tetano
Editor, Senior Moderator
Cell Syst
. 2020 Nov 27;S2405-4712(20)30461-0.
doi: 10.1016/j.cels.2020.11.010. Online ahead of print.
Predicted Cellular Immunity Population Coverage Gaps for SARS-CoV-2 Subunit Vaccines and Their Augmentation by Compact Peptide Sets
Ge Liu[SUP] 1 [/SUP], Brandon Carter[SUP] 1 [/SUP], David K Gifford[SUP] 2 [/SUP]
Affiliations
Abstract
Subunit vaccines induce immunity to a pathogen by presenting a component of the pathogen and thus inherently limit the representation of pathogen peptides for cellular immunity-based memory. We find that severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) subunit peptides may not be robustly displayed by the major histocompatibility complex (MHC) molecules in certain individuals. We introduce an augmentation strategy for subunit vaccines that adds a small number of SARS-CoV-2 peptides to a vaccine to improve the population coverage of pathogen peptide display. Our population coverage estimates integrate clinical data on peptide immunogenicity in convalescent COVID-19 patients and machine learning predictions. We evaluate the population coverage of 9 different subunits of SARS-CoV-2, including 5 functional domains and 4 full proteins, and augment each of them to fill a predicted coverage gap.
Keywords: SARS-CoV-2; combinatorial optimization; haplotype; machine learning; major histocompatibility complex; peptide vaccine; population coverage; subunit; vaccine augmentation; vaccine evaluation.
. 2020 Nov 27;S2405-4712(20)30461-0.
doi: 10.1016/j.cels.2020.11.010. Online ahead of print.
Predicted Cellular Immunity Population Coverage Gaps for SARS-CoV-2 Subunit Vaccines and Their Augmentation by Compact Peptide Sets
Ge Liu[SUP] 1 [/SUP], Brandon Carter[SUP] 1 [/SUP], David K Gifford[SUP] 2 [/SUP]
Affiliations
- PMID: 33321075
- DOI: 10.1016/j.cels.2020.11.010
Abstract
Subunit vaccines induce immunity to a pathogen by presenting a component of the pathogen and thus inherently limit the representation of pathogen peptides for cellular immunity-based memory. We find that severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) subunit peptides may not be robustly displayed by the major histocompatibility complex (MHC) molecules in certain individuals. We introduce an augmentation strategy for subunit vaccines that adds a small number of SARS-CoV-2 peptides to a vaccine to improve the population coverage of pathogen peptide display. Our population coverage estimates integrate clinical data on peptide immunogenicity in convalescent COVID-19 patients and machine learning predictions. We evaluate the population coverage of 9 different subunits of SARS-CoV-2, including 5 functional domains and 4 full proteins, and augment each of them to fill a predicted coverage gap.
Keywords: SARS-CoV-2; combinatorial optimization; haplotype; machine learning; major histocompatibility complex; peptide vaccine; population coverage; subunit; vaccine augmentation; vaccine evaluation.