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Design of an epitope-based peptide vaccine against the SARS-CoV-2: a vaccine-informatics approach.
Alam, Aftab; Khan, Arbaaz; Imam, Nikhat; Siddiqui, Mohd Faizan; Waseem, Mohd; Malik, Md Zubbair; Ishrat, Romana.
  • Alam A; Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia University, New Delhi 110025, India.
  • Khan A; Department of computer science, Jamia Millia Islamia University, New Delhi, India.
  • Imam N; Centre for Interdisciplinary Research in Basic Science, Jamia Millia Islamia University, New Delhi, India.
  • Siddiqui MF; International Medical Faculty, Osh State University, Kyrgyz Republic.
  • Waseem M; School of Computational & Integrative Sciences, Jawaharlal Nehru University, New Delhi, India.
  • Malik MZ; School of Computational & Integrative Sciences, Jawaharlal Nehru University, New Delhi, India.
  • Ishrat R; Centre for Interdisciplinary Research in Basic Science, Jamia Millia Islamia University, New Delhi, India.
Brief Bioinform ; 22(2): 1309-1323, 2021 03 22.
Article in English | MEDLINE | ID: covidwho-1352112
ABSTRACT
The recurrent and recent global outbreak of the severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) has turned into a global concern which has infected more than 42 million people all over the globe, and this number is increasing in hours. Unfortunately, no vaccine or specific treatment is available, which makes it more deadly. A vaccine-informatics approach has shown significant breakthrough in peptide-based epitope mapping and opens the new horizon in vaccine development. In this study, we have identified a total of 15 antigenic peptides [including thymus cells (T-cells) and bone marrow or bursa-derived cells] in the surface glycoprotein (SG) of SARS-CoV-2 which is nontoxic and nonallergenic in nature, nonallergenic, highly antigenic and non-mutated in other SARS-CoV-2 virus strains. The population coverage analysis has found that cluster of differentiation 4 (CD4+) T-cell peptides showed higher cumulative population coverage over cluster of differentiation 8 (CD8+) peptides in the 16 different geographical regions of the world. We identified 12 peptides ((LTDEMIAQY, WTAGAAAYY, WMESEFRVY, IRASANLAA, FGAISSVLN, VKQLSSNFG, FAMQMAYRF, FGAGAALQI, YGFQPTNGVGYQ, LPDPSKPSKR, QTQTNSPRRARS and VITPGTNTSN) that are $80\hbox{--} 90\%$ identical with experimentally determined epitopes of SARS-CoV, and this will likely be beneficial for a quick progression of the vaccine design. Moreover, docking analysis suggested that the identified peptides are tightly bound in the groove of human leukocyte antigen molecules which can induce the T-cell response. Overall, this study allows us to determine potent peptide antigen targets in the SG on intuitive grounds, which opens up a new horizon in the coronavirus disease (COVID-19) research. However, this study needs experimental validation by in vitro and in vivo.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: Epitopes, T-Lymphocyte / Epitopes, B-Lymphocyte / Vaccines, Subunit / SARS-CoV-2 / COVID-19 Type of study: Prognostic study Topics: Vaccines Limits: Humans Language: English Journal: Brief Bioinform Journal subject: Biology / Medical Informatics Year: 2021 Document Type: Article Affiliation country: Bib

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Full text: Available Collection: International databases Database: MEDLINE Main subject: Epitopes, T-Lymphocyte / Epitopes, B-Lymphocyte / Vaccines, Subunit / SARS-CoV-2 / COVID-19 Type of study: Prognostic study Topics: Vaccines Limits: Humans Language: English Journal: Brief Bioinform Journal subject: Biology / Medical Informatics Year: 2021 Document Type: Article Affiliation country: Bib