메뉴 건너뛰기




Volumn 6023 LNCS, Issue , 2010, Pages 86-97

Grammatical evolution of neural networks for discovering epistasis among quantitative trait loci

Author keywords

Gene gene interaction; Grammatical evolution; Neural networks; Quantitative traits

Indexed keywords

BIOINFORMATICS; COMPUTATIONAL GRAMMARS; DATA MINING; GENES; MACHINE LEARNING;

EID: 77952315305     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: 10.1007/978-3-642-12211-8_8     Document Type: Conference Paper
Times cited : (20)

References (50)
  • 1
    • 0029741063 scopus 로고    scopus 로고
    • The future of genetic studies of complex human disorders
    • Risch, N., Merikangas, K.: The future of genetic studies of complex human disorders. Science 273(5281), 1516-1517 (1996
    • (1996) Science , vol.273 , Issue.5281 , pp. 1516-1517
    • Risch, N.1    Merikangas, K.2
  • 2
    • 79959503826 scopus 로고    scopus 로고
    • International hapmap consortium; The International HapMap Project
    • International hapmap consortium; The International HapMap Project. Nature 426(6968), 789-796 (2003
    • (2003) Nature , vol.426 , Issue.6968 , pp. 789-796
  • 3
    • 35348983887 scopus 로고    scopus 로고
    • A second generation human haplotype map of over 3.1 million SNPs
    • International hapmap consortium;
    • International hapmap consortium; A second generation human haplotype map of over 3.1 million SNPs. Nature 449(7164), 851-861 (2007
    • (2007) Nature , vol.449 , Issue.7164 , pp. 851-861
  • 4
    • 55549147191 scopus 로고    scopus 로고
    • Personal genomes: The case of the missing heritability
    • Maher, B.: Personal genomes: The case of the missing heritability. Nature 456(7218), 18-21 (2008
    • (2008) Nature , vol.456 , Issue.7218 , pp. 18-21
    • Maher, B.1
  • 5
    • 69449086744 scopus 로고    scopus 로고
    • Genome-wide association studies: Detecting gene-gene interactions that underlie human diseases
    • Cordell, H.J.: Genome-wide association studies: Detecting gene-gene interactions that underlie human diseases. Nat. Rev. Genet. (2009
    • (2009) Nat. Rev. Genet.
    • Cordell, H.J.1
  • 6
    • 0000907353 scopus 로고
    • The roles of mutation, inbreeding, crossbreeding, and selection in evolution
    • Wright, S.: The roles of mutation, inbreeding, crossbreeding, and selection in evolution. In: Proc. 6th Intl. Congress of Genetics, vol.1, p. 356-366 (1932
    • (1932) Proc. 6th Intl. Congress of Genetics , vol.1 , pp. 356-366
    • Wright, S.1
  • 7
    • 21244459227 scopus 로고    scopus 로고
    • Traversing the conceptual divide between biological and statistical epistasis: Systems biology and a more modern synthesis
    • Moore, J.H., Williams, S.M.: Traversing the conceptual divide between biological and statistical epistasis: systems biology and a more modern synthesis. Bioessays 27(6), 637-646 (2005
    • (2005) Bioessays , vol.27 , Issue.6 , pp. 637-646
    • Moore, J.H.1    Williams, S.M.2
  • 8
    • 0034973569 scopus 로고    scopus 로고
    • Multifactor-dimensionality reduction reveals high-order interactions among estrogenmetabolism genes in sporadic breast cancer
    • Ritchie, M.D., Hahn, L.W., Roodi, N., Bailey, L.R., Dupont, W.D., Parl, F.F., Moore, J.H.: Multifactor-dimensionality reduction reveals high-order interactions among estrogenmetabolism genes in sporadic breast cancer. Am. J. Hum. Genet. 69(1), 138-147 (2001
    • (2001) Am. J. Hum. Genet. , vol.69 , Issue.1 , pp. 138-147
