Model Repository (Published Models)

A Mechanical Model of Early Somite Segmentation.

Covid-19 Modeling on nanoHUB

Fibroblast state switching orchestrates dermal maturation and wound healing

• GitHub

• Model page

Proteolytic and non-proteolytic regulation of collective cell invasion: tuning by ECM density and organization (S. Kumar)

Emergent Stratification Model - PLoS ONE 2015 paper

Code for the PKD paper

Models deployed as nanoHub tools

Python script to help create new NanoHub tools

Main Tool (has all the bundled demos)

Covid-19 Modeling in CompuCell3D on nanoHUB

Simulation of angiogenesis in CompuCell3D on nanoHUB

CompuCell3d cell sorting in a hexagonal lattice in CompuCell3D on nanoHUB

Bacterium Macrophage simulation in CompuCell3D on nanoHUB

Cells random walking at different speeds in CompuCell3D on nanoHUB

2D wet foam coarsening in CompuCell3D on nanoHUB

2D wet foam coarsening with drainage in CompuCell3D on nanoHUB

CC3D Slime Mold Simulation

Cancer Evolution in CompuCell3D

CompuCell3D - Simulation of cell crawling in 3D

FocalPointPlasticity Plugin Demo

Simplified Demo Model Repository (Toy Models)

See also the Quick Models page for:

• Track the location of a cell with a tail
• Create a set of cells that look like fibers
• Create a set of cells at defined locations using Python in CC3D
• Import an image into CC3D
• Import an image and create cells in CC3D
• Simulating a falling cell
• Animating CC3D results
• Simple durotaxis model

Simplified Bacteria & Macrophages

Simplified Cell Motion

Simplified Chemotaxis

Simplified Diffusion

Cell Lineage Tracing Model

Simplest possible CC3D Model

Simplified Vascular Growth Model

Simplified Tumor Vascularization Model