title: Molecular signature in three types of hepatocellular carcinoma with different viral origin by oligonucleotide microarray.
abstract: Chronic infection with hepatitis B or C virus (HBV or HCV) is the most clearly established risk factor for hepato-cellular carcinoma (HCC). One type of HCC (non-B, non-C HCC) also appears to develop in patients negative for both HBV and HCV. Using a supervised learning method, we investigated gene expression in 11 non-B, non-C HCCs with high-density oligonucleotide microarrays, and compared the patterns of gene expression with those of HBV-infected HCCs (B-type HCCs) and HCV-infected HCCs (C-type HCCs) in the previous dataset. Our gene selection identified 112 and 64 genes that were differentially expressed in non-B, non-C HCC in comparison with B- and C-type HCCs, respectively. In both gene selections, we found that the false discovery rate, the percentage of genes identified by chance, was less than 5%. Additionally, in combination with the previous data, our present data revealed a set of genes specific to each type of B- and C-type HCCs and non-B, non-C HCC. Among these, an interferon-induced gene, IFI27, was differentially expressed among all three types of HCCs, and this result was confirmed by RT-PCR. Thus, our present study provides a framework to characterize the molecular features in the three subtypes of HCC with different viral origin.
authors.affiliation: Department of Bioregulatory Function, Yamaguchi University School of Medicine, Ube, Yamaguchi 755-8505, Japan.
authors.forename: Norio
authors.initials: N
authors.lastname: Iizuka
authors.forename: Masaaki
authors.initials: M
authors.lastname: Oka
authors.forename: Hisafumi
authors.initials: H
authors.lastname: Yamada-Okabe
authors.forename: Kenji
authors.initials: K
authors.lastname: Hamada
authors.forename: Hironobu
authors.initials: H
authors.lastname: Nakayama
authors.forename: Naohide
authors.initials: N
authors.lastname: Mori
authors.forename: Takao
authors.initials: T
authors.lastname: Tamesa
authors.forename: Toshimasa
authors.initials: T
authors.lastname: Okada
authors.forename: Norikazu
authors.initials: N
authors.lastname: Takemoto
authors.forename: Katsuhiro
authors.initials: K
authors.lastname: Matoba
authors.forename: Motonari
authors.initials: M
authors.lastname: Takashima
authors.forename: Katsuhiko
authors.initials: K
authors.lastname: Sakamoto
authors.forename: Akira
authors.initials: A
authors.lastname: Tangoku
authors.forename: Takanobu
authors.initials: T
authors.lastname: Miyamoto
authors.forename: Shunji
authors.initials: S
authors.lastname: Uchimura
authors.forename: Yoshihiko
authors.initials: Y
authors.lastname: Hamamoto
mesh_terms: D006528:Carcinoma, Hepatocellular / Q000235:genetics* / Q000821:virology*; D003062:Codon; D018076:DNA, Complementary / Q000378:metabolism; D015536:Down-Regulation; D005260:Female; D015972:Gene Expression Regulation, Neoplastic; D016174:Hepacivirus / Q000235:genetics; D006515:Hepatitis B virus / Q000235:genetics; D006801:Humans; D008113:Liver Neoplasms / Q000235:genetics* / Q000821:virology*; D008297:Male; D020411:Oligonucleotide Array Sequence Analysis; D009841:Oligonucleotides / Q000235:genetics* / Q000378:metabolism; D012313:RNA / Q000378:metabolism; D020133:Reverse Transcriptase Polymerase Chain Reaction; D015854:Up-Regulation
chemical_list: D003062:Codon; D018076:DNA, Complementary; D009841:Oligonucleotides; D012313:RNA