메뉴 건너뛰기




Volumn 185, Issue 2, 2010, Pages 655-670

A two-stage approximation for analysis of mixture genetic models in large pedigrees

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BAYES THEOREM; GENETIC MODEL; GENOTYPE; PEDIGREE ANALYSIS; PRIORITY JOURNAL; QUANTITATIVE TRAIT LOCUS MAPPING; SINGLE NUCLEOTIDE POLYMORPHISM; ALLELE; ANIMAL; BREEDING; CHROMOSOME MAP; FEMALE; GENE LINKAGE DISEQUILIBRIUM; GENOME; HUMAN; METHODOLOGY; PEDIGREE; PHENOTYPE; QUANTITATIVE TRAIT LOCUS; STATISTICAL MODEL;

EID: 77955496967     PISSN: 00166731     EISSN: 00166731     Source Type: Journal    
DOI: 10.1534/genetics.110.115774     Document Type: Article
Times cited : (7)

References (52)
  • 1
    • 33846190254 scopus 로고    scopus 로고
    • Improved techniques for sampling complex pedigrees with the Gibbs sampler
    • ABRAHAM, K. J., L. R. TOTIR and R. L. FERNANDO, 2007 Improved techniques for sampling complex pedigrees with the Gibbs sampler. Genet. Sel. Evol. 39: 27-38.
    • (2007) Genet. Sel. Evol. , vol.39 , pp. 27-38
    • Abraham, K.J.1    Totir, L.R.2    Fernando, R.L.3
  • 2
    • 36849093104 scopus 로고    scopus 로고
    • Accuracy of genomic selection using different methods to define haplotypes
    • CALUS, M. P. L., T. H. E. MEUWISSEN, A. P. W. DE ROOS and R. F. VEERKAMP, 2008 Accuracy of genomic selection using different methods to define haplotypes. Genetics 178: 553-561.
    • (2008) Genetics , vol.178 , pp. 553-561
    • Calus, M.P.L.1    Meuwissen, T.H.E.2    De Roos, A.P.W.3    Veerkamp, R.F.4
  • 4
    • 52049096371 scopus 로고    scopus 로고
    • Linkage disequilibrium and persistence of phase in Holstein-Friesian, Jersey and Angus cattle
    • DE ROOS, A. P. W., B. J. HAYES, R. J. SPELMAN and M. E. GODDARD, 2008 Linkage disequilibrium and persistence of phase in Holstein-Friesian, Jersey and Angus cattle. Genetics 179: 1503-1512.
    • (2008) Genetics , vol.179 , pp. 1503-1512
    • De Roos, A.P.W.1    Hayes, B.J.2    Spelman, R.J.3    Goddard, M.E.4
  • 5
    • 0033665531 scopus 로고    scopus 로고
    • Estimation of additive, dominance and epistatic variance components using finite locus models implemented with a single-site Gibbs and a descent graph sampler
    • DU, F.-X., and I. HOESCHELE, 2000 Estimation of additive, dominance and epistatic variance components using finite locus models implemented with a single-site Gibbs and a descent graph sampler. Genet. Res. 76: 187-198.
    • (2000) Genet. Res. , vol.76 , pp. 187-198
    • Du, F.-X.1    Hoeschele, I.2
  • 6
    • 0032725870 scopus 로고    scopus 로고
    • Estimation of additive and dominance variance components in finite polygenic models and complex pedigrees
    • DU, F.-X., I. HOESCHELE and K. M. GAGE-LAHTI, 1999 Estimation of additive and dominance variance components in finite polygenic models and complex pedigrees. Genet. Res. 74: 179-187.
    • (1999) Genet. Res. , vol.74 , pp. 179-187
    • Du, F.-X.1    Hoeschele, I.2    Gage-Lahti, K.M.3
  • 7
    • 0015183542 scopus 로고
    • A general model for the genetic analysis of pedigree data
    • ELSTON, R. C., and J. STEWART, 1971 A general model for the genetic analysis of pedigree data. Hum. Hered. 21: 523-542.
