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Volumn 4, Issue 1, 2008, Pages

Analysis and prediction of protective continuous B-cell epitopes on pathogen proteins

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EID: 39449119829     PISSN: None     EISSN: 17457580     Source Type: Journal    
DOI: 10.1186/1745-7580-4-1     Document Type: Article
Times cited : (57)

References (45)
  • 1
    • 34247891741 scopus 로고    scopus 로고
    • More than one reason to rethink the use of peptides in vaccine design
    • 17473845 10.1038/nrd2224
    • More than one reason to rethink the use of peptides in vaccine design. AW Purcell J McCluskey J Rossjohn, Nat Rev Drug Discov 2007 6 5 404 414 17473845 10.1038/nrd2224
    • (2007) Nat Rev Drug Discov , vol.6 , Issue.5 , pp. 404-414
    • Purcell, A.W.1    McCluskey, J.2    Rossjohn, J.3
  • 3
    • 0000448982 scopus 로고
    • Prediction of protein antigenic determinants from amino acid sequences
    • 6167991 10.1073/pnas.78.6.3824
    • Prediction of protein antigenic determinants from amino acid sequences. TP Hopp KR Woods, Proc Natl Acad Sci U S A 1981 78 6 3824 3828 6167991 10.1073/pnas.78.6.3824
    • (1981) Proc Natl Acad Sci U S A , vol.78 , Issue.6 , pp. 3824-3828
    • Hopp, T.P.1    Woods, K.R.2
  • 4
    • 0020623947 scopus 로고
    • A computer program for predicting protein antigenic determinants
    • 6191210 10.1016/0161-5890(83)90029-9
    • A computer program for predicting protein antigenic determinants. TP Hopp KR Woods, Mol Immunol 1983 20 4 483 489 6191210 10.1016/0161-5890(83)90029-9
    • (1983) Mol Immunol , vol.20 , Issue.4 , pp. 483-489
    • Hopp, T.P.1    Woods, K.R.2
  • 5
    • 0025605617 scopus 로고
    • A semi-empirical method for prediction of antigenic determinants on protein antigens
    • 1702393 10.1016/0014-5793(90)80535-Q
    • A semi-empirical method for prediction of antigenic determinants on protein antigens. AS Kolaskar PC Tongaonkar, FEBS Lett 1990 276 1-2 172 174 1702393 10.1016/0014-5793(90)80535-Q
    • (1990) FEBS Lett , vol.276 , Issue.1-2 , pp. 172-174
    • Kolaskar, A.S.1    Tongaonkar, P.C.2
  • 6
    • 0032829397 scopus 로고    scopus 로고
    • Predictive estimation of protein linear epitopes by using the program PEOPLE
    • 10506656 10.1016/S0264-410X(99)00329-1
    • Predictive estimation of protein linear epitopes by using the program PEOPLE. AJ Alix, Vaccine 1999 18 3-4 311 314 10506656 10.1016/S0264-410X(99) 00329-1
    • (1999) Vaccine , vol.18 , Issue.3-4 , pp. 311-314
    • Alix, A.J.1
  • 7
    • 0037263777 scopus 로고    scopus 로고
    • BEPITOPE: Predicting the location of continuous epitopes and patterns in proteins
    • 12557235 10.1002/jmr.602
    • BEPITOPE: predicting the location of continuous epitopes and patterns in proteins. M Odorico JL Pellequer, J Mol Recognit 2003 16 1 20 22 12557235 10.1002/jmr.602
    • (2003) J Mol Recognit , vol.16 , Issue.1 , pp. 20-22
    • Odorico, M.1    Pellequer, J.L.2
  • 8
    • 33745047369 scopus 로고    scopus 로고
    • Selection and combination of machine learning classifiers for prediction of linear B-cell epitopes on proteins
    • 16602136 10.1002/jmr.770
    • Selection and combination of machine learning classifiers for prediction of linear B-cell epitopes on proteins. J Sollner, J Mol Recognit 2006 19 3 209 214 16602136 10.1002/jmr.770
    • (2006) J Mol Recognit , vol.19 , Issue.3 , pp. 209-214
    • Sollner, J.1
  • 9
    • 33745030152 scopus 로고    scopus 로고
    • Machine learning approaches for prediction of linear B-cell epitopes on proteins
    • 16598694 10.1002/jmr.771
    • Machine learning approaches for prediction of linear B-cell epitopes on proteins. J Sollner B Mayer, J Mol Recognit 2006 19 3 200 208 16598694 10.1002/jmr.771
    • (2006) J Mol Recognit , vol.19 , Issue.3 , pp. 200-208
    • Sollner, J.1    Mayer, B.2
  • 10
    • 0028475962 scopus 로고
    • Predicting antigenic determinants in proteins: Looking for unidimensional solutions to a three-dimensional problem?
