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     Textbook

Modeling Biological Systems:

   Principles and Applications
     * Textbook
     * © 2005

     * Latest edition

Overview

   Authors:

          + [12]James W. Haefner ^[13]0

    1. James W. Haefner
         1. Utah State University
       [14]View author publications
       You can also search for this author in [15]PubMed   [16]Google Scholar

     * More rigorous and mathematical than the competitive titles, which are
       intended for a less sophisticated reader
     * In an active and growing area, and the fact that it is a single author text
       is also an advantage

     * 82k Accesses
     * 123 [17]Citations

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Table of contents (20 chapters)

    1.

Front Matter
       Pages i-xvi
       [26]Download chapter PDF
    2.

Principles
         1.

[27]Models of Systems
            Pages 3-16
         2.

[28]The Modeling Process
            Pages 17-31
         3.

[29]Qualitative Model Formulation
            Pages 32-57
         4.

[30]Quantitative Model Formulation: I
            Pages 58-80
         5.

[31]Quantitative Model Formulation: II
            Pages 81-106
         6.

[32]Numerical Techniques
            Pages 107-122
         7.

[33]Parameter Estimation
            Pages 123-143
         8.

[34]Model Validation
            Pages 144-177
         9.

[35]Model Analysis: Uncertainty and Behavior
            Pages 178-214
        10.

[36]Stochastic Models
            Pages 215-234
    3.

Applications
         1.

[37]Photosynthesis and Plant Growth
            Pages 237-259
         2.

[38]Hormonal Control in Mammals
            Pages 260-271
         3.

[39]Populations and Individuals
            Pages 272-294
         4.

[40]Chemostats
            Pages 295-306
         5.

[41]Diseases
            Pages 307-323
         6.

[42]Spatial Patterns and Processes
            Pages 324-341
         7.

[43]Scaling Models
            Pages 342-355
         8.

[44]Chaos in Biology
            Pages 356-389
         9.

[45]Cellular Automata and Recursive Growth
            Pages 390-414

     * [46]1
     * [47]2
     * Next page

   [48]Back to top

Keywords

     * [49]behavior
     * [50]biological
     * [51]biology
     * [52]computational biology
     * [53]evolution
     * [54]mammals
     * [55]plant
     * [56]plant growth
     * [57]population

About this book

   I Principles 1 1 Models of Systems 3 1. 1 Systems. Models. and Modeling . . . . .
   . . . . . . . . . . . . . . . 3 1. 2 Uses of Scientific Models . . . . . . . . .
   . . . . . . . . . . . . . . . 4 1. 3 Example: Island Biogeography . . . . . . . .
   . . . . . . . . . . . . . 6 1. 4 Classifications of Models . . . . . . . . . . .
   . . . . . . . . . . . . . 10 1. 5 Constraints on Model Structure . . . . . . . .
   . . . . . . . . . . . . . 12 1. 6 Some Terminology . . . . . . . . . . . . . . .
   . . . . . . . . . . . . 12 1. 7 Misuses of Models: The Dark Side . . . . . . . .
   . . . . . . . . . . . 13 1. 8 Exercises . . . . . . . . . . . . . . . . . . . . .
   . . . . . . . . . . . 15 2 The Modeling Process 17 2. 1 Models Are Problems . . .
   . . . . . . . . . . . . . . . . . . . . . . . 17 2. 2 Two Alternative Approaches
   . . . . . . . . . . . . . . . . . . . . . . 18 2. 3 An Example: Population
   Doubling Time . . . . . . . . . . . . . . . . 24 2. 4 Model Objectives . . . . .
   . . . . . . . . . . . . . . . . . . . . . . . 28 2. 5 Exercises . . . . . . . . .
   . . . . . . . . . . . . . . . . . . . . . . . 30 3 Qualitative Model Formulation
   32 3. 1 How to Eat an Elephant . . . . . . . . . . . . . . . . . . . . . . . . .
   32 3. 2 Forrester Diagrams . . . . . . . . . . . . . . . . . . . . . . . . . . .
   33 3. 3 Examples . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   36 3. 4 Errors in Forrester Diagrams . . . . . . . . . . . . . . . . . . . . . .
   44 3. 5 Advantages and Disadvantages of Forrester Diagrams . . . . . . . . . 44
   3. 6 Principles of Qualitative Formulation . . . . . . . . . . . . . . . . . . 45
   3. 7 Model Simplification . . . . . . . . . . . . . . . . . . . . . . . . . . 47
   3. 8 Other Modeling Problems . . . . . . . . . . . . . . . . . . . . . . . . 49
   viii Contents . . .. . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3. 9
   Exercises 53 4 Quantitative Model Formulation: I 4. 1 From Qualitative to
   Quantitative . . . . . . . . . . . . . . . . . Finite Difference Equations and
   Differential Equations 4. 2 . . . . . . . . . . . . . . . . 4. 3 Biological
   Feedback in Quantitative Models . . . . . . . . . . . . . . . . . . . . . . . . .
   . 4. 4 Example Model . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4.
   5 Exercises 5 Quantitative Model Formulation: I1 81 . . . . . . . . . . . . . . .
   . . . . . . . . . . . . 5. 1 Physical Processes 81 . . . . . . . . . . . . . . .
   5. 2 Using the Toolbox of Biological Processes 89 . . . . . . . . . . . . . . . .
   . . . . . . . . . . . . 5. 3 Useful Functions 96 . . . . . . . . . . . . . . . .
   . . . . . . . . . . . . . . . . 5. 4 Examples 102 . . . . . . . . . . . . . . . .
   . . . . . . . . . . . . . . . . 5. 5 Exercises 104 6 Numerical Techniques 107 . .
   . . . . . . . . . . . . . . . . . . . . . 6. 1 Mistakes Computers Make 107 . . .
   . . . . . . . . . . . . . . . . . . . . . . . 6. 2 Numerical Integration 110 . .
   . . . . . . . . . . . . . . 6. 3 Numerical Instability and Stiff Equations 115 .
   . . . . . . . . . . . . .

Authors and Affiliations

     * Utah State University
       James W. Haefner

Bibliographic Information

     * Book Title: Modeling Biological Systems:
     * Book Subtitle: Principles and Applications
     * Authors: James W. Haefner
     * DOI: https://doi.org/10.1007/b106568
     * Publisher: Springer New York, NY
     * eBook Packages: [58]Biomedical and Life Sciences, [59]Biomedical and Life
       Sciences (R0)
     * Copyright Information: Springer-Verlag US 2005
     * Hardcover ISBN: 978-0-387-25011-3Published: 06 May 2005
     * Softcover ISBN: 978-1-4614-9808-7Published: 04 December 2014
     * eBook ISBN: 978-0-387-25012-0Published: 05 December 2005
     * Edition Number: 2
     * Number of Pages: XI, 475
     * Additional Information: Originally published by Chapman and Hall, 1996
     * Topics: [60]Life Sciences, general, [61]Bioinformatics, [62]Computer Appl. in
       Life Sciences, [63]Ecology, [64]Zoology

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