Optimization of Breast Biopsy and Mastectomy Sample Collection Procedures for Biobanking, Personalized Medicine, and Research Applications

Abstract

Breast cancer is the most prevalent cancer affecting women, particularly in Asia, with the highest incidence in the Philippines. Despite ongoing efforts, the understanding of breast cancer biology remains inadequate, compounded by the lack of effective screening programs and timely treatments. Addressing these issues, biobanks and other repositories for biological specimens have gained global momentum. The University of the Philippines- Philippine General Hospital (UP-PGH) has established a cancer biobank, demonstrating the viability of a government-supported initiative for cancer research in the Philippines. The study involves a prospective observation of 100 Filipino breast cancer patients at various disease stages, leveraging the expertise of UP-PGH, Philippine Genome Center (PGC), and University of the Philippines Diliman - Institute of Biology (UPD-IB). It integrates the collection, processing, and storage of biospecimens alongside comprehensive patient data. Procedures include RNA extraction, library preparation, and sequencing. Additionally, a subset of patients participates in an in vitro three-dimensional (3D) cell culture experiment for chemotherapy pre-screening. The aggregated data aims to uncover therapeutic strategies that can lead to personalized treatments where standard clinical approaches are inadequate. Key techniques include ultrasound-guided core needle biopsy, meticulous normal breast tissue collection, and precise tumor percentage determination to ensure high-quality RNA extraction, sequencing, and 3D cell culture. The study also addresses challenges encountered in prior biobanking endeavors. Ultimately, this research aims to contribute significantly to breast cancer research, positioning itself as a model for collaborative research, biobank establishment, and the advancement of precision medicine in developing countries, such as the Philippines.