An integrated in silico immuno-genetic analytical platform provides insights into COVID-19 serological and vaccine targets
Abstract During COVID-19, diagnostic serological tools and vaccines have been developed. To inform control activities in a post-vaccine surveillance setting, we have developed an online “immuno-analytics” resource that combines epitope, sequence, protein and SARS-CoV-2 mutation analysis. SARS-CoV-2...
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doaj-04d98c2c49604105b8329241d81e848a2021-01-10T12:14:54ZengBMCGenome Medicine1756-994X2021-01-0113111210.1186/s13073-020-00822-6An integrated in silico immuno-genetic analytical platform provides insights into COVID-19 serological and vaccine targetsDaniel Ward0Matthew Higgins1Jody E. Phelan2Martin L. Hibberd3Susana Campino4Taane G. Clark5Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical MedicineDepartment of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical MedicineDepartment of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical MedicineDepartment of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical MedicineDepartment of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical MedicineDepartment of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene and Tropical MedicineAbstract During COVID-19, diagnostic serological tools and vaccines have been developed. To inform control activities in a post-vaccine surveillance setting, we have developed an online “immuno-analytics” resource that combines epitope, sequence, protein and SARS-CoV-2 mutation analysis. SARS-CoV-2 spike and nucleocapsid proteins are both vaccine and serological diagnostic targets. Using the tool, the nucleocapsid protein appears to be a sub-optimal target for use in serological platforms. Spike D614G (and nsp12 L314P) mutations were most frequent (> 86%), whilst spike A222V/L18F have recently increased. Also, Orf3a proteins may be a suitable target for serology. The tool can accessed from: http://genomics.lshtm.ac.uk/immuno (online); https://github.com/dan-ward-bio/COVID-immunoanalytics (source code).https://doi.org/10.1186/s13073-020-00822-6SARS-CoV-2COVIDHuman-coronavirusImmuno-informaticsMutationEpitopes |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Daniel Ward Matthew Higgins Jody E. Phelan Martin L. Hibberd Susana Campino Taane G. Clark |
spellingShingle |
Daniel Ward Matthew Higgins Jody E. Phelan Martin L. Hibberd Susana Campino Taane G. Clark An integrated in silico immuno-genetic analytical platform provides insights into COVID-19 serological and vaccine targets Genome Medicine SARS-CoV-2 COVID Human-coronavirus Immuno-informatics Mutation Epitopes |
author_facet |
Daniel Ward Matthew Higgins Jody E. Phelan Martin L. Hibberd Susana Campino Taane G. Clark |
author_sort |
Daniel Ward |
title |
An integrated in silico immuno-genetic analytical platform provides insights into COVID-19 serological and vaccine targets |
title_short |
An integrated in silico immuno-genetic analytical platform provides insights into COVID-19 serological and vaccine targets |
title_full |
An integrated in silico immuno-genetic analytical platform provides insights into COVID-19 serological and vaccine targets |
title_fullStr |
An integrated in silico immuno-genetic analytical platform provides insights into COVID-19 serological and vaccine targets |
title_full_unstemmed |
An integrated in silico immuno-genetic analytical platform provides insights into COVID-19 serological and vaccine targets |
title_sort |
integrated in silico immuno-genetic analytical platform provides insights into covid-19 serological and vaccine targets |
publisher |
BMC |
series |
Genome Medicine |
issn |
1756-994X |
publishDate |
2021-01-01 |
description |
Abstract During COVID-19, diagnostic serological tools and vaccines have been developed. To inform control activities in a post-vaccine surveillance setting, we have developed an online “immuno-analytics” resource that combines epitope, sequence, protein and SARS-CoV-2 mutation analysis. SARS-CoV-2 spike and nucleocapsid proteins are both vaccine and serological diagnostic targets. Using the tool, the nucleocapsid protein appears to be a sub-optimal target for use in serological platforms. Spike D614G (and nsp12 L314P) mutations were most frequent (> 86%), whilst spike A222V/L18F have recently increased. Also, Orf3a proteins may be a suitable target for serology. The tool can accessed from: http://genomics.lshtm.ac.uk/immuno (online); https://github.com/dan-ward-bio/COVID-immunoanalytics (source code). |
topic |
SARS-CoV-2 COVID Human-coronavirus Immuno-informatics Mutation Epitopes |
url |
https://doi.org/10.1186/s13073-020-00822-6 |
work_keys_str_mv |
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