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Construction of Correlation Networks with Explicit Time-Slices Using Time-Lagged, Variable Interval Standard and Partial Correlation Coefficients

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Computational Life Sciences II (CompLife 2006)

Part of the book series: Lecture Notes in Computer Science ((LNBI,volume 4216))

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Abstract

The construction of gene regulatory models from microarray time-series data has received much attention. Here we propose a method that extends standard correlation networks to incorporate explicit time-slices. The method is applied to a time-series dataset of a study on gene expression in the developmental phase of zebrafish. Results show that the method is able to distinguish real relations between genes from the data. These relations are explicitly placed in time, allowing for a better understanding of gene regulation. The method and data normalisation procedure have been implemented using the R statistical language and are available from http://zebrafish.liacs.nl/supplements.html .

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Author information

Authors and Affiliations

  1. Leiden Institute of Advanced Computer Science (LIACS), Leiden University, Niels Bohrweg 1, 2333 CA, Leiden, The Netherlands

    Wouter Meuleman, Monique C. M. Welten & Fons J. Verbeek

  2. Division of Molecular Cell Biology, Institute for Biology, Leiden University, Wassenaarseweg 64, 2333 AL, Leiden, The Netherlands

    Monique C. M. Welten

  3. Information and Communication Theory group, Delft University of Technology, P.O. Box 5031, 2600 GA, Delft, The Netherlands

    Wouter Meuleman

Authors
  1. Wouter Meuleman
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  2. Monique C. M. Welten
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  3. Fons J. Verbeek
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Editor information

Editors and Affiliations

  1. Berkeley Initiative in Soft Computing (BISC), University of California at Berkeley, USA

    Michael R. Berthold

  2. Department of Chemistry, Unilever Centre for Molecular Informatics, Cambridge University, CB2 1EW, Cambridge, UK

    Robert C. Glen

  3. ALTANA Chair for Bioinformatics and Information Mining, University of Konstanz, Germany

    Ingrid Fischer

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© 2006 Springer-Verlag Berlin Heidelberg

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Meuleman, W., Welten, M.C.M., Verbeek, F.J. (2006). Construction of Correlation Networks with Explicit Time-Slices Using Time-Lagged, Variable Interval Standard and Partial Correlation Coefficients. In: R. Berthold, M., Glen, R.C., Fischer, I. (eds) Computational Life Sciences II. CompLife 2006. Lecture Notes in Computer Science(), vol 4216. Springer, Berlin, Heidelberg. https://doi.org/10.1007/11875741_23

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  • DOI: https://doi.org/10.1007/11875741_23

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-45767-1

  • Online ISBN: 978-3-540-45768-8

  • eBook Packages: Computer ScienceComputer Science (R0)

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