|
| Status |
Public on Mar 24, 2009 |
| Title |
394T (Xba240) |
| Sample type |
genomic |
| |
|
| Source name |
endometrial cancer
|
| Organism |
Homo sapiens |
| Characteristics |
gender: F
histologic type: endometrioid
metastatic phenotype: FIGO III/IV or recurrence
|
| Treatment protocol |
Genomic DNA was isolated from tissue or cell pellets using SDS/proteinase K followed by phenol/chloroform and isopropanol precipitation, and quantified using Picogreen.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
biotin
|
| Label |
biotin
|
| Label protocol |
DNA was restriction digested, PCR amplified, fragmented, labeled and hybridized to each array according to the manufacturer's instructions.
|
| |
|
| Hybridization protocol |
The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
|
| Scan protocol |
Standard Affymetrix protocol
|
| Description |
n/a
|
| Data processing |
Genotyping was performed using Affymetrix Genotyping Tools Version 2.0. dChip was used to normalize probe-level signal intensities to a baseline array with median intensity using invariant set normalization and obtain SNP-level signal intensities using a model-based (PM/MM) method,
|
| |
|
| Submission date |
Feb 25, 2009 |
| Last update date |
Mar 23, 2009 |
| Contact name |
Rameen Beroukhim |
| Organization name |
Dana-Farber Cancer Institute
|
| Street address |
450 Brookline Ave
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02215 |
| Country |
USA |
| |
|
| Platform ID |
GPL2005 |
| Series (1) |
| GSE14860 |
Integrated genomic profiling of endometrial carcinoma |
|
