title: Improvement in reliability of probabilistic test of significant differences in GeneChip experiments.
abstract: A probabilistic test (FUMI theory) for GeneChip experiments has been proposed for selecting the genes which show significant differences in the gene expression levels between a single pair of treatment and control. This paper describes that the reliability of the judgment by the FUMI theory can be enhanced, when the selected genes are referred to biomolecular-functional networks of a commercial database. The genes judged as being differently expressed are grouped into a cluster in the biomolecular networks. It is also demonstrated that false positive genes have a trend in the networks to be isolated from each other, and also away from the clustered genes, since the false positive genes are randomly selected.
authors.affiliation: National Institute of Health Sciences, 1-18-1 Kami-Yoga, Setagaya, Tokyo 158-8501, Japan.
authors.forename: Kyoko
authors.initials: K
authors.lastname: Toda
authors.forename: Seiichi
authors.initials: S
authors.lastname: Ishida
authors.forename: Kotoko
authors.initials: K
authors.lastname: Nakata
authors.forename: Rieko
authors.initials: R
authors.lastname: Matsuda
authors.forename: Yukari
authors.initials: Y
authors.lastname: Shigemoto-Mogami
authors.forename: Shogo
authors.initials: S
authors.lastname: Ozawa
authors.forename: Jun-ichi
authors.initials: J
authors.lastname: Sawada
authors.forename: Yasuo
authors.initials: Y
authors.lastname: Ohno
authors.forename: Kazuhide
authors.initials: K
authors.lastname: Inoue
authors.forename: Koichi
authors.initials: K
authors.lastname: Shudo
authors.forename: Yuzuru
authors.initials: Y
authors.lastname: Hayashi
mesh_terms: D000465:Algorithms; D030562:Databases, Protein; D004791:Enzyme Inhibitors / Q000494:pharmacology; D018922:HL-60 Cells; D006801:Humans; D015233:Models, Statistical; D005810:Multigene Family; D020411:Oligonucleotide Array Sequence Analysis / Q000706:statistics & numerical data*; D011493:Protein Kinase C / Q000037:antagonists & inhibitors; D015203:Reproducibility of Results; D013755:Tetradecanoylphorbol Acetate
chemical_list: D004791:Enzyme Inhibitors; D011493:Protein Kinase C; D013755:Tetradecanoylphorbol Acetate