Rules for Modeling Signal-Transduction Systems

doi:10.1126/stke.3442006re6

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Sci. STKE, 18 July 2006
Vol. 2006, Issue 344, p. re6
[DOI: 10.1126/stke.3442006re6]

REVIEWS

Rules for Modeling Signal-Transduction Systems

William S. Hlavacek¹^*, James R. Faeder², Michael L. Blinov³, Richard G. Posner⁴, Michael Hucka⁵, and Walter Fontana⁶

¹Center for Nonlinear Studies, Los Alamos National Laboratory, Los Alamos, NM 87545, USA.
²Theoretical Biology and Biophysics Group, Theoretical Division, Los Alamos National Laboratory, Los Alamos, NM 87545, USA.
³Center for Cell Analysis and Modeling, University of Connecticut Health Center, Farmington, CT 06030, USA.
⁴Translational Genomics Research Institute, Phoenix, AZ 85004, USA.
⁵Control and Dynamical Systems, California Institute of Technology, Pasadena, CA 91125, USA.
⁶Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA.

Gloss:

Signaling molecules that control cellular regulation operate in complex networks of molecular interactions within the cell. Many of the individual proteins undergo multiple posttranslational modifications and can thus exist in numerous biochemically distinct states. We explore how mathematical models can cope with such complexity when intuition is insufficient to understand a regulatory scheme. We review approaches to creation of mathematical models of signaling systems with strategies that keep the models from being unwieldy but still allow them to accurately reflect biological systems. We discuss the translation of information about such signaling pathways into a computer-readable language that could allow interoperability of various models. The review has 10 figures and 155 citations and contains Web links to Web sites relevant to the various modeling efforts discussed.

*Corresponding author. E-mail, wish{at}lanl.gov

Citation: W. S. Hlavacek, J. R. Faeder, M. L. Blinov, R. G. Posner, M. Hucka, W. Fontana, Rules for Modeling Signal-Transduction Systems. Sci. STKE 2006, re6 (2006).

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Target the Bridges in Signaling Networks: Nancy R. Gough (8 May 2007)
Sci. STKE 2007 (385), tw156. [DOI: 10.1126/stke.3852007tw156]
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EDITORIAL GUIDES Focus Issue: Computational Approaches in Signal Transduction: L. Bryan Ray, Elizabeth M. Adler, Nancy R. Gough, and Lisa D. Chong (10 February 2004)
Sci. STKE 2004 (219), eg3. [DOI: 10.1126/stke.2192004eg3]
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