메뉴 건너뛰기




Volumn 122, Issue , 2018, Pages 149-157

Inference on admixture fractions in a mechanistic model of recurrent admixture

Author keywords

Bayesian computation; Introgression parameters; Population genetics; Recurrent admixture; Stationary distribution

Indexed keywords

BAYESIAN ANALYSIS; COMPUTER SIMULATION; GENOME; INTROGRESSION; PARAMETERIZATION; POPULATION GENETICS;

EID: 85045912481     PISSN: 00405809     EISSN: 10960325     Source Type: Journal    
DOI: 10.1016/j.tpb.2018.03.006     Document Type: Article
Times cited : (7)

References (67)
  • 1
    • 33748417598 scopus 로고    scopus 로고
    • Phylogenetics: Fisher's markers of admixture
    • Baird, S.J., Phylogenetics: Fisher's markers of admixture. Heredity 97 (2006), 81–83.
    • (2006) Heredity , vol.97 , pp. 81-83
    • Baird, S.J.1
  • 2
    • 0031658010 scopus 로고    scopus 로고
    • Inferring admixture proportions from molecular data
    • Bertorelle, G., Excoffier, L., Inferring admixture proportions from molecular data. Mol. Biol. Evol. 15 (1998), 1298–1311.
    • (1998) Mol. Biol. Evol. , vol.15 , pp. 1298-1311
    • Bertorelle, G.1    Excoffier, L.2
  • 4
    • 55549099872 scopus 로고    scopus 로고
    • Admixture as the basis for genetic mapping
    • Buerkle, C.A., Lexer, C., Admixture as the basis for genetic mapping. Trends Ecol. Evol. 23 (2008), 686–694.
    • (2008) Trends Ecol. Evol. , vol.23 , pp. 686-694
    • Buerkle, C.A.1    Lexer, C.2
  • 5
    • 0004181201 scopus 로고
    • The Genetics of Human Populations, Vol. Xvi
    • W. H. Freeman San Francisco, U.S.A
    • Cavalli-Sforza, L.L., Bodmer, W.F., The Genetics of Human Populations, Vol. Xvi. 1971, W. H. Freeman, San Francisco, U.S.A, 965.
    • (1971) , pp. 965
    • Cavalli-Sforza, L.L.1    Bodmer, W.F.2
  • 6
    • 0024209791 scopus 로고
    • Admixture as a tool for finding linked genes and detecting that difference from allelic association between loci
    • Chakraborty, R., Weiss, K.M., Admixture as a tool for finding linked genes and detecting that difference from allelic association between loci. Proc. Natl. Acad. Sci. USA 85 (1988), 9119–9123.
    • (1988) Proc. Natl. Acad. Sci. USA , vol.85 , pp. 9119-9123
    • Chakraborty, R.1    Weiss, K.M.2
  • 7
    • 0034918729 scopus 로고    scopus 로고
    • Estimation of admixture proportions: a likelihood-based approach using Markov chain Monte Carlo
    • Chikhi, L., Bruford, M.W., Beaumont, M.A., Estimation of admixture proportions: a likelihood-based approach using Markov chain Monte Carlo. Genetics 158 (2001), 1347–1362.
    • (2001) Genetics , vol.158 , pp. 1347-1362
    • Chikhi, L.1    Bruford, M.W.2    Beaumont, M.A.3
  • 8
    • 84940750287 scopus 로고    scopus 로고
    • Causes and Consequences of Human Migration : An Evolutionary Perspective, Vol. Xv
    • Cambridge University Press Cambridge U.K
    • Crawford, M.H., Campbell, B.C., Causes and Consequences of Human Migration : An Evolutionary Perspective, Vol. Xv. 2012, Cambridge University Press, Cambridge U.K, 550.
