The present invention relates to a method of screening preparations for inhibiting metastasis or recurrence of breast cancer using the change in the expression level of marker genes for breast cancer stem cells, wherein their expression levels are changed by the treatment with a Wnt signaling inhibitor. The method of the present invention enables to screen preparations for preventing or treating the metastasis or recurrence of breast cancer with superior accuracy and thus the method can be widely used for the effective treatment of breast cancer.