    • (1971) Hum. Hered. , vol.21 , pp. 523-542
    • Elston, R.C.1    Stewart, J.2
  • 9
    • 0001244316 scopus 로고
    • Marker assisted selection using best linear unbiased prediction
    • FERNANDO, R. L., and M. GROSSMAN, 1989 Marker assisted selection using best linear unbiased prediction. Genet. Sel. Evol. 21: 467-477.
    • (1989) Genet. Sel. Evol. , vol.21 , pp. 467-477
    • Fernando, R.L.1    Grossman, M.2
  • 10
    • 0038558013 scopus 로고    scopus 로고
    • Exact genetic linkage computations for general pedigrees
    • FISHELSON, M., and D. GEIGER, 2002 Exact genetic linkage computations for general pedigrees. Bioinformatics 18: 189-198.
    • (2002) Bioinformatics , vol.18 , pp. 189-198
    • Fishelson, M.1    Geiger, D.2
  • 11
    • 0002388372 scopus 로고    scopus 로고
    • Strategies for improving MCMC
    • Ed. 1, edited by W. R. GILKS, S. RICHARDSON and D. J. SPIELGELHALTER. Chapman & Hall, London
    • GILKS, W. R., and G. O. ROBERTS, 1996 Strategies for improving MCMC, pp. 1-19 in Markov Chain Monte Carlo in Practice, Ed. 1, edited by W. R. GILKS, S. RICHARDSON and D. J. SPIELGELHALTER. Chapman & Hall, London.
    • (1996) Markov Chain Monte Carlo in Practice , pp. 1-19
    • Gilks, W.R.1    Roberts, G.O.2
  • 13
    • 33645229679 scopus 로고    scopus 로고
    • Optimal haplotype structure for linkage disequilibrium-based fine mapping of quantitative trait loci using identity by descent
    • GRAPES, L., M. Z. FIRAT, J. C. M. DEKKERS, M. F. ROTHSCHILD and R. L. FERNANDO, 2006 Optimal haplotype structure for linkage disequilibrium-based fine mapping of quantitative trait loci using identity by descent. Genetics 172: 1955-1965.
    • (2006) Genetics , vol.172 , pp. 1955-1965
    • Grapes, L.1    Firat, M.Z.2    Dekkers, J.C.M.3    Rothschild, M.F.4    Fernando, R.L.5
  • 14
    • 37249083895 scopus 로고    scopus 로고
    • The impact of genetic relationship information on genome-assisted breeding values
    • HABIER, D., R. L. FERNANDO and J. C. M. DEKKERS, 2007 The impact of genetic relationship information on genome-assisted breeding values. Genetics 177: 2389-2397.
    • (2007) Genetics , vol.177 , pp. 2389-2397
    • Habier, D.1    Fernando, R.L.2    Dekkers, J.C.M.3
  • 15
    • 77952787476 scopus 로고    scopus 로고
    • The impact of genetic relationship information on genomic breeding values in German Holstein cattle
    • HABIER, D., J. TETENS, F.-R. SEEFRIED, P. LICHTNER and G. THALLER, 2010 The impact of genetic relationship information on genomic breeding values in German Holstein cattle. Genet. Sel. Evol. 42:5.
    • (2010) Genet. Sel. Evol. , vol.42 , pp. 5
    • Habier, D.1    Tetens, J.2    Seefried, F.-R.3    Lichtner, P.4    Thaller, G.5
  • 16
    • 0034957069 scopus 로고    scopus 로고
    • The distribution of effects of genes affecting quantitative traits in livestock
    • HAYES, B. J., and M. E. GODDARD, 2001 The distribution of effects of genes affecting quantitative traits in livestock. Genet. Sel. Evol. 33: 209-229.
    • (2001) Genet. Sel. Evol. , vol.33 , pp. 209-229
    • Hayes, B.J.1    Goddard, M.E.2
  • 17
    • 59349098163 scopus 로고    scopus 로고
    • Invited review: Genomic selection in dairy cattle: Progress and challenges
    • HAYES, B. J., P. J. BOWMAN, A. J. CHAMBERLAIN and M. E. GODDARD, 2009 Invited review: genomic selection in dairy cattle: progress and challenges. J. Dairy Sci. 92: 433-443.
