Value of the data •A differential proteome between tumor and non-tumor tissues is described, highlighting the use of a valuable biological sample as control, the contralateral non-tumor breast tissue. •The non-tumor breast tissues (NCT e ANT) present high similarity in the proteome profiling. •The common alterations in the proteomes of malignant tissues (PT and LN) point out to cancer associated proteins and pathways that can be explored in tumor progression studies. •The complete lists of differential expressed proteins and their biological context are a rich source of potential targets to be investigated in further studies.