메뉴 건너뛰기




Volumn 24, Issue 19, 2008, Pages 2222-2228

Inference of structure in subdivided populations at low levels of genetic differentiation - The correlated allele frequencies model revisited

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY; ALGORITHM; ARTICLE; CLUSTER ANALYSIS; COMPUTER PROGRAM; COMPUTER SIMULATION; CONTROLLED STUDY; DATA ANALYSIS; GENE FREQUENCY; GENETIC VARIABILITY; GULO GULO; MAMMAL; MICROSATELLITE MARKER; MONTE CARLO METHOD; NONHUMAN; POPULATION GENETICS; PRIORITY JOURNAL; PROBABILITY;

EID: 52949124869     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/btn419     Document Type: Article
Times cited : (138)

References (61)
  • 1
    • 0000708831 scopus 로고
    • Mixtures of Dirichlet process with applications to Bayesian nonparametric problems
    • Antoniak,C.E. (1974) Mixtures of Dirichlet process with applications to Bayesian nonparametric problems. Ann. Star., 2, 1152-1174.
    • (1974) Ann. Star , vol.2 , pp. 1152-1174
    • Antoniak, C.E.1
  • 2
    • 33748804424 scopus 로고    scopus 로고
    • A tutorial on statistical methods for population association studies
    • Balding,D.J. (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
  • 3
    • 0029199341 scopus 로고
    • A method for quantifying differentiation between populations at multi-allelic loci and its implications for investigating identity and paternity
    • Balding,D.J. and Nichols,R.A. (1995) A method for quantifying differentiation between populations at multi-allelic loci and its implications for investigating identity and paternity. Genetica, 96, 3-12.
    • (1995) Genetica , vol.96 , pp. 3-12
    • Balding, D.J.1    Nichols, R.A.2
  • 4
    • 0031172420 scopus 로고    scopus 로고
    • Significant genetic correlation among Caucasians at forensic DNA loci
    • Balding,D.J. and Nichols,R.A. (1997) Significant genetic correlation among Caucasians at forensic DNA loci. Heredity, 78, 583-589.
    • (1997) Heredity , vol.78 , pp. 583-589
    • Balding, D.J.1    Nichols, R.A.2
  • 5
    • 1842532350 scopus 로고    scopus 로고
    • The Bayesian revolution in genetics
    • Beaumont,M.A. and Rannala,B. (2005) The Bayesian revolution in genetics. Nat. Rev.Genet., 5, 251-261.
    • (2005) Nat. Rev.Genet , vol.5 , pp. 251-261
    • Beaumont, M.A.1    Rannala, B.2
  • 6
    • 0242625383 scopus 로고    scopus 로고
    • Assessing population structure and gene flow in montana wolverines (gulo, gulo) using assignment-based approaches
    • Cegelski,C.C. et al. (2003) Assessing population structure and gene flow in montana wolverines (gulo, gulo) using assignment-based approaches. Mol. Ecol., 12, 2907-2918.
    • (2003) Mol. Ecol , vol.12 , pp. 2907-2918
    • Cegelski, C.C.1
  • 7
    • 2242491935 scopus 로고    scopus 로고
    • Computational and inferential difficulties with mixture posterior distributions. j
    • Celeux,G. et al. (2000) Computational and inferential difficulties with mixture posterior distributions. j. Am. Stat. Assoc., 95 957-970.
    • (2000) Am. Stat. Assoc , vol.95 , pp. 957-970
    • Celeux, G.1
  • 8
    • 38149124743 scopus 로고    scopus 로고
    • Bayesian spatial modeling of genetic population structure
    • Corander,J. et al. (2008) Bayesian spatial modeling of genetic population structure. Comput. Stat., 23, 111-129.
    • (2008) Comput. Stat , vol.23 , pp. 111-129
    • Corander, J.1
  • 9
    • 0037274702 scopus 로고    scopus 로고
    • Bayesian analysis of genetic differentiation between populations
    • Corander,J.C. et al. (2003) Bayesian analysis of genetic differentiation between populations. Genetics, 163, 367-374.
