Modeling biomolecular site dynamics: methods and protocols

by Hlavacek, William S.

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Title Statements

Full title :Modeling biomolecular site dynamics : methods and protocols / edited by William S. Hlavacek, ...

Summary

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.

Edition Statements

Publication Date:©2019

Publication Statements

Publisher(s):Humana Press
Place of Publication:New York
Language:eng
Publication Date:©2019

Notes

Publié aussi sous forme numérique avec l'e-ISBN 978-1-4939-9102-0.

La couv. porte en plus "Extras Online."

The Physical Object

Description:1 v. (XIX-423 p.) : : illustrations en noir et en coul. ; : 26 cm

Edition Identifiers

ISBN:9781493991006, 1493991000
oclc:on1103712672

Subjects