    • (2009) J. Dairy Sci. , vol.92 , pp. 433-443
    • Hayes, B.J.1    Bowman, P.J.2    Chamberlain, A.J.3    Goddard, M.E.4
  • 18
    • 0030833349 scopus 로고    scopus 로고
    • Markov chain Monte Carlo segregation and linkage analysis for oligogenic models
    • HEATH, S. C., 1997 Markov chain Monte Carlo segregation and linkage analysis for oligogenic models. Am. J. Hum. Genet. 61: 748-760.
    • (1997) Am. J. Hum. Genet. , vol.61 , pp. 748-760
    • Heath, S.C.1
  • 19
    • 0002315301 scopus 로고    scopus 로고
    • Mapping of quantitative trait loci in complex pedigrees
    • edited by D. BALDING, M. BISHOP and C. CANNINGS. Wiley, New York
    • HOESCHELE, I., 2001 Mapping of quantitative trait loci in complex pedigrees, pp. 599-644 in Handbook of Statistical Genetics, edited by D. BALDING, M. BISHOP and C. CANNINGS. Wiley, New York.
    • (2001) Handbook of Statistical Genetics , pp. 599-644
    • Hoeschele, I.1
  • 20
    • 0001022491 scopus 로고
    • Blocking Gibbs sampling in very large probabilistic expert systems
    • JENSEN, C. S., A. KONG and U. KJAERULFF, 1995 Blocking Gibbs sampling in very large probabilistic expert systems. Int. J. Hum. Comp. Stud. 42: 647-666.
    • (1995) Int. J. Hum. Comp. Stud. , vol.42 , pp. 647-666
    • Jensen, C.S.1    Kong, A.2    Kjaerulff, U.3
  • 21
    • 20444427466 scopus 로고
    • Theoretical aspects of genetic map functions in recombination processes
    • edited by A. CHAKRAVARTI. Van Nostrand Reinhold, New York
    • KARLIN, S., 1984 Theoretical aspects of genetic map functions in recombination processes, pp. 209-228 in Human Population Genetics: The Pittsburgh Symposium, edited by A. CHAKRAVARTI. Van Nostrand Reinhold, New York.
    • (1984) Human Population Genetics: The Pittsburgh Symposium , pp. 209-228
    • Karlin, S.1
  • 22
    • 50449089222 scopus 로고    scopus 로고
    • Detection of sharing by descent, long-range phasing and haplotype imputation
    • KONG, A., G. MASSON, M. L. FRIGGE, A. GYLFASON, P. ZUSMANOVICH et al., 2008 Detection of sharing by descent, long-range phasing and haplotype imputation. Nat. Genet. 40: 1068-1075.
    • (2008) Nat. Genet. , vol.40 , pp. 1068-1075
    • Kong, A.1    Masson, G.2    Frigge, M.L.3    Gylfason, A.4    Zusmanovich, P.5
  • 23
    • 0000803318 scopus 로고
    • Construction of multilocus genetic maps in humans
    • LANDER, E., and P. GREEN, 1978 Construction of multilocus genetic maps in humans. Proc. Natl. Acad. Sci. USA 84: 2363-2367.
    • (1978) Proc. Natl. Acad. Sci. USA , vol.84 , pp. 2363-2367
    • Lander, E.1    Green, P.2
  • 24
    • 2542631175 scopus 로고    scopus 로고
    • Graphical models for genetic analysis
    • LAURITZEN, S. L., and N. A. SHEEHAN, 2003 Graphical models for genetic analysis. Stat. Sci. 18: 489-514.
    • (2003) Stat. Sci. , vol.18 , pp. 489-514
    • Lauritzen, S.L.1    Sheehan, N.A.2
  • 25
    • 77949830399 scopus 로고    scopus 로고
    • Linear models for joint association and linkage qtl mapping
    • LEGARRA, A., and R. L. FERNANDO, 2009 Linear models for joint association and linkage qtl mapping. Genet. Sel. Evol. 41: 42.