    • (2003) Genetics , vol.163 , pp. 367-374
    • Corander, J.C.1
  • 10
    • 33645878576 scopus 로고    scopus 로고
    • Genetics structure is influenced by lansdcape features. Empirical evidence from a roe deer population
    • Coukin,A. et al. (2006) Genetics structure is influenced by lansdcape features. Empirical evidence from a roe deer population. Mol. Ecol., 15, 1669-1679.
    • (2006) Mol. Ecol , vol.15 , pp. 1669-1679
    • Coukin, A.1
  • 11
    • 41149154942 scopus 로고    scopus 로고
    • Congruent population structure inferred from dispersal behavior and intensive genetic surveys of the threatened Florida Scrub-Jay Aphelocoma coeligrulescens
    • Coulon,A. et al. (2008) Congruent population structure inferred from dispersal behavior and intensive genetic surveys of the threatened Florida Scrub-Jay Aphelocoma coeligrulescens. Mol. Ecol., 17 1685-1701.
    • (2008) Mol. Ecol , vol.17 , pp. 1685-1701
    • Coulon, A.1
  • 12
    • 0031525996 scopus 로고    scopus 로고
    • Product partition models for normal means
    • Crowley,E.M. (1997) Product partition models for normal means. J. Am. Stat. Assoc., 92, 192-198.
    • (1997) J. Am. Stat. Assoc , vol.92 , pp. 192-198
    • Crowley, E.M.1
  • 13
    • 0034879445 scopus 로고    scopus 로고
    • A Bayesian approach to the identification of panmictic populations and the assignment of individuals
    • Dawson,K.J. and Belkhir,K. (2001) A Bayesian approach to the identification of panmictic populations and the assignment of individuals. Genet. Res., 78, 59-77.
    • (2001) Genet. Res , vol.78 , pp. 59-77
    • Dawson, K.J.1    Belkhir, K.2
  • 14
    • 33748762488 scopus 로고    scopus 로고
    • Computer programs for population genetics data analysis: A survival guide
    • Excoffier,L. and Henkel,G. (2006) Computer programs for population genetics data analysis: A survival guide. Nat. Rev. Genet., 7 745-758.
    • (2006) Nat. Rev. Genet , vol.7 , pp. 745-758
    • Excoffier, L.1    Henkel, G.2
  • 15
    • 0041817568 scopus 로고    scopus 로고
    • Inference of population structure using multilocus genotype data: Linked loci and correlated allele frequencies
    • Falush,D. et al. (2003) Inference of population structure using multilocus genotype data: Linked loci and correlated allele frequencies. Genetics, 164, 1567-1587.
    • (2003) Genetics , vol.164 , pp. 1567-1587
    • Falush, D.1
  • 16
    • 49849094302 scopus 로고    scopus 로고
    • An approximate Bayesian computation approach to overcome biases that arise when using AFLP markers to study population structure
    • Foll,M. et al. (2008) An approximate Bayesian computation approach to overcome biases that arise when using AFLP markers to study population structure. Genetics, 179, 927-989.
    • (2008) Genetics , vol.179 , pp. 927-989
    • Foll, M.1
  • 17
    • 34548566151 scopus 로고    scopus 로고
    • Rise of oceanographic barriers in continuous populations of a cetacean: The genetic structure of harbour porpoises in old world waters
    • fontaine,M. et al. (2007) Rise of oceanographic barriers in continuous populations of a cetacean: The genetic structure of harbour porpoises in old world waters. BMC Biol., 5.
    • (2007) BMC Biol , vol.5
    • fontaine, M.1
  • 18
    • 0006849557 scopus 로고    scopus 로고
    • Bayesian analysis of DNA profiling data in forensic identification applications
    • Foreman,L. et al. (1997) Bayesian analysis of DNA profiling data in forensic identification applications,J. R. Stat. Soc., Ser. A, 160, 429-469.
