Abstract: A structure model was used to analyze the relations between concepts in knowledge structure and parse the medical records of traditional Chinese medicine to gain connotative rules of treatment based on syndrome differentiation effectively. The analytic results of medical record examples show that the structure model gained by structural analysis can not only discover many un-known relations by few scattered existing information, but also protrude existing structural relations. The picture analysis of structure displays the correlation degree and importance of symptoms, and the results have been validated by medical records and affirmed by experts.