Objective To analyze the therapeutic effect of Jiubiying contained drug pairs for treating spleen and stomach diseases on ulcerative colitis (UC). Methods (1) Clinical trials of employing Jiubiying for treating spleen and stomach diseases were retrieved from China National Knowledge Infrastructure database and Wanfang Database Knowledge Service Platform, and their clinical prescriptions were collected. The data mining technique was used to analyze core drug pairs of Jiubiying contained for treating spleen and stomach diseases. (2) A total of 90 mice were selected, and they were randomly assigned to normal group, model group, Jiubiying group or 6 groups of Jiubiying drug pairs group, with 10 mice in each group. Except for the normal group, mice of the remaining groups drank 3% dextran sulphate sodium for establishing UC model, and mice of various drugs administration groups received intragastric administration of 1.8 g/kg corresponding drugs, with continuous intragastric administration for 6 days, once a day. The general symptoms of mice in various groups during experimental period were recorded, and their colonic appearance and pathological changes on the 7th day of experiment were observed. The protein expressions of Occludin, mucin 2 (MUC2), ATOH1 in colonic tissues were detected. Results (1) A total of 6 groups of Jiubiying contained core drug pairs were obtained, concerning Jiubiying⁃Paeoniae radix alba, Jiubiying⁃Atractylodes macrocephala, Jiubiying⁃Poria cocos, Jiubiying⁃Taraxacum mongolicum, Jiubiying⁃Radix bupleuri, and Jiubiying⁃Codonopsis radix, respectively. (2) Compared with the normal group, mice of the model group presented as shorter colonic length, elevated weight loss rate, elevated disease activity index (DAI), and elevated pulmonary coefficient, whereas decreased protein expressions of MUC2, ATOH1 and Occludin in colonic tissues (P<0.05). Compared with the model group, the Jiubiying⁃Codonopsis radix group exhibited a decreased weight loss rate, while the Jiubiying group, the Jiubiying⁃Paeoniae radix alba group and the Jiubiying⁃Codonopsis radix group yielded increased colonic length, and the Jiubiying group, the Jiubiying⁃Poria cocos group and the Jiubiying⁃Codonopsis radix group interpreted decreased DAI, as well as the Jiubiying group and the Jiubiying⁃Paeoniae radix alba group depicted decreased pulmonary coefficient (P<0.05); in addition, the Jiubiying group, and the Jiubiying⁃Paeoniae radix alba group, the Jiubiying⁃Radix bupleuri group, and the Jiubiying⁃Codonopsis radix group interpreted ameliorated submucosal edema and inflammatory cell infiltration in colonic tissues, and the Jiubiying⁃Atractylodes macrocephala group, the Jiubiying⁃Poria cocos group, the Jiubiying⁃Taraxacum mongolicum group exerted ameliorated colonic mucous barrier damage; furthermore, MUC2, ATOH1 and Occludin protein expressions were up⁃regulated in the Jiubiying group, MUC2 protein expression was up⁃regulated in the Jiubiying⁃Atractylodes macrocephala group, the Jiubiying⁃Poria cocos group, the Jiubiying⁃Taraxacum mongolicum group, and the Jiubiying⁃Codonopsis radix group, ATOH1 protein expression was up⁃regulated in the Jiubiying⁃Paeoniae radix alba group, and Occludin protein expression was up⁃regulated in the Jiubiying⁃Atractylodes macrocephala group (P<0.05). Compared with the Jiubiying group, the Jiubiying⁃Codonopsis radix group exhibited increased colonic length, and the Jiubiying⁃Codonopsis radix group and the Jiubiying⁃Paeoniae radix alba group yielded more significant improvement of colonic pathological changes, as well as the Jiubiying⁃Atractylodes macrocephala group exerted a higher MUC2 protein expression (P<0.05). Conclusion Common drugs of the combination of herbal ingredients of Jiubiying for treating spleen and stomach diseases were Paeoniae radix alba, Atractylodes macrocephala, Poria cocos, Taraxacum mongolicum, Radix bupleuri, and Codonopsis radix. Most of Jiubiying contained drug pairs can ameliorate general symptoms, pathological manifestations, and mucous barrier protein expressions in UC mice model to a certain extent, therein Jiubiying⁃Codonopsis radix drug pair exerts superior improvements of shortening colonic length and of colonic pathological changes, and other aspects as compared with Jiubiying alone, whereas Jiubiying⁃Atractylodes macrocephala drug pair yields superior up⁃regulation of MUC2 protein expression as compared with Jiubiying alone.