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Volumn 22, Issue 1, 2014, Pages 126-131

Kernel canonical correlation analysis for assessing gene-gene interactions and application to ovarian cancer

Author keywords

association studies; canonical correlation; gene gene interaction; kernel methods

Indexed keywords

IMMUNOGLOBULIN ENHANCER BINDING PROTEIN;

EID: 84890795684     PISSN: 10184813     EISSN: 14765438     Source Type: Journal    
DOI: 10.1038/ejhg.2013.69     Document Type: Article
Times cited : (42)

References (35)
  • 1
    • 70349956433 scopus 로고    scopus 로고
    • Finding the missing heritability of complex diseases
    • Manolio TA, Collins FS, Cox NJ et al: Finding the missing heritability of complex diseases. Nature 2009; 461: 747-753.
    • (2009) Nature , vol.461 , pp. 747-753
    • Manolio, T.A.1    Collins, F.S.2    Cox, N.J.3
  • 2
    • 0345411335 scopus 로고    scopus 로고
    • The ubiquitous nature of epistasis in determining susceptibility to common human diseases
    • Moore JH: The ubiquitous nature of epistasis in determining susceptibility to common human diseases. Hum Hered 2003; 56: 73-82.
    • (2003) Hum Hered , vol.56 , pp. 73-82
    • Moore, J.H.1
  • 3
    • 23944469845 scopus 로고    scopus 로고
    • Recent developments in genomewide association scans: A workshop summary and review
    • Thomas DC, Haile RW, Duggan D: Recent developments in genomewide association scans: a workshop summary and review. Am J Hum Genet 2005; 77: 337-345.
    • (2005) Am J Hum Genet , vol.77 , pp. 337-345
    • Thomas, D.C.1    Haile, R.W.2    Duggan, D.3
  • 4
    • 13144265739 scopus 로고    scopus 로고
    • Genome-wide association studies: Theoretical and practical concerns
    • Wang WYS, Barratt BJ, Clayton DG, Todd JA: Genome-wide association studies: theoretical and practical concerns. Nat Rev Genet 2005; 6: 109-118.
    • (2005) Nat Rev Genet , vol.6 , pp. 109-118
    • Wang, W.Y.S.1    Barratt, B.J.2    Clayton, D.G.3    Todd, J.A.4
  • 5
    • 7444257916 scopus 로고    scopus 로고
    • Genetics, statistics and human disease: Analytical retooling for complexity
    • Thornton-Wells TA, Moore JH, Haines JL: Genetics, statistics and human disease: analytical retooling for complexity. Trends Genet 2004; 20: 640-647.
    • (2004) Trends Genet , vol.20 , pp. 640-647
    • Thornton-Wells, T.A.1    Moore, J.H.2    Haines, J.L.3
  • 6
    • 33751074962 scopus 로고    scopus 로고
    • Test for interaction between two unlinked loci
    • Zhao J, Jin L, Xiong M: Test for interaction between two unlinked loci. Am J Hum Genet 2006; 79: 831-845.
    • (2006) Am J Hum Genet , vol.79 , pp. 831-845
    • Zhao, J.1    Jin, L.2    Xiong, M.3
  • 7
    • 77951622841 scopus 로고    scopus 로고
    • A gene-based method for detecting gene-gene co-association in a case-control association study
    • Peng Q, Zhao J, Xue F: A gene-based method for detecting gene-gene co-association in a case-control association study. Eur J Hum Genet 2010; 18: 582-587.
    • (2010) Eur J Hum Genet , vol.18 , pp. 582-587
    • Peng, Q.1    Zhao, J.2    Xue, F.3
  • 8
    • 0000107975 scopus 로고
    • Relations between two sets of variates
    • Hotelling H: Relations between two sets of variates. Biometrika 1936; 28: 321-377.
    • (1936) Biometrika , vol.28 , pp. 321-377
    • Hotelling, H.1
  • 10
    • 0347243182 scopus 로고    scopus 로고
    • Nonlinear component analysis as a kernel eigenvalue problem
    • Scholkopf B, Smola A, Muller KR: Nonlinear component analysis as a kernel eigenvalue problem. Neural Comput 1998; 10: 1299-1319.
    • (1998) Neural Comput , vol.10 , pp. 1299-1319
    • Scholkopf, B.1    Smola, A.2    Muller, K.R.3
  • 11
    • 77954207265 scopus 로고    scopus 로고
    • Genomic similarity and kernel methods I: Advancements by building on mathematical and statistical foundations
