Fig. 2

Generation of peptide sequences and filtering predicted epitope candidates. a Amino acid FASTA sequence is built using 10 flanking amino acids on each side of the mutated amino acid. The preceding or succeeding 20 amino acids are taken if the mutation lies near the end or beginning of the transcript, respectively. b All predicted candidate peptides from epitope prediction software based on selected k-mer window size. c Only localized peptides (those containing the mutant amino acid) are considered to compare to WT counterpart. d The ‘best candidate’ (lowest MT binding score) per mutation is chosen across all specified k-mers and between all independent HLA allele types that were used as input