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Modeling Biomolecular Site Dynamics

Methods and Protocols
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Description

This volume covers a variety of topics related to the practice of rule-based modeling, a type of mathematical modeling useful for studying biomolecular site dynamics. There is an emphasis on software tools and detailed descriptions of techniques. The chapters in this book discuss topics such as software tools and frameworks for compartmental modeling (Pycellerator, RuleBuilder, Prgy, rxncon, MSMB, and ML-Rules); tools for spatial modeling (Simmune, Smoldyn, MCell-R, SRSim, and CellOrganizer); rule-based models to analyze proteomic data; model annotation; Markov chain aggregation; BioJazz; and methods to identify model parameters (Data2Dynamics, RKappa, and BioNetFit). Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary resources, step-by-step, readily reproducible protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting-edge and thorough, Modeling Biomolecular Site Dynamics: Methods and Protocols is a valuable resource for both the novice and expert rule-based modeler. It will also appeal to systems biologists and help them enhance their studies with easy-to-read and write rule-based models.
Release date Australia
April 4th, 2019
Audience
  • Professional & Vocational
Contributor
  • Edited by William S. Hlavacek
Edition
1st ed. 2019
Illustrations
108 Illustrations, color; 80 Illustrations, black and white; XIX, 423 p. 188 illus., 108 illus. in color. With online files/update.
Pages
423
ISBN-13
9781493991006
Product ID
28638593

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