    • 7535133
    • Predicting antigenic determinants in proteins: looking for unidimensional solutions to a three-dimensional problem? MH Van Regenmortel JL Pellequer, Pept Res 1994 7 4 224 228 7535133
    • (1994) Pept Res , vol.7 , Issue.4 , pp. 224-228
    • Van Regenmortel, M.H.1    Pellequer, J.L.2
  • 11
    • 0030174309 scopus 로고    scopus 로고
    • Mapping Epitope Structure and Activity: From One-Dimensional Prediction to Four-Dimensional Description of Antigenic Specificity
    • 8812702 10.1006/meth.1996.0054
    • Mapping Epitope Structure and Activity: From One-Dimensional Prediction to Four-Dimensional Description of Antigenic Specificity. MHV Van Regenmortel, Methods 1996 9 3 465 472 8812702 10.1006/meth.1996.0054
    • (1996) Methods , vol.9 , Issue.3 , pp. 465-472
    • Van Regenmortel, M.H.V.1
  • 12
    • 33751104704 scopus 로고    scopus 로고
    • Improved method for predicting linear B-cell epitopes
    • 16635264 10.1186/1745-7580-2-2
    • Improved method for predicting linear B-cell epitopes. JE Larsen O Lund M Nielsen, Immunome Res 2006 2 2 16635264 10.1186/1745-7580-2-2
    • (2006) Immunome Res , vol.2 , pp. 2
    • Larsen, J.E.1    Lund, O.2    Nielsen, M.3
  • 13
    • 11144246404 scopus 로고    scopus 로고
    • Benchmarking B cell epitope prediction: Underperformance of existing methods
    • 15576553 10.1110/ps.041059505
    • Benchmarking B cell epitope prediction: underperformance of existing methods. MJ Blythe DR Flower, Protein Sci 2005 14 1 246 248 15576553 10.1110/ps.041059505
    • (2005) Protein Sci , vol.14 , Issue.1 , pp. 246-248
    • Blythe, M.J.1    Flower, D.R.2
  • 15
    • 34248594570 scopus 로고    scopus 로고
    • Identification of discontinuous antigenic determinants on proteins based on shape complementarities
    • 17421048 10.1002/jmr.819
    • Identification of discontinuous antigenic determinants on proteins based on shape complementarities. R Rapberger A Lukas B Mayer, J Mol Recognit 2007 20 2 113 121 17421048 10.1002/jmr.819
    • (2007) J Mol Recognit , vol.20 , Issue.2 , pp. 113-121
    • Rapberger, R.1    Lukas, A.2    Mayer, B.3
  • 16
    • 0036776613 scopus 로고    scopus 로고
    • Protective immunity to rabbit oral and cutaneous papillomaviruses by immunization with short peptides of L2, the minor capsid protein
    • 12208958 10.1128/JVI.76.19.9798-9805.2002
    • Protective immunity to rabbit oral and cutaneous papillomaviruses by immunization with short peptides of L2, the minor capsid protein. ME Embers LR Budgeon M Pickel ND Christensen, J Virol 2002 76 19 9798 9805 12208958 10.1128/JVI.76.19.9798-9805.2002
    • (2002) J Virol , vol.76 , Issue.19 , pp. 9798-9805
    • Embers, M.E.1    Budgeon, L.R.2    Pickel, M.3    Christensen, N.D.4
  • 18
    • 0023713255 scopus 로고
    • Formalin inactivation of the lactate dehydrogenase-elevating virus reveals a major neutralizing epitope not recognized during natural infection
    • 2457113
