We present a collection of benchmark problems for ordinary differential equation (ODE) system identification from time series data. We consider problems where both structure (the form of the ODEs) and parameters are unknown. The problems are all related to biological applications. However, the way problems are defined is not application specific and can be used in many areas.
ODEion is a software tool for structural identification of ODEs, where the model space is implicitly defined by arbitrary user-defined functions that can be non-linear in both variables and parameters. The program searches for possible interactions between the variables and suggests a suitable form of the ODEs, including estimates of the parameters. The system has originally been developed for problems in systems biology but can be used for other applications.