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Volumn 82, Issue 4, 2013, Pages 243-251

Evaluation of peptide selection approaches for epitope-based vaccine design

Author keywords

Epitope based vaccine design; HLA supertypes; Optimization; Peptide selection

Indexed keywords

EPITOPE; EPITOPE VACCINE; HLA A ANTIGEN; HLA B ANTIGEN; UNCLASSIFIED DRUG; VACCINE;

EID: 84890827806     PISSN: 00012815     EISSN: 13990039     Source Type: Journal    
DOI: 10.1111/tan.12199     Document Type: Article
Times cited : (24)

References (33)
  • 1
    • 0036401244 scopus 로고    scopus 로고
    • History and prospects for viral disease eradication
    • de Quadros CA. History and prospects for viral disease eradication. Med Microbiol Immunol 2002: 191: 75-81.
    • (2002) Med Microbiol Immunol , vol.191 , pp. 75-81
    • de Quadros, C.A.1
  • 2
    • 74949087025 scopus 로고    scopus 로고
    • Genetically engineered, attenuated whole-cell vaccine approaches for malaria
    • Vaughan A, Wang R, Kappe SH. Genetically engineered, attenuated whole-cell vaccine approaches for malaria. Hum Vaccin 2010: 6: 107-13.
    • (2010) Hum Vaccin , vol.6 , pp. 107-113
    • Vaughan, A.1    Wang, R.2    Kappe, S.H.3
  • 3
    • 84866916280 scopus 로고    scopus 로고
    • A phase 1/2 clinical trial evaluating safety and immunogenicity of a varicella zoster glycoprotein E subunit vaccine candidate in young and older adults
    • Leroux-Roels I, Leroux-Roels G, Clement F et al. A phase 1/2 clinical trial evaluating safety and immunogenicity of a varicella zoster glycoprotein E subunit vaccine candidate in young and older adults. J Infect Dis 2012: 206: 1280-90.
    • (2012) J Infect Dis , vol.206 , pp. 1280-1290
    • Leroux-Roels, I.1    Leroux-Roels, G.2    Clement, F.3
  • 4
    • 79955630363 scopus 로고    scopus 로고
    • Intradermal vaccinations with RNA coding for TAA generate CD8+; and CD4+; immune responses and induce clinical benefit in vaccinated patients
    • Rittig SM, Haentschel M, Weimer KJ et al. Intradermal vaccinations with RNA coding for TAA generate CD8+; and CD4+; immune responses and induce clinical benefit in vaccinated patients. Mol Ther 2010: 19: 990-9.
    • (2010) Mol Ther , vol.19 , pp. 990-999
    • Rittig, S.M.1    Haentschel, M.2    Weimer, K.J.3
  • 5
    • 79958267048 scopus 로고    scopus 로고
    • Phase I/II trial of a dendritic cell vaccine transfected with DNA encoding melan A and gp100 for patients with metastatic melanoma
    • Steele J, Rao A, Marsden J et al. Phase I/II trial of a dendritic cell vaccine transfected with DNA encoding melan A and gp100 for patients with metastatic melanoma. Gene Therapy 2011: 18: 584-93.
    • (2011) Gene Therapy , vol.18 , pp. 584-593
    • Steele, J.1    Rao, A.2    Marsden, J.3
  • 6
    • 34247891741 scopus 로고    scopus 로고
    • More than one reason to rethink the use of peptides in vaccine design
    • Purcell AW, McCluskey J, Rossjohn J. More than one reason to rethink the use of peptides in vaccine design. Nat Rev Drug Discov 2007: 6: 404-14.
    • (2007) Nat Rev Drug Discov , vol.6 , pp. 404-414
    • Purcell, A.W.1    McCluskey, J.2    Rossjohn, J.3
  • 7
    • 0033120573 scopus 로고    scopus 로고
    • Utilization of MHC class I transgenic mice for development of minigene DNA vaccines encoding multiple HLA-restricted CTL epitopes
