Chapter: Modeling Signaling Networks with Different Formalisms: A Preview

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Home > In Silico Systems Biology > Modeling Signaling Networks with Different Formalisms: A Preview

In Silico Systems Biology |

Maria Victoria Schneider

Humana Press

Modeling Signaling Networks with Different Formalisms: A Preview

Chapter Info

Authors

Aidan MacNamara; David Henriques; Julio Saez-Rodriguez

ARI Id

1664652741147_2577462

Access

Not Available Free

Pages

89-105

DOI

10.1007/978-1-62703-450-0_5

Chapter URL

https://rd.springer.com/protocol/10.1007/978-1-62703-450-0_5

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Chapters/Headings	Author(s)	Pages	Info
Front Matter		i-x
Defining Systems Biology: A Brief Overview of the Term and Field	Maria Victoria Schneider	1-11
Approaches to Modeling Gene Regulatory Networks: A Gentle Introduction	Thomas Schlitt	13-35
Integration of Genomic Information with Biological Networks Using Cytoscape	Anna Bauer-Mehren	37-61
Visualization and Analysis of Biological Networks	Pablo Porras Millán	63-88
Modeling Signaling Networks with Different Formalisms: A Preview	Aidan MacNamara; David Henriques; Julio Saez-Rodriguez	89-105
From a Biological Hypothesis to the Construction of a Mathematical Model	David Cohen; Inna Kuperstein; Emmanuel Barillot; Andrei Zinovyev; Laurence Calzone	107-125
Practical Use of BiNoM: A Biological Network Manager Software	Eric Bonnet; Laurence Calzone; Daniel Rovera; Gautier Stoll; Emmanuel Barillot; Andrei Zinovyev	127-146
Using Chemical Kinetics to Model Biochemical Pathways	Nicolas Le Novère; Lukas Endler	147-167
Simulation of Stochastic Kinetic Models	Andrew Golightly; Colin S. Gillespie	169-187
BioModels Database: A Repository of Mathematical Models of Biological Processes	Vijayalakshmi Chelliah; Camille Laibe; Nicolas Le Novère	189-199
Supporting SBML as a Model Exchange Format in Software Applications	Sarah M. Keating; Nicolas Le Novère	201-225
Controlled Annotations for Systems Biology	Nick Juty; Camille Laibe; Nicolas Le Novère	227-245
Bayesian Approaches for Mechanistic Ion Channel Modeling	Ben Calderhead; Michael Epstein; Lucia Sivilotti; Mark Girolami	247-272
Building Models Using Reactome Pathways as Templates	David Croft	273-283
Uniform Curation Protocol of Metazoan Signaling Pathways to Predict Novel Signaling Components	Máté Pálfy; Illés J. Farkas; Tibor Vellai; Tamás Korcsmáros	285-297
Bioinformatics Workflows and Web Services in Systems Biology Made Easy for Experimentalists	Rafael C. Jimenez; Manuel Corpas	299-310
Back Matter		311-313
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