STANDARD_NAME	IIZUKA_LIVER_CANCER_PROGRESSION_L1_G1_DN
SYSTEMATIC_NAME	M8659
COLLECTION	C2:CGP
MSIGDB_URL	https://www.gsea-msigdb.org/gsea/msigdb/human/geneset/IIZUKA_LIVER_CANCER_PROGRESSION_L1_G1_DN
NAMESPACE	HUMAN_SEQ_ACCESSION
DESCRIPTION_BRIEF	Genes down-regulated during transition from L1 (non-tumor, infected with HCV) to G1 (well differentiated tumor, infected with HCV) in the development of hepatocellular carcinoma.
DESCRIPTION_FULL	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.
PMID	15710396
GEOID	
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
CONTRIBUTOR	Yujin Hoshida
CONTRIBUTOR_ORG	Broad Institute
EXACT_SOURCE	Table 3: genes upregulated in G1 in comparison with L1
FILTERED_BY_SIMILARITY	
EXTERNAL_NAMES_FOR_SIMILAR_TERMS	
EXTERNAL_DETAILS_URL	
SOURCE_MEMBERS	AB018330,AI991040,AL049650,AL080181,D63997,D76444,U10323,U61232,U64444,U70660,X55503,X76228
GENE_SYMBOLS	CAMKK2,DRAP1,SNRPB,CADM1,GOLGA3,RNF103,ILF2,TBCE,UFD1,,,ATP6V1E1
FOUNDER_NAMES