Cellular Potts Models Multiscale Extensions and Biological Applications 1st Edition by Marco Scianna, Luigi Preziosi ISBN 978-1466514782 1466514787
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ISBN 10: 1466514787
ISBN 13: 978-1466514782
Author: Marco Scianna, Luigi Preziosi
A flexible, cell-level, and lattice-based technique, the cellular Potts model accurately describes the phenomenological mechanisms involved in many biological processes. Cellular Potts Models: Multiscale Extensions and Biological Applications gives an interdisciplinary, accessible treatment of these models, from the original methodologies to the latest developments.
The book first explains the biophysical bases, main merits, and limitations of the cellular Potts model. It then proposes several innovative extensions, focusing on ways to integrate and interface the basic cellular Potts model at the mesoscopic scale with approaches that accurately model microscopic dynamics. These extensions are designed to create a nested and hybrid environment, where the evolution of a biological system is realistically driven by the constant interplay and flux of information between the different levels of description. Through several biological examples, the authors demonstrate a qualitative and quantitative agreement with the relative experimental data.
The cellular Potts model is increasingly being used for the mathematical modeling of a wide range of biological phenomena, including wound healing, tumor growth, and cancer cell migration. This book shows how the cellular Potts model can be used as a framework for model building and how extended models can achieve even better biological practicality, accuracy, and predictive power.
Table of contents:
I Basic Cellular Potts Model and Applications
1 Basic CPM
1.1 The CPM Domain
1.2 The CPM Algorithm
1.3 The Hamiltonian
1.4 Evaluation of Some Kinematic Parameters
1.5 Some Illustrative Simulations
2 HGF-Induced Cell Scatter
2.1 Biological Introduction
2.2 Mathematical Model for ARO Aggregates
2.3 Scattering of ARO Aggregates
2.4 Mathematical Model for MLP-29 Aggregates
2.5 Scattering of MLP-29 Aggregates
3 Mesothelial Invasion of Ovarian Cancer
3.1 Biological Introduction
3.1.1 Single Cell Transmigration
3.1.2 Multicellular Spheroid Invasion
3.2 Mathematical Model
3.3 Single Cell Transmigration
3.4 Multicellular Spheroid Invasion
II Extended Cellular Potts Model and Applications
4 Extended Cellular Potts Model
4.1 Advantages and Limitations of the Basic CPM
4.2 Compartmentalization Approach
4.3 Nested Approach
4.4 Motility of Individuals
5 Wound Healing Assay
5.1 Biological Introduction
5.2 Mathematical Model
5.2.1 Cell-Level Model
5.2.2 Molecular-Level Model
5.3 Simulations
6 Effect of Calcium-Related Pathways on Single Cell Motility
6.1 Biological Introduction
6.2 Mathematical Model
6.2.1 Cell-Level Model
6.2.2 Molecular-Level Model
6.3 Simulation Details and Parameter Estimates
6.4 Simulations in Standard Conditions
6.5 Interfering with Calcium Machinery
6.6 Altering Cell Morphology
6.7 Varying the Chemical Source
7 Tumor-Derived Vasculogenesis
7.1 Biological Introduction
7.2 Mathematical Model
7.2.1 Cell-Level Model
7.2.2 Molecular-Level Model
7.3 Simulations in Standard Conditions
7.4 Varying Cell Density
7.5 Testing Anti-Angiogenic Therapies
8 Different Morphologies of Tumor Invasion Fronts
8.1 Biological Introduction
8.2 Mathematical Model
8.2.1 Cell-Level Model
8.2.2 Molecular-Level Model
8.3 Simulations in Standard Conditions
8.4 Varying Cell Adhesive Properties
8.5 Varying Cell Elasticity
8.6 Altering Cell-Substrate Interactions
8.7 Effect of Cell Proliferation
8.8 Early Stages of Tumor Spheroid Growth
8.9 Mathematical Model
8.10 Simulations
9 Cell Migration in Extracellular Matrices
9.1 Biological Introduction
9.2 Mathematical Model
9.2.1 Simulation Details
9.3 Isotropic Matrices
9.4 Anisotropic 2D and 3D Matrices
9.5 Varying Fiber Density
9.6 Varying Cell-Fiber Adhesiveness
9.7 Varying Fiber Elasticity of 3D Matrix Scaffold
9.8 Effect of Varying Nucleus Compressibility in 3D
9.9 Effect of Matrix Degradation in 3D
10 Cancer Cell Migration in Matrix Microchannels
10.1 Biological Introduction
10.2 Mathematical Model
10.3 Simulations
10.4 Migration Velocities
10.5 Migration Modes
III Appendix
A Computational Implementation
B Glossary
C Parameter Values
D Color Insert
Bibliography
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Tags: Marco Scianna, Luigi Preziosi, Cellular Potts, Multiscale Extensions, Biological Applications