Cellular automaton modeling of biological pattern formation: characterization, examples, and analysis
Gespeichert in:
| Hauptverfasser: | , |
|---|---|
| Format: | Buch |
| Sprache: | German |
| Veröffentlicht: |
New York
Birkhäuser
[2017]
|
| Ausgabe: | Second edition |
| Schriftenreihe: | Modeling and simulation in science, engineering and technology
|
| Schlagworte: | |
| Online-Zugang: | http://www.springer.com/ Inhaltstext Inhaltsverzeichnis |
| Beschreibung: | xxii, 464 Seiten Illustrationen, Diagramme |
| ISBN: | 9781489979780 1489979786 |
Internformat
MARC
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| 653 | |a Cancer Dynamics | ||
| 653 | |a Cell Migration | ||
| 653 | |a Cellular Automata | ||
| 653 | |a Pigment Cell Pattern Formation | ||
| 653 | |a Tissue Development | ||
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Datensatz im Suchindex
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| adam_text | Contents Foreword to the Second Edition vii Foreword to the First Edition ix Acknowledgments xiii I General Principles and Models of Pattern Formation 1 1 Introduction and Outline 3 2 On the Origin of Patterns 13 2.1 Space, Time, and Mathematics..................................................... 14 Static and Dynamic World Conceptions in Ancient Greece.................................................................................... 14 2.1.2 Scholasticism....................................................................... 19 2.1.3 The Deterministic World of Classical Mechanics .... 20 2.1.4 Discovering the History of Time ..................................... 26 2.1.5 From Equilibrium to Self-Organizing Systems............... 29 Principles of Biological Pattern Formation.................................. 35 2.2.1 35 2.1.1 2.2 Preformation and Epigenesis ........................................... XV
CONTENTS xvi Ontogeny and Phylogeny ................................................... 37 2.2.3 On Organizers and Embryonic Regulation....................... 39 2.2.4 Molecular and Genetic Analysis.......................................... 40 2.2.5 Self-Assembly........................................................................ 42 2.2.6 Physical Analogues.............................................................. 43 2.2.7 On Gradients and ChemicalMorphogens ....................... 44 2.2.8 Self-Organization andMorphogenesis................................. 46 2.2.9 Cell-Cell Interactions............................................................ 46 2.2.2 3 Modeling Biological Pattern Formation 49 3.1 The Art of Modeling........................................................................ 50 3.2 How to Choose the AppropriateModel.......................................... 51 3.2.1 Model Perspectives............................................................... 56 3.2.2 From Individual Behavior to Population Dynamics ... 58 II Cellular Automaton Modeling Cellular Automata 4 63 65 4.1 Biological Roots ............................................................................ 66 4.2 Biological Applications................................................................... 70 4.3 Cellular Automaton Definition .................................................... 76 4.3.1 Lattice Geometry................................................................ 76 4.3.2 State Space.......................................................................... 77 4.3.3 Neighborhood
of Interaction.............................................. 78 4.3.4 System Dynamics................................................................. 80 Analysis and Characterization........................................................ 87 Chapman-KolmogorovEquation...................................... 90 4.4 4.4.1
xvii CONTENTS 4.4.2 Cellular Automaton Mean-Field Equations .................. 93 4.4.3 Linear Stability Analysis..................................................... 100 4.5 Partial Differential Equations........................................................ 107 4.6 Further Research Projects.............................................................. 109 III 5 Applications 113 Random Movement 115 5.1 Brownian Motion.............................................................................. 116 5.2 Discrete Random Walk and Diffusion............................................ 117 5.3 Probabilistic Cellular Automaton Models .................................. 121 Random Walk Rule According to Toffoli and Margolus....................................................................... 122 Asynchronous Updating..................................................... 125 5.4 Lattice-Gas Cellular Automaton Models...................................... 126 5.4.1 Stability Analysis................................................................. 130 5.4.2 Checkerboard Artifact........................................................ 133 5.5 Diffusion-Limited Aggregation........................................................ 137 5.6 Further Research Projects........................................................ 139 5.3.1 5.3.2 6 Cell Migration 141 6.1 Cell Migration Modes ..................................................................... 142 6.2 Mathematical Models of Cell Migration ...................................... 144 6.3 Migration in Static
Environment.................................................. 145 6.3.1 LGCA Model for Haptotactic Cell Migration................ 145 6.3.2 LGCA Model for Contact Guidance............................... 147 6.3.3 Analysis of the LGCA Models........................................... 149