    • (2009) Genet. Sel. Evol. , vol.41 , pp. 42
    • Legarra, A.1    Fernando, R.L.2
  • 26
    • 0034055765 scopus 로고    scopus 로고
    • Fine mapping of quantitative trait loci using linkage disequilibria with closely linked marker loci
    • MEUWISSEN, T. H. E., and M. E. GODDARD, 2000 Fine mapping of quantitative trait loci using linkage disequilibria with closely linked marker loci. Genetics 155: 421-430.
    • (2000) Genetics , vol.155 , pp. 421-430
    • Meuwissen, T.H.E.1    Goddard, M.E.2
  • 27
    • 0035045051 scopus 로고    scopus 로고
    • Prediction of total genetic value using genome-wide dense marker maps
    • MEUWISSEN, T. H. E., B. J. HAYES and M. E. GODDARD, 2001 Prediction of total genetic value using genome-wide dense marker maps. Genetics 157: 1819-1829.
    • (2001) Genetics , vol.157 , pp. 1819-1829
    • Meuwissen, T.H.E.1    Hayes, B.J.2    Goddard, M.E.3
  • 28
    • 0033910724 scopus 로고    scopus 로고
    • Bayesian fine-scale mapping of disease loci, by hidden Markov models
    • MORRIS, A., J. WHITTAKER and D. BALDING, 2000 Bayesian fine-scale mapping of disease loci, by hidden Markov models. Am. J. Hum. Genet. 67: 155-169.
    • (2000) Am. J. Hum. Genet. , vol.67 , pp. 155-169
    • Morris, A.1    Whittaker, J.2    Balding, D.3
  • 29
    • 0037396706 scopus 로고    scopus 로고
    • Fine mapping of complex trait genes combining pedigree and linkage disequilibrium information: A Bayesian unified framework
    • PÉREZ-ENCISO, M., 2003 Fine mapping of complex trait genes combining pedigree and linkage disequilibrium information: a Bayesian unified framework. Genetics 163: 1497-1510.
    • (2003) Genetics , vol.163 , pp. 1497-1510
    • Pérez-Enciso, M.1
  • 30
    • 0024602536 scopus 로고
    • Estimating the power of a proposed linkage study for a complex genetic trait
    • PLOUGHMAN, L. M., and M. BOEHNKE, 1989 Estimating the power of a proposed linkage study for a complex genetic trait. Am. J. Hum. Genet. 44: 543-551.
    • (1989) Am. J. Hum. Genet. , vol.44 , pp. 543-551
    • Ploughman, L.M.1    Boehnke, M.2
  • 32
    • 0034766322 scopus 로고    scopus 로고
    • A simple and rapid method for calculating identity-by-descent matrices using multiple markers
    • PONG-WONG, R., A. W. GEORGE, J. A. WOOLIAMS and C. S. HALEY, 2001 A simple and rapid method for calculating identity-by-descent matrices using multiple markers. Genet. Sel. Evol. 33: 453-471.
    • (2001) Genet. Sel. Evol. , vol.33 , pp. 453-471
    • Pong-Wong, R.1    George, A.W.2    Wooliams, J.A.3    Haley, C.S.4
  • 33
    • 0003897447 scopus 로고    scopus 로고
    • Ed. 9. Academic Press, New York/London/San Diego. An imprint of Elsevier
    • ROSS, S. M., 2007 Introduction to Probability Models, Ed. 9. Academic Press, New York/London/San Diego. An imprint of Elsevier.
    • (2007) Introduction to Probability Models
    • Ross, S.M.1
  • 34
    • 0027205090 scopus 로고
    • On the irreducibility of a Markov chain defined on a space of genotype configurations by a sample scheme
    • SHEEHAN, N., and A. THOMAS, 1993 On the irreducibility of a Markov chain defined on a space of genotype configurations by a sample scheme. Biometrics 49: 163-175.
