과제정보
We are thankful to Indian Council of Medical Research (ICMR) for providing the ICMR-RA fellowship (5/3/8/51/ITR-F/2020). Also, the authors are very much thankful to Medical Research Laboratory of Siksha "O" Anusandhan (deemed to be) University for providing laboratory facility.
참고문헌
- Poland GA, Ovsyannikova IG, Jacobson RM. Application of pharmacogenomics to vaccines. Pharmacogenomics 2009;10:837-52. https://doi.org/10.2217/pgs.09.25
- Flower DR. Bioinformatics for vaccinology. Hoboken (NJ): John Wiley & Sons; 2008.
- Bourdette DN, Edmonds E, Smith C, et al. A highly immunogenic trivalent T cell receptor peptide vaccine for multiple sclerosis. Mult Scler 2005;11:552-61. https://doi.org/10.1191/1352458505ms1225oa
- Lopez JA, Weilenman C, Audran R, et al. A synthetic malaria vaccine elicits a potent CD8(+) and CD4(+) T lymphocyte immune response in humans: implications for vaccination strategies. Eur J Immunol 2001;31:1989-98. https://doi.org/10.1002/1521-4141(200107)31:7<1989::AID-IMMU1989>3.0.CO;2-M
- Knutson KL, Schiffman K, Disis ML. Immunization with a HER-2/neu helper peptide vaccine generates HER-2/neu CD8 T-cell immunity in cancer patients. J Clin Invest 2001;107:477-84. https://doi.org/10.1172/JCI11752
- Xing W, Liao Q, Viboud C, et al. Hand, foot, and mouth disease in China, 2008-12: an epidemiological study. Lancet Infect Dis 2014;14:308-18. https://doi.org/10.1016/S1473-3099(13)70342-6
- Cox JA, Hiscox JA, Solomon T, Ooi MH, Ng LF. Immuno-pathogenesis and virus-host interactions of enterovirus 71 in patients with hand, foot and mouth disease. Front Microbiol 2017;8:2249.
- Lei X, Cui S, Zhao Z, Wang J. Etiology, pathogenesis, antivirals and vaccines of hand, foot, and mouth disease. Natl Sci Rev 2015;2:268-84.
- Bello AM, Roshorm YM. Recent progress and advances towards developing enterovirus 71 vaccines for effective protection against human hand, foot and mouth disease (HFMD). Biologicals 2022;79:1-9. https://doi.org/10.1016/j.biologicals.2022.08.007
- Yi EJ, Shin YJ, Kim JH, Kim TG, Chang SY. Enterovirus 71 infection and vaccines. Clin Exp Vaccine Res 2017;6:4-14. https://doi.org/10.7774/cevr.2017.6.1.4
- Lu IN, Farinelle S, Sausy A, Muller CP. Identification of a CD4 T-cell epitope in the hemagglutinin stalk domain of pandemic H1N1 influenza virus and its antigen-driven TCR usage signature in BALB/c mice. Cell Mol Immunol 2017;14:511-20. https://doi.org/10.1038/cmi.2016.20
- He R, Yang X, Liu C, et al. Efficient control of chronic LCMV infection by a CD4 T cell epitope-based heterologous prime-boost vaccination in a murine model. Cell Mol Immunol 2018;15:815-26. https://doi.org/10.1038/cmi.2017.3
- Larsen MV, Lundegaard C, Lamberth K, Buus S, Lund O, Nielsen M. Large-scale validation of methods for cytotoxic T-lymphocyte epitope prediction. BMC Bioinformatics 2007;8:424.
- Reynisson B, Alvarez B, Paul S, Peters B, Nielsen M. NetMHCpan-4.1 and NetMHCIIpan-4.0: improved predictions of MHC antigen presentation by concurrent motif deconvolution and integration of MS MHC eluted ligand data. Nucleic Acids Res 2020;48:W449-54. https://doi.org/10.1093/nar/gkaa379
- Saha S, Raghava GP. Prediction methods for B-cell epitopes. Methods Mol Biol 2007;409:387-94. https://doi.org/10.1007/978-1-60327-118-9_29
- Dimitrov I, Bangov I, Flower DR, Doytchinova I. AllerTOP v.2: a server for in silico prediction of allergens. J Mol Model 2014;20:2278.
- Doytchinova IA, Flower DR. VaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines. BMC Bioinformatics 2007;8:4.
- Cheng J, Randall AZ, Sweredoski MJ, Baldi P. SCRATCH: a protein structure and structural feature prediction server. Nucleic Acids Res 2005;33:W72-6. https://doi.org/10.1093/nar/gki396
- Gupta S, Kapoor P, Chaudhary K, et al. In silico approach for predicting toxicity of peptides and proteins. PLoS One 2013;8:e73957.
