A modeller is anyone that has a model of a cellular system in mind - this can be biological concepts, mathematical concepts, or a formulation that brings biological and mathematical concepts together in a model instance that can be used for simulation.

Goals

The overall goal of a modeller is to express a model in a language and toolset that is familiar to them, and to retrieve results in a form useful to their domain of interpretation. A modeller is someone who has a biological, or mathematical background, or both. The key outcome is the mathematical representation of a biological system.

Detailed goals

• to model biological processes. The modeller will have an understanding of the biological entities involved, the physiological processes, and perhaps experimental data measuring aspects of these.

  Examples include :

  • biochemical pathways
  • control of gene expression(gene regulation networks)
  • ion transport, electrochemical events
  • cytoskeleton structure
  • cell-cell interaction - e.g. recognition, adhesion, signaling
  • developmental processes
  • evolution

  Use case: Represent a biological process or structure

  EditAModel

• to model the mathematics of physiological processes and formulate these into representations for simulation.

  Use case: Represent the mathematics of the biological process or structure

  EditAModel

• run simulations and interpret output

  Use case: Simulate a model(SimulateAModel)

• review and annotate published models

  Use case: Review a model(ReviewAModel)

• locate existing models

  Use case: Find a model(FindAModelModeller)

• visualize models - this may be representations describing the process or structure being modelled, say a biochemical pathway, or the results of simulation.

  Use case: Visualize a model(VisualizeAModel)

• share models

  Use case: ShareAModel

• reuse models within new models

  Use case: ReuseAModel