Description

CompuCell3D is a flexible scriptable modeling environment, which allows the rapid construction of sharable Virtual Tissue in silico simulations of a wide variety of multi-scale, multi-cellular problems including angiogenesis, bacterial colonies, cancer, developmental biology, evolution, the immune system, tissue engineering, toxicology and even non-cellular soft materials. CompuCell3D models have been used to solve basic biological problems, to develop medical therapies, to assess modes of action of toxicants and to design engineered tissues. CompuCell3D's intuitive interface makes Virtual Tissue modeling accessible to users without extensive software development or programming experience.

CompuCell3D on nanoHUB
CompuCell3D website

All Categories (1-20 of 30)

1. Developing Software Tools in Computational Biology

   Online Presentations | 15 Dec 2023 | Contributor(s):: T.J. Sego, The Micro Nano Technology - Education Center

   This talk presents the CompuCell3D and Tissue Forge modeling and simulation environments. The scope, basic capabilities, and select features of both software packages are surveyed. ...

2. CompuCell3D - Avascular Tumor Growth and Mutation

   Tools | 25 May 2023 | Contributor(s):: Juliano Ferrari Gianlupi

   Avascular tumor, growing on nutrient, self-limited, mutates

3. 2D Angiogenesis Simulation

   Tools | 04 Apr 2023 | Contributor(s):: James A Glazier, Pedro Cenci Dal Castel

   2D Angiogenesis Simulation in CompuCell3D

4. compucell3d cctrinity project

   Tools | 09 Mar 2023 | Contributor(s):: Jung Hyun Park, elmar bucher, Jonathan Ott

   In-silico model of human induced pluripotent stem cells (hiPSC) self-organization

5. Virtual Tissue Computer Simulation of Development, Homeostasis and Disease using CompuCell3D

   Online Presentations | 22 Sep 2022 | Contributor(s):: James A Glazier, Trinity Chung, The Micro Nano Technology - Education Center

6. CompuCell3D - Capillary without Gravity

   Tools | 29 Jun 2022 | Contributor(s):: Pedro Cenci Dal Castel

   2D Cellular Potts Model simulation on capillary to demonstrate contact energy effects

7. May 20 2022

   2022 Multicell Virtual Tissue Modeling Online Summer School and Hackathon Deadline

   You're invited to apply for the 2022 Multicell Virtual Tissue Modeling Online Summer School and Hackathon!Application Deadline: Wednesday, June 15, 2022Intro to Computational Modeling...

   https://nanohub.org/events/details/2179

8. CC3D Slime Mold Simulation

   Tools | 18 May 2022 | Contributor(s):: Apanavicius, Joshua Alan, Juliano Ferrari Gianlupi

   Simulate slime molds in various environments.

9. Cancer Evolution in CompuCell3D

   Tools | 27 May 2021 | Contributor(s):: Juliano Ferrari Gianlupi, James A Glazier

   Demonstrates implemetation of cancer evolution in CompuCell3D

10. FocalPointPlasticity Plugin Demo

    Tools | 19 May 2021 | Contributor(s):: Juliano Ferrari Gianlupi, T.J. Sego

    This simple demo shows basic functionality of FocalPointPlasticity and how link rigidity affects cell behaviors.

11. CompuCell3D - Chemotactic Elongation Demo

    Tools | 30 Mar 2021 | Contributor(s):: Juliano Ferrari Gianlupi, T.J. Sego

    Implementation of Developmental biology 289.1 (2006): 44-54. and PLoS Comput Biol 4.9 (2008): e1000163.

12. COVID-19 drug treatments explorer, CompuCell3D

    Tools | 30 Mar 2021 | Contributor(s):: Juliano Ferrari Gianlupi, T.J. Sego

    Explores possible drug treatments for COVID-19; namelly viral entry inhibition and viral replication inhibition

13. Cancer Games: Interactive Simulation of the Effect of Resource Limitation on Cancer Somatic Evolution using nanoHUB CompuCell3D

    Online Presentations | 04 Feb 2021 | Contributor(s):: James A Glazier

    In this interactive mini-workshop we will use a very simple model of cancer somatic evolution and resource limitation based on one originally proposed by Heiko Enderling.

14. Understanding COVID-19 Infection, Immune Response, and Drug Therapy through Multiscale, Multicellular Modeling and Simulation

    Online Presentations | 10 Dec 2020 | Contributor(s):: T.J. Sego

    This workshop presents an open-source Python- and XML-scripted multiscale modeling and simulation framework of an epithelial tissue infected by a virus, a simplified cellular immune response and viral and immune-induced tissue damage and shows how to use it to model basic patterns of infection...

15. Jul 27 2020

    CompuCell3D 15th User Training Workshop

    Goal:By the end of this two-week course, participants will have implemented a basic simulation of their particular biological problem of interest. Post-course support and collaboration will be...

    https://nanohub.org/events/details/1835

16. CompuCell3D v4 Main Tool

    Tools | 08 Jun 2020 | Contributor(s):: Juliano Ferrari Gianlupi, T.J. Sego

    Base tool for CompuCell3D version 4 and greater. Allows running any of the demos included with CC3D (/CompuCell3D_Demos/Demos)

17. CompuCell3D - 2D wet foam coarsening

    Tools | 04 Jun 2020

    Simulates foam coarsening in a 2D wet foam

18. CompuCell3D - 2D wet foam coarsening with drainage

    Tools | 04 Jun 2020

    Simulation of 2D wet foam with drainage (gravity)

19. CompuCell3D - Cells random walking at different speeds

    Tools | 04 Jun 2020 | Contributor(s):: Juliano Ferrari Gianlupi, T.J. Sego

    Cells random walking at different speeds implemented through the motility plugin

20. CompuCell3d cell sorting in a hexagonal lattice

    Tools | 04 Jun 2020 | Contributor(s):: Juliano Ferrari Gianlupi, T.J. Sego

    Showcases hexagonal lattice use in CompuCell3D by simulating cell sorting by difference in contact energies in a hexagonal lattice.