    • (1993) Biometrics , vol.49 , pp. 163-175
    • Sheehan, N.1    Thomas, A.2
  • 35
    • 0031961421 scopus 로고    scopus 로고
    • Bayesian mapping of multiple quantitative trait loci from incomplete inbred line cross data
    • SILLANPAA, M. J., and E. ARJAS, 1998 Bayesian mapping of multiple quantitative trait loci from incomplete inbred line cross data. Genetics 148: 1373-1388.
    • (1998) Genetics , vol.148 , pp. 1373-1388
    • Sillanpaa, M.J.1    Arjas, E.2
  • 36
    • 0032893464 scopus 로고    scopus 로고
    • Bayesian mapping of multiple quantitative trait loci from incomplete outbred offspring data
    • SILLANPAA, M. J., and E. ARJAS, 1999 Bayesian mapping of multiple quantitative trait loci from incomplete outbred offspring data. Genetics 151: 1605-1619.
    • (1999) Genetics , vol.151 , pp. 1605-1619
    • Sillanpaa, M.J.1    Arjas, E.2
  • 37
    • 0036157589 scopus 로고    scopus 로고
    • Detection and integration of genotyping errors in statistical genetics
    • SOBEL, E., J. C. PAPP and K. LANGE, 2002 Detection and integration of genotyping errors in statistical genetics. Am. J. Hum. Genet. 70: 496-508.
    • (2002) Am. J. Hum. Genet. , vol.70 , pp. 496-508
    • Sobel, E.1    Papp, J.C.2    Lange, K.3
  • 40
    • 0042226484 scopus 로고    scopus 로고
    • Multilocus linkage analysis by blocked Gibbs sampling
    • THOMAS, A., A. GUTIN, V. ABKEVICH and A. BANSAL, 2000 Multilocus linkage analysis by blocked Gibbs sampling. Stat. Comput. 10: 259-269.
    • (2000) Stat. Comput. , vol.10 , pp. 259-269
    • Thomas, A.1    Gutin, A.2    Abkevich, V.3    Bansal, A.4
  • 41
    • 0344961763 scopus 로고    scopus 로고
    • A comparison of alternative methods to compute conditional genotype probabilities for genetic evaluation with finite locus models
    • TOTIR, L. R., R. L. FERNANDO, J. C. M. DEKKERS, S. A. FERNÁNDEZ and B. GULDBRANDTSEN, 2003 A comparison of alternative methods to compute conditional genotype probabilities for genetic evaluation with finite locus models. Genet. Sel. Evol. 35: 585-604.
    • (2003) Genet. Sel. Evol. , vol.35 , pp. 585-604
    • Totir, L.R.1    Fernando, R.L.2    Dekkers, J.C.M.3    Fernández, S.A.4    Guldbrandtsen, B.5
  • 42
    • 0009838486 scopus 로고    scopus 로고
    • Use of molecular data for genetic evaluation of livestock
    • edited by J. C. M. DEKKERS, S. J. LAMONT and M. F. ROTHSCHILD. Department of Animal Science, Iowa State University, Ames, IA
    • VAN ARENDONK, J. A. M., M. C. A. M. BINK, P. M. BIJMA, D.-J. BOVENHUIS, H. DE KONING et al., 1999 Use of molecular data for genetic evaluation of livestock, pp. 60-69 in From Jay Lush to Genomics: Visions for Animal Breeding and Genetics, edited by J. C. M. DEKKERS, S. J. LAMONT and M. F. ROTHSCHILD. Department of Animal Science, Iowa State University, Ames, IA.
    • (1999) From Jay Lush to Genomics: Visions for Animal Breeding and Genetics , pp. 60-69
    • Van Arendonk, J.A.M.1    Bink, M.C.A.M.2    Bijma, P.M.3    Bovenhuis, D.-J.4    De Koning, H.5
  • 44
    • 33847339704 scopus 로고    scopus 로고
    • A method for haplotype interference in general pedigrees without recombination
    • WANG, C., Z. WANG, X. QIU and Q. ZHANG, 2007 A method for haplotype interference in general pedigrees without recombination. Chin. Sci. Bull. 52: 471-476.
