|
Status |
Public on Jun 22, 2008 |
Title |
B90 |
Sample type |
RNA |
|
|
Source name |
hepatocellular carcinoma
|
Organism |
Homo sapiens |
Characteristics |
vascular invasion: Yes bclc_staging: A age: 69 Sex: F code: resection class: Unannotated afp: 7 tp53 mutation: 0 ctnnb1 mutation: 0 immunohistochemistry: pRPS6 : 0 immunohistochemistry: pIGFR1 : 0 immunohistochemistry: pAkt : 0 immunohistochemistry: CTNNB1 : 1 used for prognostic prediction: yes used for microrna profiling: Yes uhrf1 study: Used in UHRF1 study (Mudbhary, et al., 2013)
|
Growth protocol |
Tumors obtained at time of surgical resection or transplantation, according to institutional review board approved protocols
|
Extracted molecule |
total RNA |
Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
Label |
biotin
|
Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 micrograms total RNA.
|
|
|
Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized according to the standardized protocol from Affymetrix
|
Scan protocol |
Affymetrix standard procedure
|
Description |
91 hepatocellular carcinomas were obtained at the time of surgical resection or orthotopic transplantation.
|
Data processing |
RMA. Supplementary data file also contains RMA based on AceView probeset remappings (PMID: 15850491, 16925834)
|
|
|
Submission date |
Dec 11, 2007 |
Last update date |
Aug 28, 2018 |
Contact name |
Derek Chiang |
E-mail(s) |
chiang@med.unc.edu
|
Organization name |
University of North Carolina
|
Department |
Department of Genetics
|
Street address |
UNC Lineberger Cancer Center, 450 West Drive, CB #7295
|
City |
Chapel Hill |
State/province |
NC |
ZIP/Postal code |
27599-7295 |
Country |
USA |
|
|
Platform ID |
GPL570 |
Series (4)
|
GSE9829 |
Focal gains of VEGFA and molecular classification of hepatocellular carcinoma |
GSE9843 |
Gene expression profiling of 91 hepatocellular carcinomas with hepatitis C virus etiology |
GSE20238 |
Gene Signature to Identify Vascular Invasion in Human Hepatocellular Carcinoma |
GSE20596 |
MicroRNA-Based Classification of Hepatocellular Carcinoma and Oncogenic Role of miR-517a |
|
Relations |
Reanalyzed by |
GSE51798 |
Reanalyzed by |
GSE119087 |