|
| Status |
Public on Jun 03, 2011 |
| Title |
Adjacent non-tumor colorectal tissue 17780 |
| Sample type |
RNA |
| |
|
| Source name |
total RNA from adjacent non-tumor colorectal tissue 17780
|
| Organism |
Homo sapiens |
| Characteristics |
sample type: Fresh Frozen Tissue
disease state: Normal adjacent to colorectal adenocarcinoma
gender: Female
tissue pair: tumor 17754
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using the Trizol reagent according to the manufacturer’s protocol. The quality of the RNA samples was assessed using the Bio-Rad Experion RNA StdSens analysis kit.
|
| Label |
biotin
|
| Label protocol |
Biotinylated, amplified cRNA was prepared from total RNA using the Illumina TotalPrep RNA Amplification Kit.
|
| |
|
| Hybridization protocol |
The biotinylated cRNA was hybridized to the BeadChips per standard Illumina hybridization protocol.
|
| Scan protocol |
The hybridized chips were stained and scanned using the Illumina HD BeadArray following the standard Illumina protocol.
|
| Description |
Paired with tumor 17754
|
| Data processing |
Scanned image and bead-level data processing were performed using the Illumina BeadStudio software v3.2. The summarized data for each bead type were then processed, log2 transformed and normalized using Robust Spline Normalization (RSN) as implemented in the R-based lumi package.
|
| |
|
| Submission date |
Nov 01, 2010 |
| Last update date |
Jun 03, 2011 |
| Contact name |
Toshinori Hinoue |
| E-mail(s) |
thinoue@usc.edu
|
| Phone |
323-442-7458
|
| Organization name |
USC Epigenome Center
|
| Street address |
1450 Biggy Street, NRT G511
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90033-9601 |
| Country |
USA |
| |
|
| Platform ID |
GPL6883 |
| Series (1) |
| GSE25070 |
Gene expression analysis of colorectal tumors and matched adjacent non-tumor colorectal tissues. |
|
