Target genes discovery through copy number alteration analysis in human hepatocellular carcinoma

作     者：De-Leung Gu Yen-Hsieh Chen Jou-Ho Shih Chi-Hung Lin Yuh-Shan Jou Chian-Feng Chen 

作者机构：Institute of Biomedical SciencesAcademia Sinica Institute of Microbiology and ImmunologySchool of Life ScienceNational Yang-Ming University Bioinformatics ProgramTaiwan International Graduate ProgramAcademia Sinica Genome and Systems Biology Degree ProgramNational Taiwan University VYM Genome Research CenterNational Yang-Ming University 

出 版 物：《World Journal of Gastroenterology》 (世界胃肠病学杂志（英文版）)

年 卷 期：2013年第19卷第47期

页      面：8873-8879页

核心收录：

学科分类：1002[医学-临床医学] 100214[医学-肿瘤学] 10[医学] 

基　　金：Supported by The National Research Program for Biopharmaceuticals by the National Science Council,Taiwan with grant numbers No.101-2320-B-010-066-MY3,No.101-2325-B-001-011 and No.101-2320-B-001-029-MY3 

主　　题：Copy number alteration High-density single nucleotide polymorphism arrays Driver genes Hepatocellular carcinoma 

摘      要：High-throughput short-read sequencing of exomes and whole cancer genomes in multiple human hepatocellular carcinoma(HCC)cohorts confirmed previously identified frequently mutated somatic genes,such as TP53,CTNNB1 and AXIN1,and identified several novel genes with moderate mutation frequencies,including ARID1A,ARID2,MLL,MLL2,MLL3,MLL4,IRF2,ATM,CDKN2A,FGF19,PIK3CA,RPS6KA3,JAK1,KEAP1,NFE2L2,C16orf62,LEPR,RAC2,and *** classification of these mutated genes suggested that alterations in pathways participating in chromatin remodeling,Wnt/β-catenin signaling,JAK/STAT signaling,and oxidative stress play critical roles in HCC ***,because there are few druggable genes used in HCC therapy,the identification of new therapeutic targets through integrated genomic approaches remains an important *** a large amount of HCC genomic data genotyped by high density single nucleotide polymorphism arrays is deposited in the public domain,copy number alteration(CNA)analyses of these arrays is a cost-effective way to reveal target genes through profiling of recurrent and overlapping amplicons,homozygous deletions and potentially unbalanced chromosomal translocations accumulated during HCC ***,integration of CNAs with other high-throughput genomic data,such as aberrantly coding transcriptomes and non-coding gene expression in human HCC tissues and rodent HCC models,provides lines of evidence that can be used to facilitate the identification of novel HCC target genes with the potential of improving the survival of HCC patients.