Improvement in reliability of probabilistic test of significant differences in GeneChip experiments. |
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Authors: | Kyoko Toda Seiichi Ishida Kotoko Nakata Rieko Matsuda Yukari Shigemoto-Mogami Shogo Ozawa Jun-ichi Sawada Yasuo Ohno Kazuhide Inoue Koichi Shudo Yuzuru Hayashi |
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Institution: | National Institute of Health Sciences, 1-18-1 Kami-Yoga, Setagaya, Tokyo 158-8501, Japan. |
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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. |
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