Prediction of promiscuous T-cell epitopes in the Zika virus polyprotein: An  in silico  approach

Dar, Hamza Arshad; Zaheer, Tahreem; Rehman, Muhammad Talha; Ali, Amjad; Javed, Aneela; Khan, Gohar Ayub; Babar, Mustafeez Mujtaba; Waheed, Yasir

doi:10.1016/j.apjtm.2016.07.004

Cited by 54 publications

(40 citation statements)

References 35 publications

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“…The prM and E proteins initially exist as precursors within the structural domain of the polyprotein. Antibody and T-cell responses against the NS1, NS2, NS3, NS4B and NS5 non-structural polyproteins have been reported [10,11,13,14].…”

Section: Resultsmentioning

confidence: 99%

Exclusive and Common Subsets of Zika Virus Polyprotein Mutants

Weltman¹

2017

J Med Microb Diagn

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Section: Resultsmentioning

confidence: 99%

Exclusive and Common Subsets of Zika Virus Polyprotein Mutants

Weltman¹

2017

J Med Microb Diagn

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“…The main objective of our analysis was to evaluate T-cell (both MHC-I and MHC-II interacting T cells) epitopes using bioinformatics tools to evoke cell-mediated as well as humoral response using the available genomes at the time of writing. A similar study was conducted in 2013 in which only T cell epitopes from 54 available genomes were taken into account (Dar et al, 2016). However, the present study is more focused and comprehensive based on 238 genomes.…”

Section: Discussionmentioning

confidence: 99%

Prediction of CD8 and CD4 T cell epitopes in the polyprotein of Zika Virus; an immunoinformatics approach

Zaheer¹,

Khan²,

Dar³

et al. 2018

Preprint

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Background: Zika virus (ZIKV) is an arbovirus that belongs to family Flaviviridae. The virus has emerged as a global threat and no FDA approved vaccine is available, so an efficient vaccine needs to be designed in order to prevent the infection. Computationally designed vaccines can be used for broad-spectrum therapeutics as they can evoke response against viral infections. In the current study, we have predicted antigenic promiscuous T cell epitopes from Zika virus polyprotein using a range of immune-informatics tools and servers.Methods: A total of 238 polyprotein sequences derived from 238 complete genomes were retrieved using NIAID Virus Pathogen Resource and multiple aligned. Using a consensus sequence, the promiscuous CD8-T cell epitopes were predicted from Propred I and CTLPred and their binding affinities were determined by NetMHC4.0. CD4-T cell epitopes were predicted using ProPred and the binding affinities were determined by MHCPred. Antigenicity score and Immunogenicity score was determined from Vaxijen 2.0 and IEDB immunogenicity tool. Homology was found by pBLAST.Results: Among 78 predicted HLA-I binding epitopes, 19 highly antigenic, immunogenic and high-affinity epitopes are prioritized among which 15 are novel vaccine candidates. However, 66 strong HLA-II interacting T cell epitopes are pooled out from 70 predicted epitopes. Among the shortlisted CD4-T cell epitopes 56 epitopes are novel. Conclusion:Epitope-based vaccines are robust and promising candidates against bacterial and viral infections. The predicted epitopes can serve as potential vaccine candidates. Our study shows promising epitopes that can be used to generate stimulate active immune responses in the majority of the human population around the world, However, our results need validation through experimental studies for confirmation. PeerJ Preprints Abstract:Background:

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“…The ProPred method was found to be efficient for Th epitope prediction of bacterial (11,24) and viral (25) proteins. The predicted Th epitope of the OmpC protein could be combined with MHC-II molecules to enhance the immune response.…”

Section: Discussionmentioning

confidence: 99%