The paper introduces the curriculum planning and design idea of medical information system integration course, designs curriculum program modules and teaching units by adopting the Problem-based Learning(PBL) guiding method, and it sets forward the 6-step teaching mode of problem introduction, case demonstration, discussion and induction, task deployment, summarization and improvement and effect evaluation, in order to improves the defects in the curriculum's theory teaching design caused by PBL through three-dimensional knowledge formation.