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Graph is a mathematically robust representation that is often used to model biological networks.
VisANT is an interactive software platform that is to visualize, mine, analyze, and model biological networks.
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Modeling biological networks is of crucial importance for any computational study of these networks.
It also models biological networks as relational networks.
This article presents an algorithm for modeling biological networks in a discrete framework with continuous time.
SynBioSS is an open source software suite for modeling biological networks [ 28- 30].
[ 35], including time delay in modeling biological networks is considered important because many biological systems exhibit some delays in their feedback loops.
Indeed, a common problem in modeling biological networks is that alternative, structurally different models can fit experimental data equally well [ 8].
Modeling biological networks serves as both a major goal and an effective tool of systems biology in studying mechanisms that orchestrate the activities of gene products in cells.
Fortunately, a several simplifications are possible when modeling biological networks that greatly reduce the size of the rule base, even when hundreds or thousands of variables are involved.
Several other methods such as Boolean networks (Shmulevich et al., 2002) or differential equation systems (Chen et al., 1999; Lorenz et al., 2009) are commonly used for modelling biological networks.
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