ArrayExpress Uploaderarrayexpress_sidhumanInflammationCTNNB1 mutation: not available, TP53 mutation: negativepAkt not available, pIGFR1 not available, CTNNB1 not available, pRPS6 not availableUnannotatedCTNNB1 mutation: negative, TP53 mutation: 256G>GT | R249R/SpAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 negativePolysomy chr7CTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 positive, CTNNB1 negative, pRPS6 positiveUnannotatedCTNNB1 mutation: 233A>AG,p.D32D/G, TP53 mutation: negativepAkt negative, pIGFR1 positive, CTNNB1 positive, pRPS6 negativeUnannotatedCTNNB1 mutation: 239G>GA,p.G34G/E, TP53 mutation: negativepAkt positive, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeUnannotatedCTNNB1 mutation: 239G>GT,p.G34G/V, TP53 mutation: negativepAkt positive, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeUnannotatedCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeInflammationCTNNB1 mutation: 259A>AG,p.T41T/A, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeInflammationCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveUnannotatedCTNNB1 mutation: not available, TP53 mutation: negativepAkt not available, pIGFR1 not available, CTNNB1 not available, pRPS6 not availablePolysomy chr7CTNNB1 mutation: 233A>AG,p.D32D/G, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 positive, pRPS6 negativeInflammationCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt positive, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveCTNNB1CTNNB1 mutation: 236C>CT | S33S/F, TP53 mutation: 256G>GT | R249R/SpAkt negative, pIGFR1 negative, CTNNB1 positive, pRPS6 positiveCTNNB1CTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 negativePolysomy chr7CTNNB1 mutation: 271T>TG,p.S45S/A, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeUnannotatedCTNNB1 mutation: negative, TP53 mutation: negativepAkt positive, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeCTNNB1CTNNB1 mutation: 232G>GA | D32D/N, TP53 mutation: negativepAkt positive, pIGFR1 negative, CTNNB1 positive, pRPS6 negativeCTNNB1CTNNB1 mutation: 247T>TG | S37S/A, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeCTNNB1CTNNB1 mutation: not available, TP53 mutation: negativepAkt not available, pIGFR1 not available, CTNNB1 not available, pRPS6 not availableUnannotatedCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 positive, pRPS6 negativeCTNNB1CTNNB1 mutation: 248C>CG | S37S/C, TP53 mutation: negativepAkt positive, pIGFR1 negative, CTNNB1 positive, pRPS6 negativePolysomy chr7CTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 positive, CTNNB1 negative, pRPS6 positiveUnannotatedCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt positive, pIGFR1 positive, CTNNB1 negative, pRPS6 positiveUnannotatedCTNNB1 mutation: negative, TP53 mutation: 284G>GT | D259D/YpAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveUnannotatedCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeProliferationCTNNB1 mutation: 236C>CG | S33S/C, TP53 mutation: negativepAkt negative, pIGFR1 positive, CTNNB1 positive, pRPS6 positiveUnannotatedCTNNB1 mutation: not available, TP53 mutation: not availablepAkt not available, pIGFR1 not available, CTNNB1 not available, pRPS6 not availableUnannotatedCTNNB1 mutation: negative, TP53 mutation: negativepAkt positive, pIGFR1 negative, CTNNB1 positive, pRPS6 negativeCTNNB1CTNNB1 mutation: 247T>TG | S37S/A, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 positive, pRPS6 negativeUnannotatedCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeProliferationCTNNB1 mutation: negative, TP53 mutation: not availablepAkt positive, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveProliferationCTNNB1 mutation: negative, TP53 mutation: 440G>GA | C176C/YpAkt negative, pIGFR1 positive, CTNNB1 negative, pRPS6 negativeProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt positive, pIGFR1 positive, CTNNB1 positive, pRPS6 positiveUnannotatedCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveCTNNB1CTNNB1 mutation: 248C>CT | S37S/F, TP53 mutation: negativepAkt positive, pIGFR1 negative, CTNNB1 positive, pRPS6 positiveProliferationCTNNB1 mutation: negative, TP53 mutation: 344A>AC | Q144Q/PpAkt positive, pIGFR1 positive, CTNNB1 negative, pRPS6 positiveProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt positive, pIGFR1 positive, CTNNB1 positive, pRPS6 negativeUnannotatedCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 positive, pRPS6 negativeInflammationCTNNB1 mutation: not available, TP53 mutation: not availablepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveProliferationCTNNB1 mutation: 271T>TG,p.S45S/A, TP53 mutation: negativepAkt positive, pIGFR1 positive, CTNNB1 positive, pRPS6 positiveCTNNB1CTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 positive, pRPS6 negativeCTNNB1CTNNB1 mutation: 233A>AT | D32D/V, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 negativePolysomy chr7CTNNB1 mutation: 233A>AG,p.D32D/G, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeUnannotatedCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 positive, CTNNB1 negative, pRPS6 positivePolysomy chr7CTNNB1 mutation: 236C>CT,p.S33S/F, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveCTNNB1CTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 positive, pRPS6 negativePolysomy chr7CTNNB1 mutation: negative, TP53 