|
| Status |
Public on Jun 22, 2008 |
| Title |
B33 |
| Sample type |
genomic |
| |
|
| Source Name |
hepatocellular carcinoma
|
| Organism(s) |
Homo sapiens |
| Characteristics |
BCLC_staging : A
Age : 68
Sex : M
Code+F1 : resection
Class : Unannotated
AFP : 4
TP53 mutation : 0
CTNNB1 mutation : 0
Immunocytochemistry : pRPS6 : 0
Immunocytochemistry : pIGFR1 : 0
Immunocytochemistry : pAkt : 0
Immunocytochemistry : CTNNB1 : 0
|
| Growth protocol |
Tumors obtained at time of surgical resection or transplantation, according to institutional review board approved protocols
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted with the ChargeSwitch gDNA mini kit (Invitrogen) according to manufacturer's instructions, followed by phenol-chloroform extraction
|
| Label |
biotin
|
| Label protocol |
Affymetrix standard procedure
|
| |
|
| Hybridization protocol |
Affymetrix standard procedure
|
| Scan protocol |
Affymetrix standard procedure
|
| Description |
103 hepatocellular carcinomas and 95 adjacent cirrhotic, non-tumoral liver tissue were obtained at the time of surgical resection of orthotopic transplantation.
|
| Data processing |
Copy numbers were estimated by the GenePattern SNPFileCreator module
|
| |
|
| Submission date |
Dec 11, 2007 |
| Contact name |
Derek Chiang |
| E-mail(s) |
dchiang@broad.mit.edu
|
| Organization name |
Broad Institute of MIT & Harvard
|
| Street address |
7 Cambridge Center
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02142 |
| Country |
USA |
| |
|
| Platform ID |
GPL3720 |
| Series (2) |
| GSE9829 |
Focal gains of VEGFA and molecular classification of hepatocellular carcinoma |
| GSE9845 |
Copy number alterations of 103 hepatocellular carcinomas with hepatitis C virus etiology |
|
