It is a major aspect of modernized research on Traditional Chinese Medicine (TCM) to study the micro substance as the basic for TCM syndrome. On account of the integrality, ambiguity, variability, diversity and complexity of TCM syndrome, single physical and chemical indicators out of modern laboratory cannot embody the meaning of TCM syndrome. The development of systems biology featuring proteomics, brings systematic thinking to modern medicine on the basis of reductionism. Systematic thinking makes it possible to objectify TCM syndrome. It coincides with TCM in the concept of integrality, variability, informatization and complexity. A lot of achievements have been made in the research of TCM syndrome by proteomic technology. The technology has been be widely used in the research of the animal model of the syndrome and combination of disease and syndrome. A mass of data has been accumulated that offers a broad future for the research of TCM syndrome.