    • Formalin inactivation of the lactate dehydrogenase-elevating virus reveals a major neutralizing epitope not recognized during natural infection. JT Harty PG Plagemann, J Virol 1988 62 9 3210 3216 2457113
    • (1988) J Virol , vol.62 , Issue.9 , pp. 3210-3216
    • Harty, J.T.1    Plagemann, P.G.2
  • 21
    • 33750164592 scopus 로고    scopus 로고
    • Adaptive evolution of the spike gene of SARS coronavirus: Changes in positively selected sites in different epidemic groups
    • 17020602 10.1186/1471-2180-6-88
    • Adaptive evolution of the spike gene of SARS coronavirus: changes in positively selected sites in different epidemic groups. CY Zhang JF Wei SH He, BMC Microbiol 2006 6 88 17020602 10.1186/1471-2180-6-88
    • (2006) BMC Microbiol , vol.6 , pp. 88
    • Zhang, C.Y.1    Wei, J.F.2    He, S.H.3
  • 22
    • 18744368767 scopus 로고    scopus 로고
    • Cryptic nature of a conserved, CD4-inducible V3 loop neutralization epitope in the native envelope glycoprotein oligomer of CCR5-restricted, but not CXCR4-using, primary human immunodeficiency virus type 1 strains
    • 15890935 10.1128/JVI.79.11.6957-6968.2005
    • Cryptic nature of a conserved, CD4-inducible V3 loop neutralization epitope in the native envelope glycoprotein oligomer of CCR5-restricted, but not CXCR4-using, primary human immunodeficiency virus type 1 strains. P Lusso PL Earl F Sironi F Santoro C Ripamonti G Scarlatti R Longhi EA Berger SE Burastero, J Virol 2005 79 11 6957 6968 15890935 10.1128/JVI.79.11.6957-6968.2005
    • (2005) J Virol , vol.79 , Issue.11 , pp. 6957-6968
    • Lusso, P.1    Earl, P.L.2    Sironi, F.3    Santoro, F.4    Ripamonti, C.5    Scarlatti, G.6    Longhi, R.7    Berger, E.A.8    Burastero, S.E.9
  • 23
    • 7644239787 scopus 로고    scopus 로고
    • Evolutionary dynamics of the glycan shield of the human immunodeficiency virus envelope during natural infection and implications for exposure of the 2G12 epitope
    • 15507649 10.1128/JVI.78.22.12625-12637.2004
    • Evolutionary dynamics of the glycan shield of the human immunodeficiency virus envelope during natural infection and implications for exposure of the 2G12 epitope. L Dacheux A Moreau Y Ataman-Onal F Biron B Verrier F Barin, J Virol 2004 78 22 12625 12637 15507649 10.1128/JVI.78.22.12625-12637.2004
    • (2004) J Virol , vol.78 , Issue.22 , pp. 12625-12637
    • Dacheux, L.1    Moreau, A.2    Ataman-Onal, Y.3    Biron, F.4    Verrier, B.5    Barin, F.6
  • 24
    • 33645776979 scopus 로고    scopus 로고
    • Influence of N-linked glycosylation of porcine reproductive and respiratory syndrome virus GP5 on virus infectivity, antigenicity, and ability to induce neutralizing antibodies
    • 16571816 10.1128/JVI.80.8.3994-4004.2006
    • Influence of N-linked glycosylation of porcine reproductive and respiratory syndrome virus GP5 on virus infectivity, antigenicity, and ability to induce neutralizing antibodies. IH Ansari B Kwon FA Osorio AK Pattnaik, J Virol 2006 80 8 3994 4004 16571816 10.1128/JVI.80.8.3994-4004.2006
