Fluorescence labelling method was used seeking differentially expressed plasma proteins of unstable angina blood-stasis syndrome. Three fluorescence labelling dyes (Cy2, Cy3 and Cy5) were used on two classes of species (plasma of 12 patients with unstable angina blood-stasis syndrome and 12 healthy volunteers). Two dimensional gel electrophoresis was carried out, and three different fluorescence scans were performed. By analyzing the graphs and mass spectrometry, the differentially expressed plasma proteins of unstable angina were obtained. Blood-stasis syndrome. Results show that fibrinogen beta chain, fibrinogen gamma chain, alpha1-antitrypsin, haptoglobin beta chain and haptoglobin alpha2 chain were significantly highly expressed in the plasma of unstable angina blood-stasis syndrome patient, while ApoA-IV, ApoA-I and transthyretin were decreased in the plasma of unstable angina blood-stasis syndrome patient. These identified proteins could be divided into two categories according to their functions: (1) Acute phase reactive protein; (2) Apolipoprotein. In conclusion, fibrinogen beta chain, fibrinogen gamma chain, alpha1-antitrypsin, transthyretinc, haptoglobin beta chain, ApoA-IV, ApoA-I and haptoglobin alpha2 chain are differentially expressed in the patients with unstable angina blood-stasis syndrome and control group, some differentially expressed proteins were correlated with inflammatory reaction or lipid metabolic disorder, and these proteins could provide clues to the study and discovery of new protein targets for antianginal drugs. The fluorescence labelling method is suitable for discovery of differentially expressed proteins.