Vadim Karnaukhov

Research advisor: Professor Dmitrii Chudakov

Program entry year: 2019

Graduated from MSU, Faculty of Chemistry in 2019

Research project: Structural basis for T-cell receptor specificity and cross-reactivity prediction

Research interests:  structural immunology, pathogenesis of autoimmune diseases, TCR-based immunotherapeutics, prediction of neoepitope immunogenicity

Publications:

Primary and secondary anti-viral response captured by the dynamics and phenotype of individual T cell clones. Minervina A.A., Pogorelyy M.V., Komech E.A., Karnaukhov V.K., Bacher P., Rosati E., Franke A., Chudakov D.M., Mamedov I.Z., Lebedev Y.B., Mora T., Walczak A.M. Elife, 2020 9: e53704

HLA binding of self-peptides is biased towards proteins with specific molecular functions. Karnaukhov, W. Paes, I. Woodhouse,  T. Partridge, A. Nicastri,  S. Brackenridge, D. Scherbinin, D. Chudakov, I. Zvyagin,  N. Ternette,  H. Koohy,  P. Borrow,  M. Shugay.  Preprint: https://www.biorxiv.org/content/10.1101/2021.02.16.431395v1

Conference presentations:

TCRen: a statistical potential for residue interaction that accurately predicts TCR:peptide recognition. Karnaukhov V., Shcherbinin D., Chugunov A., Chudakov D., Efremov R., Zvyagin I., Shugay M.  ISMB/ECCB 2021 (3D-SIG: Structural Bioinformatics and Computational Biophysics). Oral presentation

HLA binding preferences of self-peptides are biased towards proteins with specific molecular functions. Karnaukhov V., Paes W., Woodhouse I., Partridge T., Nicastri A., Brackenridge S., Scherbinin D., Chudakov D., Zvyagin, Ternette N., Koohy H., Borrow P., Shugay M. Moscow Conference on Computational Molecular Biology 2021. Oral presentation

HLA variants differ in binding preferences of self-peptides from proteins with specific molecular functions. Karnaukhov V., Paes W., Woodhouse I., Partridge T., Nicastri A., Brackenridge S., Scherbinin D., Chudakov D., Zvyagin, Ternette N., Koohy H., Borrow P., Shugay M. European Congress of Immunology 2021. Poster presentation

Computational approach to predict epitopes for ankylosing spondylitis-related TCR. V.K. Karnaukhov, E.A. Komech, A.A. Myasoutova, A.I. Mikelov, D.S. Shcherbinin, M. Shugay, I.V. Zvyagin. 2nd Meeting on Stochasticity and Control in Adaptive Immune Repertoires, Paris, France (October 28-31, 2018). Poster presentation

Computational approach for prediction of autoimmune disease-associated T-cell receptor epitopes. V.K. Karnaukhov, E.A. Komech, A.A. Novikova, A.I. Mikelov, M. Shugay, A.O. Chugunov, I.V. Zvyagin. Moscow Conference on Computational Molecular Biology (MCCMB), Moscow (July 27-30, 2019). Poster presentation