Figure 2
From: State of the art and challenges in sequence based T-cell epitope prediction
Description of the NetMHCpan approach. A) Amino acids used for prediction are residues from the MHC alpha chain that are found to be in contact with the peptide using structural data (blue in left) and the full binding peptide (right). B) The identified MHC residues in the amino acid sequence of HLA-A*0201 are labeled blue. C) The labeled residues from B presented as a pseudo sequence (left) and the peptide sequence (right). D) Pairs of peptide sequences (left) and pseudo sequences (second from left) are presented to the ANN with the experimentally determined log scaled affinity (far right). The displayed allele information is not an input to the ANN. During the training the weights are adjusted in order to minimize the error between predicted output and the assigned affinity.