Model supports asymmetric regulation across the intercellular junction for collective cell polarization
Description
Supplementary code and data - Model supports asymmetric regulation across the intercellular junction for collective cell polarization
Katherine Levandosky and Calina Copos
These codes are shared to allow replication of our results and further exploration. Our codes were not developed with the goal of being efficient or easy to read, nor do they follow standard notations and conventions. We cannot guarantee that they will work as predicted if you try to change things without understanding them.
Paper available at: https://biorxiv.org/cgi/content/short/2024.06.03.597091v1
The zip file includes:
- MATLAB simulation codes used in the article.
To run code for polarity establishment in a pair of cells, open MATLAB and enter the command
>> TwoCells
The code in its current state will generate an instance of a pair of cells that interact via Rho signaling at the cell-cell region. The specific pathway of intercellular interaction is one of four asymmetric interactions which involves elevated Rac binding rate in cell 1 and, simultaneously, elevated Rho binding rate in cell 2.
To run the code for four cells in a linear arrangement, open MATLAB and enter the command
>> FourCellsLine
The code in its current state will generate an instance of four cells in a linear arrangement, with alternating elevated Rac binding rates and elevated Rho binding rates at the intercellular regions. To run the code for four cells in a square arrangement, open MATLAB and enter the command
>> FourCellsSquare
The code in its current state will generate an instance of Fig.7b. In each of these cases, by changing the “pathway” parameter to one of the options listed in the code, other communication pathways may be implemented
Requirements:
- All MATLAB codes run in MATLAB, specifically we used MATLAB2023b.
Files
freeze_colors.zip
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Additional details
Funding
- U.S. National Science Foundation
- The biophysics of collective cell locomotion DMS2209494
Software
- Repository URL
- https://github.com/CoposLab/Co-polarity
- Programming language
- MATLAB
- Development Status
- Active