Updated project metadata. Breast malignancy is a serious threat to women’s health around the world. However, for invasive, ductal carcinomas, and mammary fibroadenoma, there is an urgent demand for better breast malignancy-linked biomarkers. The current study was designed to identify diagnostic and/or therapeutic protein biomarkers for breast tumors. iTRAQ proteomic analysis was employed to characterize differentially expressed protein biomarkers. We identified several potential protein biomarkers that can be recommended for further testing as diagnostic and/or therapeutic targets in breast tumors.