메뉴 건너뛰기




Volumn 133, Issue 2, 2004, Pages 101-112

Statistical Evaluation of Local Alignment Features Predicting Allergenicity Using Supervised Classification Algorithms

Author keywords

Allergy; Amino acid sequence; Computational toxicology; Risk assessment

Indexed keywords

ALGORITHM; ALLERGIC REACTION; ARTICLE; ATOPY; CLINICAL FEATURE; DATA BASE; DISEASE CLASSIFICATION; EVALUATION; FOOD ALLERGY; NORMAL DISTRIBUTION; PREDICTION; PRIORITY JOURNAL; RECEIVER OPERATING CHARACTERISTIC; STATISTICAL ANALYSIS;

EID: 1542316862     PISSN: 10182438     EISSN: None     Source Type: Journal    
DOI: 10.1159/000076382     Document Type: Article
Times cited : (55)

References (56)
  • 3
    • 0033064254 scopus 로고    scopus 로고
    • Food allergy. 1. Immunopathogenesis and clinical disorders
    • Sampson HA: Food allergy. 1. Immunopathogenesis and clinical disorders. J Allergy Clin Immunol 1999;103:717-728.
    • (1999) J Allergy Clin Immunol , vol.103 , pp. 717-728
    • Sampson, H.A.1
  • 4
    • 0038583649 scopus 로고    scopus 로고
    • Genetic Modification Technology and Food. Consumer Health and Safety
    • Brussels, ILSI Europe
    • Robinson C: Genetic Modification Technology and Food. Consumer Health and Safety. ILSI Europe Concise Monographs. Brussels, ILSI Europe, 2001.
    • (2001) ILSI Europe Concise Monographs
    • Robinson, C.1
  • 6
    • 0003432228 scopus 로고    scopus 로고
    • Joint FAO/WHO Expert Consultation on Allergenicity of Foods Derived from Biotechnology. Rome
    • FAO/WHO: Evaluation of allergenicity of genetically modified foods. Joint FAO/WHO Expert Consultation on Allergenicity of Foods Derived from Biotechnology. Rome, 2001.
    • (2001) Evaluation of Allergenicity of Genetically Modified Foods
  • 7
    • 2042526375 scopus 로고    scopus 로고
    • EU (2003) Regulation (EC) No 1829/2003 of the European parliament and of the council of 22 September 2003 on genetically modified food and feed
    • EU (2003) Regulation (EC) No 1829/2003 of the European parliament and of the council of 22 September 2003 on genetically modified food and feed. Off J Eur Commun L268:1-23. http://europa.eu.int/eur-lex/pri/en/oj/dat/2003/l_268/ l_26820031018en00010023.pdf.
    • Off J Eur Commun , vol.L268 , pp. 1-23
  • 8
    • 0036040442 scopus 로고    scopus 로고
    • Report on the potential allergenicity of genetically modified organisms and their products
    • Lack G, Chapman M, Kalsheker N, King V, Robinson C, Venables K: Report on the potential allergenicity of genetically modified organisms and their products. Clin Exp Allergy 2002;32:1131-1143.
    • (2002) Clin Exp Allergy , vol.32 , pp. 1131-1143
    • Lack, G.1    Chapman, M.2    Kalsheker, N.3    King, V.4    Robinson, C.5    Venables, K.6
  • 9
    • 0031618972 scopus 로고    scopus 로고
    • The use of amino acid sequence alignments to assess potential allergenicity of proteins used in genetically modified foods
    • Gendel SM: The use of amino acid sequence alignments to assess potential allergenicity of proteins used in genetically modified foods. Adv Food Nutr Res 1998;42:45-62.
    • (1998) Adv Food Nutr Res , vol.42 , pp. 45-62
    • Gendel, S.M.1
  • 10
    • 0036260304 scopus 로고    scopus 로고
    • Sequence analysis for assessing potential allergenicity
    • Gendel SM: Sequence analysis for assessing potential allergenicity. Ann NY Acad Sci 2002;964:87-98.
    • (2002) Ann NY Acad Sci , vol.964 , pp. 87-98
    • Gendel, S.M.1
  • 12
    • 25444518424 scopus 로고    scopus 로고
    • Screening of transgenic proteins expressed in transgenic food crops for the presence of short amino acid sequences identical to potential, IgE-binding linear epitopes of allergens
    • Kleter GA, Peijnenburg AA: Screening of transgenic proteins expressed in transgenic food crops for the presence of short amino acid sequences identical to potential, IgE-binding linear epitopes of allergens. BMC Struct Biol 2002;2:8.
    • (2002) BMC Struct Biol , vol.2 , pp. 8
    • Kleter, G.A.1    Peijnenburg, A.A.2
  • 13
    • 0033836431 scopus 로고    scopus 로고
    • Structural biology of allergens