    • Ritchie, M.D.1    Hahn, L.W.2    Roodi, N.3    Bailey, L.R.4    Dupont, W.D.5    Parl, F.F.6    Moore, J.H.7
  • 9
    • 0345411335 scopus 로고    scopus 로고
    • The ubiquitous nature of epistasis in determining susceptibility to common human diseases
    • Moore, J.H.: The ubiquitous nature of epistasis in determining susceptibility to common human diseases. Hum. Hered. 56(1-3), 73-82 (2003
    • (2003) Hum. Hered. , vol.56 , Issue.1-3 , pp. 73-82
    • Moore, J.H.1
  • 10
    • 65949124249 scopus 로고    scopus 로고
    • Genomewide Association Studies - Illuminating Biologic Pathways
    • Hirschhorn, J.N.: Genomewide Association Studies - Illuminating Biologic Pathways. N. Engl. J. Med. 360(17), 1699-1701 (2009
    • (2009) N. Engl. J. Med. , vol.360 , Issue.17 , pp. 1699-1701
    • Hirschhorn, J.N.1
  • 11
    • 65949107547 scopus 로고    scopus 로고
    • Common genetic variation and human traits
    • Goldstein, D.B.: Common Genetic Variation and Human Traits. N. Engl. J. Med. 360(17), 1696-1698 (2009
    • (2009) N. Engl. J. Med. , vol.360 , Issue.17 , pp. 1696-1698
    • Goldstein, D.B.1
  • 13
    • 2642583283 scopus 로고    scopus 로고
    • Mapping complex disease loci in whole-genome association studies
    • Carlson, C.S., Eberle, M.A., Kruglyak, L., Nickerson, D.A.: Mapping complex disease loci in whole-genome association studies. Nature 429(6990), 446-452 (2004
    • (2004) Nature , vol.429 , Issue.6990 , pp. 446-452
    • Carlson, C.S.1    Eberle, M.A.2    Kruglyak, L.3    Nickerson, D.A.4
  • 14
    • 42249099044 scopus 로고    scopus 로고
    • Increasing the power of identifying gene x gene interactions in genome-wide association studies
    • Kooperberg, C., Leblanc, M.: Increasing the power of identifying gene x gene interactions in genome-wide association studies. Genet. Epidemiol. 32(3), 255-263 (2008
    • (2008) Genet. Epidemiol. , vol.32 , Issue.3 , pp. 255-263
    • Kooperberg, C.1    Leblanc, M.2
  • 16
    • 34250821108 scopus 로고    scopus 로고
    • A generalized combinatorial approach for detecting gene-by-gene and gene-by-environment interactions with application to nicotine dependence
    • Lou, X.Y., Chen, G.B., Yan, L., Ma, J.Z., Zhu, J., Elston, R.C., Li, M.D.: A generalized combinatorial approach for detecting gene-by-gene and gene-by-environment interactions with application to nicotine dependence. Am. J. Hum. Genet. 80(6), 1125-1137 (2007
    • (2007) Am. J. Hum. Genet. , vol.80 , Issue.6 , pp. 1125-1137
    • Lou, X.Y.1    Chen, G.B.2    Yan, L.3    Ma, J.Z.4    Zhu, J.5    Elston, R.C.6    Li, M.D.7
  • 17
    • 33748675883 scopus 로고    scopus 로고
    • Parallel multifactor dimensionality reduction: A tool for the large-scale analysis of gene-gene interactions
    • Bush, W.S., Dudek, S.M., Ritchie, M.D.: Parallel multifactor dimensionality reduction: a tool for the large-scale analysis of gene-gene interactions. Bioinformatics 22(17), 2173-2174 (2006
    • (2006) Bioinformatics , vol.22 , Issue.17 , pp. 2173-2174
    • Bush, W.S.1    Dudek, S.M.2    Ritchie, M.D.3
  • 18
    • 40449118776 scopus 로고    scopus 로고
    • Microarray data classified by artificial neural networks
    • Linder, R., Richards, T., Wagner, M.: Microarray data classified by artificial neural networks. Methods Mol. Biol. 382, 345-372 (2007
    • (2007) Methods Mol. Biol. , vol.382 , pp. 345-372
    • Linder, R.1    Richards, T.2    Wagner, M.3
  • 19
