|
| Status |
Public on Nov 01, 2013 |
| Title |
Tumor 03 |
| Sample type |
RNA |
| |
|
| Source name |
Human Breast Tumor
|
| Organism |
Homo sapiens |
| Characteristics |
race: African-American
age: 39
tissue type: Tumor
estrogen receptor status: Negative
triple negative tumor: Yes
Stage: IIB
tumor grade: 3
node status: N0
survival (months): 10
survival event: Dead
death due to cancer: Yes
neoadjuvant therapy: Yes
hormone-therapy: No
chemotherapy: Yes
tumor or normal lhc: 6066
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using TRIZOL reagent (Invitrogen, Carlsbad, CA) as directed by the manufacturer. The quantity and quality of RNA was assessed with a Nanodrop 1000 spectrophotometer (Thermo Scientific, Waltham, MA) and Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).
|
| Label |
biotin
|
| Label protocol |
250 ng of RNA was synthesized to cDNA using the Ambion WT Expression Kit for Affymetrix GeneChip Whole Transcript Expression arrays (Life technologies, Grand Island, NY). Fragmentation and labeling of the cDNA was carried-out using the GeneChip WT Terminal Labeling Kit (Affymetrix) according to standard protocols.
|
| |
|
| Hybridization protocol |
ssDNA was hybridized onto Gene Chip Human Gene 1.0 ST Arrays according to Affymetrix standard protocols (Santa Clara, CA).
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip ® Scanner Scanner 3000 as instructed by the manufacture.
|
| Description |
6066
|
| Data processing |
Expression values were generated by RMA within Affymetrix Expression Console software.
|
| |
|
| Submission date |
May 03, 2012 |
| Last update date |
Jan 09, 2014 |
| Contact name |
Atsushi Terunuma |
| Organization name |
National Cancer Institute
|
| Department |
Dermatology Branch
|
| Street address |
37 Convent Drive, 37/3050
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL6244 |
| Series (2) |
| GSE37751 |
Molecular Profiles of Human Breast Cancer and Their Association with Tumor Subtypes and Disease Prognosis (Affymetrix) |
| GSE39004 |
Molecular Profiles of Human Breast Cancer and Their Association with Tumor Subtypes and Disease Prognosis |
|
