메뉴 건너뛰기




Volumn 29, Issue 2, 2013, Pages 206-214

A Lasso multi-marker mixed model for association mapping with population structure correction

Author keywords

[No Author keywords available]

Indexed keywords

ARABIDOPSIS THALIANA;

EID: 84872542418     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/bts669     Document Type: Article
Times cited : (96)

References (45)
  • 1
    • 77953233453 scopus 로고    scopus 로고
    • Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines
    • Atwell, S. et al. (2010) Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines. Nature, 465, 627-631.
    • (2010) Nature , vol.465 , pp. 627-631
    • Atwell, S.1
  • 2
    • 80053451705 scopus 로고    scopus 로고
    • Parallel coordinate descent for l1-regularized loss minimization
    • Bradley, J.K. et al. (2011) Parallel coordinate descent for l1-regularized loss minimization. ICML, 321-328.
    • (2011) ICML , pp. 321-328
    • Bradley, J.K.1
  • 4
    • 77950405093 scopus 로고    scopus 로고
    • Genome-wide association study of cnvs in 16, 000 cases of eight common diseases and 3, 000 shared controls
    • Craddock, N. et al. (2010) Genome-wide association study of cnvs in 16, 000 cases of eight common diseases and 3, 000 shared controls. Nature, 464, 713-720.
    • (2010) Nature , vol.464 , pp. 713-720
    • Craddock, N.1
  • 5
    • 66049159816 scopus 로고    scopus 로고
    • Genetic architecture of quantitative traits in mice, flies, and humans
    • Flint, J. and Mackay, T.F. (2009) Genetic architecture of quantitative traits in mice, flies, and humans. Genome Res., 19, 723-733.
    • (2009) Genome Res. , vol.19 , pp. 723-733
    • Flint, J.1    MacKay, T.F.2
  • 6
    • 36348977295 scopus 로고    scopus 로고
    • Incorporating lasso effects into a mixed model for quantitative trait loci detection
    • Foster, S. et al. (2007) Incorporating lasso effects into a mixed model for quantitative trait loci detection. J. Agric. Biol. Environ. Stat., 12, 300-314.
    • (2007) J. Agric. Biol. Environ. Stat. , vol.12 , pp. 300-314
    • Foster, S.1
  • 7
    • 84857467272 scopus 로고    scopus 로고
    • Joint modelling of confounding factors and prominent genetic regulators provides increased accuracy in genetical genomics studies
    • Fusi, N. et al. (2012) Joint modelling of confounding factors and prominent genetic regulators provides increased accuracy in genetical genomics studies. PLoS Comput. Biol., 8, e1002330.
    • (2012) PLoS Comput. Biol. , vol.8
    • Fusi, N.1
  • 8
    • 77955133892 scopus 로고    scopus 로고
    • Estimating effects and making predictions from genome-wide marker data
    • Goddard, M.E. et al. (2009) Estimating effects and making predictions from genome-wide marker data. Stat. Sci., 24, 517-529.
    • (2009) Stat. Sci. , vol.24 , pp. 517-529
    • Goddard, M.E.1
  • 10
    • 65249179516 scopus 로고    scopus 로고
    • Increased accuracy of artificial selection by using the realized relationship matrix
    • Hayes, B.J. et al. (2009) Increased accuracy of artificial selection by using the realized relationship matrix. Genet. Res. (Camb.), 91, 47-60.
    • (2009) Genet. Res. (Camb.) , vol.91 , pp. 47-60
    • Hayes, B.J.1
  • 11
    • 48249096806 scopus 로고    scopus 로고
    • Simultaneous analysis of all SNPs in genome-wide and re-sequencing association studies
    • Hoggart, C.J. et al. (2008) Simultaneous analysis of all SNPs in genome-wide and re-sequencing association studies. PLoS Genet., 4, e1000130.
    • (2008) PLoS Genet. , vol.4
    • Hoggart, C.J.1
  • 12
    • 84856270364 scopus 로고    scopus 로고
    • Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel
    • Horton, M.W. et al. (2012) Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel. Nat. Genet., 44, 212-216.
    • (2012) Nat. Genet. , vol.44 , pp. 212-216
    • Horton, M.W.1
  • 13
    • 77950301214 scopus 로고    scopus 로고
    • Variance component model to account for sample structure in genome-wide association studies
    • Kang, H.M. et al. (2010) Variance component model to account for sample structure in genome-wide association studies. Nat. Genet., 42, 348-354.