    • (1997) J. R. Stat. Soc., Ser. A , vol.160 , pp. 429-469
    • Foreman, L.1
  • 19
    • 33750472670 scopus 로고    scopus 로고
    • Bayesian clustering using hidden Markov random fields
    • François,O. et al. (2006) Bayesian clustering using hidden Markov random fields. Genetics, 174, 805-816.
    • (2006) Genetics , vol.174 , pp. 805-816
    • François, O.1
  • 20
    • 33750461615 scopus 로고    scopus 로고
    • Identifying the environmental factors that determine the genetic structure of populations
    • Gaggiotti,O. and Foll,M. (2006) Identifying the environmental factors that determine the genetic structure of populations.Genetics, 174, 875-891.
    • (2006) Genetics , vol.174 , pp. 875-891
    • Gaggiotti, O.1    Foll, M.2
  • 21
    • 34547110840 scopus 로고    scopus 로고
    • A Markov chain Monte Carlo approach for joint inference of population structure and inbreeding rates from multilocus genotype data
    • Gao,H. et al. (2007) A Markov chain Monte Carlo approach for joint inference of population structure and inbreeding rates from multilocus genotype data. Genetics, 176, 1635-1651.
    • (2007) Genetics , vol.176 , pp. 1635-1651
    • Gao, H.1
  • 22
    • 0036970574 scopus 로고    scopus 로고
    • Hidden Markov models and disease mapping
    • Green,P.J. and Richardson,S. (2002) Hidden Markov models and disease mapping. J. Am. Stat. Assoc., 97, 1055-1070.
    • (2002) J. Am. Stat. Assoc , vol.97 , pp. 1055-1070
    • Green, P.J.1    Richardson, S.2
  • 23
    • 23344443817 scopus 로고    scopus 로고
    • A spatial statistical model for landscape genetics
    • Gaillot,G. et al. (2005) A spatial statistical model for landscape genetics. Genetics, 170, 1261-1280.
    • (2005) Genetics , vol.170 , pp. 1261-1280
    • Gaillot, G.1
  • 24
    • 44349172399 scopus 로고    scopus 로고
    • Analysing georeferenced population genetics data with geneland: A new algorithm to deal with null alleles and a friendly graphical user interface
    • Guillot,G. et al. (2008) Analysing georeferenced population genetics data with geneland: A new algorithm to deal with null alleles and a friendly graphical user interface. Bioinformatics, 24, 1406-1407.
    • (2008) Bioinformatics , vol.24 , pp. 1406-1407
    • Guillot, G.1
  • 25
    • 50949113425 scopus 로고    scopus 로고
    • Population substructure in Finland and Sweden revealed by the use of spatial coordinates and a small munber of unlinked autosomal SNPs
    • Hannelius,U. et al. (2008) Population substructure in Finland and Sweden revealed by the use of spatial coordinates and a small munber of unlinked autosomal SNPs. BMC Genetics, 9, 54.
    • (2008) BMC Genetics , vol.9 , pp. 54
    • Hannelius, U.1
  • 27
    • 0036184745 scopus 로고    scopus 로고
    • Generating samples under a Wright-Fisher neutral model of genetic variation
    • Hudson,R.R. (2002) Generating samples under a Wright-Fisher neutral model of genetic variation. Bioinformatics, 18, 337-338.
    • (2002) Bioinformatics , vol.18 , pp. 337-338
    • Hudson, R.R.1
  • 28
    • 34249066206 scopus 로고    scopus 로고
    • Inference of population structure under a Dirichlet process model genetics
    • Huelsenbeck,J.P. and Andolfatto,P. (2007) Inference of population structure under a Dirichlet process model genetics. Genetics, 175, 1787-1802.
