Improvement in Reliability of Probabilistic Test of Significant Differences in GeneChip Experiments

TODA Kyoko, ISHIDA Seiichi, NAKATA Kotoko, MATSUDA Rieko, SHIGEMOTO-MOGAMI Yukari, OZAWA Shogo, SAWADA Jun-ichi, OHNO Yasuo, INOUE Kazuhide, SHUDO Koichi, HAYASHI Yuzuru

doi:10.2116/analsci.20.731

Improvement in Reliability of Probabilistic Test of Significant Differences in GeneChip Experiments

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TODA Kyoko

National Institute of Health Sciences
ISHIDA Seiichi

National Institute of Health Sciences
NAKATA Kotoko

National Institute of Health Sciences
MATSUDA Rieko

National Institute of Health Sciences
SHIGEMOTO-MOGAMI Yukari

National Institute of Health Sciences
OZAWA Shogo

National Institute of Health Sciences
SAWADA Jun-ichi

National Institute of Health Sciences
OHNO Yasuo

National Institute of Health Sciences
INOUE Kazuhide

National Institute of Health Sciences
SHUDO Koichi

National Institute of Health Sciences
HAYASHI Yuzuru

National Institute of Health Sciences

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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.