Implementing sequence-based antigenic distance calculation into immunological shape space model

• Published in: BMC bioinformatics Vol. 21; no. 1; pp. 256 - 13
• Main Authors: Anderson, Christopher S., Sangster, Mark Y., Yang, Hongmei, Mariani, Thomas J., Chaudhury, Sidhartha, Topham, David J.
• Format: Journal Article
• Language: English
• Published: England BioMed Central Ltd 19.06.2020; BioMed Central; BMC
• Subjects: Amino Acid Sequence; Antibodies, Viral - blood; Antibodies, Viral - immunology; Antigen-antibody reactions; Antigenic determinants; Antigenic distance; Antigenic sites; Antigens, Viral - chemistry; Antigens, Viral - immunology; B cells; Comparative analysis; Computer Simulation; Cross Reactions; Epidemics; Epitopes; Gillespie algorithm; Hemagglutinin; Hemagglutinin Glycoproteins, Influenza Virus - chemistry; Hemagglutinin Glycoproteins, Influenza Virus - immunology; Humans; Immunologic factors; Influenza A Virus, H1N1 Subtype - immunology; Influenza vaccines; Influenza Vaccines - immunology; Medical research; Models, Immunological; Shape space; Swine influenza; Vaccination; Shape space; Simulations; Hemagglutinin; Humoral immune system; Epitopes; Vaccines; H1N1; Gillespie algorithm; Stem; Computational immunology; Artificial immune systems; Influenza; 2009 pandemic; pH1N1; Antigenic distance; Stalk; HA; Antigenic sites
• ISSN: 1471-2105; 1471-2105
• DOI: 10.1186/s12859-020-03594-3

In 2009, a novel influenza vaccine was distributed worldwide to combat the H1N1 influenza "swine flu" pandemic. However, antibodies induced by the vaccine display differences in their specificity and cross-reactivity dependent on pre-existing immunity. Here, we present a computational mode...