In the article an approach to solving the problem of inductive synthesis of the models of biological systems according to clinical trials is suggested. Suggested approach to inductive synthesis of biological models on the base of results of clinical trials allows essentially decrease computational complexity of this problem. Formalization of biological models in the form of graph of parameters allows use well developed mathematical apparatus of theory of graphs, which suggest effective methods of models transformation. Nowadays suggested approach is used in Almazov Cardiological Center for automatic medical data processing.