Large-Scale Networks in Engineering and Life Sciences

Part of the Modeling and Simulation in Science, Engineering and Technology Book Series

Editors: Benner, Peter; Findeisen, Rolf; Flockerzi, Dietrich; Reichl, Udo; Sundmacher, Kai

DOI: 10.1007/978-3-319-08437-4

ISBN: 978-3-319-08436-7

Publisher: Springer International Publishing - Springer Journals

Jul 30, 2014

Available

Introduction to the Geometric Theory of ODEs with Applications to Chemical Processes

Flockerzi, Dietrich

Pages: 1 –123

[We give an introduction to the geometric theory of ordinary differential equations (ODEs) tailored to applications to biochemical reaction networks and chemical separation processes. Quite often, the ordinary differential equations under investigation are “reduced” partial differential equations...
Available

Mathematical Modeling and Analysis of Nonlinear Time-Invariant RLC Circuits

Reis, Timo

Pages: 125 –198

[We give a basic and self-contained introduction to the mathematical description of electrical circuits that contain resistances, capacitances, inductances, voltage, and current sources. Methods for the modeling of circuits by differential–algebraic equations are presented. The second part of...
Available

Interacting with Networks of Mobile Agents

Egerstedt, Magnus; de la Croix, Jean-Pierre; Kawashima, Hiroaki; Kingston, Peter

Pages: 199 –224

[How should human operators interact with teams of mobile agents, whose movements are dictated by decentralized and localized interaction laws? This chapter connects the structure of the underlying information exchange network to how easy or hard it is for human operators to influence the...
Available

Combinatorial Optimization: The Interplay of Graph Theory, Linear and Integer Programming Illustrated on Network Flow

Wagler, Annegret K.

Pages: 225 –262

[Combinatorial optimization is one of the fields in mathematics with an impressive development in recent years, driven by demands from applications where discrete models play a role. Here, we intend to give a comprehensive overview of basic methods and paradigms, in particular the beautiful...
Available

Stoichiometric and Constraint-Based Analysis of Biochemical Reaction Networks

Klamt, Steffen; Hädicke, Oliver; von Kamp, Axel

Pages: 263 –316

[Metabolic network analysis based on stoichiometric and constraint-based methods has become one of the most popular and successful modeling approaches in network and systems biology. Although these methods rely solely on the structure (stoichiometry) of metabolic networks and do not require...
Available

A Petri-Net-Based Framework for Biomodel Engineering

Blätke, Mary Ann; Rohr, Christian; Heiner, Monika; Marwan, Wolfgang

Pages: 317 –366

[Petri nets provide a unifying and versatile framework for the synthesis and engineering of computational models of biochemical reaction networks and of gene regulatory networks. Starting with the basic definitions, we provide an introduction into the different classes of Petri nets that...
Available

Hybrid Modeling for Systems Biology: Theory and Practice

von Stosch, Moritz; Carinhas, Nuno; Oliveira, Rui

Pages: 367 –388

[Whereas bottom-up systems biology relies primarily on parametric mathematical models, which try to infer the system behavior from a priori specified mechanisms, top-down systems biology typically applies nonparametric techniques for system identification based on extensive “omics” data sets....

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