Immunological bioinformatics. - Ole Lund; Morten Nielsen 001; Claus Lundegaard; Can Kesmir; Søren Brunak (AAAI Press, 2005)

Modeling the adaptive immune system: predictions and simulations. - Claus Lundegaard; Ole Lund; Can Kesmir; Søren Brunak; Morten Nielsen 001 (Bioinform., 2007)

Degenerate T-cell Recognition of Peptides on MHC Molecules Creates Large Holes in the T-cell Repertoire. - Jorg J. A. Calis; Rob J. De Boer; Can Kesmir (PLoS Comput. Biol., 2012)

Proteome Sampling by the HLA Class I Antigen Processing Pathway. - Ilka Hoof; Debbie van Baarle; William H. Hildebrand; Can Kesmir (PLoS Comput. Biol., 2012)

Estimating the Fitness Cost of Escape from HLA Presentation in HIV-1 Protease and Reverse Transcriptase. - Rafal Mostowy; Roger D. Kouyos; Ilka Hoof; Trevor Hinkley; Mojgan Haddad; Jeannette M. Whitcomb; Christos J. Petropoulos; Can Kesmir; Sebastian Bonhoeffer (PLoS Comput. Biol., 2012)

Properties of MHC Class I Presented Peptides That Enhance Immunogenicity. - Jorg J. A. Calis; Matt Maybeno; Jason A. Greenbaum; Daniela Weiskopf; Aruna D. De Silva; Alessandro Sette; Can Kesmir; Björn Peters (PLoS Comput. Biol., 2013)

Virus Encoded MHC-Like Decoys Diversify the Inhibitory KIR Repertoire. - Paola Carrillo-Bustamante; Can Kesmir; Rob J. De Boer (PLoS Comput. Biol., 2013)

VDJdb: a curated database of T-cell receptor sequences with known antigen specificity. - Mikhail Shugay; Dmitriy V. Bagaev; Ivan V. Zvyagin; Renske M. A. Vroomans; Jeremy Chase Crawford; Garry Dolton; Ekaterina Komech; Anastasiya L. Sycheva; Anna E. Koneva; Evgeniy S. Egorov; Alexey V. Eliseev; Ewald van Dyk; et al. (Nucleic Acids Res., 2018)

VDJdb in 2019: database extension, new analysis infrastructure and a T-cell receptor motif compendium. - Dmitry V. Bagaev; Renske M. A. Vroomans; Jerome Samir; Ulrik Stervbo; Cristina Rius; Garry Dolton; Alexander Greenshields-Watson; Meriem Attaf; Evgeny S. Egorov; Ivan V. Zvyagin; Nina Babel; David K. Cole; et al. (Nucleic Acids Res., 2020)