CONTENTS xviii 6.4 LGCA Model for Chemotaxis........................................................ 154 6.5 Further Research Projects.............................................................. 157 7 Adhesive Cell Interaction 159 7.1 Cellular Patterns.............................................................................. 160 7.2 Adhesive Lattice-Gas Cellular Automaton.................................. 163 7.3 Aggregation Dynamics..................................................................... 164 7.3.1 Linear Stability Analysis..................................................... 165 7.3.2 Spatial Pattern Formation.................................................. 169 7.4 Phase Separation and Engulfment ............................................... 173 7.5 Adhesive Interaction of a Single Cell Type.................................... 175 7.6 Differential Adhesion...................................................................... 177 7.7 Contact Inhibition.......................................................................... 179 7.8 Further Research Projects............................................................. 183 8 Alignment and Cellular Swarming 185 8.1 Orientation-Induced Pattern Formation..................................... 186 8.2 A Swarm Lattice-Gas Cellular Automaton.................................. 189 8.2.1 Linear Stability Analysis..................................................... 190 8.2.2 The Swarming Instability.................................................. 193 Collective
Motion............................................................................. 196 8.4 Further Research Projects.............................................................. 201 8.3 9 Growth Processes 203 Classical Growth Models................................................................. 203 9.2 Growth Processes in Cellular Automata...................................... 206 9.3 LGCA Growth Models.................................................................... 212 9.4 Further Research Projects.............................................................. 217 9.1
CONTENTS xix 219 10 Pigment Cell Pattern Formation 10.1 Principles of Pigment Cell Pattern Formation................................................................................. 219 10.2 Definition of the LGCA Model..................................................... 223 10.3 Simulation of Stripe Pattern Formation..................................... 225 10.4 Development and Evolutionary Change ..................................... 229 10.5 Further Research Projects.............................................................. 230 11 Tissue Development 231 11.1 LGCA Model for Tissue Growth.................................................. 232 11.2 Differentiation Waves....................................................................... 234 11.2.1 Mathematical Models for Lateral Specification............ 236 11.2.2 A Cellular Automaton Model for Lateral Inhibition , . . 238 11.2.3 Analysis................................................................................. 239 11.3 Angiogenesis .................................................................................... 247 11.3.1 Definition of the LGCA Model........................................ 249 11.3.2 Data Analysis........................................................................ 250 11.3.3 Computer Simulations........................................................ 250 11.4 Further Research Projects.............................................................. 254 12 Tumor Growth and Invasion 257 12.1 Hallmarks of Cancer........................................................................ 257
12.2 Avascular Tumor Growth.............................................................. 259 12.2.1 A Hybrid Lattice-Gas Cellular Automaton Model .... 261 12.2.2 Simulations........................................................................... 265 12.3 LGCA Modeling of Glioma Invasion............................................ 270 12.3.1 Glioma Invasion .................................................................. 270 12.3.2 Experimental Data.............................................................. 273
CONTENTS XX 12.3.3 Definition of the LGCA Model......................................... 276 12.3.4 Model I: Go or Grow Mechanism...................................... 278 12.3.5 Model II: Cell-Cell Repulsion............................................ 280 12.3.6 Model III: Density-Dependent Phenotypic Switch .... 285 12.4 Further Research Projects............................................................... 292 13 Turing Patterns and Excitable Media 293 13.1 Turing Patterns................................................................................. 293 13.!.1 Macroscopic Reaction-Diffusion Systems......................... 295 13.1.2 Definition of the Lattice-Gas Cellular Automaton Model............................................................... 297 13.1.3 Pattern Formation in One Dimension ............................ 306 13.1.4 Pattern Formation in Two Dimensions............................ 317 13.1.5 Macroscopic Description..................................................... 325 13.2 Excitable Media .............................................................................. 13.2.1 Introduction 330 ........................................................................ 330 13.2.2 Definition of the LGCA Model......................................... 333 13.2.3 Lattice-Boltzmann Equation ............................................ 335 13.2.4 Stability Analysis of the Lattice-Boltzmann Equation .............................................................................. 339 13.3 Further Research