    • (2012) , pp. 550
    • Crawford, M.H.1    Campbell, B.C.2
  • 9
    • 0029075560 scopus 로고
    • The transmission/disequilibrium test: history, subdivision, and admixture
    • Ewens, W.J., Spielman, R.S., The transmission/disequilibrium test: history, subdivision, and admixture. Am. J. Hum. Genet. 57 (1995), 455–464.
    • (1995) Am. J. Hum. Genet. , vol.57 , pp. 455-464
    • Ewens, W.J.1    Spielman, R.S.2
  • 10
    • 11944257192 scopus 로고    scopus 로고
    • Evolution driven by differential dispersal within a wild bird population
    • Garant, D., Kruuk, L.E., Wilkin, T.A., McCleery, R.H., Sheldon, B.C., Evolution driven by differential dispersal within a wild bird population. Nature 433 (2005), 60–65.
    • (2005) Nature , vol.433 , pp. 60-65
    • Garant, D.1    Kruuk, L.E.2    Wilkin, T.A.3    McCleery, R.H.4    Sheldon, B.C.5
  • 11
    • 84941206474 scopus 로고    scopus 로고
    • Beyond 2/3 and 1/3: The complex signatures of sex-biased admixture on the X chromosome
    • Goldberg, A., Rosenberg, N.A., Beyond 2/3 and 1/3: The complex signatures of sex-biased admixture on the X chromosome. Genetics 201 (2015), 263–279.
    • (2015) Genetics , vol.201 , pp. 263-279
    • Goldberg, A.1    Rosenberg, N.A.2
  • 12
    • 84908657088 scopus 로고    scopus 로고
    • Autosomal admixture levels are informative about sex bias in admixed populations
    • Goldberg, A., Verdu, P., Rosenberg, N.A., Autosomal admixture levels are informative about sex bias in admixed populations. Genetics 198 (2014), 1209–1229.
    • (2014) Genetics , vol.198 , pp. 1209-1229
    • Goldberg, A.1    Verdu, P.2    Rosenberg, N.A.3
  • 13
    • 84862587557 scopus 로고    scopus 로고
    • Population genetics models of local ancestry
    • Gravel, S., Population genetics models of local ancestry. Genetics 191 (2012), 607–619.
    • (2012) Genetics , vol.191 , pp. 607-619
    • Gravel, S.1
  • 15
    • 73349141378 scopus 로고    scopus 로고
    • Inferring introduction routes of invasive species using approximate Bayesian computation on microsatellite data
    • Guillemaud, T., Beaumont, M.A., Ciosi, M., Cornuet, J.M., Estoup, A., Inferring introduction routes of invasive species using approximate Bayesian computation on microsatellite data. Heredity 104 (2010), 88–99.
    • (2010) Heredity , vol.104 , pp. 88-99
    • Guillemaud, T.1    Beaumont, M.A.2    Ciosi, M.3    Cornuet, J.M.4    Estoup, A.5
  • 16
    • 31144443691 scopus 로고    scopus 로고
    • On the formula for admixture linkage disequilibrium
    • Guo, W., Fung, W.K., Shi, N., Guo, J., On the formula for admixture linkage disequilibrium. Hum. Hered. 60 (2005), 177–180.
    • (2005) Hum. Hered. , vol.60 , pp. 177-180
    • Guo, W.1    Fung, W.K.2    Shi, N.3    Guo, J.4
  • 17
    • 0028519058 scopus 로고
    • Purging inbreeding depression and the probability of extinction: full-sib mating
    • Hedrick, P.W., Purging inbreeding depression and the probability of extinction: full-sib mating. Heredity 73 (1994), 363–372.
    • (1994) Heredity , vol.73 , pp. 363-372
    • Hedrick, P.W.1
  • 19
    • 84908218776 scopus 로고    scopus 로고
    • Contrasted invasion processes imprint the genetic structure of an invasive scale insect across southern europe
    • Kerdelhue, C., Boivin, T., Burban, C., Contrasted invasion processes imprint the genetic structure of an invasive scale insect across southern europe. Heredity 113 (2014), 390–400.
