Adjuvant chemotherapy has been associated with cognitive impairment among a subgroup of breast cancer patients. A limited number of studies have observed the relationship between adjuvant chemotherapy, post-traumatic stress disorder (PTSD) and structural brain changes. Therefore, we employed voxel-based morphometry (VBM) and vertex-wise shape analyses to find the differences in brain volume and shape among pre- and post-chemotherapy breast cancer patients and healthy subjects. Our results showed gray and white matter volume alterations in frontal and temporal brain regions among each group. We also observed the change of shape in the limbic system.