Mathematical model for assessing the level of cross-immunity between strains of influenza virus subtype H3N2
- Authors: Asatryan M.N.1, Timofeev B.I.1, Shmyr I.S.1, Khachatryan K.R.2, Shcherbinin D.N.1, Timofeeva T.A.1, Gerasimuk E.R.3, Agasaryan V.G.1, Ershov I.F.1, Shashkova T.I.4, Kardymon O.L.4, Ivanisenko N.V.4, Semenenko T.A.1, Naroditsky B.S.1, Logunov D.Y.1, Gintsburg A.L.1
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Affiliations:
- National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. Gamaleya
- National Research University Higher School of Economics
- State University “Dubna”
- Artificial Intelligence Research Institute
- Issue: Vol 68, No 3 (2023)
- Pages: 252-264
- Section: TO VIROLOGIST’S AID
- URL: https://journals.rcsi.science/0507-4088/article/view/132637
- DOI: https://doi.org/10.36233/0507-4088-179
- EDN: https://elibrary.ru/rexvea
- ID: 132637
Cite item
Abstract
Introduction. The WHO regularly updates influenza vaccine recommendations to maximize their match with circulating strains. Nevertheless, the effectiveness of the influenza A vaccine, specifically its H3N2 component, has been low for several seasons.
The aim of the study is to develop a mathematical model of cross-immunity based on the array of published WHO hemagglutination inhibition assay (HAI) data.
Materials and methods. In this study, a mathematical model was proposed, based on finding, using regression analysis, the dependence of HAI titers on substitutions in antigenic sites of sequences. The computer program we developed can process data (GISAID, NCBI, etc.) and create “real-time” databases according to the set tasks.
Results. Based on our research, an additional antigenic site F was identified. The difference in 1.6 times the adjusted R2, on subsets of viruses grown in cell culture and grown in chicken embryos, demonstrates the validity of our decision to divide the original data array by passage histories. We have introduced the concept of a degree of homology between two arbitrary strains, which takes the value of a function depending on the Hamming distance, and it has been shown that the regression results significantly depend on the choice of function. The provided analysis showed that the most significant antigenic sites are A, B, and E. The obtained results on predicted HAI titers showed a good enough result, comparable to similar work by our colleagues.
Conclusion. The proposed method could serve as a useful tool for future forecasts, with further study to confirm its sustainability.
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##article.viewOnOriginalSite##About the authors
Marina N. Asatryan
National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. Gamaleya
Author for correspondence.
Email: masatryan@gamaleya.org
ORCID iD: 0000-0001-6273-8615
PhD (Med.), senior researcher epidemiological cybernetics group of the Epidemiology Department
Russian Federation, 123098, MoscowBoris I. Timofeev
National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. Gamaleya
Email: masatryan@gamaleya.org
ORCID iD: 0000-0001-7425-0457
PhD (Phys.-Mat.), senior researcher D.I. Ivanovsky Institute of Virology Division
Russian Federation, 123098, MoscowIlya S. Shmyr
National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. Gamaleya
Email: masatryan@gamaleya.org
ORCID iD: 0000-0002-8514-5174
researcher epidemiological cybernetics group of the Epidemiology Department
Russian Federation, 123098, MoscowKarlen R. Khachatryan
National Research University Higher School of Economics
Email: masatryan@gamaleya.org
ORCID iD: 0000-0002-1934-532X
master's student
Russian Federation, 123458, MoscowDmitrii N. Shcherbinin
National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. Gamaleya
Email: masatryan@gamaleya.org
ORCID iD: 0000-0002-8518-1669
PhD (Biol.), researcher, Department of Genetics and Molecular Biology of Bacteria
Russian Federation, 123098, MoscowTatiana A. Timofeeva
National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. Gamaleya
Email: masatryan@gamaleya.org
ORCID iD: 0000-0002-8991-8525
PhD (Biol.), head of laboratory D.I. Ivanovsky Institute of Virology Division
Russian Federation, 123098, MoscowElita R. Gerasimuk
State University “Dubna”
Email: masatryan@gamaleya.org
ORCID iD: 0000-0002-7364-163X
PhD (Med.), Assoc. Prof.
Russian Federation, 141982, DubnaVaagn G. Agasaryan
National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. Gamaleya
Email: masatryan@gamaleya.org
ORCID iD: 0009-0009-3824-7061
researcher epidemiological cybernetics group of the Epidemiology Department
Russian Federation, 123098, MoscowIvan F. Ershov
National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. Gamaleya
Email: masatryan@gamaleya.org
ORCID iD: 0000-0002-3333-5347
researcher epidemiological cybernetics group of the Epidemiology Department
Russian Federation, 123098, MoscowTatyana I. Shashkova
Artificial Intelligence Research Institute
Email: masatryan@gamaleya.org
ORCID iD: 0000-0002-8754-8727
PhD (Biol.), senior researcher Bioinformatics group
Russian Federation, 121170, MoscowOlga L. Kardymon
Artificial Intelligence Research Institute
Email: masatryan@gamaleya.org
ORCID iD: 0000-0002-4827-8891
head of Bioinformatics research group
Russian Federation, 121170, MoscowNikita V. Ivanisenko
Artificial Intelligence Research Institute
Email: masatryan@gamaleya.org
ORCID iD: 0000-0002-0333-8117
PhD (Biol.), senior researcher Bioinformatics group
Russian Federation, 121170, MoscowTatyana A. Semenenko
National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. Gamaleya
Email: masatryan@gamaleya.org
ORCID iD: 0000-0002-6686-9011
D. Sci. (Med.), Prof., Full Member of RANS, head Department of Epidemiology
Russian Federation, 123098, MoscowBoris S. Naroditsky
National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. Gamaleya
Email: masatryan@gamaleya.org
ORCID iD: 0000-0001-5522-8238
D. Sci. (Biol.), professor, Deputy Director for research D.I. Ivanovsky Institute of Virology Division
Russian Federation, 123098, MoscowDenis Yu. Logunov
National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. Gamaleya
Email: masatryan@gamaleya.org
D. Sci. (Biol.), Full Member of RAS, Deputy Director for research
Russian Federation, 123098, MoscowAleksander L. Gintsburg
National Research Center for Epidemiology and Microbiology named after Honorary Academician N.F. Gamaleya
Email: masatryan@gamaleya.org
ORCID iD: 0000-0003-1769-5059
D. Sci. (Biol.), Prof., Full Member of RAS, Director
Russian Federation, 123098, MoscowReferences
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