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C. Keşmir · SciRah

Researcher profile · Semantic Scholar

C. Keşmir

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C. Keşmir — researcher profile on SciRah

h-index: 37
Works: 113
Citations: 8,254

Most-cited papers

Properties of MHC Class I Presented Peptides That Enhance Immunogenicity
J. Calis, Matt Maybeno, Jason A. Greenbaum, D. Weiskopf +4 more
2013PLoS Comput. Biol.867 citations Open access
Semantic Scholar
Tumor Exome Analysis Reveals Neoantigen-Specific T-Cell Reactivity in an Ipilimumab-Responsive Melanoma
Nienke van Rooij, M. V. van Buuren, Daisy Philips, A. Velds +13 more
2013Journal of Clinical Oncology829 citations Open access
Semantic Scholar
VDJdb: a curated database of T-cell receptor sequences with known antigen specificity
M. Shugay, D. Bagaev, I. Zvyagin, R. Vroomans +24 more
2017Nucleic Acids Res.576 citations Open access
Semantic Scholar
The role of the proteasome in generating cytotoxic T-cell epitopes: insights obtained from improved predictions of proteasomal cleavage
M. Nielsen, C. Lundegaard, O. Lund, C. Keşmir
2005Immunogenetics512 citations Open access
Semantic Scholar
VDJdb in 2019: database extension, new analysis infrastructure and a T-cell receptor motif compendium
Dmitry V. Bagaev, R. Vroomans, J. Samir, U. Stervbo +14 more
2019Nucleic Acids Res.407 citations Open access
Semantic Scholar
Sensitive quantitative predictions of peptide-MHC binding by a 'Query by Committee' artificial neural network approach.
S. Buus, S. Lauemøller, P. Worning, C. Keşmir +6 more
2003Tissue Antigens365 citations
Semantic Scholar
Prediction of human protein function from post-translational modifications and localization features.
L. Jensen, Ramneek Gupta, N. Blom, Damien P. Devos +11 more
2002Journal of Molecular Biology336 citations Open access
Semantic Scholar
Definition of supertypes for HLA molecules using clustering of specificity matrices
O. Lund, M. Nielsen, C. Keşmir, A. Petersen +8 more
2004Immunogenetics321 citations
Semantic Scholar
Prediction of proteasome cleavage motifs by neural networks.
C. Keşmir, A. Nussbaum, H. Schild, V. Detours +1 more
2002Protein Engineering320 citations
Semantic Scholar
MR1-restricted MAIT cells display ligand discrimination and pathogen selectivity through distinct T cell receptor usage
Marielle C. Gold, J. E. McLaren, Joseph A. Reistetter, S. Smyk-Pearson +12 more
2014Journal of Experimental Medicine207 citations Open access
Semantic Scholar
Biomarkers in cancer immunotherapy.
T. Schumacher, C. Keşmir, M. V. van Buuren
2015Cancer Cell137 citations Open access
Semantic Scholar
Modeling the adaptive immune system: predictions and simulations
C. Lundegaard, Ole Lund, C. Keşmir, Søren Brunak +1 more
2007Bioinform.137 citations Open access
Semantic Scholar
HLA Alleles Associated with Slow Progression to AIDS Truly Prefer to Present HIV-1 p24
J. Borghans, A. Mølgaard, R. D. de Boer, C. Keşmir
2007PLoS ONE122 citations Open access
Semantic Scholar
Predicted indirectly recognizable HLA epitopes presented by HLA-DR correlate with the de novo development of donor-specific HLA IgG antibodies after kidney transplantation.
H. Otten, J. Calis, C. Keşmir, A. V. van Zuilen +1 more
2013Human Immunology112 citations
Semantic Scholar
Heterozygote advantage fails to explain the high degree of polymorphism of the MHC
R. D. de Boer, J. Borghans, M. V. van Boven, C. Keşmir +1 more
2004Immunogenetics100 citations Open access
Semantic Scholar
Degenerate T-cell Recognition of Peptides on MHC Molecules Creates Large Holes in the T-cell Repertoire
