To establish a scientific and effective research system for modern Chinese medicine.However，the current theory and measurement methods of systems analysis of TCM are still in its infant state.Methods：The new advances of system pharmacology (SP)，its practical application in investigating the basic theory of TCM，optimization of old formulae and the discovery of new drugs were covered in this study.Results：Drug pharmacokinetics，efficacy，as well as systems biology were integrated into TCMSP.Conclusion：TCMSP will be a valuable tool to help the understanding of the interaction mechanism of TCM and human body at a systematic /molecular level，so as to guide the discovery of new drugs of TCM.