    • 0031718876 scopus 로고    scopus 로고
    • Multi-locus nonparametric linkage analysis of complex trait loci with neural networks
    • Lucek, P., Hanke, J., Reich, J., Solla, S.A., Ott, J.: Multi-locus nonparametric linkage analysis of complex trait loci with neural networks. Hum. Hered. 48(5), 275-284 (1998
    • (1998) Hum. Hered. , vol.48 , Issue.5 , pp. 275-284
    • Lucek, P.1    Hanke, J.2    Reich, J.3    Solla, S.A.4    Ott, J.5
  • 21
    • 1542673203 scopus 로고    scopus 로고
    • Combining artificial neural networks and transrectal ultrasound in the diagnosis of prostate cancer
    • Porter, C.R., Crawford, E.D.: Combining artificial neural networks and transrectal ultrasound in the diagnosis of prostate cancer. Oncology (Williston. Park) 17(10), 1395-1399 (2003
    • (2003) Oncology (Williston. Park) , vol.17 , Issue.10 , pp. 1395-1399
    • Porter, C.R.1    Crawford, E.D.2
  • 25
    • 0033362601 scopus 로고    scopus 로고
    • Evolving artificial neural networks
    • Yao, X.: Evolving artificial neural networks. Proceedings of the IEEE 87(9), 1423-1447 (1999
    • (1999) Proceedings of the IEEE , vol.87 , Issue.9 , pp. 1423-1447
    • Yao, X.1
  • 26
    • 35048891558 scopus 로고    scopus 로고
    • Genetic programming neural networks: A bioinformatics tool for human genetics
    • In: Deb, K., et al. (eds.) Springer, Heidelberg GECCO 2004
    • Ritchie, M.D., Coffey, C.S., Moore, J.H.: Genetic programming neural networks: A bioinformatics tool for human genetics. In: Deb, K., et al. (eds.) GECCO 2004. LNCS, vol.3102, pp. 438-448. Springer, Heidelberg (2004
    • (2004) LNCS , vol.3102 , pp. 438-448
    • Ritchie, M.D.1    Coffey, C.S.2    Moore, J.H.3
  • 27
    • 43249108568 scopus 로고    scopus 로고
    • Comparison of approaches for machine-learning optimization of neural networks for detecting gene-gene interactions in genetic epidemiology
    • Motsinger-Reif, A.A., Dudek, S.M., Hahn, L.W., Ritchie, M.D.: Comparison of approaches for machine-learning optimization of neural networks for detecting gene-gene interactions in genetic epidemiology. Genetic Epidemiology 32(4), 325-340 (2008
    • (2008) Genetic Epidemiology , vol.32 , Issue.4 , pp. 325-340
    • Motsinger-Reif, A.A.1    Dudek, S.M.2    Hahn, L.W.3    Ritchie, M.D.4
  • 28
    • 0000787992 scopus 로고
    • Genetic generation of both the weights and architecture for a neural network
    • Koza, J., Rice, J.: Genetic generation of both the weights and architecture for a neural network. IEEE Transactions II (1991
    • (1991) IEEE Transactions II
    • Koza, J.1    Rice, J.2
  • 30
    • 67650660993 scopus 로고    scopus 로고
    • Conquering the needle-in-a-haystack: How correlated input variables beneficially alter the fitness landscape for neural networks
    • In: Pizzuti, C., Ritchie, M.D., Giacobini, M. (eds.), Springer, Heidelberg
    • Turner, S.D., Ritchie, M.D., Bush, W.S.: Conquering the Needle-in-a-Haystack: How Correlated Input Variables Beneficially Alter the Fitness Landscape for Neural Networks. In: Pizzuti, C., Ritchie, M.D., Giacobini, M. (eds.) EvoBIO 2009. LNCS, vol.5483, pp. 80-91. Springer, Heidelberg (2009
    • (2009) EvoBIO 2009. LNCS , vol.548 , pp. 80-91
    • Turner, S.D.1    Ritchie, M.D.2    Bush, W.S.3
  • 33
    • 47249130409 scopus 로고    scopus 로고
    • Generating Linkage Disequilibrium Patterns in Data Simulations Using genomeSIMLA
