Published September 6, 2024 | Version v4
Preprint Open

Model supports asymmetric regulation across the intercellular junction for collective cell polarization

  • 1. ROR icon Northeastern University

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

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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