The positive expression rates of CK19 in patients with thyroid cancer and nodular goiter were 35.4% (174/491) and 7.7% (29/376), respectively (P = 0.000); the positive expression rates of MUC1 in patients with thyroid cancer and nodular goiter were 32.8% (161/491) and 3.5% (13/376), respectively (P = 0.000). In univariate analysis, the tumor size, tumorcapsule invasion, lymph node metastasis and distant metastasis were significantly associated with the positive expression of CK19 or MUC1 and the positive expressions of both CK19 and MUC1 (P < 0.05). In multivariate analysis, tumorcapsule invasion, lymph node metastasis and distant metastasis were independent factors related to the positive expression of CK19 or MUC1 and the positive expressions of both CK19 and MUC1 (P < 0.05). There was a positive correlation between the expressions of CK19 and MUC1 (r = 0.628, P = 0.000).