- Vita R, Mahajan S, Overton JA, et al. The Immune Epitope Database (IEDB): 2018 update. Nucleic Acids Res 2019;47(D1):D339-43. https://doi.org/10.1093/nar/gky1006
- Bui HH, Sidney J, Dinh K, Southwood S, Newman MJ, Sette A. Predicting population coverage of T-cell epitope-based diagnostics and vaccines. BMC Bioinformatics 2006;7:153.
- Gasteiger E, Hoogland C, Gattiker A, et al. Protein identification and analysis tools on the Expasy server. In: Walker JM, editor. The proteomics protocols handbook. New York (NY): Humana Press; 2005. p. 571-607.
- McGuffin LJ, Bryson K, Jones DT. The PSIPRED protein structure prediction server. Bioinformatics 2000;16:404-5. https://doi.org/10.1093/bioinformatics/16.4.404
- Lee GR, Won J, Heo L, Seok C. GalaxyRefine2: simultaneous refinement of inaccurate local regions and overall protein structure. Nucleic Acids Res 2019;47:W451-5. https://doi.org/10.1093/nar/gkz288
- Laskowski RA, MacArthur MW, Moss DS, Thornton JM. PROCHECK: a program to check the stereochemical quality of protein structures. J Appl Crystallogr 1993;26:283-91. https://doi.org/10.1107/S0021889892009944
- Craig DB, Dombkowski AA. Disulfide by Design 2.0: a web-based tool for disulfide engineering in proteins. BMC Bioinformatics 2013;14:346.
- Kozakov D, Hall DR, Xia B, et al. The ClusPro web server for protein-protein docking. Nat Protoc 2017;12:255-78. https://doi.org/10.1038/nprot.2016.169
- van der Sanden S, Koopmans M, Uslu G, van der Avoort H; Dutch Working Group for Clinical Virology. Epidemiology of enterovirus 71 in the Netherlands, 1963 to 2008. J Clin Microbiol 2009;47:2826-33. https://doi.org/10.1128/JCM.00507-09
- Rapin N, Lund O, Bernaschi M, Castiglione F. Computational immunology meets bioinformatics: the use of prediction tools for molecular binding in the simulation of the immune system. PLoS One 2010;5:e9862.
- Arita M, Nagata N, Iwata N, et al. An attenuated strain of enterovirus 71 belonging to genotype a showed a broad spectrum of antigenicity with attenuated neurovirulence in cynomolgus monkeys. J Virol 2007;81:9386-95. https://doi.org/10.1128/JVI.02856-06
- Ooi EE, Phoon MC, Ishak B, Chan SH. Seroepidemiology of human enterovirus 71, Singapore. Emerg Infect Dis 2002;8:995-7. https://doi.org/10.3201/eid0809.10.3201/eid0809.010397
- Van Tu P, Thao NT, Perera D, et al. Epidemiologic and virologic investigation of hand, foot, and mouth disease, southern Vietnam, 2005. Emerg Infect Dis 2007;13:1733-41. https://doi.org/10.3201/eid1311.070632
- Bible JM, Pantelidis P, Chan PK, Tong CY. Genetic evolution of enterovirus 71: epidemiological and pathological implications. Rev Med Virol 2007;17:371-9. https://doi.org/10.1002/rmv.538
- Chan YF, Sam IC, AbuBakar S. Phylogenetic designation of enterovirus 71 genotypes and subgenotypes using complete genome sequences. Infect Genet Evol 2010;10:404-12. https://doi.org/10.1016/j.meegid.2009.05.010
- Wu SC, Liu CC, Lian WC. Optimization of microcarrier cell culture process for the inactivated enterovirus type 71 vaccine development. Vaccine 2004;22:3858-64. https://doi.org/10.1016/j.vaccine.2004.05.037
- Tung WS, Bakar SA, Sekawi Z, Rosli R. DNA vaccine constructs against enterovirus 71 elicit immune response in mice. Genet Vaccines Ther 2007;5:6.
- Murray KA, Allen T, Loh E, Machalaba C, Daszak P. Emerging viral zoonoses from wildlife associated with animal-based food systems: risks and opportunities. In: Jay-Russell M, Doyle M, editors. Food safety risks from wildlife: challenges in agriculture, conservation, and public health. Cham: Springer; 2016. p. 31-57.
- Ojha R, Nandani R, Prajapati VK. Contriving multiepitope subunit vaccine by exploiting structural and nonstructural viral proteins to prevent Epstein-Barr virus-associated malignancy. J Cell Physiol 2019;234:6437-48. https://doi.org/10.1002/jcp.27380
- Sharma A, Sanduja P, Anand A, et al. Advanced strategies for development of vaccines against human bacterial pathogens. World J Microbiol Biotechnol 2021;37:67.
- Moise L, Gutierrez A, Kibria F, et al. iVAX: an integrated toolkit for the selection and optimization of antigens and the design of epitope-driven vaccines. Hum Vaccin Immunother 2015;11:2312-21. https://doi.org/10.1080/21645515.2015.1061159