    • Schaid DJ: Genomic similarity and kernel methods I: advancements by building on mathematical and statistical foundations. Hum Hered 2010; 70: 109-131.
    • (2010) Hum Hered , vol.70 , pp. 109-131
    • Schaid, D.J.1
  • 12
    • 80051499915 scopus 로고    scopus 로고
    • Rare-variant association testing for sequencing data with the sequence kernel association test
    • Wu MC, Lee S, Cai TX, Li Y, Boehnke M, Lin XH: Rare-variant association testing for sequencing data with the sequence kernel association test. Am J Hum Genet 2011; 89: 82-93.
    • (2011) Am J Hum Genet , vol.89 , pp. 82-93
    • Wu, M.C.1    Lee, S.2    Cai, T.X.3    Li, Y.4    Boehnke, M.5    Lin, X.H.6
  • 13
    • 77953121307 scopus 로고    scopus 로고
    • Powerful SNP-set analysis for case-control genomewide association studies
    • Wu MC, Kraft P, Epstein MP et al: Powerful SNP-set analysis for case-control genomewide association studies. Am J Hum Genet 2010; 86: 929-942.
    • (2010) Am J Hum Genet , vol.86 , pp. 929-942
    • Wu, M.C.1    Kraft, P.2    Epstein, M.P.3
  • 14
    • 84867793980 scopus 로고    scopus 로고
    • Gene-centric gene-gene interaction: A model-based kernel machine method
    • Li S, Cui Y: Gene-centric gene-gene interaction: a model-based kernel machine method. Ann Appl Stat 2012; 6: 1134-1161.
    • (2012) Ann Appl Stat , vol.6 , pp. 1134-1161
    • Li, S.1    Cui, Y.2
  • 15
    • 0001935883 scopus 로고
    • Tests of significance in canonical analysis
    • Lawley DN: Tests of significance in canonical analysis. Biometrika 1959; 46: 59-66.
    • (1959) Biometrika , vol.46 , pp. 59-66
    • Lawley, D.N.1
  • 17
    • 2142732441 scopus 로고    scopus 로고
    • Large-scale simultaneous hypothesis testing: The choice of a null hypothesis
    • Efron B: Large-scale simultaneous hypothesis testing: the choice of a null hypothesis. J Am Stat Assoc 2004; 99: 96-104.
    • (2004) J Am Stat Assoc , vol.99 , pp. 96-104
    • Efron, B.1
  • 18
    • 33644974019 scopus 로고    scopus 로고
    • A fast and flexible statistical model for large-scale population genotype data: Applications to inferring missing genotypes and haplotypic phase
    • Scheet P, Stephens M: A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase. Am J Hum Genet 2006; 78: 629-644.
    • (2006) Am J Hum Genet , vol.78 , pp. 629-644
    • Scheet, P.1    Stephens, M.2
  • 19
    • 28444495087 scopus 로고    scopus 로고
    • HapSim: A simulation tool for generating haplotype data with pre-specified allele frequencies and LD coefficients
    • Montana G: HapSim: a simulation tool for generating haplotype data with pre-specified allele frequencies and LD coefficients. Bioinformatics 2005; 21: 4309-4311.
    • (2005) Bioinformatics , vol.21 , pp. 4309-4311
    • Montana, G.1
  • 20
    • 44949264425 scopus 로고    scopus 로고
    • An approach to incorporate linkage disequilibrium structure into genomic association analysis
    • Zhang F, Wagener D: An approach to incorporate linkage disequilibrium structure into genomic association analysis. J Genet Genomics 2008; 35: 381-385.
    • (2008) J Genet Genomics , vol.35 , pp. 381-385
    • Zhang, F.1    Wagener, D.2
  • 22
    • 84863288741 scopus 로고    scopus 로고
    • Ovarian cancer risk associated with inherited inflammation-related variants
    • White KL, Schildkraut JM, Palmieri RT et al: Ovarian cancer risk associated with inherited inflammation-related variants. Cancer Res 2012; 72: 1064-1069.
    • (2012) Cancer Res , vol.72 , pp. 1064-1069
    • White, K.L.1    Schildkraut, J.M.2    Palmieri, R.T.3
  • 23
    • 84859378506 scopus 로고    scopus 로고
    • Gene set analysis of survival following ovarian cancer implicates macrolide binding and intracellular signaling genes
    • Fridley BL, Jenkins GD, Tsai YY et al: Gene set analysis of survival following ovarian cancer implicates macrolide binding and intracellular signaling genes. Cancer Epidemiol Biomarkers Prev 2012; 21: 529-536.