    • Ishioka GY, Fikes J, Hermanson G et al. Utilization of MHC class I transgenic mice for development of minigene DNA vaccines encoding multiple HLA-restricted CTL epitopes. J Immunol 1999: 162: 3915-25.
    • (1999) J Immunol , vol.162 , pp. 3915-3925
    • Ishioka, G.Y.1    Fikes, J.2    Hermanson, G.3
  • 8
    • 34247597291 scopus 로고    scopus 로고
    • Determination of a HLA II promiscuous peptide cocktail as potential vaccine against EBV latency II malignancies
    • Depil S, Moralès O, Castelli FA et al. Determination of a HLA II promiscuous peptide cocktail as potential vaccine against EBV latency II malignancies. J Immunother 2007: 30: 215-26.
    • (2007) J Immunother , vol.30 , pp. 215-226
    • Depil, S.1    Moralès, O.2    Castelli, F.A.3
  • 9
    • 0033213988 scopus 로고    scopus 로고
    • An HLA-A2 polyepitope vaccine for melanoma immunotherapy
    • Mateo L, Gardner J, Chen Q et al. An HLA-A2 polyepitope vaccine for melanoma immunotherapy. J Immunol 1999: 163: 4058-63.
    • (1999) J Immunol , vol.163 , pp. 4058-4063
    • Mateo, L.1    Gardner, J.2    Chen, Q.3
  • 10
    • 11944272614 scopus 로고    scopus 로고
    • A polytope DNA vaccine elicits multiple effector and memory CTL responses and protects against human papillomavirus 16 E7-expressing tumour
    • Doan T, Herd K, Ramshaw I, Thomson S, Tindle RW. A polytope DNA vaccine elicits multiple effector and memory CTL responses and protects against human papillomavirus 16 E7-expressing tumour. Cancer Immunol Immunother 2005: 54: 157-71.
    • (2005) Cancer Immunol Immunother , vol.54 , pp. 157-171
    • Doan, T.1    Herd, K.2    Ramshaw, I.3    Thomson, S.4    Tindle, R.W.5
  • 11
    • 0032210911 scopus 로고    scopus 로고
    • Prediction of well-conserved HIV-1 ligands using a matrix-based algorithm, EpiMatrix
    • Schafer JRA, Jesdale BM, George JA, Kouttab NM, De Groot AS. Prediction of well-conserved HIV-1 ligands using a matrix-based algorithm, EpiMatrix. Vaccine 1998: 16: 1880-4.
    • (1998) Vaccine , vol.16 , pp. 1880-1884
    • Schafer, J.R.A.1    Jesdale, B.M.2    George, J.A.3    Kouttab, N.M.4    De Groot, A.S.5
  • 12
    • 14844302633 scopus 로고    scopus 로고
    • HIV vaccine development by computer assisted design: the GAIA vaccine
    • De Groot AS, Marcon L, Bishop EA et al. HIV vaccine development by computer assisted design: the GAIA vaccine. Vaccine 2005: 23: 2136-48.
    • (2005) Vaccine , vol.23 , pp. 2136-2148
    • De Groot, A.S.1    Marcon, L.2    Bishop, E.A.3
  • 13
    • 41949142649 scopus 로고    scopus 로고
    • Hotspot Hunter: a computational system for large-scale screening and selection of candidate immunological hotspots in pathogen proteomes
    • Zhang GL, Khan AM, Srinivasan KN et al. Hotspot Hunter: a computational system for large-scale screening and selection of candidate immunological hotspots in pathogen proteomes. BMC Bioinformatics 2008: 9 (Suppl 1): S19.
    • (2008) BMC Bioinformatics , vol.9 , Issue.SUPPL. 1
    • Zhang, G.L.1    Khan, A.M.2    Srinivasan, K.N.3
  • 14
    • 33748763304 scopus 로고    scopus 로고
    • Virus-epitope vaccine design: informatic matching the HLA-I polymorphism to the virus genome
    • Vider-Shalit T, Raffaeli S, Louzoun Y. Virus-epitope vaccine design: informatic matching the HLA-I polymorphism to the virus genome. Mol Immunol 2007: 44: 1253-61.
    • (2007) Mol Immunol , vol.44 , pp. 1253-1261
    • Vider-Shalit, T.1    Raffaeli, S.2    Louzoun, Y.3
  • 15
