|
| Status |
Public on Jun 04, 2008 |
| Title |
array #1740115250_H, Tumor Liver RNA patient 3 |
| Sample type |
RNA |
| |
|
| Source name |
Tumor Liver
|
| Organism |
Homo sapiens |
| Characteristics |
Tumor Liver from Patient 3 of Acevedo et al., 2008 (PMID: 18413731)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA samples were prepared using Qiagen RNeasy Micro Kit (Qiagen) and then assayed using the Agilent Systems Bioanalyzer 2100 to ensure that high-quality RNA was used for the array experiments.
|
| Label |
Cy3
|
| Label protocol |
Targets were prepared from 200 ng total RNA using Illumina TotalPrep RNA Amplification Kit (Ambion, catalog #AMIL1791)
|
| |
|
| Hybridization protocol |
Illumina HumanRef-8 BeadChips were hybridized, washed, stained and scanned according to Illumina’s protocol using the updated wash procedure
|
| Scan protocol |
Processed arrays were read using Illumina BeadReader according to the manufacturer's instructions.
|
| Description |
Note PMT1 settings
|
| Data processing |
Data were extracted with Illumina BeadStudio software using background subtraction and cubic spline normalization. Data were then adjusted by shifting the absolute minimum value for each array to be equal to 1; and then log2 transformed.
|
| |
|
| Submission date |
May 21, 2008 |
| Last update date |
Jun 04, 2008 |
| Contact name |
Mark Bieda |
| E-mail(s) |
markb7002000@yahoo.com
|
| Organization name |
University of Calgary
|
| Department |
Biochemistry and Molecular Biology
|
| Lab |
Bieda
|
| Street address |
3330 Hospital Dr NW
|
| City |
Calgary |
| State/province |
AB |
| ZIP/Postal code |
T2N4N1 |
| Country |
Canada |
| |
|
| Platform ID |
GPL6255 |
| Series (1) |
| GSE10842 |
Tumor Liver vs Normal Liver: ChIP-chip and RNA expression |
|
