Comprehensive Analysis of the Naturally Processed Peptide Repertoire: Differences between HLA-A and B in the Immunopeptidome.

Compared to the total of 5,767 unique self-peptides eluted from the four BLCL in steady state (uninfected), only 4,112 unique self-peptides were found after MV infection. MV infection thus resulted in a 28.7% decrease in the number of unique peptides derived from self-proteins. The observed decrease was irrespective of the presenting HLA molecule (infected vs uninfected, p = 0.0007).