Written by Marcelo Boareto (marceloboareto at gmail.com)
Jagged–Delta asymmetry in Notch signaling can give rise to a Sender/Receiver hybrid phenotype (2015) Marcelo Boareto, Mohit Kumar Jolly, Mingyang Lu, José N. Onuchic, Cecilia Clementi, and Eshel Ben-Jacob. PNAS doi:10.1073/pnas.1416287112
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 circuit: http://nbviewer.ipython.org/github/mboareto/BoaretoEtAl2015PNAS/blob/master/modelND.ipynb
N-D-J circuit: http://nbviewer.ipython.org/github/mboareto/BoaretoEtAl2015PNAS/blob/master/modelNDJ.ipynb
N-D-J-F circuit: http://nbviewer.ipython.org/github/mboareto/BoaretoEtAl2015PNAS/blob/master/modelNDJF.ipynb
Robustness analysis: http://nbviewer.ipython.org/github/mboareto/BoaretoEtAl2015PNAS/blob/master/Robustness_Dimensionless.ipynb
1D patterning analysis: http://nbviewer.ipython.org/github/mboareto/BoaretoEtAl2015PNAS/blob/master/modelNDJF_1Dpattern.ipynb
Stochastic analysis: http://nbviewer.ipython.org/github/mboareto/BoaretoEtAl2015PNAS/blob/master/modelNDJF_Gilliespie.ipynb