Poster Presentation HUPO 2019 - 18th Human Proteome Organization World Congress

Quantitative proteomic analysis of breast cancer formalin-fixed paraffin-embedded(FFPE) tissue proteins associated with distant metastasis. (#840)

Dongyoon Shin 1 , Joonho Park 2 , Hansuk Ryu 3 , Youngsoo Kim 1 2
  1. Biomedical science, Seoul National University, college of Medicine, Seoul, South Korea
  2. Interdisciplinary Program for Bioengineering, Seoul National University, College of Engineering, Seoul, South Korea
  3. Department of pathology, Seoul National University Hospital, Seoul, South Korea

Metastasis of breast cancer to other distant organs is fatal to patients. However, few studies have revealed biomarkers associated with distant metastatic breast cancer. Furthermore, accurately differentiating distant metastatic breast cancer from non-distant metastatic ones remains a diagnostic challenge with current biomarkers such as HER2, ER, and PR, necessitating the development of novel biomarkers. An integrated proteomics approach that combines filter-aided sample preparation, tandem mass tag labeling(TMT), high pH fractionation, and high resolution MS was applied to acquire in-depth proteome data of breast cancer FFPE tissue. Biological processes of differentially expressed proteins (DEPs) that may be involved in distant metastasis were identified through bioinformatics analyses such as gene ontology analysis and pathway analysis. In addition, antibody-based protein assays were performed to validate the differential regulation of biomarker candidates. A total of 9,190 and 8,564 proteins were identified from the series of TMT experiments. Bioinformatics analysis of DEPs drew several biological processes such as cell-cell adhesion, proteolysis involved in cellular protein catabolic process, microtubule-based process and positive regulation of protein kinase B signaling. In addition, distinct molecular features between breast cancer subtypes were investigated. This study suggests novel biomarker candidates and their functional characteristics of distant metastatic breast cancer.