메뉴 건너뛰기




Volumn 8, Issue 4, 2012, Pages

Improved statistics for genome-wide interaction analysis

Author keywords

[No Author keywords available]

Indexed keywords

ANALYTICAL ERROR; ARTICLE; BIOSTATISTICS; CASE CONTROL STUDY; CASE ONLY STATISTICS; COMPUTER SIMULATION; CONTROLLED STUDY; CORRELATION COEFFICIENT; FAST EPISTASIS STATISTICS; GENE INTERACTION; GENE LINKAGE DISEQUILIBRIUM; GENE LOCUS; GENETIC ANALYSIS; GENETIC ASSOCIATION; GENETIC VARIABILITY; HYPOTHESIS; SINGLE NUCLEOTIDE POLYMORPHISM; STATISTICAL ANALYSIS; THEORY VALIDATION; TYPE 1 ERROR; HUMAN; NOTE; STATISTICAL MODEL; STATISTICS;

EID: 84860564327     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1002625     Document Type: Article
Times cited : (77)

References (38)
  • 1
    • 78049425657 scopus 로고    scopus 로고
    • A novel statistic for genome-wide interaction analysis
    • doi:10.1371/journal.pgen.1001131
    • Wu X, Dong H, Luo L, Zhu Y, Peng G, et al. (2010) A novel statistic for genome-wide interaction analysis. PLoS Genet 6: e1001131 doi:10.1371/journal.pgen.1001131.
    • (2010) PLoS Genet , vol.6
    • Wu, X.1    Dong, H.2    Luo, L.3    Zhu, Y.4    Peng, G.5
  • 2
    • 84969213492 scopus 로고    scopus 로고
    • Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls
    • WTCCC
    • WTCCC (2007) Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls. Nature 447: 661-678.
    • (2007) Nature , vol.447 , pp. 661-678
  • 3
    • 34248594090 scopus 로고    scopus 로고
    • A common variant in the FTO gene is associated with body mass index and predisposes to childhood and adult obesity
    • Frayling TM, Timpson NJ, Weedon MN, Zeggini E, Freathy RM, et al. (2007) A common variant in the FTO gene is associated with body mass index and predisposes to childhood and adult obesity. Science 316: 889-894.
    • (2007) Science , vol.316 , pp. 889-894
    • Frayling, T.M.1    Timpson, N.J.2    Weedon, M.N.3    Zeggini, E.4    Freathy, R.M.5
  • 4
    • 34347341846 scopus 로고    scopus 로고
    • Robust associations of four new chromosome regions from genome-wide analyses of type 1 diabetes
    • Todd J, Walker N, Cooper J, Smyth D, Downes K, et al. (2007) Robust associations of four new chromosome regions from genome-wide analyses of type 1 diabetes. Nat Genet 39: 857-864.
    • (2007) Nat Genet , vol.39 , pp. 857-864
    • Todd, J.1    Walker, N.2    Cooper, J.3    Smyth, D.4    Downes, K.5
  • 5
    • 42349106044 scopus 로고    scopus 로고
    • Meta-analysis of genomewide association data and large-scale replication identifies additional susceptibility loci for type 2 diabetes
    • Zeggini E, Scott LJ, Saxena R, Voight BF, Marchini JL, et al. (2008) Meta-analysis of genomewide association data and large-scale replication identifies additional susceptibility loci for type 2 diabetes. Nat Genet 40: 638-645.
    • (2008) Nat Genet , vol.40 , pp. 638-645
    • Zeggini, E.1    Scott, L.J.2    Saxena, R.3    Voight, B.F.4    Marchini, J.L.5
  • 6
    • 48349136889 scopus 로고    scopus 로고
    • Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease
    • Barrett JC, Hansoul S, Nicolae DL, Cho JH, Duerr RH, et al. (2008) Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease. Nat Genet 40: 955-962.
    • (2008) Nat Genet , vol.40 , pp. 955-962
    • Barrett, J.C.1    Hansoul, S.2    Nicolae, D.L.3    Cho, J.H.4    Duerr, R.H.5
  • 7
    • 79953208931 scopus 로고    scopus 로고
    • Genome-wide association study identifies 12 new susceptibility loci for primary biliary cirrhosis
    • Mells GF, Floyd JA, Morley KI, Cordell HJ, Franklin CS, et al. (2011) Genome-wide association study identifies 12 new susceptibility loci for primary biliary cirrhosis. Nat Genet 43: 329-332.
    • (2011) Nat Genet , vol.43 , pp. 329-332
    • Mells, G.F.1    Floyd, J.A.2    Morley, K.I.3    Cordell, H.J.4    Franklin, C.S.5
  • 9
    • 77954140531 scopus 로고    scopus 로고
