Gene Set: YAMASHITA_LIVER_CANCER_WITH_EPCAM_UP

Standard name YAMASHITA_LIVER_CANCER_WITH_EPCAM_UP
Systematic name M16542
Brief description Up-regulated genes distinguishing hepatocellular carcinoma (HCC) samples positive for EPCAM [GeneID=4072] from the negative ones.
Full description or abstract The heterogeneous nature of hepatocellular carcinoma (HCC) and the lack of appropriate biomarkers have hampered patient prognosis and treatment stratification. Recently, we have identified that a hepatic stem cell marker, epithelial cell adhesion molecule (EpCAM), may serve as an early biomarker of HCC because its expression is highly elevated in premalignant hepatic tissues and in a subset of HCC. In this study, we aimed to identify novel HCC subtypes that resemble certain stages of liver lineages by searching for EpCAM-coexpressed genes. A unique signature of EpCAM-positive HCCs was identified by cDNA microarray analysis of 40 HCC cases and validated by oligonucleotide microarray analysis of 238 independent HCC cases, which was further confirmed by immunohistochemical analysis of an additional 101 HCC cases. EpCAM-positive HCC displayed a distinct molecular signature with features of hepatic progenitor cells including the presence of known stem/progenitor markers such as cytokeratin 19, c-Kit, EpCAM, and activated Wnt-beta-catenin signaling, whereas EpCAM-negative HCC displayed genes with features of mature hepatocytes. Moreover, EpCAM-positive and EpCAM-negative HCC could be further subclassified into four groups with prognostic implication by determining the level of alpha-fetoprotein (AFP). These four subtypes displayed distinct gene expression patterns with features resembling certain stages of hepatic lineages. Taken together, we proposed an easy classification system defined by EpCAM and AFP to reveal HCC subtypes similar to hepatic cell maturation lineages, which may enable prognostic stratification and assessment of HCC patients with adjuvant therapy and provide new insights into the potential cellular origin of HCC and its activated molecular pathways.
Collection C2: curated gene sets
      CGP: chemical and genetic perturbations
Source publication Pubmed 18316609   Authors: Yamashita T,Forgues M,Wang W,Kim JW,Ye Q,Jia H,Budhu A,Zanetti KA,Chen Y,Qin LX,Tang ZY,Wang XW
Exact source Fig.1A
Related gene sets (show 1 additional gene sets from the source publication)

(show 129 gene sets from the same authors)
External links  
Filtered by similarity
Organism Homo sapiens
Contributed by Yujin Hoshida (Broad Institute)
Source platform HUMAN_GENE_SYMBOL
Dataset references (show 2 datasets)
Download gene set format: grp | text | gmt | gmx | xml
Compute overlaps (show collections to investigate for overlap with this gene set)
Compendia expression profiles GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)
Advanced query Further investigate these 53 genes
Gene families Categorize these 53 genes by gene family
Show members (show 53 members mapped to 53 genes)
Version history 3.0: First introduced

See MSigDB license terms here. Please note that certain gene sets have special access terms.