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GEO help: Mouse over screen elements for information. |
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Status |
Public on Jun 22, 2008 |
Title |
Gene expression profiling of 91 hepatocellular carcinomas with hepatitis C virus etiology |
Organism |
Homo sapiens |
Experiment type |
Expression profiling by array
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Summary |
To characterize the genetic alterations that instigate hepatitis C virus-induced hepatocellular carcinoma (HCC), we conducted an integrative genomic analysis of 103 HCCs. Most tumors harbored 1q gain, 8q gain or 8p loss, with occasional alterations in 13 additional chromosome arms. In addition to amplifications at 11q13 in 6 tumors, 4 tumors harbored focal gains at 6p21 incorporating VEGFA, which were confirmed in 4 of 113 HCC in an independent validation set. Strikingly, this locus overlapped with copy gains in 4 of 371 lung adenocarcinomas. Overexpression of VEGFA via 6p21 gain suggested a cell-nonautonomous mechanism of oncogene activation. Hierarchical clustering of gene expression among 91 tumors identified 5 classes, including ‘Wnt-CTNNB1’, ‘proliferation’ and ‘interferon-related’ gene classes. We also discovered a novel class defined by polysomy of chromosome 7, gains of which were associated with early tumor recurrence after resection. These findings reveal key alterations in HCC pathogenesis and implicate potential therapeutic targets. Keywords: disease state analysis
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Overall design |
91 hepatocellular carcinomas were obtained at the time of surgical resection or orthotopic transplantation.
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Contributor(s) |
Chiang DY, Villanueva A, Hoshida Y, Peix J, Newell P, Minguez B, Cozza A, Donovan DJ, Thung SN, Sole M, Tovar V, Alsinet C, Ramos A, Barretina J, Roayaie S, Schwartz M, Najfeld V, Bruix J, Mazzaferro V, Ligon AH, Waxman S, Friedman S, Sellers WR, Meyerson M, Llovet JM |
Citation(s) |
18701503, 21320499, 21324318, 25826076 |
Submission date |
Dec 11, 2007 |
Last update date |
Jun 10, 2019 |
Contact name |
Derek Chiang |
E-mail(s) |
chiang@med.unc.edu
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Organization name |
University of North Carolina
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Department |
Department of Genetics
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Street address |
UNC Lineberger Cancer Center, 450 West Drive, CB #7295
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City |
Chapel Hill |
State/province |
NC |
ZIP/Postal code |
27599-7295 |
Country |
USA |
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Platforms (1) |
GPL570 |
[HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array |
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Samples (91)
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This SubSeries is part of SuperSeries:
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GSE9829 |
Focal gains of VEGFA and molecular classification of hepatocellular carcinoma |
GSE20140 |
Combining Clinical, Pathology, and Gene Expression Data to Predict Recurrence of Hepatocellular Carcinoma |
GSE20238 |
Gene Signature to Identify Vascular Invasion in Human Hepatocellular Carcinoma |
GSE20596 |
MicroRNA-Based Classification of Hepatocellular Carcinoma and Oncogenic Role of miR-517a |
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Relations |
BioProject |
PRJNA105125 |
Supplementary file |
Size |
Download |
File type/resource |
GSE9843_RAW.tar |
501.0 Mb |
(http)(custom) |
TAR (of CEL) |
GSE9843_clinical_info.txt |
5.6 Kb |
(ftp)(http) |
TXT |
GSE9843_liver_20070615_ACE-ncbi35_min3.txt |
40.5 Mb |
(ftp)(http) |
TXT |
Processed data included within Sample table |
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