    • Common SNPs explain a large proportion of the heritability for human height
    • Yang J, Benyamin B, McEvoy BP, Gordon S, Henders AK, et al. (2010) Common SNPs explain a large proportion of the heritability for human height. Nat Genet 42: 565-569.
    • (2010) Nat Genet , vol.42 , pp. 565-569
    • Yang, J.1    Benyamin, B.2    McEvoy, B.P.3    Gordon, S.4    Henders, A.K.5
  • 10
    • 79957588287 scopus 로고    scopus 로고
    • Genome partitioning of genetic variation for complex traits using common SNPs
    • Yang J, Manolio TA, Pasquale LR, Boerwinkle E, Caporaso N, et al. (2011) Genome partitioning of genetic variation for complex traits using common SNPs. Nat Genet 43: 519-525.
    • (2011) Nat Genet , vol.43 , pp. 519-525
    • Yang, J.1    Manolio, T.A.2    Pasquale, L.R.3    Boerwinkle, E.4    Caporaso, N.5
  • 11
    • 0019867064 scopus 로고
    • Biological models and statistical interactions: an example from multistage carcinogenesis
    • Siemiatycki J, Thomas DC, (1981) Biological models and statistical interactions: an example from multistage carcinogenesis. International Journal of Epidemiology 10: 383-387.
    • (1981) International Journal of Epidemiology , vol.10 , pp. 383-387
    • Siemiatycki, J.1    Thomas, D.C.2
  • 12
    • 0025959790 scopus 로고
    • Effect modification and the limits of biological inference from epidemiologic data
    • Thompson WD, (1991) Effect modification and the limits of biological inference from epidemiologic data. Journal of Clinical Epidemiology 44: 221-232.
    • (1991) Journal of Clinical Epidemiology , vol.44 , pp. 221-232
    • Thompson, W.D.1
  • 13
    • 0031827525 scopus 로고    scopus 로고
    • The language of gene interaction
    • Phillips PC, (1998) The language of gene interaction. Genetics 149: 1167-1171.
    • (1998) Genetics , vol.149 , pp. 1167-1171
    • Phillips, P.C.1
  • 14
    • 0036797562 scopus 로고    scopus 로고
    • Epistasis: what it means, what it doesn't mean, and statistical methods to detect it in humans
    • Cordell HJ, (2002) Epistasis: what it means, what it doesn't mean, and statistical methods to detect it in humans. Hum Molec Genet 11: 2463-2468.
    • (2002) Hum Molec Genet , vol.11 , pp. 2463-2468
    • Cordell, H.J.1
  • 15
    • 33646059148 scopus 로고    scopus 로고
    • Variance component analysis of polymorphic metabolic systems
    • McClay JL, van den Oord EJ, (2006) Variance component analysis of polymorphic metabolic systems. J Theor Biol 240: 149-159.
    • (2006) J Theor Biol , vol.240 , pp. 149-159
    • McClay, J.L.1    van den Oord, E.J.2
  • 16
    • 54149088214 scopus 로고    scopus 로고
    • Epistasis-the essential role of gene interactions in the structure and evolution of genetic systems
    • Phillips PC, (2008) Epistasis-the essential role of gene interactions in the structure and evolution of genetic systems. Nat Rev Genet 9: 855-867.
    • (2008) Nat Rev Genet , vol.9 , pp. 855-867
    • Phillips, P.C.1
  • 17
    • 67349166946 scopus 로고    scopus 로고
    • Detecting gene-gene interactions that underlie human diseases
    • Cordell HJ, (2009) Detecting gene-gene interactions that underlie human diseases. Nat Rev Genet 10: 392-404.
    • (2009) Nat Rev Genet , vol.10 , pp. 392-404
    • Cordell, H.J.1
  • 18
    • 68249108329 scopus 로고    scopus 로고
    • Prediction and interaction in complex disease genetics: experience in type 1 diabetes
    • doi:10.1371/journal.pgen.1000540
    • Clayton DG, (2009) Prediction and interaction in complex disease genetics: experience in type 1 diabetes. PLoS Genet 5: e1000540 doi:10.1371/journal.pgen.1000540.
    • (2009) PLoS Genet , vol.5
    • Clayton, D.G.1
  • 19
    • 78649794378 scopus 로고    scopus 로고
    • The meaning of interaction
    • Wang X, Elston R, Zhu X, (2010) The meaning of interaction. Hum Hered 70: 269-277.
    • (2010) Hum Hered , vol.70 , pp. 269-277
