Modeling in Biology

  1. Types of Biological Models
    1. Conceptual Models
      1. Diagrams and Flowcharts
        1. System Diagrams
          1. Process Flowcharts
            1. Network Diagrams
            2. Analogies and Metaphors
              1. Mechanical Analogies
                1. Electrical Circuit Analogies
                  1. Chemical Analogies
                2. Mathematical Models
                  1. Deterministic Models
                    1. Fixed Outcomes
                      1. Predictable Behavior
                        1. Examples in Population Dynamics
                        2. Stochastic Models
                          1. Incorporating Randomness
                            1. Probabilistic Outcomes
                              1. Noise and Variability
                              2. Static Models
                                1. Time-Independent Models
                                  1. Equilibrium States
                                  2. Dynamic Models
                                    1. Time-Dependent Models
                                      1. Temporal Evolution
                                      2. Spatially Implicit Models
                                        1. Homogeneous Assumptions
                                          1. Well-Mixed Systems
                                          2. Spatially Explicit Models
                                            1. Incorporating Spatial Structure
                                              1. Spatial Heterogeneity
                                            2. Computational Models
                                              1. Simulations as Virtual Experiments
                                                1. In Silico Experiments
                                                  1. Model-Based Hypothesis Testing
                                                    1. Parameter Exploration
                                                    2. Agent-Based Models
                                                      1. Individual-Based Simulations
                                                        1. Emergent Collective Behavior
                                                        2. Equation-Based Models
                                                          1. Numerical Solutions of Equations
                                                            1. Continuous System Modeling

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                                                        1. Introduction to Biological Modeling

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                                                        3. Mathematical Foundations for Modeling