Identifying the parameters in a mathematical model governed by a system of ordinary differential equations is considered in this work. It is assumed that only partial state measurement is available from experiments, and that the parameters appear nonlinearly in the system equations. The problem of parameter identification is often posed as an optimization problem, and when deterministic methods are used for optimization, one often converges to a local minimum rather than the global minimum. To mitigate the problem of converging to local minima, a new approach is proposed for applying the homotopy technique to the problem of parameter identification. Several examples are used to demonstrate the effectiveness of the homotopy method for obtaining global minima, thereby successfully identifying the system parameters. © Springer Science+Business Media B.V. 2011.