    • (2007) Genetics , vol.175 , pp. 1787-1802
    • Huelsenbeck, J.P.1    Andolfatto, P.2
  • 29
    • 0346338291 scopus 로고    scopus 로고
    • Generalized weighted Chinese restaurant process for species sampling mixture models
    • Ishawaran,H. and James,L.F. (2003) Generalized weighted Chinese restaurant process for species sampling mixture models. Stat. Sci. 13, 1211-1235.
    • (2003) Stat. Sci , vol.13 , pp. 1211-1235
    • Ishawaran, H.1    James, L.F.2
  • 30
    • 34547861256 scopus 로고    scopus 로고
    • CLUMPP: A cluster matching and permutation program for dealing with label switching and multimodality in analysis of population structure
    • Jakobsson,M. and Rosenberg,N.A. (2007) CLUMPP: A cluster matching and permutation program for dealing with label switching and multimodality in analysis of population structure. Bioinformatics, 23, 1801-1806.
    • (2007) Bioinformatics , vol.23 , pp. 1801-1806
    • Jakobsson, M.1    Rosenberg, N.A.2
  • 31
    • 22544479764 scopus 로고    scopus 로고
    • Markov chain Monte Carlo methods and the label switching problem in Bayesian mixture modelling
    • Jasra,C.C. et al. (2005) Markov chain Monte Carlo methods and the label switching problem in Bayesian mixture modelling. Stat. Sci., 20, 50-67.
    • (2005) Stat. Sci , vol.20 , pp. 50-67
    • Jasra, C.C.1
  • 33
    • 42549125549 scopus 로고    scopus 로고
    • Distinguishing past from present gene flow along and across a river: The case of the carnivorous marsupial (antechinus flavipes) on Southern floodplain
    • Lada,H. et al. (2007) Distinguishing past from present gene flow along and across a river: The case of the carnivorous marsupial (antechinus flavipes) on Southern floodplain. Conserv. Genet., 9, 569-580.
    • (2007) Conserv. Genet , vol.9 , pp. 569-580
    • Lada, H.1
  • 35
    • 0042926995 scopus 로고    scopus 로고
    • Discussion on statistical modelling and analysis of genetic data
    • Marchini,J. and Cardon,L.R. (2002) Discussion on statistical modelling and analysis of genetic data. J. R. Suit. Soc., ser. B, 64, 740-741.
    • (2002) J. R. Suit. Soc., ser. B , vol.64 , pp. 740-741
    • Marchini, J.1    Cardon, L.R.2
  • 36
    • 2442585696 scopus 로고    scopus 로고
    • (2OD4) The effects of human population structure on large genetic association studies
    • Marchini,J. et al. (2OD4) The effects of human population structure on large genetic association studies. Nat. Genet., 36 512-517.
    • Nat. Genet , vol.36 , pp. 512-517
    • Marchini, J.1
  • 38
    • 52949129144 scopus 로고    scopus 로고
    • Marin,J.M. et al. (2005) Handbook of Statistics, 25. Bayesian modelling and inference on mixtures of distributions. Elsevier-Sciences, 2005.
    • Marin,J.M. et al. (2005) Handbook of Statistics, Vol 25. Bayesian modelling and inference on mixtures of distributions. Elsevier-Sciences, 2005.
  • 39
    • 52949097650 scopus 로고    scopus 로고
    • Møller,J. (2003) (ed.) Spatial Statistics and Computational Methods 173 of Lecture Notes in Statistics. Springer Verlag.
    • Møller,J. (2003) (ed.) Spatial Statistics and Computational Methods Vol. 173 of Lecture Notes in Statistics. Springer Verlag.
  • 40
    • 33745612435 scopus 로고    scopus 로고
    • An efficient Markov chain Monte Carlo method for distributions with intractable normalising constants
    • Møller,J. et al. (2006) An efficient Markov chain Monte Carlo method for distributions with intractable normalising constants. Biometrika, 93, 451-458.
