Boolean network simulations for life scientists

By I. Albert, J. Thakar, Song Li, Ranran Zhang, Réka Albert. Source Code for Biology and Medicine, 2008

304 citations recorded by the source corpus.

Modern life sciences research increasingly relies on computational solutions, from large scale data analyses to theoretical modeling. Within the theoretical models Boolean networks occupy an increasing role as they are eminently suited at mapping biological observations and hypotheses into a mathematical formalism. The conceptual underpinnings of Boolean modeling are very accessible even without a background in quantitative sciences, yet it allows life scientists to describe and explore a wide range of surprisingly complex phenomena. In this paper we provide a clear overview of the concepts used in Boolean simulations, present a software library that can perform these simulations based on simple text inputs and give three case studies. The large scale simulations in these case studies demonstrate the Boolean paradigms and their applicability as well as the advanced features and complex use cases that our software package allows. Our software is distributed via a liberal Open Source license and is freely accessible from http://booleannet.googlecode.com

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/227e2ee1c3565d53a253c9ddbc312027be004626

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In Molecular Biology

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