Table 1 Typical questions to answer in order to account for the meaning facets of a bio-model.
From: How to formalise the meaning of a bio-model: a case study
Intrinsic | Extrinsic |
|---|---|
Intentional | |
Which mathematical formalism is used? How is the formalism interpreted and executed? How is the formalism used to simulate the behaviour? | Which biological system is addressed? What does the model stand for in the biological reality? What is the aim of the model? |
Structural | |
What is the structure of the mathematical expression? What are the mathematical entities of the model (equations, terms, variables, rules)? | Which biological components are addressed by model? What are the modelled biological objects and relations? How do model entities map these biological components? |
Behavioural | |
Which simulation results does the model show? What are characteristic types of dynamical behaviour (e.g. attractors)? Which parameter settings are used therefore? | Which biological phenomenon correlates with which type of dynamical behaviour of the model? Which experimental data are reproduced by simulation results? |