    • 33846111016 scopus 로고    scopus 로고
    • Polyvalent vaccines for optimal coverage of potential T-cell epitopes in global HIV-1 variants
    • Fischer W, Perkins S, Theiler J et al. Polyvalent vaccines for optimal coverage of potential T-cell epitopes in global HIV-1 variants. Nat Med 2006: 13: 100-6.
    • (2006) Nat Med , vol.13 , pp. 100-106
    • Fischer, W.1    Perkins, S.2    Theiler, J.3
  • 16
    • 58149165030 scopus 로고    scopus 로고
    • A mathematical framework for the selection of an optimal set of peptides for epitope-based vaccines
    • Toussaint NC, Dönnes P, Kohlbacher O. A mathematical framework for the selection of an optimal set of peptides for epitope-based vaccines. PLoS Comput Biol 2008: 4: e1000246.
    • (2008) PLoS Comput Biol , vol.4
    • Toussaint, N.C.1    Dönnes, P.2    Kohlbacher, O.3
  • 17
    • 67849111553 scopus 로고    scopus 로고
    • OptiTope-a web server for the selection of an optimal set of peptides for epitope-based vaccines
    • Toussaint NC, Kohlbacher O. OptiTope-a web server for the selection of an optimal set of peptides for epitope-based vaccines. Nucleic Acids Res 2009: 37 (suppl 2): W617-W622.
    • (2009) Nucleic Acids Res , vol.37 , Issue.SUPPL. 2
    • Toussaint, N.C.1    Kohlbacher, O.2
  • 18
    • 82255174297 scopus 로고    scopus 로고
    • Universal peptide vaccines-optimal peptide vaccine design based on viral sequence conservation
    • Toussaint NC, Maman Y, Kohlbacher O, Louzoun Y. Universal peptide vaccines-optimal peptide vaccine design based on viral sequence conservation. Vaccine 2011: 29: 8745-53.
    • (2011) Vaccine , vol.29 , pp. 8745-8753
    • Toussaint, N.C.1    Maman, Y.2    Kohlbacher, O.3    Louzoun, Y.4
  • 19
    • 84863615191 scopus 로고    scopus 로고
    • Characterization of HIV-specific CD4+ T cell responses against peptides selected with broad population and pathogen coverage
    • Buggert M, Norström MM, Czarnecki C et al. Characterization of HIV-specific CD4+ T cell responses against peptides selected with broad population and pathogen coverage. PloS One 2012: 7: e39874.
    • (2012) PloS One , vol.7
    • Buggert, M.1    Norström, M.M.2    Czarnecki, C.3
  • 20
    • 77958062991 scopus 로고    scopus 로고
    • PopCover: a method for selecting of peptides with optimal population and pathogen coverage
    • Proceedings of the First ACM International Conference on Bioinformatics and Computational Biology. ACM.
    • Lundegaard C, Buggert M, Karlsson A, Lund O, Perez C, Nielsen M. PopCover: a method for selecting of peptides with optimal population and pathogen coverage. In: Proceedings of the First ACM International Conference on Bioinformatics and Computational Biology, 2010. ACM.
    • (2010)
    • Lundegaard, C.1    Buggert, M.2    Karlsson, A.3    Lund, O.4    Perez, C.5    Nielsen, M.6
  • 21
    • 77953149616 scopus 로고    scopus 로고
    • NetCTLpan: pan-specific MHC class I pathway epitope predictions
    • Stranzl T, Larsen MV, Lundegaard C, Nielsen M. NetCTLpan: pan-specific MHC class I pathway epitope predictions. Immunogenetics 2010: 62: 357-68.
    • (2010) Immunogenetics , vol.62 , pp. 357-368
    • Stranzl, T.1    Larsen, M.V.2    Lundegaard, C.3    Nielsen, M.4
  • 22
    • 84890846573 scopus 로고    scopus 로고
    • Los Alamos National Labratory. Los Alamos HIV Sequence DB. Accessed August
    • Los Alamos National Labratory. Los Alamos HIV Sequence DB. http://www.hiv.lanl.gov/. Accessed August 2012.