    • (2010) Nat. Genet. , vol.42 , pp. 348-354
    • Kang, H.M.1
  • 14
    • 45149105926 scopus 로고    scopus 로고
    • Efficient control of population structure in model organism association mapping
    • Kang, H. et al. (2008) Efficient control of population structure in model organism association mapping. Genetics, 178, 1709-1723.
    • (2008) Genetics , vol.178 , pp. 1709-1723
    • Kang, H.1
  • 15
    • 70149098541 scopus 로고    scopus 로고
    • Statistical estimation of correlated genome associations to a quantitative trait network
    • Kim, S. and Xing, E.P. (2009) Statistical estimation of correlated genome associations to a quantitative trait network. PLoS Genet., 5, e1000587.
    • (2009) PLoS Genet. , vol.5
    • Kim, S.1    Xing, E.P.2
  • 16
    • 84863505275 scopus 로고    scopus 로고
    • Leveraging input and output structures for joint mapping of epistatic and marginal eQTLs
    • Lee, S. and Xing, E.P. (2012) Leveraging input and output structures for joint mapping of epistatic and marginal eQTLs. Bioinformatics, 28, i137-i146.
    • (2012) Bioinformatics , vol.28
    • Lee, S.1    Xing, E.P.2
  • 17
    • 80053372166 scopus 로고    scopus 로고
    • FaST linear mixed models for genome-wide association studies
    • Lippert, C. et al. (2011) FaST linear mixed models for genome-wide association studies. Nat. Methods, 8, 833-835.
    • (2011) Nat. Methods , vol.8 , pp. 833-835
    • Lippert, C.1
  • 18
    • 78049312702 scopus 로고    scopus 로고
    • Correction for hidden confounders in the genetic analysis of gene expression
    • Listgarten, J. et al. (2010) Correction for hidden confounders in the genetic analysis of gene expression. Proc. Natl Acad. Sci. USA, 107, 16465-16470.
    • (2010) Proc. Natl Acad. Sci. USA , vol.107 , pp. 16465-16470
    • Listgarten, J.1
  • 19
    • 79951530319 scopus 로고    scopus 로고
    • The bayesian lasso for genome-wide association studies
    • Li, J. et al. (2011) The bayesian lasso for genome-wide association studies. Bioinformatics, 27, 516-523.
    • (2011) Bioinformatics , vol.27 , pp. 516-523
    • Li, J.1
  • 20
    • 67651108806 scopus 로고    scopus 로고
    • The genetics of quantitative traits: Challenges and prospects
    • Mackay, T.F.C. et al. (2009) The genetics of quantitative traits: challenges and prospects. Nat. Rev. Genet., 10, 565-577.
    • (2009) Nat. Rev. Genet. , vol.10 , pp. 565-577
    • MacKay, T.F.C.1
  • 23
    • 74049114503 scopus 로고    scopus 로고
    • P-values for high-dimensional regression
    • Meinshausen, N. et al. (2009) P-values for high-dimensional regression. J. Am. Stat. Assoc., 104, 1671-1681.
    • (2009) J. Am. Stat. Assoc. , vol.104 , pp. 1671-1681
    • Meinshausen, N.1
  • 25
    • 84863652334 scopus 로고    scopus 로고
    • Using whole-genome sequence data to predict quantitative trait phenotypes in Drosophila melanogaster
    • Ober, U. et al. (2012) Using whole-genome sequence data to predict quantitative trait phenotypes in Drosophila melanogaster. PLoS Genet., 8, e1002685.
    • (2012) PLoS Genet. , vol.8
    • Ober, U.1
  • 26
    • 78951470427 scopus 로고    scopus 로고
    • Conditions under which genome-wide association studies will be positively misleading
    • Platt, A. et al. (2010a) Conditions under which genome-wide association studies will be positively misleading. Genetics, 186, 1054-1052.
    • (2010) Genetics , vol.186 , pp. 1054-1052
    • Platt, A.1
  • 27
    • 77649215261 scopus 로고    scopus 로고
    • The scale of population structure in Arabidopsis thaliana
    • Platt, A. et al. (2010b) The scale of population structure in Arabidopsis thaliana. PLoS Genet., 6, e1000843.
    • (2010) PLoS Genet. , vol.6
    • Platt, A.1
  • 28
    • 77953811255 scopus 로고    scopus 로고
    • New approaches to population stratification in genome-wide association studies
    • Price, A.L. et al. (2010) New approaches to population stratification in genome-wide association studies. Nat. Rev. Genet., 11, 459-463.
    • (2010) Nat. Rev. Genet. , vol.11 , pp. 459-463
    • Price, A.L.1
  • 30
