|
| Status |
Public on Jun 01, 2011 |
| Title |
non-triple negative breast cancer tumor B34 |
| Sample type |
RNA |
| |
|
| Source name |
Breast cancer tissue
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: non-triple negative breat cancer tumor
|
| Treatment protocol |
all tumors are pretreatment tumors
|
| Growth protocol |
All tumor tissues were collected from IRB 06206 protocol of City of Hope National Medical Center
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Qiagen RNA extraction kit was used according to manufacturer's guide
|
| Label |
biotin
|
| Label protocol |
One µg of each sample was processed using the Affymetrix GeneChip Whole Transcript Sense Target Labeling Assay (https://www.affymetrix.com/support/downloads/manuals/wt_sensetarget_label_manual.pdf)
|
| |
|
| Hybridization protocol |
The hybridization cocktails containing 2.5 ug of the fragmented, end-labeled cDNA were applied to the GeneChip® Mouse Gene 1.0 ST arrays. Hybridization was performed for 16 hours, and the arrays were washed and stained with the GeneChip Fluidics Station 450 using FS450_0007 script.
|
| Scan protocol |
Arrays were scanned using the Affymetrix GCS 3000 7G and GeneChip Operating Software v. 1.4 to produce CEL intensity files.
|
| Description |
Tumor tissue from sample B34
|
| Data processing |
Data were background corrected with GC bin, quantile normalized and summarized by interPLIER algorithm with Affymetrix Expression Console.
|
| |
|
| Submission date |
Feb 22, 2011 |
| Last update date |
Jun 01, 2011 |
| Contact name |
Xiwei Wu |
| E-mail(s) |
xwu@coh.org
|
| Organization name |
City of Hope National Medical Center
|
| Department |
Computational and Quantitative Medicine
|
| Street address |
1500 E. Duarte Rd.
|
| City |
Duarte |
| State/province |
CA |
| ZIP/Postal code |
91010 |
| Country |
USA |
| |
|
| Platform ID |
GPL6244 |
| Series (1) |
| GSE27447 |
FZD7 Plays a Critical Role in Triple Negative Breast Cancer Proliferation |
|
