Figure 1.

(A) T-cell recognition by TCR of a cancer cell by MHC-I presentation. Antigens bound to MHC can displace other antigens due to higher binding affinity with the MHC molecule. This competitive binding affinity is represented by an ic50 score. (B) Workflow summary. Matched mutation and RNA-seq TCGA datasets underwent HLA-Typing, neoepitope calling, and VDJ-alignment for each cohort, and tumor fitness scores calculated for those in the SKCM and NSCLC. Unmapped reads from the LIHC cohort were mined for HBV reads, which were used to predict viral epitopes. Viral sequences were retrieved from the IEDB (www.iedb.org)⁵.