Human Gene Set: HOSHIDA_LIVER_CANCER_LATE_RECURRENCE_DN


Standard name HOSHIDA_LIVER_CANCER_LATE_RECURRENCE_DN
Systematic name M13658
Brief description Genes whose expression correlated with lower risk of late recurrence of hepatocellular carcinoma (HCC).
Full description or abstract BACKGROUND: It is a challenge to identify patients who, after undergoing potentially curative treatment for hepatocellular carcinoma, are at greatest risk for recurrence. Such high-risk patients could receive novel interventional measures. An obstacle to the development of genome-based predictors of outcome in patients with hepatocellular carcinoma has been the lack of a means to carry out genomewide expression profiling of fixed, as opposed to frozen, tissue. METHODS: We aimed to demonstrate the feasibility of gene-expression profiling of more than 6000 human genes in formalin-fixed, paraffin-embedded tissues. We applied the method to tissues from 307 patients with hepatocellular carcinoma, from four series of patients, to discover and validate a gene-expression signature associated with survival. RESULTS: The expression-profiling method for formalin-fixed, paraffin-embedded tissue was highly effective: samples from 90% of the patients yielded data of high quality, including samples that had been archived for more than 24 years. Gene-expression profiles of tumor tissue failed to yield a significant association with survival. In contrast, profiles of the surrounding nontumoral liver tissue were highly correlated with survival in a training set of tissue samples from 82 Japanese patients, and the signature was validated in tissues from an independent group of 225 patients from the United States and Europe (P=0.04). CONCLUSIONS: We have demonstrated the feasibility of genomewide expression profiling of formalin-fixed, paraffin-embedded tissues and have shown that a reproducible gene-expression signature correlated with survival is present in liver tissue adjacent to the tumor in patients with hepatocellular carcinoma.
Collection C2: Curated
      CGP: Chemical and Genetic Perturbations
Source publication Pubmed 18923165   Authors: Hoshida Y,Villanueva A,Kobayashi M,Peix J,Chiang DY,Camargo A,Gupta S,Moore J,Wrobel MJ,Lerner J,Reich M,Chan JA,Glickman JN,Ikeda K,Hashimoto M,Watanabe G,Daidone MG,Roayaie S,Schwartz M,Thung S,Salvesen HB,Gabriel S,Mazzaferro V,Bruix J,Friedman SL,Kumada H,Llovet JM,Golub TR
Exact source Fig. 3D
Related gene sets (show 3 additional gene sets from the source publication)

(show 329 gene sets from any of these authors)
External links
Filtered by similarity ?
Source species Homo sapiens
Contributed by Yujin Hoshida (Broad Institute)
Source platform or
identifier namespace		 HUMAN_GENE_SYMBOL
Dataset references (show 1 datasets)
Download gene set format: grp | gmt | xml | json | TSV metadata
Compute overlaps ? (show collections to investigate for overlap with this gene set)
Compendia expression profiles ? NG-CHM interactive heatmaps
(Please note that clustering takes a few seconds)
GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)

Legacy heatmaps (PNG)
GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)
Advanced query Further investigate these 70 genes
Gene families ? Categorize these 70 genes by gene family
Show members (show 70 source identifiers mapped to 70 genes)
Version history 3.0: First introduced

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