    • Wang, X.1    Elston, R.2    Zhu, X.3
  • 20
    • 33847059098 scopus 로고    scopus 로고
    • Exploiting gene-environment interaction to detect genetic associations
    • Kraft P, Yen YC, Stram DO, Morrison J, Gauderman WJ, (2007) Exploiting gene-environment interaction to detect genetic associations. Hum Hered 63: 111-119.
    • (2007) Hum Hered , vol.63 , pp. 111-119
    • Kraft, P.1    Yen, Y.C.2    Stram, D.O.3    Morrison, J.4    Gauderman, W.J.5
  • 21
    • 0036499241 scopus 로고    scopus 로고
    • Sample size requirements for association studies of gene-gene interaction
    • Gauderman WJ, (2002) Sample size requirements for association studies of gene-gene interaction. Am J Epidemiol 155: 478-484.
    • (2002) Am J Epidemiol , vol.155 , pp. 478-484
    • Gauderman, W.J.1
  • 22
    • 38049026746 scopus 로고    scopus 로고
    • Detecting association using epistatic information
    • Chapman J, Clayton D, (2007) Detecting association using epistatic information. Genet Epidemiol 31: 894-909.
    • (2007) Genet Epidemiol , vol.31 , pp. 894-909
    • Chapman, J.1    Clayton, D.2
  • 23
    • 0028089404 scopus 로고
    • Non-hierarchical logistic models and case-only designs for assessing susceptibility in population-based case-control studies
    • Piegorsch WW, Weinberg CR, Taylor JA, (1994) Non-hierarchical logistic models and case-only designs for assessing susceptibility in population-based case-control studies. Statistics in Medicine 13: 153-162.
    • (1994) Statistics in Medicine , vol.13 , pp. 153-162
    • Piegorsch, W.W.1    Weinberg, C.R.2    Taylor, J.A.3
  • 24
    • 0032915780 scopus 로고    scopus 로고
    • Case-only design to measure gene-gene interaction
    • Yang Q, Khoury MJ, Sun F, Flanders WD, (1999) Case-only design to measure gene-gene interaction. Epidemiology 10: 167-170.
    • (1999) Epidemiology , vol.10 , pp. 167-170
    • Yang, Q.1    Khoury, M.J.2    Sun, F.3    Flanders, W.D.4
  • 25
    • 0034255484 scopus 로고    scopus 로고
    • Choosing a retrospective design to assess joint genetic and environmental contributions to risk
    • Weinberg CR, Umbach DM, (2000) Choosing a retrospective design to assess joint genetic and environmental contributions to risk. Am J Epidemiol 152: 197-203.
    • (2000) Am J Epidemiol , vol.152 , pp. 197-203
    • Weinberg, C.R.1    Umbach, D.M.2
  • 26
    • 77649235526 scopus 로고    scopus 로고
    • Using principal components of genetic variation for robust and powerful detection of gene-gene interactions in case-control and case-only studies
    • Bhattacharjee S, Wang Z, Ciampa J, Kraft P, Chanock S, et al. (2010) Using principal components of genetic variation for robust and powerful detection of gene-gene interactions in case-control and case-only studies. Am J Hum Genet 86: 331-342.
    • (2010) Am J Hum Genet , vol.86 , pp. 331-342
    • Bhattacharjee, S.1    Wang, Z.2    Ciampa, J.3    Kraft, P.4    Chanock, S.5
  • 27
    • 33646028514 scopus 로고    scopus 로고
    • Contrasting linkage-disequilibrium patterns between cases and controls as a novel association-mapping method
    • Zaykin DV, Meng Z, Ehm MG, (2006) Contrasting linkage-disequilibrium patterns between cases and controls as a novel association-mapping method. Am J Hum Genet 78: 737-746.
    • (2006) Am J Hum Genet , vol.78 , pp. 737-746
    • Zaykin, D.V.1    Meng, Z.2    Ehm, M.G.3
  • 28
    • 0031466983 scopus 로고    scopus 로고
    • From genotypes to genes: doubling the sample size
    • Sasieni P, (1997) From genotypes to genes: doubling the sample size. Biometrics 53: 1253-1261.
    • (1997) Biometrics , vol.53 , pp. 1253-1261
    • Sasieni, P.1
  • 29
    • 0016560436 scopus 로고
    • Sample sizes required to detect linkage disequilibrium between two or three loci
    • Brown A, (1975) Sample sizes required to detect linkage disequilibrium between two or three loci. Theoretical Population Biology 8: 184-201.
