Objective To evaluate the merits and demerits of annexin V-FITC/PI and Hoechst33342/PI double stainings in the detection of apoptosis by flow cytometry.Methods Hoechst33342/PI and annexin V-FITC/PI double stainings were performed to detect the apoptosis of thymocytes induced by DEX and K562 cells induced by H2O2.Results The anenxin V-FITC/PI double staining was able to detect the cell apoptosis in both DEX-induced thymocytes and H2O2-induced K562 cells as predicted,and the cell plotting was consistent with the principle of the method.Hoechest33342/PI double staining was able to detect cell apoptosis in the DEX-induced thymocytes,but this method showed a contradictory result in the early stage of H2O2-induced K562 cell apoptosis,and the cell plotting was in conflict with the principle of the method.Conclusion Compared with annexin V-FITC/PI double staining,the method of Hoechst33342/PI double staining in the detection of apoptosis by flow cytometry has some limitations.