    • (2006) Biometrika , vol.93 , pp. 451-458
    • Møller, J.1
  • 41
    • 0036435078 scopus 로고    scopus 로고
    • Assessing population differentiation and isolation from single-nucleotide polymorphism data
    • Nicholson,G. et al. (2002) Assessing population differentiation and isolation from single-nucleotide polymorphism data. J. R. Stat. Soc., Ser. B, 64, 695-715.
    • (2002) J. R. Stat. Soc., Ser. B , vol.64 , pp. 695-715
    • Nicholson, G.1
  • 42
    • 0032051440 scopus 로고    scopus 로고
    • Maximum likelihood estimation of population divergence times and population phylogeneis under the infinite sites model
    • Nielsen,R. (1998) Maximum likelihood estimation of population divergence times and population phylogeneis under the infinite sites model. Evolution, 53, 143-151.
    • (1998) Evolution , vol.53 , pp. 143-151
    • Nielsen, R.1
  • 43
    • 0002231128 scopus 로고    scopus 로고
    • Genetics of fragmented populations of African buffalo (syncerus caffer) in South Africa
    • O'Ryan,C. et al. (1998) Genetics of fragmented populations of African buffalo (syncerus caffer) in South Africa. Anim. Conserv., 1, 85-94.
    • (1998) Anim. Conserv , vol.1 , pp. 85-94
    • O'Ryan, C.1
  • 44
    • 33646837193 scopus 로고    scopus 로고
    • The Gibbs and split-merge sampler for population mixture analysis from genetic data with incomplete baselines
    • Pella,J. and Masuda,M. (2006) The Gibbs and split-merge sampler for population mixture analysis from genetic data with incomplete baselines. Can. J. Fish. Aquat. Sci., 63, 576-596.
    • (2006) Can. J. Fish. Aquat. Sci , vol.63 , pp. 576-596
    • Pella, J.1    Masuda, M.2
  • 45
    • 33750971168 scopus 로고    scopus 로고
    • Ecological factors influence population genetic structure of european grey wolves
    • Pilot,M. et al. (2006) Ecological factors influence population genetic structure of european grey wolves. Mol. Ecol., 14, 4533-4553.
    • (2006) Mol. Ecol , vol.14 , pp. 4533-4553
    • Pilot, M.1
  • 47
    • 0034118493 scopus 로고    scopus 로고
    • Inference of population structure, using multilocus genotype data
    • Pritchard,J.K. et al. (2000) Inference of population structure, using multilocus genotype data. Genetics, 155, 945-959.
    • (2000) Genetics , vol.155 , pp. 945-959
    • Pritchard, J.K.1
  • 48
    • 52949110205 scopus 로고    scopus 로고
    • Pritchard,J.K et al, 2007 Documentation for Structure software: Version 2.2. Department of Human Genetic, University of Chicago/Department of Statistics, University of Oxford
    • Pritchard,J.K et al. (2007) Documentation for Structure software: Version 2.2. Department of Human Genetic, University of Chicago/Department of Statistics, University of Oxford.
  • 49
    • 0030221201 scopus 로고    scopus 로고
    • The sampling theory of neutral alleles in an island population of fluctuating size
    • Rannala,B. (1996) The sampling theory of neutral alleles in an island population of fluctuating size. Theor. Popul. Biol., 50, 91-104.
    • (1996) Theor. Popul. Biol , vol.50 , pp. 91-104
    • Rannala, B.1
  • 50
    • 0030005966 scopus 로고    scopus 로고
    • Estimating gene flow in island populations
    • Rannala,B. and Hartigan,J.A. (1996) Estimating gene flow in island populations. Genet. Res., 67, 147-158.
    • (1996) Genet. Res , vol.67 , pp. 147-158
    • Rannala, B.1    Hartigan, J.A.2
  • 51
    • 18244378520 scopus 로고    scopus 로고
    • On Bayesian analysis of mixtunes with an unknown number of components
    • Richardson,S. and Green,P.J. (1997) On Bayesian analysis of mixtunes with an unknown number of components. J. R. Stat. Soc., Ser. B, 59, 731-792.
