Amino acid similarity accounts for T cell cross-reactivity and for "holes" in the T cell repertoire.

The difference in excess observed similarity between the groups is highly significant (p<0.001, rank test), which suggests that amino acid identity is a poor measure for estimating physicochemical similarity, and thus T cell cross-reactivity.

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[24] , who showed a trend of more-self-likeness (measured in terms of number of shared amino acids) among HIV peptides with no detectable CTL responses in a large study group.

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