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Abstract
Cells participating in Delta-Notch signaling. You can visualize Delta and Notch levels field by selecting the drop-down menu in the "Graphics" window and selecting one of them (changing the chemical visualized pauses the simulation, you'll need to hit run after the change). You can have more than one "Graphics" window open by selecting the menu "Visualization->New Graphics Window"
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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 intuitive and make Virtual Tissue modeling accessible to users without extensive software development or programming experience. It uses Cellular Potts Model to model cell behavior.
Bio
Part of the nanoBio group https://nanohub.org/groups/nanobio
Credits
Compucell3D is led by Maciej Swat (IU), TJ Sego (IU), Andy Somogyi (IU), Juliano Gianlupi (IU), and James Glazier (IU) in collabration with Dr. David Umulis (PU) and team.
Sponsored by
This project is currently funded by generous support from the U.S. National Science Foundation (NSF) and National Institutes of Health (NIH). Grants: NSF- 1720625, “Network for Computational Nanotechnology - Engineered nanoBIO Node” and NIH- R01 GM122424, “Competitive Renewal of Development and Improvement of the Tissue Simulation Toolkit”.
References
Multi-Scale Modeling of Tissues Using CompuCell3D – M. Swat, Gilberto L. Thomas, Julio M. Belmonte, A. Shirinifard, D.Hmeljak, J. A. Glazier, Computational Methods in Cell Biology, Methods in Cell Biology 110: 325-366 (2012)
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