Abstract
The value of predictive algorithms for identifying CD8+ T (TCD8+)-cell epitopes has not been adequately tested experimentally. Here we demonstrate that conventional bioinformatic methods predict the vast majority of TCD8+-cell epitopes derived from vaccinia virus WR strain (VACV-WR) in the H-2b mouse model. This approach reveals the breadth of T-cell responses to vaccinia, a widely studied murine viral infection model, and may provide a tool for developing comprehensive antigenic maps of any complex pathogen.
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Acknowledgements
This study was funded by the National Institutes of Health (contract no. HHSN266200400024C, and RO1 grant no. RO1-AI-56268. D.C.T. is the recipient of an National Health and Medical Research Council (Australia) Howard Florey Centenary Fellowship no. 224273.
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Supplementary information
Supplementary Fig. 1
Using scoring matrices to predict the affinity of peptides to MHC-I molecules. (PDF 23 kb)
Supplementary Fig. 2
Analyzing prediction performance post-hoc. (PDF 73 kb)
Supplementary Table 1
Summary of epitope characteristics. (PDF 52 kb)
Supplementary Table 2
Structural characteristics of antigens recognized. (PDF 45 kb)
Supplementary Table 3
Summary of structural characteristics of VACV-WR antigens recognized by C57BL/6. mice (PDF 37 kb)
Supplementary Data 1
Scoring matrices used for the individual predictions. (PDF 323 kb)
Supplementary Data 2
Peptides from Vaccinia WR predicted to bind MHC molecules. (PDF 317 kb)
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Moutaftsi, M., Peters, B., Pasquetto, V. et al. A consensus epitope prediction approach identifies the breadth of murine TCD8+-cell responses to vaccinia virus. Nat Biotechnol 24, 817–819 (2006). https://doi.org/10.1038/nbt1215
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DOI: https://doi.org/10.1038/nbt1215
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