    • (2007) Chin. Sci. Bull. , vol.52 , pp. 471-476
    • Wang, C.1    Wang, Z.2    Qiu, X.3    Zhang, Q.4
  • 46
    • 1242322483 scopus 로고    scopus 로고
    • Rapid haplotype reconstruction in pedigrees with dense marker maps
    • WINDIG, J. J., and T. H. E. MEUWISSEN, 2004 Rapid haplotype reconstruction in pedigrees with dense marker maps. J. Anim. Breed. Genet. 121: 26-39.
    • (2004) J. Anim. Breed. Genet. , vol.121 , pp. 26-39
    • Windig, J.J.1    Meuwissen, T.H.E.2
  • 47
    • 3142780649 scopus 로고    scopus 로고
    • A unified Markov chain Monte Carlo framework for mapping multiple quantitative trait loci
    • DOI 10.1534/genetics.104.026286
    • YI, N., 2004 A unified Markov chain Monte Carlo framework for mapping multiple quantitative trait loci. Genetics 167: 967-975. (Pubitemid 38931881)
    • (2004) Genetics , vol.167 , Issue.2 , pp. 967-975
    • Yi, N.1
  • 48
    • 0036255620 scopus 로고    scopus 로고
    • Mapping quantitative trait loci with epistatic effects
    • YI, N., and S. XU, 2002 Mapping quantitative trait loci with epistatic effects. Genet. Res. 79: 185-198.
    • (2002) Genet. Res. , vol.79 , pp. 185-198
    • Yi, N.1    Xu, S.2
  • 49
    • 0242381258 scopus 로고    scopus 로고
    • Bayesian model choice and search strategies for mapping interacting quantitative trait loci
    • YI, N., S. XU and D. B. ALLISON, 2003 Bayesian model choice and search strategies for mapping interacting quantitative trait loci. Genetics 165: 867-883.
    • (2003) Genetics , vol.165 , pp. 867-883
    • Yi, N.1    Xu, S.2    Allison, D.B.3
  • 50
    • 23344451313 scopus 로고    scopus 로고
    • Bayesian model selection for genome-wide epistatic quantitative trait loci analysis
    • DOI 10.1534/genetics.104.040386
    • YI, N., B. S. YANDELL, G. A. CHURCHILL, D. B. ALLISON, E. J. EISEN et al., 2005 Bayesian model selection for genome-wide epistatic quantitative trait loci analysis. Genetics 170: 1333-1344. (Pubitemid 41105486)
    • (2005) Genetics , vol.170 , Issue.3 , pp. 1333-1344
    • Yi, N.1    Yandell, B.S.2    Churchill, G.A.3    Allison, D.B.4    Eisen, E.J.5    Pomp, D.6
  • 51
    • 18844452395 scopus 로고    scopus 로고
    • Mapping multiple quantitative trait loci by Bayesian classification
    • ZHANG, M., K. L. MONTOOTH, M. T. WELLS, A. G. CLARK and D. ZHANG, 2005 Mapping multiple quantitative trait loci by Bayesian classification. Genetics 169: 2305-2318.
    • (2005) Genetics , vol.169 , pp. 2305-2318
    • Zhang, M.1    Montooth, K.L.2    Wells, M.T.3    Clark, A.G.4    Zhang, D.5
  • 52
    • 26444599671 scopus 로고    scopus 로고
    • Evaluation of linkage disequilibrium measures between multi-allelic markers as predictors of linkage disequilibrium between markers and qtl
    • ZHAO, H., D. NETTLETON, M. SOLLER and J. C. M. DEKKERS, 2005 Evaluation of linkage disequilibrium measures between multi-allelic markers as predictors of linkage disequilibrium between markers and qtl. Genet. Res. 86: 77-87.
    • (2005) Genet. Res. , vol.86 , pp. 77-87
    • Zhao, H.1    Nettleton, D.2    Soller, M.3    Dekkers, J.C.M.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.