J. Calis, R. D. de Boer, C. Keşmir
2012PLoS Comput. Biol.90 citations Open access
Semantic Scholar
Predicting proteasomal cleavage sites: a comparison of available methods.
Patricia Saxová, S. Buus, S. Brunak, C. Keşmir
2003International Immunology90 citations Open access
Semantic Scholar
The evolution of natural killer cell receptors
Paola Carrillo-Bustamante, C. Keşmir, R. D. de Boer
2015Immunogenetics87 citations Open access
Semantic Scholar
Zooming into the binding groove of HLA molecules: which positions and which substitutions change peptide binding most?
H. W. V. van Deutekom, C. Keşmir
2015Immunogenetics78 citations Open access
Semantic Scholar
Immunological bioinformatics
O. Lund, M. Nielsen, C. Lundegaard, C. Keşmir +1 more
2005Computational Molecular Biology67 citations
Semantic Scholar
Comprehensive Analysis of the Naturally Processed Peptide Repertoire: Differences between HLA-A and B in the Immunopeptidome
Ingrid M. M. Schellens, I. Hoof, H. Meiring, Sanne N M Spijkers +7 more
2015PLoS ONE56 citations Open access
Semantic Scholar
A spatial model of germinal center reactions: cellular adhesion based sorting of B cells results in efficient affinity maturation.
C. Keşmir, R. D. de Boer
2003Journal of Theoretical Biology56 citations Open access
Semantic Scholar
Discriminating self from nonself with short peptides from large proteomes
N. Burroughs, R. J. Boer, C. Keşmir
2004Immunogenetics55 citations Open access
Semantic Scholar
A mathematical model of protein degradation by the proteasome.
F. Luciani, C. Keşmir, M. Mishto, M. Or-Guil +1 more
2005Biophysical Journal53 citations Open access
Semantic Scholar
Predicted Indirectly Recognizable HLA Epitopes Presented by HLA‐DRB1 Are Related to HLA Antibody Formation During Pregnancy
K. Geneugelijk, G. Hönger, H. V. van Deutekom, K. Thus +4 more
2015American Journal of Transplantation52 citations Open access
Semantic Scholar
HLA class I allele promiscuity revisited
X. Rao, I. Hoof, A. I. F. Fontaine Costa, D. van Baarle +1 more
2011Immunogenetics52 citations Open access
Semantic Scholar
Bioinformatic analysis of functional differences between the immunoproteasome and the constitutive proteasome
C. Keşmir, V. van Noort, R. D. de Boer, P. Hogeweg
2003Immunogenetics52 citations Open access
Semantic Scholar
A Comparative Study of HLA Binding Affinity and Ligand Diversity: Implications for Generating Immunodominant CD8+ T Cell Responses1
X. Rao, A. I. F. Fontaine Costa, D. van Baarle, C. Keşmir
2009Journal of Immunology50 citations Open access
Semantic Scholar
Role of T cells in severe COVID-19 disease, protection, and long term immunity
J. Hermens, C. Keşmir
2023Immunogenetics49 citations Open access
Semantic Scholar
An unanticipated lack of consensus cytotoxic T lymphocyte epitopes in HIV-1 databases: the contribution of prediction programs
Ingrid M. M. Schellens, C. Keşmir, F. Miedema, D. van Baarle +1 more
2008AIDS (London)47 citations Open access
Semantic Scholar
CD8+ TCR Repertoire Formation Is Guided Primarily by the Peptide Component of the Antigenic Complex
D. Koning, Ana I. Costa, I. Hoof, John J Miles +9 more
2012Journal of Immunology46 citations
Semantic Scholar
Role of peptide processing predictions in T cell epitope identification: contribution of different prediction programs
J. Calis, P. Reinink, C. Keller, P. Kloetzel +1 more
2014Immunogenetics45 citations Open access
Semantic Scholar
Proteome Sampling by the HLA Class I Antigen Processing Pathway
I. Hoof, D. van Baarle, W. Hildebrand, C. Keşmir
2012PLoS Comput. Biol.37 citations Open access