    • (1975) Theoretical Population Biology , vol.8 , pp. 184-201
    • Brown, A.1
  • 30
    • 34548292504 scopus 로고    scopus 로고
    • PLINK: a tool set for whole-genome association and population-based linkage analyses
    • Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MA, et al. (2007) PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet 81: 559-575.
    • (2007) Am J Hum Genet , vol.81 , pp. 559-575
    • Purcell, S.1    Neale, B.2    Todd-Brown, K.3    Thomas, L.4    Ferreira, M.A.5
  • 31
    • 0023796209 scopus 로고    scopus 로고
    • On measures of gametic disequilibrium
    • Lewontin R, (1998) On measures of gametic disequilibrium. Genetics 120: 849-852.
    • (1998) Genetics , vol.120 , pp. 849-852
    • Lewontin, R.1
  • 32
    • 33748804424 scopus 로고    scopus 로고
    • A tutorial on statistical methods for population association studies
    • Balding DJ, (2006) A tutorial on statistical methods for population association studies. Nat Rev Genet 7: 781-791.
    • (2006) Nat Rev Genet , vol.7 , pp. 781-791
    • Balding, D.J.1
  • 33
    • 57449115418 scopus 로고    scopus 로고
    • A genotype based approach to assessing the association between single nucleotide polymorphisms
    • Wellek S, Ziegler A, (2009) A genotype based approach to assessing the association between single nucleotide polymorphisms. Hum Hered 67: 128-139.
    • (2009) Hum Hered , vol.67 , pp. 128-139
    • Wellek, S.1    Ziegler, A.2
  • 34
    • 79952740772 scopus 로고    scopus 로고
    • EPIBLASTER-fast exhaustive two-locus epistasis detection strategy using graphical processing units
    • Kam-Thong T, Czamara D, Tsuda K, Borgwardt K, Lewis CM, et al. (2011) EPIBLASTER-fast exhaustive two-locus epistasis detection strategy using graphical processing units. Eur J Hum Genet 19: 465-471.
    • (2011) Eur J Hum Genet , vol.19 , pp. 465-471
    • Kam-Thong, T.1    Czamara, D.2    Tsuda, K.3    Borgwardt, K.4    Lewis, C.M.5
  • 35
    • 84856478855 scopus 로고    scopus 로고
    • A linear complexity phasing method for thousands of genomes
    • doi:10.1038/nmeth.1785
    • Delaneau O, Marchini J, Zagury JF, (2011) A linear complexity phasing method for thousands of genomes. Nature Methods doi:10.1038/nmeth.1785.
    • (2011) Nature Methods
    • Delaneau, O.1    Marchini, J.2    Zagury, J.F.3
  • 36
    • 49749089301 scopus 로고    scopus 로고
    • Exploiting gene-environment independence for analysis of casecontrol studies: an empirical Bayes-type shrinkage estimator to trade-off between bias and efficiency
    • Mukherjee B, Chatterjee N, (2008) Exploiting gene-environment independence for analysis of casecontrol studies: an empirical Bayes-type shrinkage estimator to trade-off between bias and efficiency. Biometrics 64: 685-94.
    • (2008) Biometrics , vol.64 , pp. 685-694
    • Mukherjee, B.1    Chatterjee, N.2
  • 37
    • 12744255341 scopus 로고    scopus 로고
    • Semiparametric maximum likelihood estimation exploiting geneenvironment independence in case-control studies
    • Chatterjee N, Carroll RJ, (2005) Semiparametric maximum likelihood estimation exploiting geneenvironment independence in case-control studies. Biometrika 92: 399-418.
    • (2005) Biometrika , vol.92 , pp. 399-418
    • Chatterjee, N.1    Carroll, R.J.2
  • 38
    • 79955506078 scopus 로고    scopus 로고
    • Large-scale exploration of gene-gene interactions in prostate cancer using a multistage genome-wide association study
    • Ciampa J, Yeager M, Amundadottir L, Jacobs K, Kraft P, et al. (2011) Large-scale exploration of gene-gene interactions in prostate cancer using a multistage genome-wide association study. Cancer Res 71: 3287-3295.
    • (2011) Cancer Res , vol.71 , pp. 3287-3295
    • Ciampa, J.1    Yeager, M.2    Amundadottir, L.3    Jacobs, K.4    Kraft, P.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.