Figure 3

An example of the output page of Hotspot Hunter when using the "Target Selection" function. The input is a HLA-DR supertype prediction results page for dengue virus type 1 NS2b sequences in HTML format (output of "Multiple Sequences Query" function). Best peptide targets for experimental validation are highlighted in yellow. Antigenically redundant peptides are peptides whose complete nonamer antigenic diversity is covered by the other peptides at the consensus hotspot position, thus they can be ignored without loss of information on nonamer antigenic diversity among the peptides [9]. Nonamer antigenic diversity was studied because they represent the predominant length of binding cores of T-cell epitopes [21].