mutation: 366A>AG,Y205Y/CpAkt positive, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeCTNNB1CTNNB1 mutation: negative, TP53 mutation: negativepAkt not available, pIGFR1 not available, CTNNB1 not available, pRPS6 not availableInflammationCTNNB1 mutation: negative, TP53 mutation: 366A>AG,Y205Y/CpAkt positive, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeCTNNB1CTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 positive, pRPS6 negativeCTNNB1CTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 positive, pRPS6 negativePolysomy chr7CTNNB1 mutation: 232G>GA,p.D32D/N, TP53 mutation: negativepAkt positive, pIGFR1 negative, CTNNB1 positive, pRPS6 negativeCTNNB1CTNNB1 mutation: 235T>TC | S33S/P, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 positive, pRPS6 negativeProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt positive, pIGFR1 negative, CTNNB1 positive, pRPS6 positiveInflammationCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 positive, pRPS6 negativeCTNNB1CTNNB1 mutation: 232G>GT | D32D/Y, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveProliferationCTNNB1 mutation: negative, TP53 mutation:195G>GT | E271E/XpAkt positive, pIGFR1 negative, CTNNB1 positive, pRPS6 positiveCTNNB1CTNNB1 mutation: 248C>CT | S37S/F, TP53 mutation: negativepAkt positive, pIGFR1 negative, CTNNB1 positive, pRPS6 negativeInflammationCTNNB1 mutation: negative, TP53 mutation: 386G>GT | R158R/LpAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveCTNNB1CTNNB1 mutation: negative, TP53 mutation: negativepAkt positive, pIGFR1 positive, CTNNB1 positive, pRPS6 negativeInflammationCTNNB1 mutation: not available, TP53 mutation: not availablepAkt negative, pIGFR1 not available, CTNNB1 negative, pRPS6 negativeInflammationCTNNB1 mutation: negative, TP53 mutation:249_250het_insGAATCpAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveCTNNB1CTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 positive, pRPS6 positiveProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 positive, CTNNB1 negative, pRPS6 positiveInflammationCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeInflammationCTNNB1 mutation: negative, TP53 mutation: not availablepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 positivePolysomy chr7CTNNB1 mutation: negative, TP53 mutation: 364C>CA | P151P/TpAkt positive, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeCTNNB1CTNNB1 mutation: 234_245het_delCTCTGGAATCCA, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveInflammationCTNNB1 mutation: negative, TP53 mutation: negativepAkt positive, pIGFR1 positive, CTNNB1 negative, pRPS6 positiveProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 positive, CTNNB1 negative, pRPS6 positiveProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt positive, pIGFR1 positive, CTNNB1 positive, pRPS6 negativeCTNNB1CTNNB1 mutation: 232G>GA | D32D/N, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveCTNNB1CTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 positive, pRPS6 negativeInflammationCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeCTNNB1CTNNB1 mutation: 248C>CG | S37S/C, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeProliferationCTNNB1 mutation: not available, TP53 mutation: not availablepAkt negative, pIGFR1 not available, CTNNB1 negative, pRPS6 positiveInflammationCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 not available, CTNNB1 positive, pRPS6 positiveInflammationCTNNB1 mutation: not available, TP53 mutation: negativepAkt positive, pIGFR1 not available, CTNNB1 positive, pRPS6 not availableInflammationCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 not available, CTNNB1 negative, pRPS6 positiveProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveInflammationCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 not available, CTNNB1 negative, pRPS6 positiveCTNNB1CTNNB1 mutation: 239G>GT | G34G/V, TP53 mutation: negativepAkt negative, pIGFR1 not available, CTNNB1 negative, pRPS6 negativeProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt positive, pIGFR1 negative, CTNNB1 negative, pRPS6 negativeProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt negative, pIGFR1 not available, CTNNB1 positive, pRPS6 positiveProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt not available, pIGFR1 negative, CTNNB1 negative, pRPS6 positiveProliferationCTNNB1 mutation: negative, TP53 mutation: negativepAkt positive, pIGFR1 negative, CTNNB1 negative, pRPS6 positive506904To characterize the genetic alterations that instigate hepatitis C virus-induced hepatocellular carcinoma (HCC), we conducted an...E-GEOD-9843/profile/8773/arrayexpressuploader391adenocarcinomascarcinomacellchromosomeclasshepatitishepatitis chepatocellular carcinomalungDec.12, 2014Falsetranscription-profiling-by-array-of-human-hepato-2E-GEOD-9843_A-AFFY-44Transcription profiling by array of human hepatocellular carcinomas with hepatitis C virus etiologySep.22, 2014To 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 'nterferon-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. Experiment Overall Design: 91 hepatocellular carcinomas were obtained at the time of surgical resection or orthotopic transplantation.http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-9843http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-9843/samples/