Objective  To evaluate the application effect of infectious disease reporting system. Methods  Rates of missing report, delaying rates, and completion rates in six months before and after the application of infectious disease reporting system were compared, as well as changes of the number of medical records of infectious diseases viewed by epidemic management personnel and the number of positive cases after the application of infectious disease reporting system.  Results  The rate of missing report decreased by 1.1% (P<0.05), delaying rate decreased by 0.18% (P>0.05), and the completion rate of reporting card increased by 37.99% (P<0.05) after the application of infectious disease reporting system. The system processed 38.06% of infectious cases automatically, which reduced the work of epidemic management personnel. Conclusion  Application of infectious disease reporting system realizes the information management of infectious diseases for the hospital, reduces the work of medical staff, improves work efficiency, and increases the quality of infectious disease report.