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Volumn 73, Issue 3, 2011, Pages 459-494

The Site-Frequency Spectrum of Linked Sites

Author keywords

Diffusion approximation; Green's function; Site frequency spectrum; Wright Fisher model

Indexed keywords

ARTICLE; BIOLOGICAL MODEL; COMPUTER SIMULATION; GENE FREQUENCY; GENETIC DRIFT; METHODOLOGY; POPULATION GENETICS;

EID: 79952575202     PISSN: 00928240     EISSN: 15229602     Source Type: Journal    
DOI: 10.1007/s11538-010-9534-3     Document Type: Article
Times cited : (6)

References (45)
  • 2
    • 10844238913 scopus 로고    scopus 로고
    • Maximum-likelihood estimation of demographic parameters using the frequency spectrum of unlinked single-nucleotide polymorphisms
    • Adams, A., Hudson, R., 2004. Maximum-likelihood estimation of demographic parameters using the frequency spectrum of unlinked single-nucleotide polymorphisms. Genetics168(3), 1699.
    • (2004) Genetics , vol.168 , Issue.3 , pp. 1699
    • Adams, A.1    Hudson, R.2
  • 3
    • 0034344297 scopus 로고    scopus 로고
    • A transition function expansion for a diffusion model with selection
    • Barbour, A., Ethier, S., Griffiths, R., 2000. A transition function expansion for a diffusion model with selection. Ann. Appl. Probab., 123-162.
    • (2000) Ann. Appl. Probab. , pp. 123-162
    • Barbour, A.1    Ethier, S.2    Griffiths, R.3
  • 4
    • 34547708461 scopus 로고    scopus 로고
    • Exact solution of the multi-allelic diffusion model
    • Baxter, G., Blythe, R., McKane, A., 2007. Exact solution of the multi-allelic diffusion model. Math. Biosci. 209(1), 124-170.
    • (2007) Math. Biosci. , vol.209 , Issue.1 , pp. 124-170
    • Baxter, G.1    Blythe, R.2    McKane, A.3
  • 5
    • 0029036829 scopus 로고
    • The hitchhiking effect on the site frequency spectrum of DNA polymorphisms
    • Braverman, J., Hudson, R., Kaplan, N., Langley, C., Stephan, W., 1995. The hitchhiking effect on the site frequency spectrum of DNA polymorphisms. Genetics140(2), 783.
    • (1995) Genetics , vol.140 , Issue.2 , pp. 783
    • Braverman, J.1    Hudson, R.2    Kaplan, N.3    Langley, C.4    Stephan, W.5
  • 6
    • 0035691964 scopus 로고    scopus 로고
    • Directional selection and the site-frequency spectrum
    • Bustamante, C., Wakeley, J., Sawyer, S., Hartl, D., 2001. Directional selection and the site-frequency spectrum. Genetics159(4), 1779.
    • (2001) Genetics , vol.159 , Issue.4 , pp. 1779
    • Bustamante, C.1    Wakeley, J.2    Sawyer, S.3    Hartl, D.4
  • 7
    • 34250717529 scopus 로고    scopus 로고
    • Stepping-stone spatial structure causes slow decay of linkage disequilibrium and shifts the site frequency spectrum
    • De, A., Durrett, R., 2007. Stepping-stone spatial structure causes slow decay of linkage disequilibrium and shifts the site frequency spectrum. Genetics176(2), 969.
    • (2007) Genetics , vol.176 , Issue.2 , pp. 969
    • De, A.1    Durrett, R.2
  • 10
    • 67349130790 scopus 로고    scopus 로고
    • A coalescent dual process in a Moran model with genic selection
    • Etheridge, A., Griffiths, R., 2009. A coalescent dual process in a Moran model with genic selection. Theor. Popul. Biol.
    • (2009) Theor. Popul. Biol.
    • Etheridge, A.1    Griffiths, R.2
  • 11
    • 33750971421 scopus 로고    scopus 로고
    • Non-equilibrium theory of the allele frequency spectrum
    • Evans, S., Shvets, Y., Slatkin, M., 2007. Non-equilibrium theory of the allele frequency spectrum. Theor. Popul. Biol. 71(1), 109-119.