    • (2006) J Virol , vol.80 , Issue.8 , pp. 3994-4004
    • Ansari, I.H.1    Kwon, B.2    Osorio, F.A.3    Pattnaik, A.K.4
  • 25
    • 33748254730 scopus 로고    scopus 로고
    • Prediction of continuous B-cell epitopes in an antigen using recurrent neural network
    • 16894596 10.1002/prot.21078
    • Prediction of continuous B-cell epitopes in an antigen using recurrent neural network. S Saha GP Raghava, Proteins 2006 65 1 40 48 16894596 10.1002/prot.21078
    • (2006) Proteins , vol.65 , Issue.1 , pp. 40-48
    • Saha, S.1    Raghava, G.P.2
  • 27
    • 0031614678 scopus 로고    scopus 로고
    • A hidden Markov model for predicting transmembrane helices in protein sequences
    • 9783223
    • A hidden Markov model for predicting transmembrane helices in protein sequences. EL Sonnhammer G von Heijne A Krogh, Proc Int Conf Intell Syst Mol Biol 1998 6 175 182 9783223
    • (1998) Proc Int Conf Intell Syst Mol Biol , vol.6 , pp. 175-182
    • Sonnhammer, E.L.1    Von Heijne, G.2    Krogh, A.3
  • 28
    • 0033044637 scopus 로고    scopus 로고
    • Machine learning approaches for the prediction of signal peptides and other protein sorting signals
    • 10065704 10.1093/protein/12.1.3
    • Machine learning approaches for the prediction of signal peptides and other protein sorting signals. H Nielsen S Brunak G von Heijne, Protein Eng 1999 12 1 3 9 10065704 10.1093/protein/12.1.3
    • (1999) Protein Eng , vol.12 , Issue.1 , pp. 3-9
    • Nielsen, H.1    Brunak, S.2    Von Heijne, G.3
  • 29
    • 33748622616 scopus 로고    scopus 로고
    • Characterization of a unique borreliacidal epitope on the outer surface protein C of Borrelia burgdorferi
    • 16965353 10.1111/j.1574-695X.2006.00122.x
    • Characterization of a unique borreliacidal epitope on the outer surface protein C of Borrelia burgdorferi. X Yang Y Li JJ Dunn BJ Luft, FEMS Immunol Med Microbiol 2006 48 1 64 74 16965353 10.1111/j.1574-695X.2006.00122.x
    • (2006) FEMS Immunol Med Microbiol , vol.48 , Issue.1 , pp. 64-74
    • Yang, X.1    Li, Y.2    Dunn, J.J.3    Luft, B.J.4
  • 30
    • 33847031827 scopus 로고    scopus 로고
    • VaxiJen: A server for prediction of protective antigens, tumour antigens and subunit vaccines
    • 17207271 10.1186/1471-2105-8-4
    • VaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines. IA Doytchinova DR Flower, BMC Bioinformatics 2007 8 4 17207271 10.1186/1471-2105-8-4
    • (2007) BMC Bioinformatics , vol.8 , pp. 4
    • Doytchinova, I.A.1    Flower, D.R.2
  • 31
    • 14644435046 scopus 로고    scopus 로고
    • SPAAN: A software program for prediction of adhesins and adhesin-like proteins using neural networks
    • 15374866 10.1093/bioinformatics/bti028
    • SPAAN: a software program for prediction of adhesins and adhesin-like proteins using neural networks. G Sachdeva K Kumar P Jain S Ramachandran, Bioinformatics 2005 21 4 483 491 15374866 10.1093/bioinformatics/bti028
    • (2005) Bioinformatics , vol.21 , Issue.4 , pp. 483-491
    • Sachdeva, G.1    Kumar, K.2    Jain, P.3    Ramachandran, S.4
