Vaccine design from the ensemble of surface glycoprotein epitopes of SARS-CoV-2: An immunoinformatics approach
Noor Naemah Abdul Rahman,Fawad Ali,Zarrin Basharat,Muhammad Shehroz,Muhammad Kazim Khan,Philippe Jeandet,Eugenie Nepovimova,Kamil Kuca,Haroon Khan +8 more
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In conclusion, C1 was the best vaccine candidate among all designed constructs to elicit an immune response SARS-CoV-2 and combat the coronavirus disease (COVID-19).About:
This article is published in Vaccine.The article was published on 2020-07-28 and is currently open access. It has received 45 citations till now. The article focuses on the topics: Epitope & Coronavirus.read more
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COVID-19 and Toll-Like Receptor 4 (TLR4): SARS-CoV-2 May Bind and Activate TLR4 to Increase ACE2 Expression, Facilitating Entry and Causing Hyperinflammation.
TL;DR: In this article, the authors proposed a model in which the SARS-CoV-2 spike glycoprotein binds TLR4 and activates TLR 4 signalling to increase cell surface expression of ACE2 facilitating entry.
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In silico analysis of epitope-based vaccine candidate against tuberculosis using reverse vaccinology.
Shaheen Bibi,Inayat Ullah,Bingdong Zhu,Muhammad Adnan,Romana Liaqat,Wei-Bao Kong,Shiquan Niu +6 more
TL;DR: In this paper, a multi-epitope subunit vaccine for tuberculosis was proposed and tested in E. coli and showed significant response for immune cells, which was used for further processing based on allergenicity, antigenicity, solubility, and molecular docking scores.
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False-positive and false-negative COVID-19 cases: respiratory prevention and management strategies, vaccination, and further perspectives.
TL;DR: In this article, the authors explore the major reasons for false positive and false negative SARS-CoV-2 test results and highlight the potential for human error in assays' performance.
Journal ArticleDOI
In silico T cell epitope identification for SARS-CoV-2: Progress and perspectives.
TL;DR: A review of the in-silico methods that have been used for the prediction of SARS-CoV-2 T cell epitopes is presented in this paper, where a performance comparison is provided based on the ability to identify a specific set of immunogenic epitopes that were determined experimentally to be targeted by T cells in convalescent COVID-19 patients.
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Immunoinformatics design of a novel epitope-based vaccine candidate against dengue virus
Adewale Oluwaseun Fadaka,Nicole Remaliah Samantha Sibuyi,Darius Riziki Martin,Mediline Goboza,Ashwil Klein,Abram M. Madiehe,Mervin Meyer +6 more
TL;DR: In this paper, the authors used reverse vaccinology and immunoinformatics to design a multi-epitope based vaccine from the sequence of the dengue virus (DENV).
References
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A simple method for displaying the hydropathic character of a protein
Jack Kyte,Russell F. Doolittle +1 more
TL;DR: A computer program that progressively evaluates the hydrophilicity and hydrophobicity of a protein along its amino acid sequence has been devised and its simplicity and its graphic nature make it a very useful tool for the evaluation of protein structures.
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Genomic characterisation and epidemiology of 2019 novel coronavirus: implications for virus origins and receptor binding.
Roujian Lu,Xiang Zhao,Juan Li,Peihua Niu,Bo Yang,Honglong Wu,Wenling Wang,Hao Song,Baoying Huang,Na Zhu,Yuhai Bi,Xuejun Ma,Faxian Zhan,Liang Wang,Tao Hu,Hong Zhou,Zhenhong Hu,Weimin Zhou,Li Zhao,Jing Chen,Yao Meng,Ji Wang,Yang Lin,Jianying Yuan,Zhihao Xie,Jinmin Ma,William J. Liu,Dayan Wang,Wenbo Xu,Edward C. Holmes,George F. Gao,George F. Gao,Guizhen Wu,Weijun Chen,Weifeng Shi,Wenjie Tan,Wenjie Tan +36 more
TL;DR: The phylogenetic analysis suggests that bats might be the original host of this virus, an animal sold at the seafood market in Wuhan might represent an intermediate host facilitating the emergence of the virus in humans.
Book ChapterDOI
Protein identification and analysis tools in the ExPASy server
Marc R. Wilkins,Elisabeth Gasteiger,Amos Marc Bairoch,Jean Emmanuel Sanchez,Keith L. Williams,Ron D. Appel,Denis Hochstrasser +6 more
TL;DR: Details are given about protein identification and analysis software that is available through the ExPASy World Wide Web server and the extensive annotation available in the Swiss-Prot database is used.
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The Phyre2 web portal for protein modeling, prediction and analysis
Lawrence A. Kelley,Stefans Mezulis,Christopher M. Yates,Christopher M. Yates,Mark N. Wass,Mark N. Wass,Michael J.E. Sternberg +6 more
TL;DR: An updated protocol for Phyre2, which uses advanced remote homology detection methods to build 3D models, predict ligand binding sites and analyze the effect of amino acid variants for a user's protein sequence.
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Structure, Function, and Antigenicity of the SARS-CoV-2 Spike Glycoprotein.
Alexandra C. Walls,Young-Jun Park,M. Alejandra Tortorici,M. Alejandra Tortorici,Abigail Wall,Andrew T. McGuire,Andrew T. McGuire,David Veesler +7 more
TL;DR: It is demonstrating that cross-neutralizing antibodies targeting conserved S epitopes can be elicited upon vaccination, and it is shown that SARS-CoV-2 S uses ACE2 to enter cells and that the receptor-binding domains of Sars- coV- 2 S and SARS S bind with similar affinities to human ACE2, correlating with the efficient spread of SATS among humans.