Queueing network models are commonly used for performance modelling. However, through application development stage analytical models might not be able to continuously reflect performance, for example due to performance bugs or minor changes in the application code that cannot be readily reflected in the queueing model. To cope with this problem, a measurement-based approach adopting Design of Experiments (DoE) technique is proposed. The applicability of the proposed method is demonstrated on a complex 3-tier e-commerce application that is difficult to model with queueing networks.