July 1, 2020 Other Open Access

Paulevé, Loïc

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  <dc:creator>Paulevé, Loïc</dc:creator>
  <dc:date>2020-07-01</dc:date>
  <dc:description>These notebooks demonstrate Most Permissive Boolean Networks (doi:10.1101/2020.03.22.998377) on several case studies of biological networks.

They can be executed interactively within the CoLoMoTo Docker version 2020-07-01:


	online, using myBinder service at https://mybinder.org/v2/zenodo/10.5281/zenodo.3936123/
	or on your computer, provided you have Docker and Python 3 installed:
	
		download the notebooks individually from below, or from https://github.com/pauleve/MPBNs-SI-Notebooks/archive/main.zip and extract the zip file
		execute the following commands, where notebooks is the folder in which you extracted the notebooks:
		sudo pip install -U colomoto-docker # you may have to use pip3 instead of pip
colomoto-docker -V 2020-07-01 --bind notebooks
		
	
	


Visualize online:


	MPBN applied to Bladder Tumorigenesis by Remy et al 2015.ipynb
	MPBN applied to T-Cell differentiation model by Abou-Jaoudé et al. 2015.ipynb
	MPBN applied to Tumour invasion model by Cohen et al. 2015.ipynb
	I3FFL - compatible MPBNs.ipynb
	Scalability on large random BNs.ipynb


The notebooks rely on the Python library mpbn, see the documentation for usage and examples at https://mpbn.readthedocs.io</dc:description>
  <dc:identifier>https://zenodo.org/record/3936123</dc:identifier>
  <dc:identifier>10.5281/zenodo.3936123</dc:identifier>
  <dc:identifier>oai:zenodo.org:3936123</dc:identifier>
  <dc:relation>doi:10.5281/zenodo.3719059</dc:relation>
  <dc:relation>doi:10.5281/zenodo.3719029</dc:relation>
  <dc:relation>doi:10.5281/zenodo.3719018</dc:relation>
  <dc:relation>doi:10.5281/zenodo.3715516</dc:relation>
  <dc:relation>doi:10.5281/zenodo.3715210</dc:relation>
  <dc:relation>doi:10.1101/2020.03.22.998377</dc:relation>
  <dc:relation>doi:10.5281/zenodo.3719096</dc:relation>
  <dc:rights>info:eu-repo/semantics/openAccess</dc:rights>
  <dc:rights>https://creativecommons.org/licenses/by/4.0/legalcode</dc:rights>
  <dc:subject>Jupyter notebooks</dc:subject>
  <dc:subject>Computational systems biology</dc:subject>
  <dc:title>Notebooks demonstrating Most Permissive Boolean Networks</dc:title>
  <dc:type>info:eu-repo/semantics/other</dc:type>
  <dc:type>other</dc:type>
</oai_dc:dc>