Fig 1.
MHC-display-dependent mutation densities for genes with different expression levels.
Blue bars are the mutation density within the predicted MHC binding peptides. Red bars are the mutation density out of the predicted MHC binding peptides. Mutations were separated into five categories based on the expression levels of their genes.
Fig 2.
MHC-display-dependent mutation densities for genes with different expression levels, considering each patient’s HLA type.
Blue bars are the mutation density within the predicted patient-displayed MHC binding peptides. Red bars are the mutation density out of the patient-displayed predicted MHC binding peptides. Mutations were separated into five categories based on the expression levels of their genes.
Fig 3.
Three types of MHC binding peptides based on patient HLA allele types.
Fig 4.
MHC-display-dependent mutation densities for genes with different expression levels, considering the number of displaying HLA alleles.
Average mutation density in peptides predicted to be displayed by one or two of the 12 common HLA-A or HLA-B allele types. A. Mutation density in peptides predicted to be displayed in patients by only one HLA allele. B. Mutation density in peptides predicted to be displayed in patients with two displaying HLA alleles.
Fig 5.
Predicting MHC-binding peptides and calculating mutation densities.
Mutations within the MHC binding peptides are shown in blue dots, and mutations out of the MHC binding peptides are shown in pink dots. Protein sequence are shown as yellow line.