Written by Marcelo Boareto (marceloboareto at gmail.com)
Operating Principles of Notch-Delta-Jagged module of cell-cell communication. Mohit Kumar Jolly, Marcelo Boareto, Mingyang Lu, José N. Onuchic, Cecilia Clementi, and Eshel Ben-Jacob http://iopscience.iop.org/1367-2630/17/5/055021
The codes were written in Python, using the PyDSTool (http://www.ni.gsu.edu/~rclewley/PyDSTool/FrontPage.html). The available codes were written using the ipython notebook (http://ipython.org/notebook.html)
To visualize the codes please use nbviewer (http://nbviewer.ipython.org/) or the following links:
N-D-J simplified circuit: http://nbviewer.ipython.org/github/mboareto/JollyEtAl2015NJP/blob/master/modelNL_1cell.ipynb
N-D-J-F circuit for 1 cell: http://nbviewer.ipython.org/github/mboareto/JollyEtAl2015NJP/blob/master/modelNDJF_1cell.ipynb
N-D-J-F circuit for 2 cells: http://nbviewer.ipython.org/github/mboareto/JollyEtAl2015NJP/blob/master/modelNDJF_2cell.ipynb
1D patterning analysis: http://nbviewer.ipython.org/github/mboareto/JollyEtAl2015NJP/blob/master/1Dpattern.ipynb
3D Potential analysis: http://nbviewer.ipython.org/github/mboareto/JollyEtAl2015NJP/blob/master/3D_Potential.ipynb