E443/542 Virtual Tissues: Lecture 14: Delta Notch Calcium Compartments, April 16, 2024

ENG443/543 Multicellular Virtual Tissue Modeling, Lecture 14, April 9, 2024
Integrating Network Models in CC3D Cells, Modeling Delta-Notch Signaling, Steering Panels, Message Windows, Calcium Waves in Embryos

Presented by James A. Glazier
Indiana University, Department of Intelligent Systems Engineering and Biocomplexity Institute
Bloomington, IN 47408, USA

Slides and exercises available on request.

*Detailed Contents*
0:01:19 -- Outline
0:02:42 -- Student Project Updates
Last Time
Exercise 14.1: Delta-Notch Patterning
Exercise 14.2: Using Steering Panels in CompuCell3D
Exercise 14.3: Using the Print Window in CompuCell3D
Exercise 14.4: Explore the effect of Notch as a promoter of cell growth
Modeling Ca++ Signaling in Drosophila Imaginal Disk Development
Zartmann Model of Calcium Signaling
Exercise 14.5: Run Zartmann ODE Model and Explore Parameter Dependence
Exercise 14.6: Put the Zartmann Model into Cells
[02:03:40] -- Exercise 14.7: Couple Neighboring Cells via Gap Junctions and Explore Calcium Waves
Exercise 14.8: Couple Calcium Waves to Contractility
Introduction to Compartmental Cells
Defining Cell Compartments
Defining Internal and External Contact Energies
Defining Cluster Division
Exercise 14.9: Creating an Epithelial Layer

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