    • (2014) Heredity , vol.113 , pp. 390-400
    • Kerdelhue, C.1    Boivin, T.2    Burban, C.3
  • 21
    • 26444479778 scopus 로고
    • Optimization by simulated annealing
    • Kirkpatrick, S., Gelatt Jr, C.D., Vecchi, M.P., Optimization by simulated annealing. Science 220 (1983), 671–680.
    • (1983) Science , vol.220 , pp. 671-680
    • Kirkpatrick, S.1    Gelatt, C.D.2    Vecchi, M.P.3
  • 22
    • 84857477622 scopus 로고    scopus 로고
    • Inference of population structure using dense haplotype data
    • Lawson, D.J., Hellenthal, G., Myers, S., Falush, D., Inference of population structure using dense haplotype data. PLos Genet., 8, 2012, e1002453.
    • (2012) PLos Genet. , vol.8 , pp. e1002453
    • Lawson, D.J.1    Hellenthal, G.2    Myers, S.3    Falush, D.4
  • 24
    • 84913563263 scopus 로고    scopus 로고
    • Understanding admixture fraction.
    • Liang, M., Nielsen, R., 2014. Understanding admixture fraction. http://dx.doi.org/10.1101/008078.
    • (2014)
    • Liang, M.1    Nielsen, R.2
  • 25
    • 84892372058 scopus 로고    scopus 로고
    • Efficient moment-based inference of admixture parameters and sources of gene flow
    • Lipson, M., Loh, P.R., Levin, A., Reich, D., Patterson, N., Berger, B., Efficient moment-based inference of admixture parameters and sources of gene flow. Mol. Biol. Evol. 30 (2013), 1788–1802.
    • (2013) Mol. Biol. Evol. , vol.30 , pp. 1788-1802
    • Lipson, M.1    Loh, P.R.2    Levin, A.3    Reich, D.4    Patterson, N.5    Berger, B.6
  • 26
  • 27
    • 79953176321 scopus 로고    scopus 로고
    • Detecting directional selection in the presence of recent admixture in african-americans
    • Lohmueller, K.E., Bustamante, C.D., Clark, A.G., Detecting directional selection in the presence of recent admixture in african-americans. Genetics 187 (2011), 823–835.
    • (2011) Genetics , vol.187 , pp. 823-835
    • Lohmueller, K.E.1    Bustamante, C.D.2    Clark, A.G.3
  • 28
    • 0026030165 scopus 로고
    • The genetic structure of admixed populations
    • Long, J.C., The genetic structure of admixed populations. Genetics 127 (1991), 417–428.
    • (1991) Genetics , vol.127 , pp. 417-428
    • Long, J.C.1
  • 32
  • 36
    • 84869026948 scopus 로고    scopus 로고
    • Inference of population splits and mixtures from genome-wide allele frequency data
    • Pickrell, J.K., Pritchard, J.K., Inference of population splits and mixtures from genome-wide allele frequency data. PLos Genet., 8, 2012, e1002967.
    • (2012) PLos Genet. , vol.8 , pp. e1002967
    • Pickrell, J.K.1    Pritchard, J.K.2
  • 37
    • 62449182499 scopus 로고    scopus 로고
    • Inference of historical changes in migration rate from the lengths of migrant tracts
    • Pool, J.E., Nielsen, R., Inference of historical changes in migration rate from the lengths of migrant tracts. Genetics 181 (2009), 711–719.
    • (2009) Genetics , vol.181 , pp. 711-719
    • Pool, J.E.1    Nielsen, R.2
  • 40
    • 27144437387 scopus 로고    scopus 로고
    • Will admixture mapping work to find disease genes?
    • Reich, D., Patterson, N., Will admixture mapping work to find disease genes?. Philos. Trans. R. Soc. B 360 (2005), 1605–1607.
