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. 2022 Jan 7;50(D1):D771-D776.
doi: 10.1093/nar/gkab895.

ESC: a comprehensive resource for SARS-CoV-2 immune escape variants

Mercy Rophina  1   2 , Kavita Pandhare  1   2 , Afra Shamnath  1 , Mohamed Imran  1   2 , Bani Jolly  1   2 , Vinod Scaria  1   2
Affiliations

ESC: a comprehensive resource for SARS-CoV-2 immune escape variants

Mercy Rophina et al. Nucleic Acids Res. .

Abstract

Ever since the breakout of COVID-19 disease, ceaseless genomic research to inspect the epidemiology and evolution of the pathogen has been undertaken globally. Large scale viral genome sequencing and analysis have uncovered the functional impact of numerous genetic variants in disease pathogenesis and transmission. Emerging evidence of mutations in spike protein domains escaping antibody neutralization is reported. We have built a database with precise collation of manually curated variants in SARS-CoV-2 from literature with potential escape mechanisms from a range of neutralizing antibodies. This comprehensive repository encompasses a total of 5258 variants accounting for 2068 unique variants tested against 230 antibodies, patient convalescent plasma and vaccine breakthrough events. This resource enables the user to gain access to an extensive annotation of SARS-CoV-2 escape variants which would contribute to exploring and understanding the underlying mechanisms of immune response against the pathogen. The resource is available at http://clingen.igib.res.in/esc/.

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Figures

Graphical Abstract
Graphical Abstract
ESC
Figure 1.
Figure 1.
Illustration of mutation: antibody associations along the spike protein residues. Number of unique antibodies associated with potential immune evasion at each spike protein residue is marked along with domain annotations.
Figure 2.
Figure 2.
Distribution of mutation sites associated with >5 mAbs in the Receptor binding domain of SARS-CoV-2 spike protein. Variant sites with potential impact on neutralization of human polyclonal sera are represented in red. Cumulative frequencies of variants at RBD sites are mentioned alongside.
Figure 3.
Figure 3.
Receptor binding domain of spike protein with mutation hotspot sites associated with decreased neutralization against patient polyclonal sera and monoclonal antibodies.
Figure 4.
Figure 4.
Panel illustrating the query search and display features in ESC database.
See this image and copyright information in PMC

References

    1. Zhang Y.-Z., Holmes E.C.. A genomic perspective on the origin and emergence of SARS-CoV-2. Cell. 2020; 181:223–227. - PMC - PubMed
    1. Tang X., Wu C., Li X., Song Y., Yao X., Wu X., Duan Y., Zhang H., Wang Y., Qian Z.et al. .. On the origin and continuing evolution of SARS-CoV-2. Natl. Sci. Rev. 2020; 7:1012–1023. - PMC - PubMed
    1. Clark K., Karsch-Mizrachi I., Lipman D.J., Ostell J., Sayers E.W.. GenBank. Nucleic Acids Res. 2016; 44:D67–D72. - PMC - PubMed
    1. Shu Y., McCauley J.. GISAID: global initiative on sharing all influenza data - from vision to reality. Euro Surveill. 2017; 22:30494. - PMC - PubMed
    1. Chen F.Z., You L.J., Yang F., Wang L.N., Guo X.Q., Gao F., Hua C., Tan C., Fang L., Shan R.Q.et al. .. CNGBdb: China National GeneBank DataBase. Yi Chuan. 2020; 42:799–809. - PubMed

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