    • In: Kortuem, G., Finney, J., Lea, R., Sundramoorthy, V. (eds.), Springer, Heidelberg EuroSSC 2007
    • Edwards, T.L., Bush, W.S., Turner, S.D., Dudek, S.M., Torstenson, E.S., Schmidt, M., Martin, E., Ritchie, M.D.: Generating Linkage Disequilibrium Patterns in Data Simulations Using genomeSIMLA. In: Kortuem, G., Finney, J., Lea, R., Sundramoorthy, V. (eds.) EuroSSC 2007. LNCS, vol.4793, pp. 24-35. Springer, Heidelberg (2007
    • (2007) LNCS , vol.4793 , pp. 24-35
    • Edwards, T.L.1    Bush, W.S.2    Turner, S.D.3    Dudek, S.M.4    Torstenson, E.S.5    Schmidt, M.6    Martin, E.7    Ritchie, M.D.8
  • 34
    • 77952316807 scopus 로고    scopus 로고
    • Applied multiple regres-sion/correlation analysis for the behavioral sciences
    • Philadelphia
    • Cohen, P., Cohen, J., West, S.G., Aiken, L.S.: Applied Multiple Regres-sion/Correlation Analysis for the Behavioral Sciences, 3rd edn. Lawrence Erlbaum, Philadelphia (2002
    • (2002) 3rd Edn Lawrence Erlbaum
    • Cohen, P.1    Cohen, J.2    West, S.G.3    Aiken, L.S.4
  • 37
    • 33745780478 scopus 로고    scopus 로고
    • Comparison of neural network optimization approaches for studies of human genetics
    • In: Rothlauf, F., Branke, J., Cagnoni, S., Costa, E., Cotta, C., Drechsler, R., Lutton, E., Machado, P., Moore, J.H., Romero, J., Smith, G.D., Squillero, G., Takagi, H. (eds.), Springer, Heidelberg
    • Motsinger, A.A., Dudek, S.M., Hahn, L.W., Ritchie, M.D.: Comparison of Neural Network Optimization Approaches for Studies of Human Genetics. In: Rothlauf, F., Branke, J., Cagnoni, S., Costa, E., Cotta, C., Drechsler, R., Lutton, E., Machado, P., Moore, J.H., Romero, J., Smith, G.D., Squillero, G., Takagi, H. (eds.) EvoWorkshops 2006. LNCS, vol.3907, pp. 103-114. Springer, Heidelberg (2006
    • (2006) EvoWorkshops 2006. LNCS , vol.3907 , pp. 103-114
    • Motsinger, A.A.1    Dudek, S.M.2    Hahn, L.W.3    Ritchie, M.D.4
  • 40
    • 0035992220 scopus 로고    scopus 로고
    • Symbolic discriminant analysis of microarray data in autoimmune disease
    • Moore, J., Parker, J., Olsen, N., Aune, T.: Symbolic discriminant analysis of microarray data in autoimmune disease. Genet. Epidemiol. 23, 57-69 (2002
    • (2002) Genet. Epidemiol. , vol.23 , pp. 57-69
    • Moore, J.1    Parker, J.2    Olsen, N.3    Aune, T.4
  • 41
    • 0027948083 scopus 로고
    • Sperm from mice carrying a targeted mutation of the acrosin gene can penetrate the oocyte zona pellucida and effect fertilization
    • Baba, T., Azuma, S., Kashiwabara, S., Toyoda, Y.: Sperm from mice carrying a targeted mutation of the acrosin gene can penetrate the oocyte zona pellucida and effect fertilization. J. Biol. Chem. 269(50), 31845-31849 (1994
    • (1994) J. Biol. Chem. , vol.269 , Issue.50 , pp. 31845-31849
    • Baba, T.1    Azuma, S.2    Kashiwabara, S.3    Toyoda, Y.4
  • 42
    • 0028004289 scopus 로고
    • Mice lacking vimentin develop and reproduce without an obvious phenotype
    • DOI 10.1016/0092-8674(94)90553-3
    • Colucci-Guyon, E., Portier, M.M., Dunia, I., Paulin, D., Pournin, S., Babinet, C.: Mice lacking vimentin develop and reproduce without an obvious phenotype. Cell 79(4), 679-694 (1994 (Pubitemid 24363811)
    • (1994) Cell , vol.79 , Issue.4 , pp. 679-694
    • Colucci-Guyon, E.1    Portier, M.-M.2    Dunla, I.3    Paulin, D.4    Pournin, S.5    Babinet, C.6
  • 44
    • 0030014237 scopus 로고    scopus 로고
    • Expression of FosB during mouse development: Normal development of FosB knockout mice
