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Computational Modeling of Signaling Networks

  • Book
  • © 2012

Overview

Editors:
  1. Xuedong Liu

    1. Dept. Chemistry & Biochemistry, University of Colorado, Boulder, Boulder, USA

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    You can also search for this editor in PubMed   Google Scholar

  2. Meredith D. Betterton

    1. Dept. Physics, University of Colorado, Boulder, Boulder, USA

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  • Demonstrates how modeling is currently being applied to research in signaling
  • Provides step-by-step detail essential for reproducible results
  • Contains key notes and implementation advice from the experts
  • Includes supplementary material: sn.pub/extras

Part of the book series: Methods in Molecular Biology (MIMB, volume 880)

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Table of contents (13 protocols)

  1. Front Matter

    Pages i-xiv
    Download chapter PDF

  2. Predictive Models for Cellular Signaling Networks

    • Dagmar Iber, Georgios Fengos
    Pages 1-22

  3. Analyzing and Constraining Signaling Networks: Parameter Estimation for the User

    • Florian Geier, Georgios Fengos, Federico Felizzi, Dagmar Iber
    Pages 23-39

  4. A Tutorial on Mathematical Modeling of Biological Signaling Pathways

    • Zhike Zi
    Pages 41-51

  5. Bistability in One Equation or Fewer

    • Graham A. Anderson, Xuedong Liu, James E. Ferrell Jr.
    Pages 53-67

  6. Mathematical Investigation of How Oncogenic Ras Mutants Promote Ras Signaling

    • Edward C. Stites, Kodi S. Ravichandran
    Pages 69-85

  7. Modeling miRNA Regulation in Cancer Signaling Systems: miR-34a Regulation of the p53/Sirt1 Signaling Module

    • Xin Lai, Olaf Wolkenhauer, Julio Vera
    Pages 87-108

  8. Design of Experiments to Investigate Dynamic Cell Signaling Models

    • Samuel Bandara, Tobias Meyer
    Pages 109-118

  9. Mathematical Modeling of Biochemical Systems with PottersWheel

    • Thomas Maiwald, Oliver Eberhardt, Julie Blumberg
    Pages 119-138

  10. Rule-Based Modeling of Signal Transduction: A Primer

    • John A. P. Sekar, James R. Faeder
    Pages 139-218

  11. Computational Modeling of Signal Transduction Networks: A Pedagogical Exposition

    • Ashok Prasad
    Pages 219-241

  12. Modeling Spatiotemporal Dynamics of Bacterial Populations

    • Hao Song, Lingchong You
    Pages 243-254

  13. Discrete Dynamic Modeling of Signal Transduction Networks

    • Assieh Saadatpour, Réka Albert
    Pages 255-272

  14. Analytic Methods for Modeling Stochastic Regulatory Networks

    • Aleksandra M. Walczak, Andrew Mugler, Chris H. Wiggins
    Pages 273-322

  15. Back Matter

    Pages 323-327
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Keywords

About this book

Signaling networks are composed of numerous signaling pathways and each has its own intricate component parts. Signaling outputs are dynamic, extraordinarily complex and yet highly specific.  In, Computational Modeling of Signaling Networks: Methods and Protocols, expert researchers in the field provide key techniques to study signaling networks. Focusing on Systems of ODEs, parameterization of signaling models, signaling pathways, mass-action kinetics and ODEs, and how to use modeling to plan experiments. Written in the highly successful Methods in Molecular Biology™ series format, the chapters include the kind of detailed description and implementation advice that is crucial for getting optimal results in the laboratory.

 

 

Thorough and intuitive, Computational Modeling of Signaling Networks: Methods and Protocols aids scientists in continuing study of how signaling networks behave in space and time to generate specific biological responses  and how those responses impact biology and medicine.

Editors and Affiliations

  • Dept. Chemistry & Biochemistry, University of Colorado, Boulder, Boulder, USA

    Xuedong Liu

  • Dept. Physics, University of Colorado, Boulder, Boulder, USA

    Meredith D. Betterton

Bibliographic Information

  • Book Title: Computational Modeling of Signaling Networks

  • Editors: Xuedong Liu, Meredith D. Betterton

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-61779-833-7

  • Publisher: Humana Totowa, NJ

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media, LLC 2012

  • Hardcover ISBN: 978-1-61779-832-0Published: 12 June 2012

  • Softcover ISBN: 978-1-4939-5843-6Published: 23 August 2016

  • eBook ISBN: 978-1-61779-833-7Published: 31 January 2013

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XIV, 327

  • Topics: Cell Biology

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