<p><b>OBJECTIVE</b>To investigate the contents changes of potential biomarkers of patients infected with influenza A (H1N1) virus of different Chinesemedicine (CM) syndrome types.</p><p><b>METHODS</b>Eighty-two patients with influenza A (H1N1) virus were differentiated as three syndrome types, i. e., wind-heat invading weifen syndrome (51 cases), heat-toxicity attacking Fei syndrome (22 cases), and superficies tightened by windcoldsyndrome (9 cases) according to Chinesemedicinesyndrome typing. According to patients' willingness and clinical conditions, they were treated by three therapeuticschedules, i. e., herbal therapy, symptomatic treatment, and antiviraltherapy. The changes of potential biomarkers contents were detected in the serum of patients of various syndrome types before and after treatment. Results There was no statistical difference in the potential biomarkers contents correlated to symptoms of fever, inflammation and cough, such as PGG2, 20-COOH-LTB4, homocystein, and so on in the serum of patients of various syndrome types before treatment (P > 0.05). There was statistical difference in the potential biomarkers such as 20-OH-LTE4, LTA4, and linolenic acid, etc. between superficies tightened by windcoldsyndrome and wind-heat invading weifen syndrome (P < 0.05, P < 0.01). There was statistical difference in the potential biomarkers such as PGF1alpha, prostanoic acid, and etc. between superficies tightened by windcoldsyndrome and heat-toxicity attacking Fei syndrome (P < 0.05, P < 0.01). Statistical difference existed in other indices other than dUTP; 5,10-methylene-THF and PGF1alpha in wind-heat invading weifen syndrome and superficies tightened by windcoldsyndrome; prostanoic acid, homocysteine, and glucose in superficies tightened by windcoldsyndrome when compared with before treatment in the same group (P < 0.05, P < 0.01). The changing tendency of potential biomarkers among different syndrome types was identical. Of them, the change of 6-keto-PGF1alpha content was the most obviously of all indices.</p><p><b>CONCLUSION</b>There was difference in the contents of potential biomarkers of patients infected with influenza A (H1N1) virus of different syndrome types, and our study provided experimental data support for the objectiveness of CM syndrome differentiation from the perspective of metabolic substances.</p>