Gene Set: HOSHIDA_LIVER_CANCER_SUBCLASS_S3

Standard name HOSHIDA_LIVER_CANCER_SUBCLASS_S3
Systematic name M1286
Brief description Genes from 'subtype S3' signature of hepatocellular carcinoma (HCC): hepatocyte differentiation.
Full description or abstract Hepatocellular carcinoma (HCC) is a highly heterogeneous disease, and prior attempts to develop genomic-based classification for HCC have yielded highly divergent results, indicating difficulty in identifying unified molecular anatomy. We performed a meta-analysis of gene expression profiles in data sets from eight independent patient cohorts across the world. In addition, aiming to establish the real world applicability of a classification system, we profiled 118 formalin-fixed, paraffin-embedded tissues from an additional patient cohort. A total of 603 patients were analyzed, representing the major etiologies of HCC (hepatitis B and C) collected from Western and Eastern countries. We observed three robust HCC subclasses (termed S1, S2, and S3), each correlated with clinical parameters such as tumor size, extent of cellular differentiation, and serum alpha-fetoprotein levels. An analysis of the components of the signatures indicated that S1 reflected aberrant activation of the WNT signaling pathway, S2 was characterized by proliferation as well as MYC and AKT activation, and S3 was associated with hepatocyte differentiation. Functional studies indicated that the WNT pathway activation signature characteristic of S1 tumors was not simply the result of beta-catenin mutation but rather was the result of transforming growth factor-beta activation, thus representing a new mechanism of WNT pathway activation in HCC. These experiments establish the first consensus classification framework for HCC based on gene expression profiles and highlight the power of integrating multiple data sets to define a robust molecular taxonomy of the disease. [Cancer Res 2009;69(18):7385-92].
Collection C2: curated gene sets
      CGP: chemical and genetic perturbations
Source publication Pubmed 19723656   Authors: Hoshida Y,Nijman SM,Kobayashi M,Chan JA,Brunet JP,Chiang DY,Villanueva A,Newell P,Ikeda K,Hashimoto M,Watanabe G,Gabriel S,Friedman SL,Kumada H,Llovet JM,Golub TR
Exact source Table 3S: Subtype=S3
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Organism Homo sapiens
Contributed by Jessica Robertson (MSigDB Team)
Source platform Human_NCBI_Gene_ID
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Version history 3.0: First introduced

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