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. 2012 Mar 1;8(3):e1002412. doi: 10.1371/journal.pcbi.1002412

Table 2. The self/nonself overlap of immunogenic versus non-immunogenic pMHCs.

Immunogenic Non-Immunogenic ChiInline graphic-test (p-value)
Self Overlapping Not Overlapping Self Overlapping Not Overlapping
HIV-1 peptides on HLA-A*0201 4 29 18 36 0.027
Vaccinia peptides on HLA-A*0201 3 15 8 18 0.29
HIV-1 peptides on non-HLA-A*0201 molecules 0 9 4 9 0.066
HLA-A*0201 pMHC from the IEDB 54 143 230 362 0.0038

For immunogenic or non-immunogenic HIV-1 peptides presented on HLA-A*0201 determined by Frankild et al. [9], for immunogenic and non-immunogenic vaccinia-derived peptides determined by Assarsson et al. [10], for immunogenic and non-immunogenic HIV-1 peptides on non-HLA-A*0201 determined by Perez et al. [37] and for immunogenic and non-immunogenic pMHCs sampled from the IEDB on HLA-A*0201 (see Methods for selection criteria applied to all four data sets), the presence of a self/nonself overlap was determined with the degenerate T-cell recognition model. For all sets of peptides, the immunogenic peptides have less overlaps with self, the significance of this association was tested using a Chi-square test, the p-value is reported in the last column.