Projects.............................................................. 344 14 Discussion and Outlook 347 14.1 Cellular Automaton Modeling........................................................ 347 14.1.1 Cell Interaction-Based Instabilities.................................. 348 14.1.2 Discreteness Effects ........................................................... 349 14.2 Cellular Automata As a Modeling Tool........................................ 351 14.3 Cell-Based Models.......................................................................... 353
CONTENTS xxi 14.4 Outlook............................................................................................ 355 14.4.1 Further Applications.......................................................... 355 14.4.2 Further Analysis................................................................. 358 Appendices 363 Appendix A: Cell Migration 363 Equilibrium Distribution for Haptotaxis.................................... 363 A.2 Equilibrium Distribution for Contact Guidance........................ 365 A.l Appendix B: Growth Processes 369 Appendix C: Tumor Growth and Invasion 371 C.l Details of the LGCA Model.......................................................... 371 C.l.l Dynamics of the LGCA Model........................................ 372 C.1.2 Scaling of the LGCA........................................................... 376 C.2 Estimation of Core and Invasive Radii........................................ 376 C.2.1 Estimation of in silica Core Radius.................................. 377 C.2.2 Estimation of in silica Invasive Radius............................ 377 C.3 Statistical Evaluation of Simulation Results............................... 378 Appendix D: Turing patterns 381 D.l LGCA Interaction Rule................................................................. 381 D.2 Linear Stability Analysis................................................................. 382 Appendix E: Excitable Media 385 Appendix F: Isotropy, Lattices, and Tensors 387 F.l Isotropic Media and Lattices ........................................................ 387
xxii CONTENTS F.2 Tensors ............................................................................................... 389 F.3 Lattice Influence............................................................................... 391 List of Simulations 393 Symbols and Notation 395 Figure Credits 399 Bibliography 403 Index 451
|
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| spelling | Deutsch, Andreas 1960- Verfasser (DE-588)141222794 aut Cellular automaton modeling of biological pattern formation characterization, examples, and analysis Andreas Deutsch, Sabine Dormann ; foreword by Philip K. Maini, fellow of the Royal Society London Second edition New York Birkhäuser [2017] xxii, 464 Seiten Illustrationen, Diagramme txt rdacontent n rdamedia nc rdacarrier Modeling and simulation in science, engineering and technology Musterbildung (DE-588)4137934-2 gnd rswk-swf Mathematische Modellierung (DE-588)7651795-0 gnd rswk-swf Biologisches System (DE-588)4122930-7 gnd rswk-swf Zellularer Automat (DE-588)4190671-8 gnd rswk-swf PBW Adhesive Cell Interaction Biological Pattern Formation Cancer Dynamics Cell Migration Cellular Automata Pigment Cell Pattern Formation Tissue Development Zellularer Automat (DE-588)4190671-8 s Biologisches System (DE-588)4122930-7 s Mathematische Modellierung (DE-588)7651795-0 s Musterbildung (DE-588)4137934-2 s DE-604 Dormann, Sabine 1969- Verfasser (DE-588)12252604X aut Birkhäuser Publishing Ltd. (DE-588)1065648766 pbl Erscheint auch als Online-Ausgabe 978-1-4899-7980-3 Vorangegangen ist 9780817642815 http://www.springer.com/ Verlag X:MVB text/html http://deposit.dnb.de/cgi-bin/dokserv?id=972dbb55c13445fcbce8a35b0dd2deea&prov=M&dok_var=1&dok_ext=htm Inhaltstext Digitalisierung UB Regensburg - ADAM Catalogue Enrichment application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=029617102&sequence=000001&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
| spellingShingle | Deutsch, Andreas 1960- Dormann, Sabine 1969- Cellular automaton modeling of biological pattern formation characterization, examples, and analysis Musterbildung (DE-588)4137934-2 gnd Mathematische Modellierung (DE-588)7651795-0 gnd Biologisches System (DE-588)4122930-7 gnd Zellularer Automat (DE-588)4190671-8 gnd |
| subject_GND | (DE-588)4137934-2 (DE-588)7651795-0 (DE-588)4122930-7 (DE-588)4190671-8 |
| title | Cellular automaton modeling of biological pattern formation characterization, examples, and analysis |
| title_auth | Cellular automaton modeling of biological pattern formation characterization, examples, and analysis |
| title_exact_search | Cellular automaton modeling of biological pattern formation characterization, examples, and analysis |
| title_full | Cellular automaton modeling of biological pattern formation characterization, examples, and analysis Andreas Deutsch, Sabine Dormann ; foreword by Philip K. Maini, fellow of the Royal Society London |
| title_fullStr | Cellular automaton modeling of biological pattern formation characterization, examples, and analysis Andreas Deutsch, Sabine Dormann ; foreword by Philip K. Maini, fellow of the Royal Society London |
| title_full_unstemmed | Cellular automaton modeling of biological pattern formation characterization, examples, and analysis Andreas Deutsch, Sabine Dormann ; foreword by Philip K. Maini, fellow of the Royal Society London |
| title_short | Cellular automaton modeling of biological pattern formation |
| title_sort | cellular automaton modeling of biological pattern formation characterization examples and analysis |
| title_sub | characterization, examples, and analysis |
| topic | Musterbildung (DE-588)4137934-2 gnd Mathematische Modellierung (DE-588)7651795-0 gnd Biologisches System (DE-588)4122930-7 gnd Zellularer Automat (DE-588)4190671-8 gnd |
| topic_facet | Musterbildung Mathematische Modellierung Biologisches System Zellularer Automat |
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