Objective To study the effect of analogy teaching method in the teaching of pathophysiology.Methods An experimental control method was used. A total of 195 five-year clinical medical undergraduates from Fujian Medical University in class of 2018 were enrolled from September 2020 to January 2021, who were divided into the test group (class 6, n=98) taught by analogy teaching method, and the control group (class5, n=97) taught by classic method. The effect of teaching method was evaluated by examination results and questionnaire.Results The average score of the questions associated with the knowledge taught by control method in the experimental group was significantly higher than that in the control group [(5.33±1.43) vs. (4.77±1.70), P< 0.05]. The results of questionnaire showed that there were significant differences in improving teaching effect [(4.25±0.73) vs. (4.00±0.69)], improving learning efficiency [(3.92±0.77) vs. (3.69±0.71)], reorganizing knowledge fragments [(4.34±0.63) vs. (4.10±0.62)], and developing problem-solving ability [(4.12±0.74) vs. (3.79±0.71)](all P < 0.05).Conclusions The application of analogy teaching method can improve the learning effect of students' control teaching knowledge points, improve teaching effect, enhance students' learning efficiency, help students to reorganize knowledge fragments and develop problem-solving ability.