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. Author manuscript; available in PMC: 2012 May 1.
Published in final edited form as: Gastroenterology. 2011 Feb 12;140(5):1501–1512.e2. doi: 10.1053/j.gastro.2011.02.006

Table 1.

Gene signatures included in the study

Author Year Signature Name (original description) Signature names (MSIGBD§) Patients with the signature (%)†
Signatures generated in tumor 1 Ye23 2003 Signature of metastatic HCC YE_LIVER_CANCER_INTRAHEPATIC_METS_UP 14 (4.8)
2 Iizuka35 2003 Signature of early intrahepatic recurrence IIZUKA_LIVER_CANCER_EARLY_RECURRENCE_DN NA*
3 Lee24 2004 Cluster A LEE_LIVER_CANCER_POOR-SURVIVAL_UP, _DN 91 (31.7)
4 Kurokawa36 2004 Signature of tumor recurrence KUROKAWA_LIVER_CANCER_EARLY_RECURRENCE_UP, _DN NA*
5 Kaposi-Novak26 2006 MET signature NOVAK_LIVER_CANCER_MET_UP, _DN 45 (15.6)
6 Boyault12 2007 G3 class BOYAULT_LIVER_CANCER_SUBCLASS_G3_UP, _DN 90 (31.3)
7 Chiang10 2008 Proliferation class CHIANG_LIVER_CANCER_SUBCLASS_PROLIFERATION_UP, _DN 112 (39)
8 Villanueva 2008 CK19 human signature VILLANUEVA_LIVER_CANCER_KRT19_UP, _DN 98 (34.1)
9 Minguez 2008 Vascular invasion signature MINGUIZ_LIVER_CANCER_VASCULAR_INVASION_UP, _DN 72 (25.1)
10 Coulouarn25 2008 Late TGFB COULOUARN_LIVER_CANCER_TGF_BETA_LATE_VS_EARLY_UP, _DN 70 (24.3)
11 Woo29 2008 Signature of recurrence WOO_LIVER_CANCER_RECURRENCE_UP, _DN 84 (29.2)
12 Yamashita28 2008 EpCAM signature YAMASHITA_LIVER_CANCER_EPCAM_UP, _DN 35 (12.1)
13 Cairo14 2008 Hepatoblastoma_C2 class CAIRO_LIVER_CANCER_HEPATOBLAST_C2_POOR-PROGNOSIS_UP, _DN 20 (6.9)
14 Yoshioka37 2009 Signature of early recurrence YOSHIOKA_LIVER_CANCER_EARLY_RECURRENCE_UP, _DN NA*
15 Hoshida27 2009 Class S1 (WNT-TGFB) HOSHIDA_LIVER_CANCER_META_ANALYSIS_SUBCLASS 80 (27.8)
16 Hoshida27 2009 Class S2 (AKT-MYC) HOSHIDA_LIVER_CANCER_META_ANALYSIS_SUBCLASS 44 (15.3)
17 Andersen11 2010 CK19 rat signature ANDERSEN_LIVER_CANCER_KRT19_UP, _DN 95 (33.1)
18 Woo38 2010 Cholangiocarcinoma-like signature WOO_LIVER_CANCER_CHOLANGIOCA_LIKE_UP, _DN 115 (40.1)
Signatures generated in adjacent non-tumor tissue 19 Hoshida6 2008 Poor survival signature HOSHIDA_LIVER_CANCER_POOR-SURVIVAL_UP, _DN 72 (31.8)ø
20 Hoshida6 2008 Late recurrence signature HOSHIDA_LIVER_CANCER_LATE_RECURRENCE_UP, _DN 89 (39.3)ø
21 Budhu13 2006 Metastasis inclined microenvironment BUDHU_LIVER_CANCER_METASTASIS_UP, _DN NA*
22 Okamato39 2006 Signature of multicentric HCC OKAMOTO_LIVER_CANCER_MULTICENTRIC_OCCURRENCE_UP, _DN NA*
†

Patients with a predicted poor prognosis signature according to each of the gene signatures evaluated (FDR<0.05, see methods for details)

*

Nearest-template prediction method failed to classify any sample with the signature, based on a FDR<0,05

ø

Prediction done on 226 patients (tissue from adjacent cirrhotic tissue available)