  • 33
    • 0032892577 scopus 로고    scopus 로고
    • AAindex: Amino Acid Index Database
    • 9847231 10.1093/nar/27.1.368
    • AAindex: Amino Acid Index Database. S Kawashima H Ogata M Kanehisa, Nucleic Acids Res 1999 27 1 368 369 9847231 10.1093/nar/27.1.368
    • (1999) Nucleic Acids Res , vol.27 , Issue.1 , pp. 368-369
    • Kawashima, S.1    Ogata, H.2    Kanehisa, M.3
  • 34
    • 0023192524 scopus 로고
    • Peptide quantitative structure-activity relationships, a multivariate approach
    • 3599020 10.1021/jm00390a003
    • Peptide quantitative structure-activity relationships, a multivariate approach. S Hellberg M Sjostrom B Skagerberg S Wold, J Med Chem 1987 30 7 1126 1135 3599020 10.1021/jm00390a003
    • (1987) J Med Chem , vol.30 , Issue.7 , pp. 1126-1135
    • Hellberg, S.1    Sjostrom, M.2    Skagerberg, B.3    Wold, S.4
  • 35
    • 33144455184 scopus 로고    scopus 로고
    • A new set of amino acid descriptors and its application in peptide QSARs
    • 15895431 10.1002/bip.20296
    • A new set of amino acid descriptors and its application in peptide QSARs. H Mei ZH Liao Y Zhou SZ Li, Biopolymers 2005 80 6 775 786 15895431 10.1002/bip.20296
    • (2005) Biopolymers , vol.80 , Issue.6 , pp. 775-786
    • Mei, H.1    Liao, Z.H.2    Zhou, Y.3    Li, S.Z.4
  • 36
    • 0034201441 scopus 로고    scopus 로고
    • EMBOSS: The European Molecular Biology Open Software Suite
    • 10827456 10.1016/S0168-9525(00)02024-2
    • EMBOSS: the European Molecular Biology Open Software Suite. P Rice I Longden A Bleasby, Trends Genet 2000 16 6 276 277 10827456 10.1016/S0168- 9525(00)02024-2
    • (2000) Trends Genet , vol.16 , Issue.6 , pp. 276-277
    • Rice, P.1    Longden, I.2    Bleasby, A.3
  • 37
    • 0026458378 scopus 로고
    • Amino acid substitution matrices from protein blocks
    • 1438297 10.1073/pnas.89.22.10915
    • Amino acid substitution matrices from protein blocks. S Henikoff JG Henikoff, Proc Natl Acad Sci U S A 1992 89 22 10915 10919 1438297 10.1073/pnas.89.22.10915
    • (1992) Proc Natl Acad Sci U S A , vol.89 , Issue.22 , pp. 10915-10919
    • Henikoff, S.1    Henikoff, J.G.2
  • 38
    • 0025882349 scopus 로고
    • PROSITE: A dictionary of sites and patterns in proteins
    • 2041810
    • PROSITE: a dictionary of sites and patterns in proteins. A Bairoch, Nucleic Acids Res 1991 19 Suppl 2241 2245 2041810
    • (1991) Nucleic Acids Res , vol.19 , pp. 2241-2245
    • Bairoch, A.1
  • 39
    • 25444509811 scopus 로고    scopus 로고
    • Bcipep: A database of B-cell epitopes
    • 15921533 10.1186/1471-2164-6-79
    • Bcipep: a database of B-cell epitopes. S Saha M Bhasin GP Raghava, BMC Genomics 2005 6 1 79 15921533 10.1186/1471-2164-6-79
    • (2005) BMC Genomics , vol.6 , Issue.1 , pp. 79
    • Saha, S.1    Bhasin, M.2    Raghava, G.P.3
  • 44
    • 39449103090 scopus 로고    scopus 로고
    • ROCR. http://rocr.bioinf.mpi-sb.mpg.de/
    • ROCR


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.