2.6. T-cell peptides prediction

To predict the interaction with different Major Histocompatibility Complex class protein 1 (MHC I) alleles, the MHC I binding prediction tool on the IEDB [²⁵] was used. All peptide length was set as 9 amino acids. To predict the binding affinity, the Artificial Neural Network (ANN) prediction method was selected with a half-maximal inhibitory concentration (IC50) value of less than 100.

In contrast, to predict the interaction with different Major Histocompatibility Complex protein class II (MHC II) alleles, The Major Histocompatibility Complex class II (MHC II) binding prediction was used. To predict the binding affinity, the NN align algorithm was selected with an IC50 value of less than 500. The Human allele reference sets (HLA DR, DP, and DQ) were included in the prediction.