    • Aalberse RC: Structural biology of allergens. J Allergy Clin Immunol 2000;106:228-238.
    • (2000) J Allergy Clin Immunol , vol.106 , pp. 228-238
    • Aalberse, R.C.1
  • 14
    • 0036121086 scopus 로고    scopus 로고
    • Identification of continuous, allergenic regions of the major shrimp allergen pen a 1 (tropomyosin)
    • Ayuso R, Lehrer SB, Reese G: Identification of continuous, allergenic regions of the major shrimp allergen pen a 1 (tropomyosin). Int Arch Allergy Immunol 2002;127:27-37.
    • (2002) Int Arch Allergy Immunol , vol.127 , pp. 27-37
    • Ayuso, R.1    Lehrer, S.B.2    Reese, G.3
  • 15
    • 0036772523 scopus 로고    scopus 로고
    • Data mining of sequences and 3D structures of allergenic proteins
    • Ivanciuc O, Schein CH, Braun W: Data mining of sequences and 3D structures of allergenic proteins. Bioinformatics 2002;18:1358-1364.
    • (2002) Bioinformatics , vol.18 , pp. 1358-1364
    • Ivanciuc, O.1    Schein, C.H.2    Braun, W.3
  • 16
    • 0028685490 scopus 로고
    • Fitting a mixture model by expectation maximization to discover motifs in biopolymers
    • Bailey TL, Elkan C: Fitting a mixture model by expectation maximization to discover motifs in biopolymers. Proc Int Conf Intell Syst Mol Biol 1994;2:28-36.
    • (1994) Proc Int Conf Intell Syst Mol Biol , vol.2 , pp. 28-36
    • Bailey, T.L.1    Elkan, C.2
  • 17
    • 0038380463 scopus 로고    scopus 로고
    • Allergenicity prediction by protein sequence
    • Stadler MB, Stadler BM: Allergenicity prediction by protein sequence. FASEB J 2003;17:1141-1143.
    • (2003) FASEB J , vol.17 , pp. 1141-1143
    • Stadler, M.B.1    Stadler, B.M.2
  • 18
    • 0036941115 scopus 로고    scopus 로고
    • Prediction of food protein allergenicity: A bioinformatic learning systems approach
    • Zorzet A, Gustafsson M, Hammerling U: Prediction of food protein allergenicity: A bioinformatic learning systems approach. In Silico Biol 2002;2:525-534.
    • (2002) In Silico Biol , vol.2 , pp. 525-534
    • Zorzet, A.1    Gustafsson, M.2    Hammerling, U.3
  • 21
    • 0026953919 scopus 로고
    • Receiver operating characteristic curves: A basic understanding
    • Vining DJ, Gladish GW: Receiver operating characteristic curves: A basic understanding. Radiographics 1992;12:1147-1154.
    • (1992) Radiographics , vol.12 , pp. 1147-1154
    • Vining, D.J.1    Gladish, G.W.2
  • 27
    • 0037255072 scopus 로고    scopus 로고
    • The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003
    • Boeckmann B, Bairoch A, Apweiler R, et al: The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003. Nucleic Acids Res 2003;31:365-370.
    • (2003) Nucleic Acids Res , vol.31 , pp. 365-370
    • Boeckmann, B.1    Bairoch, A.2    Apweiler, R.3
  • 28
  • 29
    • 0031574072 scopus 로고    scopus 로고
    • The CLUSTAL_X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
    • Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG: The CLUSTAL_X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997;25:4876-4882.
    • (1997) Nucleic Acids Res , vol.25 , pp. 4876-4882
    • Thompson, J.D.1    Gibson, T.J.2    Plewniak, F.3    Jeanmougin, F.4    Higgins, D.G.5
  • 30
    • 0023989064 scopus 로고
    • Improved tools for biological sequence comparison
    • Pearson WR, Lipman DJ: Improved tools for biological sequence comparison. Proc Natl Acad Sci USA 1988;85:2444-2448.
    • (1988) Proc Natl Acad Sci USA , vol.85 , pp. 2444-2448
    • Pearson, W.R.1    Lipman, D.J.2
  • 31
    • 0033990061 scopus 로고    scopus 로고
    • Flexible sequence similarity searching with the FASTA3 program package
    • Pearson WR: Flexible sequence similarity searching with the FASTA3 program package. Methods Mol Biol 2000;132:185-219.
    • (2000) Methods Mol Biol , vol.132 , pp. 185-219
    • Pearson, W.R.1
  • 32
    • 0026458378 scopus 로고
    • Amino acid substitution matrices from protein blocks
    • Henikoff S, Henikoff JG: Amino acid substitution matrices from protein blocks. Proc Natl Acad Sci USA 1992;89:10915-10919.
    • (1992) Proc Natl Acad Sci USA , vol.89 , pp. 10915-10919
    • Henikoff, S.1    Henikoff, J.G.2