Semantic Scholar
Increased Sequence Diversity Coverage Improves Detection of HIV-Specific T Cell Responses1
N. Frahm, D. Kaufmann, K. Yusim, M. Muldoon +17 more
2007Journal of Immunology37 citations Open access
Semantic Scholar
CD8+ T-cell receptor bias and immundominance in HIV-1 infection
H. Kløverpris, Reuben McGregor, J. E. McLaren, K. Ladell +15 more
2015Journal of Immunology36 citations Open access
Semantic Scholar
Immunological Bioinformatics (Computational Molecular Biology)
O. Lund, M. Nielsen, C. Lundegaard, C. Keşmir +1 more
200531 citations
Semantic Scholar
In vitro expansion of antigen-specific CD8(+) T cells distorts the T-cell repertoire.
Ko-Ning Dan, Ana I. Costa, R. Hasrat, B. Grady +4 more
2014JIM - Journal of Immunological Methods30 citations Open access
Semantic Scholar
Measles Virus Epitope Presentation by HLA: Novel Insights into Epitope Selection, Dominance, and Microvariation
Ingrid M. M. Schellens, H. Meiring, I. Hoof, Sanne N M Spijkers +7 more
2015Frontiers in Immunology29 citations Open access
Semantic Scholar
Long-term adaptation of the influenza A virus by escaping cytotoxic T-cell recognition
R. G. Woolthuis, C. V. van Dorp, C. Keşmir, R. D. de Boer +1 more
2016Scientific Reports28 citations Open access
Semantic Scholar
Loss of HIV-1-derived cytotoxic T lymphocyte epitopes restricted by protective HLA-B alleles during the HIV-1 epidemic
Ingrid M. M. Schellens, Marjon Navis, H. V. van Deutekom, B. Boeser-Nunnink +7 more
2011AIDS (London)27 citations Open access
Semantic Scholar
Modelling the Human Immune System by Combining Bioinformatics and Systems Biology Approaches
N. Rapin, C. Keşmir, S. Frankild, M. Nielsen +3 more
2006Journal of biological physics (Print)27 citations Open access
Semantic Scholar
Quantifying the Impact of Human Leukocyte Antigen on the Human Gut Microbiota
S. Andeweg, C. Keşmir, B. Dutilh
2021Msphere26 citations Open access
Semantic Scholar
Revealing factors determining immunodominant responses against dominant epitopes
Wannisa Ritmahan, C. Keşmir, R. Vroomans
2019Immunogenetics26 citations Open access
Semantic Scholar
Virus Encoded MHC-Like Decoys Diversify the Inhibitory KIR Repertoire
Paola Carrillo-Bustamante, C. Keşmir, R. D. de Boer
2013PLoS Comput. Biol.26 citations Open access
Semantic Scholar
Exploratory Study of Predicted Indirectly ReCognizable HLA Epitopes in Mismatched Hematopoietic Cell Transplantations
K. Geneugelijk, K. Thus, H. V. van Deutekom, J. Calis +12 more
2019Frontiers in Immunology25 citations Open access
Semantic Scholar
Complex T-Cell Receptor Repertoire Dynamics Underlie the CD8+ T-Cell Response to HIV-1
Ana I. Costa, Ko-Ning Dan, K. Ladell, J. E. McLaren +8 more
2014Journal of Virology22 citations Open access
Semantic Scholar
Is T Cell Negative Selection a Learning Algorithm?
Inge M. N. Wortel, C. Keşmir, R. D. de Boer, J. Mandl +1 more
2020Cells20 citations Open access
Semantic Scholar
HLA Preferences for Conserved Epitopes: A Potential Mechanism for Hepatitis C Clearance
X. Rao, I. Hoof, D. van Baarle, C. Keşmir +1 more
2015Frontiers in Immunology20 citations Open access
Semantic Scholar
A Coevolutionary Arms Race between Hosts and Viruses Drives Polymorphism and Polygenicity of NK Cell Receptors
Paola Carrillo-Bustamante, C. Keşmir, R. D. de Boer
2015Molecular biology and evolution19 citations Open access
Semantic Scholar
Editorial: Role of HLA and KIR in Viral Infections
J. DeWit, J. Borghans, C. Keşmir, D. van Baarle
2016Frontiers in Immunology18 citations Open access
Semantic Scholar

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