Integrating interactive computational modeling in biology curricula: Supporting Text
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چکیده
Section 1: Technology and Modeling Framework for Cell Collective Cell Collective (www.thecellcollective.org) is a web-based platform for the creation and simulation of computational models of biological/biochemical processes [11,12]. The mathematical framework utilized in the platform is based on logical discrete networks first developed by S. Kauffman [15] and R. Thomas [16] In these networks, components (e.g., genes or proteins) assume discrete values representing their activity levels (e.g., gene expression). In Boolean networks individual nodes can represent any component of the system (e.g., genes in gene regulatory networks), while edges correspond to the biochemical/biological interactions between the components. Each component (represented as a circle in the illustration) of the network can assume either an active or inactive state. As the model evolves in time, the state of each model component is updated based on its Boolean function, which describes the regulatory mechanism of a given network component [17-19].
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