Supporting data for "Synthesis and Simulation of Ensembles of Boolean Networks for Cell Fate Decision" by Chevalier et al., 2020

Code, data, and notebooks used for the synthesis and simulations of ensembles of Boolean networks for the tumor invasion model introduced in (Cohen et al, 2015)

Visualize online:

• Simulations - Mutant analysis.ipynb
•  Tumour - Synthesis with BoNesis.ipynb

The notebooks can be executed within the CoLoMoTo Docker image 2020-07-01:

pip install -U colomoto-docker
colomoto-docker -V 2020-07-01 --bind .

The synthesis additionally requires executing the following command (within the Docker image):

pip install --user bonesis-preview-20200514.zip

The ensembles have been generated with the following commands.

python synthesis.py synthesis --exact-pkn --globalfps
python synthesis.py synthesis --exact-pkn --globalfps --mutant p53 --mutant NICD