Oregon Health Sciences University Portland United States
The focus of the SpellmanGray work group during the research period has been upon the generation of materials, tools, and data for the purpose of aiding and supporting the research and findings of the entire multi-team collaboration endeavoring to identify antigenic targets for breast cancer-infiltrating T cells. Our team has achieved a number of accomplishments. We have determined the likely specificity of immunogenic peptides for MHC alleles from a collection of MHC-I-bound epitopes eluted from the cell surface of twenty breast cancer cell lines. We developed computational pipelines to identify the sequence of the complete TCR heterodimer was applied to new samples sequenced by our colleagues in Denver. We also developed an RNAseq pipeline to identify likely neoantigens in breast cancer using public data.