E443/543 Virtual Tissues, Lecture 11, Chemotaxis, dal Castel, March 26, 2024

ENG443/543 Multicellular Virtual Tissue Modeling, Lecture 11, March 26, 2024
Cell interaction with Chemical Fields, Chemotaxis

Presented by Pedro dal Castel
Indiana University, Department of Intelligent Systems Engineering and Biocomplexity Institute
Bloomington, IN 47408, USA

Slides and exercises available on request.

*Detailed Contents*
Last Time
Chemotaxis in a Self-Generated Gradient
Chemotaxis Dependence on Parameters, Speed Limits
Chemotaxis with Logarithmic Adaptation
Issues to Think about when Defining a Model with Chemotaxis
Angiogenesis and Vasculogenesis
Movies of the biology
Paracrine chemotaxis theory of angiogenesis
Role of Contact Inhibition
Exercise 11.1—Basic Angiogenesis
Exercise 11.2.1—Angiogenesis without contact inhibition
Exercise 11.2.2—Effect of initial cell density on Angiogenesis
Exercise 11.2.3—Agiogenesis vs Vasculogenesis
Exercise 11.2.4—Effect of Diffusion Length and Cell-Cell contact energy on patterning
Bacterium Macrophage Movie
Exercise 11.3—Basic Simulation of Bacterium and Macrophage
Exercise 11.4—Extensions to Basic Simulation of Bacterium and Macrophage
Persistent Cell Movement, External Potential Plug-in
Exercise 11.4—Persistent Cell Motion
Using numpy Random Number Generators
Selecting a Random Force Direction
Using the External Potential Plug-in to Apply a Force to the Cell
Exercise 11.5—Persistent Cell Motion with Varying Force Angle

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