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Degenerate T-cell recognition of peptides on MHC molecules creates large holes in the T-cell repertoire.
Calis JJ, de Boer RJ, Keşmir C. Calis JJ, et al. Among authors: kesmir c. PLoS Comput Biol. 2012;8(3):e1002412. doi: 10.1371/journal.pcbi.1002412. Epub 2012 Mar 1. PLoS Comput Biol. 2012. PMID: 22396638 Free PMC article.
Amino acid similarity accounts for T cell cross-reactivity and for "holes" in the T cell repertoire.
Frankild S, de Boer RJ, Lund O, Nielsen M, Kesmir C. Frankild S, et al. Among authors: kesmir c. PLoS One. 2008 Mar 19;3(3):e1831. doi: 10.1371/journal.pone.0001831. PLoS One. 2008. PMID: 18350167 Free PMC article.
Predicted Indirectly Recognizable HLA Epitopes Presented by HLA-DRB1 Are Related to HLA Antibody Formation During Pregnancy.
Geneugelijk K, Hönger G, van Deutekom HW, Thus KA, Keşmir C, Hösli I, Schaub S, Spierings E. Geneugelijk K, et al. Among authors: kesmir c. Am J Transplant. 2015 Dec;15(12):3112-22. doi: 10.1111/ajt.13508. Epub 2015 Oct 29. Am J Transplant. 2015. PMID: 26512793
Quantifying how MHC polymorphism prevents pathogens from adapting to the antigen presentation pathway.
Schmid BV, Kęsmir C, de Boer RJ. Schmid BV, et al. Among authors: kesmir c. Epidemics. 2010 Sep;2(3):99-108. doi: 10.1016/j.epidem.2010.05.003. Epub 2010 Jun 9. Epidemics. 2010. PMID: 21352780
HLA class I allele promiscuity revisited.
Rao X, Hoof I, Costa AI, van Baarle D, Keşmir C. Rao X, et al. Among authors: kesmir c. Immunogenetics. 2011 Nov;63(11):691-701. doi: 10.1007/s00251-011-0552-6. Epub 2011 Jun 22. Immunogenetics. 2011. PMID: 21695550 Free PMC article.
The specificity and polymorphism of the MHC class I prevents the global adaptation of HIV-1 to the monomorphic proteasome and TAP.
Schmid BV, Keşmir C, de Boer RJ. Schmid BV, et al. Among authors: kesmir c. PLoS One. 2008;3(10):e3525. doi: 10.1371/journal.pone.0003525. Epub 2008 Oct 24. PLoS One. 2008. PMID: 18949050 Free PMC article.
A Coevolutionary Arms Race between Hosts and Viruses Drives Polymorphism and Polygenicity of NK Cell Receptors.
Carrillo-Bustamante P, Keşmir C, de Boer RJ. Carrillo-Bustamante P, et al. Among authors: kesmir c. Mol Biol Evol. 2015 Aug;32(8):2149-60. doi: 10.1093/molbev/msv096. Epub 2015 Apr 23. Mol Biol Evol. 2015. PMID: 25911231 Free PMC article.
HLA alleles associated with slow progression to AIDS truly prefer to present HIV-1 p24.
Borghans JA, Mølgaard A, de Boer RJ, Keşmir C. Borghans JA, et al. Among authors: kesmir c. PLoS One. 2007 Sep 19;2(9):e920. doi: 10.1371/journal.pone.0000920. PLoS One. 2007. PMID: 17878955 Free PMC article.
Heterozygote advantage fails to explain the high degree of polymorphism of the MHC.
De Boer RJ, Borghans JA, van Boven M, Keşmir C, Weissing FJ. De Boer RJ, et al. Among authors: kesmir c. Immunogenetics. 2004 Feb;55(11):725-31. doi: 10.1007/s00251-003-0629-y. Epub 2004 Jan 13. Immunogenetics. 2004. PMID: 14722686
Bioinformatic analysis of functional differences between the immunoproteasome and the constitutive proteasome.
Kesmir C, van Noort V, de Boer RJ, Hogeweg P. Kesmir C, et al. Immunogenetics. 2003 Oct;55(7):437-49. doi: 10.1007/s00251-003-0585-6. Epub 2003 Aug 30. Immunogenetics. 2003. PMID: 12955356
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