|
| Status |
Public on Sep 03, 2008 |
| Title |
type 2 diabetes subject 01 |
| Sample type |
RNA |
| |
|
| Source name |
myotubes from type 2 diabetes subject
|
| Organism |
Homo sapiens |
| Characteristics |
Only sedentary male subjects were recruited. Patients with type 2 diabetes were either treated by diet alone or in combination with sulphonylurea or metformin, which were withdrawn one week prior to the study. The patients were all GAD65 antibody negative and without signs of diabetic retinopathy, nephropathy, neuropathy or macrovascular complications.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was prepared from muscle cell cultures using RNeasy (Qiagen)
|
| Label |
biotin
|
| Label protocol |
In vitro transcription was performed on 1 µg of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics, USA)
|
| |
|
| Hybridization protocol |
10 µg of fragmented cRNA were hybridised to a U95Av2 GeneChip (Affymetrix) using their standard procedure (45°C, 16-h). Washing and staining was performed in a Fluidics Station 400 (Affymetrix) using the protocol EukGE-WS2v4.
|
| Scan protocol |
Scanned in an Affymetrix GeneChip 2500 scanner.
|
| Description |
type 2 diabetes subject 01
|
| Data processing |
Microarray normalisation and calculation of expression measures were performed using Robust Multiarray Average, implemented in the statistical package R provided by Bioconductor (Seattle, WA, USA). The expression values were log 2 transformed to obtain a normal distribution across arrays and samples. Before analysing the expression data we removed Affymetrix control probes, resulting in a total of 12,558 probes.
|
| |
|
| Submission date |
Sep 02, 2008 |
| Last update date |
Mar 16, 2009 |
| Contact name |
Casper Frederiksen |
| Organization name |
Odense University Hospital
|
| Street address |
Kloevervaenget 6
|
| City |
Odense |
| ZIP/Postal code |
DK-5000 |
| Country |
Denmark |
| |
|
| Platform ID |
GPL8300 |
| Series (1) |
| GSE12643 |
Transcription profiling of myotubes from patients with type 2 diabetes |
|
