Representing biomedical knowledge: A view from the philosophy of science

We aim at identifying the modelling demands across heterogeneous biomedical fields that intersect in breast cancer research. We describe a methodology that covers various epistemic and pragmatic needs in breast cancer conceptualisation as well as formal modelling, taking into account specifically representational means, expressivity and granularity. Moreover, we propose an ontology model for HER2+ breast cancer phenotypes that integrates molecular and clinical representations.