Gene Set: IIZUKA_LIVER_CANCER_PROGRESSION_L0_L1_UP

Standard name IIZUKA_LIVER_CANCER_PROGRESSION_L0_L1_UP
Systematic name M2152
Brief description Genes up-regulated during transition from L0 (non-tumor, not infected with HCV) to L1 (non-tumor, infected with HCV) in the development of hepatocellular carcinoma.
Full description or abstract Using high-density oligonucleotide array, we comprehensively analyzed expression levels of 12600 genes in 50 hepatocellular carcinoma (HCC) samples with positive hepatitis C virus (HCV) serology (well (G1), moderately (G2), and poorly (G3) differentiated tumors) and 11 non-tumorous livers (L1 and L0) with and without HCV infection. We searched for discriminatory genes of transition (L0 vs. L1, L1 vs. G1, G1 vs. G2, G2 vs. G3) with a supervised learning method, and then arranged the samples by self-organizing map (SOM) with the discriminatory gene sets. The SOM arranged the five clusters on a unique sigmoidal curve in the order L0, L1, G1, G2, and G3. The sample arrangement reproduced development-related features of HCC such as p53 abnormality. Strikingly, G2 tumors without venous invasion were located closer to the G1 cluster, and most G2 tumors with venous invasion were located closer to the G3 cluster (P=0.001 by Fisher's exact test). Our present profiling data will serve as a framework to understand the relation between the development and dedifferentiation of HCC.
Collection C2: curated gene sets
      CGP: chemical and genetic perturbations
Source publication Pubmed 15710396   Authors: Iizuka N,Oka M,Yamada-Okabe H,Mori N,Tamesa T,Okada T,Takemoto N,Sakamoto K,Hamada K,Ishitsuka H,Miyamoto T,Uchimura S,Hamamoto Y
Exact source Table 2: genes downregulated in L1 in comparison with L0
Related gene sets (show 7 additional gene sets from the source publication)

(show 18 gene sets from the same authors)
External links  
Organism Homo sapiens
Contributed by Yujin Hoshida (Broad Institute)
Source platform SEQ_ACCESSION
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Compendia expression profiles Human tissue compendium (Novartis)
NCI-60 cell lines (National Cancer Institute)
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Version history 3.0: Renamed from LIZUKA_L0_GR_L1

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