Computational modelling is important in the life sciences, but students may not be greatly exposed to it in typical curricula.This paper describes an innovative, one-semester Master's level course in cell biology that uses computer simulations as the primary learning tool.The course originated in the idea that performing simulations can increase students' biological insight by animating static textbook/blackboard images into dynamical life.The students identify a cellular behaviour and carry out simulation-based exercises, culminating in a semester project.In addition to mastering the course material, the students develop proficiency in transversal skills: they learn to disassemble the complexity of a living cell, and recreate it in a model; they use computers to probe biological questions, thereby developing their computational thinking; and they become aware of the computational resources and data management issues necessary to manage large data sets.Working in teams on a project helps improve their scientific collaboration and communication skills.These skills are highly transferable to other domains of research and industry.This course provides evidence that simulation-based teaching can enhance students' learning, and prepare them for careers in subjects such as cell biology that might not be obvious candidates for simulation-based learning.