    • (2005) Philos. Trans. R. Soc. B , vol.360 , pp. 1605-1607
    • Reich, D.1    Patterson, N.2
  • 42
    • 0033038687 scopus 로고    scopus 로고
    • The influence of population size and isolation on gene flow by pollen in Silene Alba
    • Richards, C.M., Church, S., McCauley, D.E., The influence of population size and isolation on gene flow by pollen in Silene Alba. Evolution 53 (1999), 63–73.
    • (1999) Evolution , vol.53 , pp. 63-73
    • Richards, C.M.1    Church, S.2    McCauley, D.E.3
  • 46
    • 22944467804 scopus 로고    scopus 로고
    • Mapping by admixture linkage disequilibrium: advances, limitations and guidelines
    • Smith, M.W., O'Brien, S.J., Mapping by admixture linkage disequilibrium: advances, limitations and guidelines. Nature Rev. Genet. 6 (2005), 623–632.
    • (2005) Nature Rev. Genet. , vol.6 , pp. 623-632
    • Smith, M.W.1    O'Brien, S.J.2
  • 47
    • 79960628454 scopus 로고    scopus 로고
    • On the size distribution of private microsatellite alleles
    • Szpiech, Z.A., Rosenberg, N.A., On the size distribution of private microsatellite alleles. Theor. Popul. Biol. 80 (2011), 100–113.
    • (2011) Theor. Popul. Biol. , vol.80 , pp. 100-113
    • Szpiech, Z.A.1    Rosenberg, N.A.2
  • 49
    • 33745228973 scopus 로고    scopus 로고
    • Reconstructing genetic ancestry blocks in admixed individuals
    • Tang, H., Coram, M., Wang, P., Zhu, X., Risch, N., Reconstructing genetic ancestry blocks in admixed individuals. Amer. J. Human Genet. 79 (2006), 1–12.
    • (2006) Amer. J. Human Genet. , vol.79 , pp. 1-12
    • Tang, H.1    Coram, M.2    Wang, P.3    Zhu, X.4    Risch, N.5
  • 50
    • 17644402806 scopus 로고    scopus 로고
    • Estimation of individual admixture: analytical and study design considerations
    • Tang, H., Peng, J., Wang, P., Risch, N.J., Estimation of individual admixture: analytical and study design considerations. Genet. Epidemiol. 28 (2005), 289–301.
    • (2005) Genet. Epidemiol. , vol.28 , pp. 289-301
    • Tang, H.1    Peng, J.2    Wang, P.3    Risch, N.J.4
  • 52
    • 83455198491 scopus 로고    scopus 로고
    • A general mechanistic model for admixture histories of admixed populations
    • Verdu, P., Rosenberg, N.A., A general mechanistic model for admixture histories of admixed populations. Genetics 189 (2011), 1413–1426.
    • (2011) Genetics , vol.189 , pp. 1413-1426
    • Verdu, P.1    Rosenberg, N.A.2
  • 53
    • 2542460364 scopus 로고    scopus 로고
    • Introduction strategies put to the test: Local adaptation versus heterosis
    • Vergeer, P., Sonderen, E., Ouborg, N.J., Introduction strategies put to the test: Local adaptation versus heterosis. Conserv. Biol. 18 (2004), 812–821.
    • (2004) Conserv. Biol. , vol.18 , pp. 812-821
    • Vergeer, P.1    Sonderen, E.2    Ouborg, N.J.3
  • 54
    • 0036201248 scopus 로고    scopus 로고
    • A model-based method for identifying species hybrids using multilocus genetic data
    • Anderson, E., Thompson, E., A model-based method for identifying species hybrids using multilocus genetic data. Genetics 160 (2002), 1217–1229.