    • Gruda, M.C., van, A.J., Rizzo, C.A., Durham, S.K., Lira, S., Bravo, R.: Expression of FosB during mouse development: normal development of FosB knockout mice. Oncogene 12(10), 2177-2185 (1996
    • (1996) Oncogene , vol.12 , Issue.10 , pp. 2177-2185
    • Gruda, M.C.1    Van, A.J.2    Rizzo, C.A.3    Durham, S.K.4    Lira, S.5    Bravo, R.6
  • 45
    • 0027474344 scopus 로고
    • T cell receptor delta gene mutant mice: Independent generation of alpha beta T cells and programmed rearrangements of gamma delta TCR genes
    • Itohara, S., Mombaerts, P., Lafaille, J., Iacomini, J., Nelson, A., Clarke, A.R., Hooper, M.L., Farr, A., Tonegawa, S.: T cell receptor delta gene mutant mice: independent generation of alpha beta T cells and programmed rearrangements of gamma delta TCR genes. Cell 72(3), 337-348 (1993
    • (1993) Cell , vol.72 , Issue.3 , pp. 337-348
    • Itohara, S.1    Mombaerts, P.2    Lafaille, J.3    Iacomini, J.4    Nelson, A.5    Clarke, A.R.6    Hooper, M.L.7    Farr, A.8    Tonegawa, S.9
  • 46
    • 0026478567 scopus 로고
    • Development and function of T cells in mice with a disrupted CD2 gene
    • Killeen, N., Stuart, S.G., Littman, D.R.: Development and function of T cells in mice with a disrupted CD2 gene. EMBO J. 11(12), 4329-4336 (1992
    • (1992) EMBO J. , vol.11 , Issue.12 , pp. 4329-4336
    • Killeen, N.1    Stuart, S.G.2    Littman, D.R.3
  • 48
    • 0036155238 scopus 로고    scopus 로고
    • A perspective on epistasis: Limits of models displaying no main effect
    • Culverhouse, R., Suarez, B.K., Lin, J., Reich, T.: A perspective on epistasis: limits of models displaying no main effect. Am. J. Hum. Genet. 70(2), 461-471 (2002
    • (2002) Am. J. Hum. Genet. , vol.70 , Issue.2 , pp. 461-471
    • Culverhouse, R.1    Suarez, B.K.2    Lin, J.3    Reich, T.4
  • 49
    • 0002612450 scopus 로고    scopus 로고
    • In: Langdon, W., Cantu-Paz, E., Mathias, K., Roy, R., Davis, D., Poli, R., Balakrishnan, K., Honavar, V., Rudolph, G., Wegener, J., Bull, L., Potter, M., Schultz, A., Miller, J., Burke, E., Jonoska, N. (eds.) Morgan Kaufman Publishers, San Francisco
    • Moore, J., Hahn, L., Ritchie, M., Thornton, T., White, B.: Application of genetic algorithms to the discovery of complex models for simulation studies in human genetics. In: Langdon, W., Cantu-Paz, E., Mathias, K., Roy, R., Davis, D., Poli, R., Balakrishnan, K., Honavar, V., Rudolph, G., Wegener, J., Bull, L., Potter, M., Schultz, A., Miller, J., Burke, E., Jonoska, N. (eds.), pp. 1150-1155. Morgan Kaufman Publishers, San Francisco (2002
    • (2002) Application of Genetic Algorithms to the Discovery of Complex Models for Simulation Studies in Human Genetics , pp. 1150-1155
    • Moore, J.1    Hahn, L.2    Ritchie, M.3    Thornton, T.4    White, B.5
  • 50
    • 77958050372 scopus 로고    scopus 로고
    • Failure to replicate a genetic association may provide important clues about genetic architecture
    • Presented at Philadelphia PA November 14
    • Penrod, N., Greene, C., Moore, J.: Failure to replicate a genetic association may provide important clues about genetic architecture. Presented at the annual meeting of The American Society of Human Genetics, Philadelphia PA, November 14 (2008
    • (2008) The Annual Meeting of the American Society of Human Genetics
    • Penrod, N.1    Greene, C.2    Moore, J.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.