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

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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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Author notes

  1. Co-first authors.

Authors and Affiliations

  1. National Institute of Health Sciences, 1-18-1, Kami-Yoga, Setagaya, Tokyo, 158-8501, Japan

    Kyoko Toda, Seiichi Ishida, Kotoko Nakata, Rieko Matsuda, Yukari Shigemoto-Mogami, Shogo Ozawa, Jun-ichi Sawada, Yasuo Ohno, Kazuhide Inoue, Koichi Shudo & Yuzuru Hayashi

  2. Japan Pharmaceutical Information Center., Japan

    Koichi Shudo

Authors
  1. Kyoko Toda
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  2. Seiichi Ishida
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  3. Kotoko Nakata
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  4. Rieko Matsuda
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  5. Yukari Shigemoto-Mogami
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  6. Shogo Ozawa
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  7. Jun-ichi Sawada
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  8. Yasuo Ohno
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  9. Kazuhide Inoue
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  10. Koichi Shudo
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  11. Yuzuru Hayashi
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Toda, K., Ishida, S., Nakata, K. et al. Improvement in Reliability of Probabilistic Test of Significant Differences in GeneChip Experiments. ANAL. SCI. 20, 731–733 (2004). https://doi.org/10.2116/analsci.20.731

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  • DOI: https://doi.org/10.2116/analsci.20.731

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