    • (2002) Genetics , vol.160 , pp. 1217-1229
    • Anderson, E.1    Thompson, E.2
  • 55
    • 0036964474 scopus 로고    scopus 로고
    • Approximate Bayesian computation in population genetics
    • Beaumont, M.A., Zhang, W., Balding, D.J., Approximate Bayesian computation in population genetics. Genetics 162 (2002), 2025–2035.
    • (2002) Genetics , vol.162 , pp. 2025-2035
    • Beaumont, M.A.1    Zhang, W.2    Balding, D.J.3
  • 56
    • 0004401249 scopus 로고    scopus 로고
    • Foundations of Mathematical Genetics
    • second ed. Cambridge University Press Cambridge U.K
    • Edwards, A.F.W., Foundations of Mathematical Genetics. second ed., 2000, Cambridge University Press, Cambridge U.K, 40–42.
    • (2000) , pp. 40-42
    • Edwards, A.F.W.1
  • 57
    • 0003751736 scopus 로고    scopus 로고
    • Mathematical Population Genetics: I. Theoretical Introduction
    • second ed. Springer London U.K
    • Ewens, W., Mathematical Population Genetics: I. Theoretical Introduction. second ed., 2004, Springer, London U.K.
    • (2004)
    • Ewens, W.1
  • 58
    • 0041817568 scopus 로고    scopus 로고
    • Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies
    • Falush, D., Stephens, M., Pritchard, J.K., Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies. Genetics 164 (2003), 1567–1587.
    • (2003) Genetics , vol.164 , pp. 1567-1587
    • Falush, D.1    Stephens, M.2    Pritchard, J.K.3
  • 59
    • 0036568655 scopus 로고    scopus 로고
    • Inbreeding effects in wild populations
    • Keller, L.F., Waller, D.M., Inbreeding effects in wild populations. Trends Ecol. Evol. 17 (2002), 230–241.
    • (2002) Trends Ecol. Evol. , vol.17 , pp. 230-241
    • Keller, L.F.1    Waller, D.M.2
  • 62
    • 33846006923 scopus 로고    scopus 로고
    • Population structure and eigenanalysis
    • Patterson, N., Price, A.L., Reich, D., Population structure and eigenanalysis. PLos Genet., 2, 2006, e190.
    • (2006) PLos Genet. , vol.2 , pp. e190
    • Patterson, N.1    Price, A.L.2    Reich, D.3
  • 63
    • 0034118493 scopus 로고    scopus 로고
    • Inference of population structure using multilocus genotype data
    • Pritchard, J.K., Stephens, M., Donnelly, P., Inference of population structure using multilocus genotype data. Genetics 155 (2000), 945–959.
    • (2000) Genetics , vol.155 , pp. 945-959
    • Pritchard, J.K.1    Stephens, M.2    Donnelly, P.3
  • 65
    • 0002576284 scopus 로고
    • Methods of analysis of the genetic composition of a hybrid population
    • Roberts, D.F., Hiorns, R.W., Methods of analysis of the genetic composition of a hybrid population. Hum. Biol. 37 (1965), 38–43.
    • (1965) Hum. Biol. , vol.37 , pp. 38-43
    • Roberts, D.F.1    Hiorns, R.W.2
  • 66
    • 0031014291 scopus 로고    scopus 로고
    • Inferring coalescence times from DNA sequence data
    • Tavaré S., Balding, D.J., Griffiths, R.C., Donnelly, P., Inferring coalescence times from DNA sequence data. Genetics 145 (1997), 505–518.
    • (1997) Genetics , vol.145 , pp. 505-518
    • Tavaré, S.1    Balding, D.J.2    Griffiths, R.C.3    Donnelly, P.4
  • 67
    • 0038124411 scopus 로고    scopus 로고
    • Maximum-likelihood estimation of admixture proportions from genetic data
    • Wang, J., Maximum-likelihood estimation of admixture proportions from genetic data. Genetics 164 (2003), 747–765.
    • (2003) Genetics , vol.164 , pp. 747-765
    • Wang, J.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.