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Reinforcement Learning (RL) has recently found many applications in the healthcare domain thanks to its natural fit to clinical decision-making and ability to learn optimal decisions from observational data. A key challenge in adopting RL-based solution in clinical practice, however, is the inclusion of existing knowledge in learning a suitable solution. Existing knowledge from e.g. medical guidelines may improve the safety of solutions, produce a better balance between short- and long-term outcomes for patients and increase trust and adoption by clinicians. We present a framework for including knowledge available from medical guidelines in RL. The framework includes components for enforcing safety constraints and an approach that alters the learning signal to better balance short- and long-term outcomes based on these guidelines. We evaluate the framework by extending an existing RL-based mechanical ventilation (MV) approach with clinically established ventilation guidelines. Results from off-policy policy evaluation indicate that our approach has the potential to decrease 90-day mortality while ensuring lung protective ventilation. This framework provides an important stepping stone towards implementations of RL in clinical practice and opens up several avenues for further research. • Reinforcement learning based on observational data and existing knowledge. • Treatment advice and physiological knowledge in guidelines are injected into learner. • Ventilation case study indicates adherence to guidelines, clinician outperformance. [ABSTRACT FROM AUTHOR]