AI Article Synopsis
- There is a demand for organized diagrams to summarize biological pathways and enhance modeling techniques for predicting their behavior.
- A new modeling framework is introduced that features a user-friendly pathway modeling language (mEPN) and a method for easy model parameterization with available biological data.
- The framework includes a stochastic flow algorithm for simulating pathway dynamics and a 3-D visualization engine to help understand complex system behaviors, complete with example models to showcase its versatility.
Article Abstract
There is a need for formalised diagrams that both summarise current biological pathway knowledge and support modelling approaches that explain and predict their behaviour. Here, we present a new, freely available modelling framework that includes a biologist-friendly pathway modelling language (mEPN), a simple but sophisticated method to support model parameterisation using available biological information; a stochastic flow algorithm that simulates the dynamics of pathway activity; and a 3-D visualisation engine that aids understanding of the complexities of a system's dynamics. We present example pathway models that illustrate of the power of approach to depict a diverse range of systems.
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Source |
|---|---|
| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4980033 | PMC |
| http://dx.doi.org/10.1371/journal.pbio.1002530 | DOI Listing |
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