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HANDBOOK ON BIOLOGICAL NETWORKS


CONTENTS

FRONT MATTER
Stefano Boccaletti, Vito Latora and Yamir Moreno
i
Introduction
Stefano Boccaletti, Vito Latora and Yamir Moreno
1
Networks at the Cellular Level
The Structural Network Properties of Biological Systems
Matteo Brilli and Pietro Lió
9
Dynamics of Multicellular Synthetic Gene Networks
Ekkehard Ullner, Aneta Koseska, Alexey Zaikin, Evgenii Volkov, Jürgen Kurths and Jordi García-Ojalvo
33
Boolean Networks in Inference and Dynamic Modeling of Biological Systems at the Molecular and Physiological Level
Juilee Thakar and Réka Albert
59
Complexity of Boolean Dynamics in Simple Models of Signaling Networks and in Real Genetic Networks
Albert Díaz-Guilera and Elena R. Álvarez-Buylla
79
Geometry and Topology of Folding Landscapes
Lorenzo Bongini and Lapo Casetti
103
Elastic Network Models For Biomolecular Dynamics: Theory and Application to Membrane Proteins and Viruses
Timothy R. Lezon, Indira H. Shrivastava, Zheng Yang and Ivet Bahar
129
Metabolic Networks
Maria Concetta Palumbo, Lorenzo Farina, Alfredo Colosimo and Alessandro Giuliani
159
Brain Networks
The Human Brain Network
Olaf Sporns
199
Brain Network Analysis from High-Resolution EEG Signals
Fabrizio De Vico Fallani and Fabio Babiloni
217
An Optimization Approach to the Structure of the Neuronal Layout of C. elegans
Alex Arenas, Alberto Fernández and Sergio Gómez
243
Cultured Neuronal Networks Express Complex Patterns of Activity and Morphological Memory
Nadav Raichman, Liel Rubinsky, Mark Shein, Itay Baruchi, Vladislav Volman and Eshel Ben-Jacob
257
Synchrony and Precise Timing in Complex Neural Networks
Raoul-Martin Memmesheimer and Marc Timme
279
Networks at the Individual and Population Levels
Ideas for Moving Beyond Structure to Dynamics of Ecological Networks
Daniel B. Stouffer, Miguel A. Fortuna and Jordi Bascompte
307
Evolutionary Models for Simple Biosystems
Franco Bagnoli
329
Evolution of Cooperation in Adaptive Social Networks
Sven Van Segbroeck, Francisco C. Santos, Arne Traulsen, Tom Lenaerts and Jorge M. Pacheco
373
From Animal Collectives and Complex Networks to Decentralized Motion Control Strategies
Arturo Buscarino, Luigi Fortuna, Mattia Frasca and Alessandro Rizzo
393
Interplay of Network State and Topology in Epidemic Dynamics
Thilo Gross
417
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