|
| Status |
Public on Jun 14, 2012 |
| Title |
Biceps_Pompe_3 |
| Sample type |
RNA |
| |
|
| Source name |
Biceps muscle, Pompe patient
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Biceps muscle
patient: P.b.3
diagnosis: Pompe
treatment: None
treatment time (rhgaa): --
gender: M
age at baseline: 7m
motor status (52 weeks treatment): --
change in glycogen content (52 weeks treatment): --
response: --
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from biceps biopsies was extracted using the RNeasy Fibrous Mini Kit (Qiagen) according to the manufacturer's instructions. Quadriceps biopsies were homogenized in Trizol reagent (Invitrogen) using the Geno/Grinder (Zymo Research) and total RNA was isolated following phase separation and precipitation.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cDNA was prepared using the Ovation Biotin RNA Amplification and Labeling System (NuGEN Technologies, Inc.)
|
| |
|
| Hybridization protocol |
Following fragmentation, 2.2 ug of labeled cDNA were hybridized for 16 hr at 45C to U133 Plus2.0 GeneChips in an Affymetrix Model 640 hybridization oven. GeneChips were washed and stained on an Affymetrix FS450 Fluidics station.
|
| Scan protocol |
The arrays were scanned on an Affymetrix GeneChip Scanner 3000 7G.
|
| Data processing |
The data were analyzed with JMP Genomics (SAS Institute), using the RMA algorithm. RMA was run separately for biceps and quadriceps.
|
| |
|
| Submission date |
Jun 13, 2012 |
| Last update date |
Jun 14, 2012 |
| Contact name |
Adam T Palermo |
| E-mail(s) |
adam.palermo@genzyme.com
|
| Organization name |
Genzyme
|
| Department |
Functional Genomics
|
| Street address |
49 New York Ave
|
| City |
Framingham |
| State/province |
MA |
| ZIP/Postal code |
01701 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE38680 |
GAA deficiency (Pompe Disease) in infantile-onset patients |
|