  • 33
    • 0000228203 scopus 로고
    • A model of evolutionary change in proteins. Matrices for detecting distant relationships
    • Dayhoff MO (ed): Washington, National Biomedical Research Foundation
    • Dayhoff MO, Schwartz RM, Orcutt BC: A model of evolutionary change in proteins. Matrices for detecting distant relationships; in Dayhoff MO (ed): Atlas of Protein Sequence and Structure. Washington, National Biomedical Research Foundation, 1978, vol 5, pp 345-358.
    • (1978) Atlas of Protein Sequence and Structure , vol.5 , pp. 345-358
    • Dayhoff, M.O.1    Schwartz, R.M.2    Orcutt, B.C.3
  • 34
    • 0000507749 scopus 로고
    • Matrices for detecting distant relationships
    • Dayhoff MO (ed): Washington, National Biomedical Research Foundation
    • Schwartz RM, Dayhoff MO: Matrices for detecting distant relationships; in Dayhoff MO (ed): Atlas of Protein Sequence and Structure. Washington, National Biomedical Research Foundation, 1979, vol 5, pp 353-358.
    • (1979) Atlas of Protein Sequence and Structure , vol.5 , pp. 353-358
    • Schwartz, R.M.1    Dayhoff, M.O.2
  • 36
    • 0033670313 scopus 로고    scopus 로고
    • PHAT: A transmembrane-specific substitution matrix. Predicted hydrophobic and transmembrane
    • Ng PC, Henikoff JG, Henikoff S: PHAT: A transmembrane-specific substitution matrix. Predicted hydrophobic and transmembrane. Bioinformatics 2000;16:760-766.
    • (2000) Bioinformatics , vol.16 , pp. 760-766
    • Ng, P.C.1    Henikoff, J.G.2    Henikoff, S.3
  • 37
    • 0035072551 scopus 로고    scopus 로고
    • Clustering of highly homologous sequences to reduce the size of large protein databases
    • Li W, Jaroszewski L, Godzik A: Clustering of highly homologous sequences to reduce the size of large protein databases. Bioinformatics 2001;17:282-283.
    • (2001) Bioinformatics , vol.17 , pp. 282-283
    • Li, W.1    Jaroszewski, L.2    Godzik, A.3
  • 38
    • 0032474777 scopus 로고    scopus 로고
    • New chemical descriptors relevant for the design of biologically active peptides. A multivariate characterization of 87 amino acids
    • Sandberg M, Eriksson L, Jonsson J, Sjostrom M, Wold S: New chemical descriptors relevant for the design of biologically active peptides. A multivariate characterization of 87 amino acids. J Med Chem 1998;41:2481-2491.
    • (1998) J Med Chem , vol.41 , pp. 2481-2491
    • Sandberg, M.1    Eriksson, L.2    Jonsson, J.3    Sjostrom, M.4    Wold, S.5
  • 39
    • 0035789124 scopus 로고    scopus 로고
    • New quantitative descriptors of amino acids based on multidimensional scaling of a large number of physical-chemical properties
    • Venkatarajan MS, Braun W: New quantitative descriptors of amino acids based on multidimensional scaling of a large number of physical-chemical properties. J Mol Model 2001;7:445-453.
    • (2001) J Mol Model , vol.7 , pp. 445-453
    • Venkatarajan, M.S.1    Braun, W.2
  • 41
    • 13344280354 scopus 로고    scopus 로고
    • A Bacillus thuringiensis insecticidal crystal protein with a high activity against members of the family Noctuidae
    • Lambert B, Buysse L, Decock C, et al: A Bacillus thuringiensis insecticidal crystal protein with a high activity against members of the family Noctuidae. Appl Environ Microbiol 1996;62:80-86.
    • (1996) Appl Environ Microbiol , vol.62 , pp. 80-86
    • Lambert, B.1    Buysse, L.2    Decock, C.3
  • 42
    • 1542265221 scopus 로고    scopus 로고
    • CBH-351. http://www.agbios.com/dbase.php?action = ShowProd&data = CBH-351&frmat = LONG.
  • 43
    • 0028181441 scopus 로고
    • Hidden Markov models in computational biology. Applications to protein modeling
    • Krogh A, Brown M, Mian IS, Sjolander K, Haussler D: Hidden Markov models in computational biology. Applications to protein modeling. J Mol Biol 1994;235:1501-1531.
    • (1994) J Mol Biol , vol.235 , pp. 1501-1531
    • Krogh, A.1    Brown, M.2    Mian, I.S.3    Sjolander, K.4    Haussler, D.5
  • 44
    • 0033044637 scopus 로고    scopus 로고
    • Machine learning approaches for the prediction of signal peptides and other protein sorting signals
