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Saccharomyces pombe and Saccharomyces cerevisiae Gene Regulatory Network Inference Using the Fuzzy Logic Network

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Computational Intelligence in Bioinformatics

Part of the book series: Studies in Computational Intelligence ((SCI,volume 94))

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Summary

In this chapter, a novel gene regulatory network inference algorithm based on the fuzzy logic network theory is proposed and tested. The key motivation for this algorithm is that genes with regulatory relationships may be modeled via fuzzy logic, and the strength of regulations may be represented as the length of accumulated distance during a period of time intervals. One unique feature of this algorithm is that it makes very limited a priori assumptions concerning the modeling. Hence the algorithm is categorized as a data-driven algorithm. With the theoretical guidelines to quantify the upper limits of parameters, the algorithm is implemented to infer gene regulatory networks for Saccharomyces cerevisiae and Saccharomyces pombe. The computation results not only prove the validity of the data-driven algorithm, but also offer a possible explanation concerning the difference of network stabilities between the budding yeast and the fission yeast.

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Author information

Authors and Affiliations

  1. Department of Mathematics and Computer Science, North Carolina Central University, 1801 Fayetteville Street, Durham, NC, 27707

    Yingjun Cao & Alade Tokuta

  2. Department of Electrical and Computer Engineering, Duke University, P.O. Box 90291, Durham, NC, 27708

    Paul P. Wang

Authors
  1. Yingjun Cao
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  2. Paul P. Wang
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  3. Alade Tokuta
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Editor information

Editors and Affiliations

  1. Department of Neurology Buffalo Neuroimaging Analysis Center The Jacobs Neurological Institute University at Buffalo, The State University of New York, 100 High Street, Buffalo, NY, 14203, USA

    Arpad Kelemen

  2. Centre for Quantifiable Quality of Service in Communication Systems (Q2S), Centre of Excellence Norwegian University of Science and Technology, O.S. Bragstads plass 2E, N-7491, Trondheim, Norway

    Ajith Abraham

  3. School of Information Science and Engineering, Jinan University, Jiwei Road 106, Jinan, 250022, P.R. China

    Yuehui Chen

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Cao, Y., Wang, P.P., Tokuta, A. (2008). Saccharomyces pombe and Saccharomyces cerevisiae Gene Regulatory Network Inference Using the Fuzzy Logic Network. In: Kelemen, A., Abraham, A., Chen, Y. (eds) Computational Intelligence in Bioinformatics. Studies in Computational Intelligence, vol 94. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-540-76803-6_10

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  • DOI: https://doi.org/10.1007/978-3-540-76803-6_10

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-76802-9

  • Online ISBN: 978-3-540-76803-6

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