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Normalization of Biological Expression Data Based on Selection of a Stable Element Set

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Knowledge-Based and Intelligent Information and Engineering Systems (KES 2011)

Part of the book series: Lecture Notes in Computer Science ((LNAI,volume 6883))

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Abstract

Normalization of biological expression data is the process to remove several experimental or technical bias from the data in order to perform accurate analysis. Recently computational analysis of expression data is widely applied since very large number of genes or proteins can be examined simultaneously. In this paper we proposed a new normalization method for expression data which is based on selection of a stable element set. Our idea is that using a part of genes or proteins which is relatively stably expressed leads more accurate normalization. We formulate the problem and give the algorithm to solve it in practical time. Through evaluation with artificial and real data, we found that our method outperforms global scaling, and global scaling tend to over-correct the bias.

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Author information

Authors and Affiliations

  1. Faculty of Systems Engineering, Wakayama University, 930, Sakaedani, Wakayama, 640-8510, Japan

    Yoshihiko Bouki, Takuya Yoshihiro, Etsuko Inoue & Masaru Nakagawa

Authors
  1. Yoshihiko Bouki
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  2. Takuya Yoshihiro
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  3. Etsuko Inoue
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  4. Masaru Nakagawa
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Editor information

Editors and Affiliations

  1. Institute of Integrated Sensor Systems, University of Kaiserslautern, Erwin-Schroedinger-str. 12, 67663, Kaiserslautern, Germany

    Andreas König

  2. Knowledge-Based Systems Group, Department of Computer Science, University of Kaiserslautern, P.O. Box 3049, 67653, Kaiserslautern, Germany

    Andreas Dengel

  3. School of Business, University of Applied Sciences Northwestern Switzerland, Riggenbachstr. 16, 4600, Olten, Switzerland

    Knut Hinkelmann

  4. Graduate School of Engineering, Osaka Prefecture University, 1-1 Gakuen-cho, Sakai, 599-8531, Osaka, Japan

    Koichi Kise

  5. KES International, P.O. Box 2115, BN43 9AF, Shoreham-by-sea, UK

    Robert J. Howlett

  6. University of South Australia, Adelaide, 5095, Mawson Lakes, SA, Australia

    Lakhmi C. Jain

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© 2011 Springer-Verlag Berlin Heidelberg

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Bouki, Y., Yoshihiro, T., Inoue, E., Nakagawa, M. (2011). Normalization of Biological Expression Data Based on Selection of a Stable Element Set. In: König, A., Dengel, A., Hinkelmann, K., Kise, K., Howlett, R.J., Jain, L.C. (eds) Knowledge-Based and Intelligent Information and Engineering Systems. KES 2011. Lecture Notes in Computer Science(), vol 6883. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-23854-3_17

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  • DOI: https://doi.org/10.1007/978-3-642-23854-3_17

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-642-23853-6

  • Online ISBN: 978-3-642-23854-3

  • eBook Packages: Computer ScienceComputer Science (R0)

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