    • (2012) Cancer Epidemiol Biomarkers Prev , vol.21 , pp. 529-536
    • Fridley, B.L.1    Jenkins, G.D.2    Tsai, Y.Y.3
  • 24
    • 79958024943 scopus 로고    scopus 로고
    • Inherited variants in mitochondrial biogenesis genes may influence epithelial ovarian cancer risk
    • Permuth-Wey J, Chen YA, Tsai YY et al: Inherited variants in mitochondrial biogenesis genes may influence epithelial ovarian cancer risk. Cancer Epidemiol Biomarkers Prev 2011; 20: 1131-1145.
    • (2011) Cancer Epidemiol Biomarkers Prev , vol.20 , pp. 1131-1145
    • Permuth-Wey, J.1    Chen, Y.A.2    Tsai, Y.Y.3
  • 25
    • 79957905172 scopus 로고    scopus 로고
    • LIN28B polymorphisms influence susceptibility to epithelial ovarian cancer
    • Permuth-Wey J, Kim D, Tsai YY et al: LIN28B polymorphisms influence susceptibility to epithelial ovarian cancer. Cancer Res 2011; 71: 3896-3903.
    • (2011) Cancer Res , vol.71 , pp. 3896-3903
    • Permuth-Wey, J.1    Kim, D.2    Tsai, Y.Y.3
  • 26
    • 78649508578 scopus 로고    scopus 로고
    • MaCH: Using sequence and genotype data to estimate haplotypes and unobserved genotypes
    • Li Y, Willer CJ, Ding J, Scheet P, Abecasis GR: MaCH: using sequence and genotype data to estimate haplotypes and unobserved genotypes. Genet Epidemiol 2010; 34: 816-834.
    • (2010) Genet Epidemiol , vol.34 , pp. 816-834
    • Li, Y.1    Willer, C.J.2    Ding, J.3    Scheet, P.4    Abecasis, G.R.5
  • 27
  • 28
    • 4143134235 scopus 로고    scopus 로고
    • The future of association studies: Gene-based analysis and replication
    • Neale BM, Sham PC: The future of association studies: gene-based analysis and replication. Am J Hum Genet 2004; 75: 353-362.
    • (2004) Am J Hum Genet , vol.75 , pp. 353-362
    • Neale, B.M.1    Sham, P.C.2
  • 29
    • 0001493668 scopus 로고
    • Asymptotics of graphical projection pursuit
    • Diaconis P, Freedman D: Asymptotics of graphical projection pursuit. Ann Stat 1984; 12: 793-815.
    • (1984) Ann Stat , vol.12 , pp. 793-815
    • Diaconis, P.1    Freedman, D.2
  • 30
    • 34447125047 scopus 로고    scopus 로고
    • Systematic evaluation of genetic variants in the inflammation pathway and risk of lung cancer
    • Engels EA, Wu X, Gu J, Dong Q, Liu J, Spitz MR: Systematic evaluation of genetic variants in the inflammation pathway and risk of lung cancer. Cancer Res 2007; 67: 6520-6527.
    • (2007) Cancer Res , vol.67 , pp. 6520-6527
    • Engels, E.A.1    Wu, X.2    Gu, J.3    Dong, Q.4    Liu, J.5    Spitz, M.R.6
  • 32
    • 68249115586 scopus 로고    scopus 로고
    • Extensions of sparse canonical correlation analysis with applications to genomic data
    • Article28
    • Witten DM, Tibshirani RJ: Extensions of sparse canonical correlation analysis with applications to genomic data. Stat Appl Genet Mol Biol 2009; 8, Article28.
    • (2009) Stat Appl Genet Mol Biol , vol.8
    • Witten, D.M.1    Tibshirani, R.J.2
  • 33
    • 70449408310 scopus 로고    scopus 로고
    • Sparse canonical correlation analysis for identifying, connecting and completing gene-expression networks
    • Waaijenborg S, Zwinderman AH: Sparse canonical correlation analysis for identifying, connecting and completing gene-expression networks. BMC Bioinform 2009; 10: 315.
    • (2009) BMC Bioinform , vol.10 , pp. 315
    • Waaijenborg, S.1    Zwinderman, A.H.2
  • 34
    • 4444314854 scopus 로고    scopus 로고
    • Extraction of correlated gene clusters from multiple genomic data by generalized kernel canonical correlation analysis
    • Yamanishi Y, Vert JP, Nakaya A, Kanehisa M: Extraction of correlated gene clusters from multiple genomic data by generalized kernel canonical correlation analysis. Bioinformatics 2003; 19:(Suppl 1): i323-i330.
    • (2003) Bioinformatics , vol.19 , Issue.SUPPL. 1
    • Yamanishi, Y.1    Vert, J.P.2    Nakaya, A.3    Kanehisa, M.4
  • 35


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.