|
| Status |
Public on Nov 30, 2005 |
| Title |
MicMa709_AB_REP2 |
| Sample type |
RNA |
| |
|
| Source name |
biopsy of breast carcinoma
|
| Organism |
Homo sapiens |
| Characteristics |
early stage, breast carcinoma
|
| Extracted molecule |
total RNA |
| Extraction protocol |
biopsy samples were fresh frozen immediately after surgery and stored at -80oC. All specimens analyzed contained more than 40% tumor cells (of the total number of cells counted). The majority of tumors were invasive ductal carcinomas, tumor status T1-T2 and histological grade 2 and 3 (Table S1). Total RNA was isolated by phenol-chloroform extraction (TRIzol reagent, Invitrogen), the quality and integrity of the total RNA was evaluated on the 2100 Bioanalyzer (Agilent Technologies) and the concentration was measured using a NanoDrop spectrophotometer (NanoDrop Technologies).
|
| Label |
DIG-UTP
|
| Label protocol |
Digoxigenin-UTP labeled cRNA was generated and amplified from 2 ?g of total RNA from each sample using Applied Biosystems Chemiluminescent RT-IVT Labeling Kit v 1.0 (P/N 4340472) according to the manufacturer’s protocol (P/N 4339629).
|
| |
|
| Hybridization protocol |
Array hybridization was performed for 16 hrs at 55 oC. Chemiluminescence detection, image acquisition and analysis were performed using Applied Biosystems Chemiluminescence Detection Kit (P/N 4342142) and Applied Biosystems 1700 Chemiluminescent Microarray Analyzer (P/N 4338036) following the manufacturer’s protocol (P/N 4339629).
|
| Scan protocol |
image acquisition and analysis were performed using Applied Biosystems Chemiluminescence Detection Kit (P/N 4342142) and Applied Biosystems 1700 Chemiluminescent Microarray Analyzer (P/N 4338036) following the manufacturer’s protocol (P/N 4339629).
|
| Description |
biopsy of breast carcinoma
|
| Data processing |
Images were auto-gridded and the chemiluminescent signals were quantified, corrected for background, and finally, spot- and spatially-normalized using the Applied Biosystems 1700 Chemiluminescent Microarray Analyzer software v 1.1 (P/N 4336391).
|
| |
|
| Submission date |
Aug 08, 2005 |
| Last update date |
Oct 28, 2005 |
| Contact name |
Yulei Wang |
| E-mail(s) |
wangyy@appliedbiosystems.com
|
| Organization name |
Applied Biosystems
|
| Street address |
850 Lincoln Centre Dr
|
| City |
Foster City |
| State/province |
CA |
| ZIP/Postal code |
94404 |
| Country |
USA |
| |
|
| Platform ID |
GPL1426 |
| Series (1) |
| GSE3155 |
Gene expression profiling of the 20 human early breast carcinomas by three miaroarray platforms |
|
