|
| Status |
Public on Jun 05, 2013 |
| Title |
DCM5 mRNA |
| Sample type |
RNA |
| |
|
| Source name |
Total RNA from DCM Sample
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: heart left ventricle
|
| Treatment protocol |
All human heart samples were obtained either from fresh, surgicaly-removed patients undergoing heart transplantation or non-failing controls unsuitable for organ donation. Each sample was quickly flash frozen in liquid nitrogen and stored at -80°C until needed.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the RNeasy Mini kit (Qiagen Inc.) and cDNA was synthesized using Superscript Double-Stranded cDNA Synthesis kit (Invitrogen/Life Technologies). cDNA quality was determined using a Spectramax 190 plate reader (Molecular Devices) for A260 and A280 absorbance determination along with gel electrophoresis.
|
| Label |
Cy3
|
| Label protocol |
DNA labeling was completed using NimbleGen labeling Kit (Cat #06370411001) following their standard operating protocol.
|
| |
|
| Hybridization protocol |
Hybridization was completed using NimbleGen Hybridization Kit (Cat # 05583683001)following their standard operating protocol.
|
| Scan protocol |
Scanning was performed using Roche NimbleGen MS200 Microarray Scanner following the manufacturer's standard protocol.
|
| Data processing |
The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction as implemented in the NimbleScan software package (Roche NimbleGen, Inc.).
|
| |
|
| Submission date |
Jan 10, 2013 |
| Last update date |
Jun 05, 2013 |
| Contact name |
William Lewis |
| Organization name |
Emory University
|
| Department |
Pathology
|
| Lab |
Lewis Lab
|
| Street address |
101 Woodruff Circle
|
| City |
Atlanta |
| State/province |
Georgia |
| ZIP/Postal code |
30322 |
| Country |
USA |
| |
|
| Platform ID |
GPL15338 |
| Series (1) |
| GSE43435 |
Thymidine Kinase and mtDNA Depletion in Human Cardiomyopathy: Epigentic and Translational Evidence for Energy Starvation |
|