    • (1997) J. R. Stat. Soc., Ser. B , vol.59 , pp. 731-792
    • Richardson, S.1    Green, P.J.2
  • 53
    • 0001764019 scopus 로고    scopus 로고
    • Measuring heterogeneity in forensic databases using hierarchical Bayes models
    • Roeder,K. et al. (1998) Measuring heterogeneity in forensic databases using hierarchical Bayes models. Biometrika, 95, 269-287.
    • (1998) Biometrika , vol.95 , pp. 269-287
    • Roeder, K.1
  • 54
    • 0037147189 scopus 로고    scopus 로고
    • Genetic structure of human populations
    • Rosenberg,N. et al. (2002) Genetic structure of human populations. Science, 298, 2981-2985.
    • (2002) Science , vol.298 , pp. 2981-2985
    • Rosenberg, N.1
  • 55
    • 33846909822 scopus 로고    scopus 로고
    • Defining population boundaries: Use of three Bayesian approaches with the microsatellite data from Brittish natterjack toads (buffo calamita)
    • Rowe,G. and Beebee,T.J.C. (2007) Defining population boundaries: Use of three Bayesian approaches with the microsatellite data from Brittish natterjack toads (buffo calamita). Mol. Ecol., 16, 795-796.
    • (2007) Mol. Ecol , vol.16 , pp. 795-796
    • Rowe, G.1    Beebee, T.J.C.2
  • 56
    • 0033027731 scopus 로고    scopus 로고
    • Inbreeding of bottlenecked butterfly populations: Estimation using the likelihood of changes in marker allele frequencies
    • Saccheri,I.J. et al. (1999) Inbreeding of bottlenecked butterfly populations: Estimation using the likelihood of changes in marker allele frequencies. Genetics, 151, 1053-1063.
    • (1999) Genetics , vol.151 , pp. 1053-1063
    • Saccheri, I.J.1
  • 57
    • 0001609472 scopus 로고
    • A genetic mixture analysis for use with incomplete source population-data
    • Smouse,P.E. et al. (1990) A genetic mixture analysis for use with incomplete source population-data. Can. J. Fish. Aquat. Sci., 47, 620-634.
    • (1990) Can. J. Fish. Aquat. Sci , vol.47 , pp. 620-634
    • Smouse, P.E.1
  • 58
    • 0034354410 scopus 로고    scopus 로고
    • Dealing with label-switching in mixture models
    • Stephens,M. (2000) Dealing with label-switching in mixture models. J. R. Stat. Soc., Ser B, 62, 795-809.
    • (2000) J. R. Stat. Soc., Ser B , vol.62 , pp. 795-809
    • Stephens, M.1
  • 59
    • 0000228370 scopus 로고    scopus 로고
    • Discussion of the paper by Richardson and Green "On Bayesian analysis of mixtures with an unknown number of components
    • Stephens,M. (1997) Discussion of the paper by Richardson and Green "On Bayesian analysis of mixtures with an unknown number of components". J. R. Stat. Soc., Ser. B, 59, 768-769.
    • (1997) J. R. Stat. Soc., Ser. B , vol.59 , pp. 768-769
    • Stephens, M.1
  • 60
    • 33645859299 scopus 로고    scopus 로고
    • What is a population? An empirical evaluation of some genetic methods for indentifying the number of gene pools and their degree of connectivity
    • Waples,R.S. and Gaggiotti,O. (2006) What is a population? An empirical evaluation of some genetic methods for indentifying the number of gene pools and their degree of connectivity. Mol. Ecol., 15, 1419-1439.
    • (2006) Mol. Ecol , vol.15 , pp. 1419-1439
    • Waples, R.S.1    Gaggiotti, O.2
  • 61
    • 0001771498 scopus 로고
    • Evolution in mendelian populations
    • Wright,S. (1931) Evolution in mendelian populations. Genetics, 16, 97-159.
    • (1931) Genetics , vol.16 , pp. 97-159
    • Wright, S.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.