|
| Status |
Public on Mar 11, 2014 |
| Title |
TMD_EHL, T4 |
| Sample type |
RNA |
| |
|
| Source name |
Extensor digitorum longus, TMD
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: tibial muscular dystrophy (TMD)
tissue: extensor digitorum longus
age at biopsy: 65
Sex: male
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3 ug total RNA using two-cycle amplification (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on HG-U133 Plus 2.0 Arrays.
|
| Scan protocol |
Arrays were scanned using GeneChip Scanner 3000.
|
| Description |
T4-TMD
|
| Data processing |
Expression values were determined using Affymetrix Microarray Suite 5.0. GeneSpring GX version 11.0 was used to analyze the data using MAS5.0 normalization with all probes with absent flags removed from the data. The data was baseline transformed to the median of all samples. The condition average signal for each probe was filtered by significance using an unpaired t-test with unequal variance (Welch correction, P<0.05) using multiple testing correction (Benjamini-Hochberg), followed by a two-fold change cut-off.
|
| |
|
| Submission date |
Dec 07, 2012 |
| Last update date |
Mar 11, 2014 |
| Contact name |
Mark Andrew Screen |
| E-mail(s) |
[email protected]
|
| Organization name |
Folkhälsan Institute of Genetics, University of Helsinki
|
| Department |
Dpt. of Medical Genetics
|
| Lab |
Neuromuscular disorders
|
| Street address |
Biomedicum1, Haartmaninkatu 8
|
| City |
Helsinki |
| ZIP/Postal code |
FI-00290 |
| Country |
Finland |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE42806 |
Gene expression profiling in tibial muscular dystrophy and control skeletal muscle |
|