    • 77954194620 scopus 로고    scopus 로고
    • Multi-population GWA mapping via multi-task regularized regression
    • Puniyani, K. et al. (2010) Multi-population GWA mapping via multi-task regularized regression. Bioinformatics, 26, i208-i216.
    • (2010) Bioinformatics , vol.26
    • Puniyani, K.1
  • 32
    • 84972496336 scopus 로고
    • That blup is a good thing: The estimation of random effects
    • Robinson, G. (1991) That blup is a good thing: the estimation of random effects. Stat. Sci., 6, 15-32.
    • (1991) Stat. Sci. , vol.6 , pp. 15-32
    • Robinson, G.1
  • 33
    • 0000627958 scopus 로고
    • The box-cox transformation technique: A review
    • Sakia, R.M. (1992) The box-cox transformation technique: a review. Statistician, 41, 169.
    • (1992) Statistician , vol.41 , pp. 169
    • Sakia, R.M.1
  • 34
    • 79954986664 scopus 로고    scopus 로고
    • Estimation for high-dimensional linear mixed-effects models using l1-penalization
    • Schelldorfer, J. et al. (2011) Estimation for high-dimensional linear mixed-effects models using l1-penalization. Scand. Stat. Theory Appl., 38, 197-214.
    • (2011) Scand. Stat. Theory Appl. , vol.38 , pp. 197-214
    • Schelldorfer, J.1
  • 35
    • 84862991434 scopus 로고    scopus 로고
    • An efficient multi-locus mixed-model approach for genome-wide association studies in structured populations
    • Segura, V. et al. (2012) An efficient multi-locus mixed-model approach for genome-wide association studies in structured populations. Nat. Genet., 44, 825-830.
    • (2012) Nat. Genet. , vol.44 , pp. 825-830
    • Segura, V.1
  • 38
    • 62549115747 scopus 로고    scopus 로고
    • Genome-wide association analysis by lasso penalized logistic regression
    • Wu, T.T. et al. (2009) Genome-wide association analysis by lasso penalized logistic regression. Bioinformatics, 25, 714-721.
    • (2009) Bioinformatics , vol.25 , pp. 714-721
    • Wu, T.T.1
  • 39
    • 85162409960 scopus 로고    scopus 로고
    • Learning sparse representations of high dimensional data on large scale dictionaries
    • Shawe-Taylor, J. et al. (ed.) Granada, Spain
    • Xiang, Z.J. et al. (2011) Learning sparse representations of high dimensional data on large scale dictionaries. In Shawe-Taylor, J. et al. (ed.) Advances in Neural Information Processing System. Vol. 24, Granada, Spain, pp. 900-908.
    • (2011) Advances in Neural Information Processing System. , vol.24 , pp. 900-908
    • Xiang, Z.J.1
  • 40
    • 77954140531 scopus 로고    scopus 로고
    • Common SNPs explain a large proportion of the heritability for human height
    • Yang, J. 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
  • 41
    • 84862832570 scopus 로고    scopus 로고
    • Conditional and joint multiple-snp analysis of gwas summary statistics identifies additional variants influencing complex traits
    • Yang, J. et al. (2012) Conditional and joint multiple-snp analysis of gwas summary statistics identifies additional variants influencing complex traits. Nat. Genet., 44, 369-375.
    • (2012) Nat. Genet. , vol.44 , pp. 369-375
    • Yang, J.1
  • 43
    • 77950299137 scopus 로고    scopus 로고
    • Mixed linear model approach adapted for genome-wide association studies
    • Zhang, Z. et al. (2010) Mixed linear model approach adapted for genome-wide association studies. Nat. Genet., 42, 355-360.
    • (2010) Nat. Genet. , vol.42 , pp. 355-360
    • Zhang, Z.1
  • 44
    • 33846466407 scopus 로고    scopus 로고
    • An Arabidopsis example of association mapping in structured samples
    • Zhao, K. et al. (2007) An Arabidopsis example of association mapping in structured samples. PLoS Genet., 3, e4.
    • (2007) PLoS Genet. , vol.3
    • Zhao, K.1
  • 45
    • 84863003734 scopus 로고    scopus 로고
    • Genome-wide efficient mixed-model analysis for association studies
    • Zhou, X. and Stephens, M. (2012) Genome-wide efficient mixed-model analysis for association studies. Nat. Genet., 44, 821-824.
    • (2012) Nat. Genet. , vol.44 , pp. 821-824
    • Zhou, X.1    Stephens, M.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.