Abstract 665: Cancer neoantigen and autoantibody discovery with PEP functional proteomics platform

Abstract

Abstract Proteins play essential roles in numerous biological processes and being able to pinpoint functional differences between cell or tissue samples can greatly aid in understanding disease processes and metabolic changes. The PEP technology allows systematic analysis of protein functions within a proteome. Hundreds of functional proteins can be separated and functionally assayed to generate a comprehensive three-dimensional landscape of protein families such as protein kinases, phosphatases, proteinases and oxido-reductases. This information can then be integrated into other genomic and proteomic knowledge bases to provide further insight of important biological processes such as cancer development and aging. Array Bridge has developed a 2-Dimensional separation technology called PEP (Protein Elution Plate) that can separate proteins into two-dimensional display and efficiently recover all the separated proteins into 384-microplates that can be probed in a standard ELISA format with high throughput. Our initial studies using breast cancer cell line proteins indicated that the PEP technology can be used to separate the proteins efficiently and probed with plasma from cancer patient for autoantibody discovery. Using the autoantibodies exist in the cancer patient, strong signals can be detected from a subset of proteins from the breast cancer cell line. We also use this platform to separate proteins from the cancer cell lines and probed with the plasma from the same cancer patient to identify the neoantigen candidates with mass spectrometry identification, the identified neoantigens can be used for the development of personalized immunotherapy such as CAR-T and other treatments. Note: This abstract was not presented at the meeting. Citation Format: Xing Wang, Trevor Landon. Cancer neoantigen and autoantibody discovery with PEP functional proteomics platform [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2019; 2019 Mar 29-Apr 3; Atlanta, GA. Philadelphia (PA): AACR; Cancer Res 2019;79(13 Suppl):Abstract nr 665.