|
| Hybridization protocol |
Bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450 Beadchip using standard Illumina protocol
|
| Scan protocol |
Beachips were scanned using an iScan
|
| Data processing |
Raw intesities exported from GenomeStudio were imported into R. Probes on chromosomes X and Y were removed. Probes with a detection P-value > 0.01 exceeding 5% of the samples were also filtered out. Color-bias adjustment and quantile normalization were performed as implemented in lumi. BMIQ correction was applied to correct for probe type bias. Finally, M-values were batch-corrected usign the ComBat function.
|
| |
|
| Submission date |
Aug 22, 2014 |
| Last update date |
Nov 05, 2014 |
| Contact name |
Francesco Marabita |
| E-mail(s) |
francesco.marabita@ki.se
|
| Organization name |
Karolinska Institutet
|
| Street address |
Karolinska University Hospital
|
| City |
Stockholm |
| ZIP/Postal code |
17176 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL13534 |
| Series (1) |
| GSE60655 |
DNA methylation analysis of human skeletal muscle after endurance training |
|