    • (2012)
  • 23
    • 84890828927 scopus 로고    scopus 로고
    • WHO, Unaids, Unicef. Global HIV/AIDS response: epidemic update and health sector progress towards universal access. Progress report November.
    • WHO, Unaids, Unicef. Global HIV/AIDS response: epidemic update and health sector progress towards universal access. Progress report November. 2011.
    • (2011)
  • 24
    • 84866601621 scopus 로고    scopus 로고
    • Bioinformatic databases and resources in the public domain to aid HLA research
    • Helmberg W. Bioinformatic databases and resources in the public domain to aid HLA research. Tissue Antigens 2012: 80: 295-304.
    • (2012) Tissue Antigens , vol.80 , pp. 295-304
    • Helmberg, W.1
  • 25
    • 2342561929 scopus 로고    scopus 로고
    • Definition of supertypes for HLA molecules using clustering of specificity matrices
    • Lund O, Nielsen M, Kesmir C et al. Definition of supertypes for HLA molecules using clustering of specificity matrices. Immunogenetics 2004: 55: 797-810.
    • (2004) Immunogenetics , vol.55 , pp. 797-810
    • Lund, O.1    Nielsen, M.2    Kesmir, C.3
  • 26
    • 59449094834 scopus 로고    scopus 로고
    • NetMHCpan, a method for MHC class I binding prediction beyond humans
    • Hoof I, Peters B, Sidney J et al. NetMHCpan, a method for MHC class I binding prediction beyond humans. Immunogenetics 2009: 61: 1-13.
    • (2009) Immunogenetics , vol.61 , pp. 1-13
    • Hoof, I.1    Peters, B.2    Sidney, J.3
  • 27
    • 79951945491 scopus 로고    scopus 로고
    • How to optimally define optimal cytotoxic T lymphocyte epitopes in HIV infection
    • Llano A, Frahm N, Brander C. How to optimally define optimal cytotoxic T lymphocyte epitopes in HIV infection. HIV Mol Immunol 2009: 2009: 3-24.
    • (2009) HIV Mol Immunol , vol.2009 , pp. 3-24
    • Llano, A.1    Frahm, N.2    Brander, C.3
  • 29
    • 84890852914 scopus 로고    scopus 로고
    • Numerical python, Package to speed-up arithmetic operations on arrays of numbers, 1.6.2 ed.
    • Ascher D, Dubois PF, Hinsen K, Hugunin J, Oliphant T. Numerical python, 2001, Package to speed-up arithmetic operations on arrays of numbers, 1.6.2 ed. http://sourceforge.net/projects/numpy.
    • (2001)
    • Ascher, D.1    Dubois, P.F.2    Hinsen, K.3    Hugunin, J.4    Oliphant, T.5
  • 30
    • 77955910535 scopus 로고    scopus 로고
    • Pyevolve: a Python open-source framework for genetic algorithms
    • Perone CS. Pyevolve: a Python open-source framework for genetic algorithms. ACM SIGEVOlution 2009: 4: 12-20.
    • (2009) ACM SIGEVOlution , vol.4 , pp. 12-20
    • Perone, C.S.1
  • 31
    • 84890821724 scopus 로고    scopus 로고
    • GNU Linear Programming Kit, 4.47 ed: GNU Software Foundation
    • Makhorin A. GNU Linear Programming Kit, 4.47 ed: GNU Software Foundation, http://www.gnu.org/software/glpk/glpk.html
    • Makhorin, A.1
  • 32
    • 84890837442 scopus 로고    scopus 로고
    • ILOG CPLEX, ILOG CPLEX Inc., 11.100 ed.
    • ILOG CPLEX, ILOG CPLEX Inc., 11.100 ed. (2005) http://www.ilog.com
    • (2005)
  • 33
    • 84890843623 scopus 로고    scopus 로고
    • R Core Team. R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria. ISBN 3-900051-07-0
    • R Core Team. R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria, 2011. ISBN 3-900051-07-0
    • (2011)


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