Modeling Dynamic Biological Systems,9780387948508

Modeling Dynamic Biological Systems

by ;
Edition: 1st
ISBN13: 9780387948508
ISBN10: 0387948503
Format: Hardcover
Pub. Date: 1997-07-01
Publisher(s): Springer Verlag
List Price: $99.00

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Summary

Until recently, a significant background in mathematics and computer programming was needed to develop models for understanding complex system behavior in the fields of biology and ecology. This concise and accessible introduction to the biological and ecological applications of computer simulations encourages readers from a wide range of disciplines to actively incorporate computer modeling into their education and research. The accompanying CD-ROM contains models and a run-time version of the popular Stella "RM" II and Madonna "RM" simulation modeling software, allowing readers to visualize their results.

Table of Contents

Foreword v(2)
Simon A. Levin
Series Preface vii(2)
Preface ix
Part 1 Introduction 1(58)
1 Modeling Dynamic Biological Systems
3(25)
1.1 Process and Art of Model Building
3(3)
1.2 Static, Comparative Static, and Dynamic Models
6(2)
1.3 Analogies, Anomalies, and Reality
8(2)
1.4 Model Components
10(1)
1.5 Modeling in STELLA
11(10)
1.6 Principles of Modeling
21(1)
1.7 Why Model?
22(1)
1.8 Model Confirmation
23(2)
1.9 Extending the Modeling Approach
25(3)
2 Exploring Dynamic Biological Systems
28(11)
2.1 Simple Population Dynamics
28(2)
2.2 Simple Population Dynamics with Varying Carrying Capacity
30(2)
2.3 Sensitivity and Error Analysis with STELLA and MADONNA
32(7)
3 Risky Population
39(5)
4 Steady State, Oscillation, and Chaos in Population Dynamics
44(10)
4.1 The Emergence of Chaos in Population Models
44(5)
4.2 Simple Oscillator
49(5)
5 Spatial Dynamics
54(5)
Part 2 Physical and Biochemical Models 59(38)
6 Law of Mass Action
61(4)
7 Catalyzed Product
65(4)
8 Two-Stage Nutrient Uptake Model
69(5)
9 Iodine Compartment Model
74(3)
10 The Brusselator
77(5)
11 Fitzhugh-Nagumo Neuron Model
82(5)
12 Solar Radiation to Nonobstructed Inclined Surfaces
87(10)
Part 3 Genetics Models 97(12)
13 Mating and Mutation of Alleles
99(5)
14 Natural Slection, Mutation, and Fitness
104(5)
Part 4 Models of Organisms 109(36)
15 Odor-Sensing Model
111(3)
16 Stochastic Resonance
114(3)
17 Heartbeat Model
117(6)
18 Bat Thermoregulation
123(4)
19 The Optimum Plant
127(4)
20 Infectious Diseases
131(14)
20.1 Basic Model
131(1)
20.2 Two Infective Populations
132(5)
20.3 Temporary Immunity
137(2)
20.4 Epidemic with Vaccination
139(6)
Part 5 Single Population Models 145(58)
21 Adaptive Population Control
147(7)
22 Roan Herds
154(5)
23 Population Dynamics of Voles
159(8)
23.1 Basic Model
159(4)
23.2 Vole Population Dynamics with Seasonality
163(1)
23.3 Sinusoidal Seasonal Change
164(3)
24 Lemming Model
167(3)
25 Multistage Insect Models
170(11)
25.1 Matching Experiments and Models of Insect Life Cycles
170(3)
25.2 Two-Stage Insect Model with a Degree-Day Calculation Controlling the Maturation Rate
173(5)
25.3 Three-Stage Insect Model
178(3)
26 Two Age-Class Parasite Model
181(5)
27 Monkey Travels
186(12)
28 Biosynchronicity
198(5)
Part 6 Multiple Population Models 203(94)
29 Wildebeest Model
205(7)
30 Nicholson-Bailey Host-Parasitoid Model
212(5)
31 Diseased and Healthy Immigrating Insects
217(10)
32 Two-Species Colonization Model
227(24)
32.1 Basic Model
227(5)
32.2 Two-Species Colonization Model with Fire
232(3)
32.3 Landscape and Patch Dynamics
235(16)
33 Herbivore-Algae Predator-Prey Model
251(5)
34 The Grass Carp
256(16)
35 Recruitment and Trophic Dynamics of Gizzard Shad
272(16)
36 Modeling Spatial Dynamics of Predator-Prey Interactions in a Changing Environment
288(9)
Part 7 Catastrophe and Self-Organization 297(74)
37 Catastrophe
299(4)
38 Spruce Budworm Dynamics
303(9)
39 Sandpile
312(5)
40 Earthquake
317(16)
41 Game of Life
333(24)
42 Daisyworld
357(14)
Part 8 Conclusion 371(4)
43 Building a Modeling Community
373(2)
Appendix 375(12)
A1 Installation Instructions for MacIntosh Version 375(1)
A2 Installation Instructions for Windows Version 376(1)
A3 Quick Help Guide 377(10)
A3.1 Overview of STELLA Operating Environment 377(1)
A3.2 Drawing an Inflow to a Stock 378(1)
A3.3 Drawing an Outflow from a Stock 379(1)
A3.4 Replacing a Cloud with a Stock 380(1)
A3.5 Bending Flow Pipes 381(1)
A3.6 Repositioning Flow Pipes 381(1)
A3.7 Reversing Direction of a Flow 382(1)
A3.8 Flow Define Dialog--Builtins 382(1)
A3.9 Moving Variable Names 383(1)
A3.10 Drawing Connectors 384(1)
A3.11 Defining Graphs and Tables 385(1)
A3.12 Dynamite Operations on Graphs and Tables 386(1)
MADONNA Quick Start 387(4)
B1 Installation of MADONNA 387(1)
B2 Example: Harmonic Oscillator 387(4)
B2.1 Writing the Model Equations 387(1)
B2.2 Compiling the Model 388(1)
B2.3 Running the Model 388(1)
B2.4 The Graph Window 389(1)
B2.5 Multiple Runs 389(2)
References 391(4)
Index 395

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