메뉴 건너뛰기




Volumn 2, Issue 3, 2007, Pages 501-528

Hidden Markov dirichlet process: Modeling genetic inference in open ancestral space

Author keywords

Dirichlet process; Hidden Markov model; Hierarchical DP; MCMC, statistical genetics, recombination, population structure, SNP

Indexed keywords


EID: 56449114662     PISSN: 19360975     EISSN: 19316690     Source Type: Journal    
DOI: 10.1214/07-BA220     Document Type: Article
Times cited : (21)

References (39)
  • 1
    • 0041664867 scopus 로고    scopus 로고
    • \Finding haplotype block boundaries by using the minimum-description-length principle
    • Anderson, E. C. and Novembre, J. (2003). \Finding haplotype block boundaries by using the minimum-description-length principle." Am J Hum Genet, 73: 336-354.
    • (2003) "Am J Hum Genet , vol.73 , pp. 336-354
    • Anderson, E.C.1    Novembre, J.2
  • 2
    • 0000708831 scopus 로고
    • \Mixtures of Dirichlet processes with applications to Bayesian nonparametric problems
    • Antoniak, C. E. (1973). \Mixtures of Dirichlet processes with applications to Bayesian nonparametric problems." Annals of Statistics, 2: 1152-1174.
    • (1973) "Annals of Statistics , vol.2 , pp. 1152-1174
    • Antoniak, C.E.1
  • 4
    • 0002617436 scopus 로고
    • \Ferguson Distributions Via Pölya Urn Schemes
    • Blackwell, D. and MacQueen, J. B. (1973). \Ferguson Distributions Via Pölya Urn Schemes." Annals of Statistics, 1: 353-355
    • (1973) "Annals of Statistics , vol.1 , pp. 353-355
    • Blackwell, D.1    MacQueen, J.B.2
  • 5
    • 79959524146 scopus 로고    scopus 로고
    • \A haplotype map of the human genome
    • Consortium", I. H. (2005). \A haplotype map of the human genome." Nature, 437: 1299-1320
    • (2005) "Nature , vol.437 , pp. 1299-1320
    • Consortium", I.H.1
  • 7
    • 1842637512 scopus 로고    scopus 로고
    • Mixed-membership models of scientic publications
    • Erosheva, E., Fienberg, S., and La erty, J. (2004). \Mixed-membership models of scientic publications." Proc Natl Acad Sci U S A, 101 (Suppl 1): 5220-5227.
    • (2004) Proc Natl Acad Sci U S A , vol.101 , Issue.SUPPL. 1 , pp. 5220-5227
    • Erosheva, E.1    Fienberg, S.2    La erty, J.3
  • 9
    • 0038818582 scopus 로고    scopus 로고
    • Comment on Genetic Structure of Human Populations
    • Excoer, L. and Hamilton, G. (2003). \Comment on Genetic Structure of Human Populations." Science, 300(5627): 1877b-. 503
    • (2003) Science , vol.300 , Issue.5627
    • Excoer, L.1    Hamilton, G.2
  • 10
    • 0029130796 scopus 로고
    • Maximum-likelihood estimation of molecular haplotype frequencies in a diploid population
    • Excoer, L. and Slatkin, M. (1995). \Maximum-likelihood estimation of molecular haplotype frequencies in a diploid population." Molecular Biology and Evolution, 12(5): 921-7.
    • (1995) Molecular Biology and Evolution , vol.12 , Issue.5 , pp. 921-927
    • Excoer, L.1    Slatkin, M.2
  • 11
    • 0041817568 scopus 로고    scopus 로고
    • Inference of population structure: Extensions to linked loci and correlated allele frequencies
    • Falush, D., Stephens, M., and Pritchard, J. K. (2003). \Inference of population structure: Extensions to linked loci and correlated allele frequencies." Genetics, 164(4): 1567-1587.
    • (2003) Genetics , vol.164 , Issue.4 , pp. 1567-1587
    • Falush, D.1    Stephens, M.2    Pritchard, J.K.3
  • 12
    • 0001120413 scopus 로고
    • A Bayesian analysis of some nonparametric problems
    • Ferguson, T. S. (1973). \A Bayesian analysis of some nonparametric problems." Annals of Statistics, 1: 209-230.
    • (1973) Annals of Statistics , vol.1 , pp. 209-230
    • Ferguson, T.S.1
  • 14
    • 13844302126 scopus 로고    scopus 로고
    • High density linkage disequilibrium mapping using models of haplotype block variation
    • Greenspan, G. and Geiger, D. (2004a). \High density linkage disequilibrium mapping using models of haplotype block variation." Bioinformatics, 20 (Suppl.1): 137-144.
    • (2004) Bioinformatics , vol.20 , Issue.SUPPL. 1 , pp. 137-144
    • Greenspan, G.1    Geiger, D.2
  • 15
    • 4143145578 scopus 로고    scopus 로고
    • \Model-Based Inference of Haplotype Block Variation
    • Greenspan, G (2004b). \Model-Based Inference of Haplotype Block Variation." Journal of Com-putational Biology, 11(2/3): 493-504
    • (2004) "Journal of Com-putational Biology , vol.11 , Issue.2-3 , pp. 493-504
    • Greenspan, G.1
  • 16
    • 0021634009 scopus 로고
    • \Pölya-like urns and the Ewens' sampling formula
    • Hoppe, F. M. (1984). \Pölya-like urns and the Ewens' sampling formula." Journal of Math. Biol., 20(1): 91-94.
    • (1984) "Journal of Math. Biol. , vol.20 , Issue.1 , pp. 91-94
