title: Comparative analysis of proteome and transcriptome in human hepatocellular carcinoma using 2D-DIGE and SAGE.
abstract: Proteome analysis of human hepatocellular carcinoma was conducted using two-dimensional difference gel electrophoresis, and the protein expression profiles were compared to the mRNA expression profiles made from serial analysis of gene expression (SAGE) in identical samples from a single patient. Image-to-image analysis of protein abundances together with protein identification by peptide mass fingerprinting yielded the protein expression profiles. A total of 188 proteins were identified, and the expression profiles of 164 proteins which had the corresponding SAGE data were compared to the mRNA expression profiles. Among them, 40 proteins showed significant differences in the mRNA expression levels between non HCC and HCC. We compared expression changes of proteins with those of mRNAs. We found that the expression tendency of 24 proteins were similar to that of mRNA, whereas 16 proteins showed different or opposite tendency to the mRNA expression.
authors.affiliation: Fundamental and Environmental Research Laboratories, NEC Corporation, 34 Miyukigaoka, Tsukuba, Ibaraki 305-8501, Japan. h-minagawa@ab.jp.nec.com
authors.forename: Hirotaka
authors.initials: H
authors.lastname: Minagawa
authors.forename: Taro
authors.initials: T
authors.lastname: Yamashita
authors.forename: Masao
authors.initials: M
authors.lastname: Honda
authors.forename: Yo
authors.initials: Y
authors.lastname: Tabuse
authors.forename: Kenichi
authors.initials: K
authors.lastname: Kamijo
authors.forename: Akira
authors.initials: A
authors.lastname: Tsugita
authors.forename: Shuichi
authors.initials: S
authors.lastname: Kaneko
mesh_terms: D006528:Carcinoma, Hepatocellular / Q000235:genetics / Q000378:metabolism*; D015180:Electrophoresis, Gel, Two-Dimensional; D020869:Gene Expression Profiling / Q000379:methods*; D006801:Humans; D008099:Liver / Q000378:metabolism*; D008113:Liver Neoplasms / Q000235:genetics / Q000378:metabolism*; D008297:Male; D008875:Middle Aged; D020543:Proteome / Q000096:biosynthesis / Q000235:genetics; D012313:RNA / Q000096:biosynthesis / Q000235:genetics; D020133:Reverse Transcriptase Polymerase Chain Reaction
chemical_list: D020543:Proteome; D012313:RNA