    • Nielsen H, Brunak S, von Heijne G: Machine learning approaches for the prediction of signal peptides and other protein sorting signals. Protein Eng 1999;12:3-9.
    • (1999) Protein Eng , vol.12 , pp. 3-9
    • Nielsen, H.1    Brunak, S.2    Von Heijne, G.3
  • 45
    • 0034767654 scopus 로고    scopus 로고
    • Amino acid substitution matrices from an artificial neural network model
    • Lin K, May AC, Taylor WR: Amino acid substitution matrices from an artificial neural network model. J Comput Biol 2001;8:471-481.
    • (2001) J Comput Biol , vol.8 , pp. 471-481
    • Lin, K.1    May, A.C.2    Taylor, W.R.3
  • 46
    • 0012293533 scopus 로고    scopus 로고
    • Homology induction: The use of machine learning to improve sequence similarity searches
    • Karwath A, King RD: Homology induction: The use of machine learning to improve sequence similarity searches. BMC Bioinformatics 2002;3:11.
    • (2002) BMC Bioinformatics , vol.3 , pp. 11
    • Karwath, A.1    King, R.D.2
  • 47
    • 0036445671 scopus 로고    scopus 로고
    • Effect of subchronic feeding of genetically modified corn (CBH351) on immune system in BN rats and B10A mice
    • Teshima R, Watanabe T, Okunuki H, et al: Effect of subchronic feeding of genetically modified corn (CBH351) on immune system in BN rats and B10A mice. Shokuhin Eiseigaku Zasshi 2002;43:273-279.
    • (2002) Shokuhin Eiseigaku Zasshi , vol.43 , pp. 273-279
    • Teshima, R.1    Watanabe, T.2    Okunuki, H.3
  • 48
    • 0038691863 scopus 로고    scopus 로고
    • Clinical and laboratory investigation of allergy to genetically modified foods
    • Bernstein JA, Bernstein IL, Bucchini L, et al: Clinical and laboratory investigation of allergy to genetically modified foods. Environ Health Perspect 2003;111:1114-1121.
    • (2003) Environ Health Perspect , vol.111 , pp. 1114-1121
    • Bernstein, J.A.1    Bernstein, I.L.2    Bucchini, L.3
  • 50
    • 0032962457 scopus 로고    scopus 로고
    • Twilight zone of protein sequence alignments
    • Rost B: Twilight zone of protein sequence alignments. Protein Eng 1999;12:85-94.
    • (1999) Protein Eng , vol.12 , pp. 85-94
    • Rost, B.1
  • 52
    • 0031576361 scopus 로고    scopus 로고
    • Intermediate sequences increase the detection of homology between sequences
    • Park J, Teichmann SA, Hubbard T, Chothia C: Intermediate sequences increase the detection of homology between sequences. J Mol Biol 1997;273:349-354.
    • (1997) J Mol Biol , vol.273 , pp. 349-354
    • Park, J.1    Teichmann, S.A.2    Hubbard, T.3    Chothia, C.4
  • 53
    • 0031901903 scopus 로고    scopus 로고
    • Methods and statistics for combining motif match scores
    • Bailey TL, Gribskov M: Methods and statistics for combining motif match scores. J Comput Biol 1998;5:211-221.
    • (1998) J Comput Biol , vol.5 , pp. 211-221
    • Bailey, T.L.1    Gribskov, M.2
  • 54
    • 0035991777 scopus 로고    scopus 로고
    • Estimating and evaluating the statistics of gapped local-alignment scores
    • Bailey TL, Gribskov M: Estimating and evaluating the statistics of gapped local-alignment scores. J Comput Biol 2002;9:575-593.
    • (2002) J Comput Biol , vol.9 , pp. 575-593
    • Bailey, T.L.1    Gribskov, M.2
  • 55
    • 0031874740 scopus 로고    scopus 로고
    • Bayesian adaptive sequence alignment algorithms
    • Zhu J, Liu JS, Lawrence CE: Bayesian adaptive sequence alignment algorithms. Bioinformatics 1998;14:25-39.
    • (1998) Bioinformatics , vol.14 , pp. 25-39
    • Zhu, J.1    Liu, J.S.2    Lawrence, C.E.3
  • 56
    • 0032509105 scopus 로고    scopus 로고
    • Sequence comparisons using multiple sequences detect three times as many remote homologues as pairwise methods
    • Park J, Karplus K, Barrett C, Hughey R, Haussler D, Hubbard T, Chothia C: Sequence comparisons using multiple sequences detect three times as many remote homologues as pairwise methods. J Mol Biol 1998;284:1201-1210.
    • (1998) J Mol Biol , vol.284 , pp. 1201-1210
    • Park, J.1    Karplus, K.2    Barrett, C.3    Hughey, R.4    Haussler, D.5    Hubbard, T.6    Chothia, C.7


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.