    • Hoppe, F.M.1
  • 17
    • 0020744702 scopus 로고
    • \Properties of a neutral allele model with intragenic recombination
    • Hudson, R. R. (1983). \Properties of a neutral allele model with intragenic recombination." Theor Popul Biol., 23(2): 183-201.
    • (1983) "Theor Popul Biol , vol.23 , Issue.2 , pp. 183-201
    • Hudson, R.R.1
  • 20
    • 0002556819 scopus 로고
    • \On the genealogy of large populations
    • Kingman, J. (1982). \On the genealogy of large populations." J. Appl. Prob., 19A: 27-43.
    • (1982) J. Appl. Prob , vol.19 A , pp. 27-43
    • Kingman, J.1
  • 21
    • 0347361674 scopus 로고    scopus 로고
    • \Modelling Linkage Disequilibrium
    • Li, N. and Stephens, M. (2003). \Modelling Linkage Disequilibrium, and identifying recombination hotspots using SNP data Genetics." Genetics, 165: 2213-2233.
    • (2003) Genetics , vol.165 , pp. 2213-2233
    • Li, N.1    Stephens, M.2
  • 22
    • 79951870792 scopus 로고
    • \The collapsed Gibbs sampler with applications to a gene regulation problem
    • Liu, J. S. (1994). \The collapsed Gibbs sampler with applications to a gene regulation problem." J. Amer. Statist. Assoc, 89: 958-966.
    • (1994) "J. Amer. Statist. Assoc , vol.89 , pp. 958-966
    • Liu, J.S.1
  • 23
    • 0034761849 scopus 로고    scopus 로고
    • \Bayesian analysis of Haplotypes for Linkage Disequilibrium Mapping
    • Liu, J. S., Sabatti, C., Teng, J., Keats, B., and Risch, N. (2001). \Bayesian analysis of Haplotypes for Linkage Disequilibrium Mapping." Genome Res., 11: 1716-1724.
    • (2001) "Genome Res , vol.11 , pp. 1716-1724
    • Liu, J.S.1    Sabatti, C.2    Teng, J.3    Keats, B.4    Risch, N.5
  • 25
    • 77950032550 scopus 로고    scopus 로고
    • \Markov chain sampling methods for Dirichlet process mixture models
    • Neal, R. M. (2000). \Markov chain sampling methods for Dirichlet process mixture models." J. Computational and Graphical Statistics, 9(2): 249-256.
    • (2000) "J. Computational and Graphical Statistics , vol.9 , Issue.2 , pp. 249-256
    • Neal, R.M.1
  • 26
    • 0036138183 scopus 로고    scopus 로고
    • \Bayesian haplotype inference for multiple linked single nucleotide polymorphisms
    • Niu, T., Qin, S., Xu, X., and Liu, J. (2002). \Bayesian haplotype inference for multiple linked single nucleotide polymorphisms." American Journal of Human Genetics, 70: 157-169
    • (2002) "American Journal of Human Genetics , vol.70 , pp. 157-169
    • Niu, T.1    Qin, S.2    Xu, X.3    Liu, J.4
  • 27
    • 0035941029 scopus 로고    scopus 로고
    • \Blocks of Limited Haplotype Diversity Revealed by High-Resolution Scanning of Human Chromosome 21
    • Patil, N., Berno, A. J., et al. (2001). \Blocks of Limited Haplotype Diversity Revealed by High-Resolution Scanning of Human Chromosome 21." Science, 294: 1719-1723.
    • (2001) "Science , vol.294 , pp. 1719-1723
    • Patil, N.1    Berno, A.J.2
  • 29
    • 0034973984 scopus 로고    scopus 로고
    • \High-resolution multipoint linkage-disequilibrium mapping in the context of a human genome sequence
    • Rannala, B. and Reeve, J. P. (2001). \High-resolution multipoint linkage-disequilibrium mapping in the context of a human genome sequence." Am J Hum Genet., 69(1): 159-78.
    • (2001) "Am J Hum Genet , vol.69 , Issue.1 , pp. 159-178
    • Rannala, B.1    Reeve, J.P.2
  • 32
    • 0000720609 scopus 로고
    • \A Constructive Denition of Dirichlet Priors
    • Sohn, K.-A. and Xing, E. (2006). \Hidden Markov Dirichlet Process: Modeling Genetic Recombination in Open Ancestral Space." In Advances in Neural Information Processing Systems 19. Cambridge, MA: MIT Press
    • (1994) "Statistica Sinica , vol.1 , Issue.4 , pp. 639-650
    • Sethuraman, J.1
  • 33
    • 66349129465 scopus 로고    scopus 로고
    • Hidden Markov Dirichlet Process: Modeling Genetic Recombination in Open Ancestral Space
    • Cambridge, MA: MIT Press
    • Stephens, M., Smith, N., and Donnelly, P. (2001). \A new statistical method for haplotype reconstruction from population data." American Journal of Human Genetics, 68: 978-989. 506, 507
    • (2006) Advances in Neural Information Processing Systems 19
    • Sohn, K.-A.1    Xing, E.2
  • 37
    • 27544446224 scopus 로고    scopus 로고
    • \The International HapMap Project Web site
    • Xing, E., Sharan, R., and Jordan, M. (2004). \Bayesian Haplotype Inference via the Dirichlet Process." In Proceedings of the 21st International Conference on Machine Learning, 879-886. New York: ACM Press. 504, 505, 506, 507, 511, 512
    • (2005) "Genome Research , vol.15 , pp. 1591-1593
    • Thorisson, G.A.1    Smith, A.V.2    Krishnan, L.3    Stein, L.D.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.