    • (2007) Theor. Popul. Biol. , vol.71 , Issue.1 , pp. 109-119
    • Evans, S.1    Shvets, Y.2    Slatkin, M.3
  • 13
    • 0033911640 scopus 로고    scopus 로고
    • Hitchhiking under positive Darwinian selection
    • Fay, J., Wu, C., 2000. Hitchhiking under positive Darwinian selection. Genetics155(3), 1405.
    • (2000) Genetics , vol.155 , Issue.3 , pp. 1405
    • Fay, J.1    Wu, C.2
  • 14
    • 0001122789 scopus 로고
    • The distribution of gene ratios for rare mutations
    • Fisher, R., 1930. The distribution of gene ratios for rare mutations. In: Proc. R. Soc. Edinb., vol. 50, pp. 204-219.
    • (1930) Proc. R. Soc. Edinb. , vol.50 , pp. 204-219
    • Fisher, R.1
  • 15
    • 0029391126 scopus 로고
    • Statistical properties of segregating sites
    • Fu, Y., 1995. Statistical properties of segregating sites. Theor. Popul. Biol. 48(2), 172-197.
    • (1995) Theor. Popul. Biol. , vol.48 , Issue.2 , pp. 172-197
    • Fu, Y.1
  • 16
    • 0002615334 scopus 로고
    • A transition density expansion for a multi-allele diffusion model
    • Griffiths, R., 1979. A transition density expansion for a multi-allele diffusion model. Adv. Appl. Probab. 11(2), 310-325.
    • (1979) Adv. Appl. Probab. , vol.11 , Issue.2 , pp. 310-325
    • Griffiths, R.1
  • 17
    • 0345274562 scopus 로고    scopus 로고
    • The frequency spectrum of a mutation, and its age, in a general diffusion model
    • Griffiths, R., 2003. The frequency spectrum of a mutation, and its age, in a general diffusion model. Theor. Popul. Biol. 64(2), 241-251.
    • (2003) Theor. Popul. Biol. , vol.64 , Issue.2 , pp. 241-251
    • Griffiths, R.1
  • 18
    • 0020712744 scopus 로고
    • Simulating allele frequencies in a population and the genetic differentiation of populations under mutation pressure
    • Griffiths, R., Li, W., 1983. Simulating allele frequencies in a population and the genetic differentiation of populations under mutation pressure. Theor. Popul. Biol. 23(1), 19.
    • (1983) Theor. Popul. Biol. , vol.23 , Issue.1 , pp. 19
    • Griffiths, R.1    Li, W.2
  • 19
    • 0001301442 scopus 로고    scopus 로고
    • The age of a mutation in a general coalescent tree
    • Griffiths, R., Tavaré, S., 1998. The age of a mutation in a general coalescent tree. Stoch. Models14(1), 273-295.
    • (1998) Stoch. Models , vol.14 , Issue.1 , pp. 273-295
    • Griffiths, R.1    Tavaré, S.2
  • 20
    • 0013979181 scopus 로고    scopus 로고
    • The effect of linkage on limits to artificial selection
    • Hill, W., Robertson, A., 2009. The effect of linkage on limits to artificial selection. Genet. Res. 8(03), 269-294.
    • (2009) Genet. Res. , vol.8 , Issue.3 , pp. 269-294
    • Hill, W.1    Robertson, A.2
  • 22
    • 0036189827 scopus 로고    scopus 로고
    • Detecting a local signature of genetic hitchhiking along a recombining chromosome
    • Kim, Y., Stephan, W., 2002. Detecting a local signature of genetic hitchhiking along a recombining chromosome. Genetics160(2), 765.
    • (2002) Genetics , vol.160 , Issue.2 , pp. 765
    • Kim, Y.1    Stephan, W.2
  • 23
    • 0041193562 scopus 로고
    • Random genetic drift in multi-allelic locus
    • Kimura, M., 1955. Random genetic drift in multi-allelic locus. Evolution9(4), 419-435.
    • (1955) Evolution , vol.9 , Issue.4 , pp. 419-435
    • Kimura, M.1
  • 24
    • 0039001431 scopus 로고
    • Random genetic drift in a tri-allelic locus; exact solution with a continuous model
    • Kimura, M., 1956. Random genetic drift in a tri-allelic locus; exact solution with a continuous model. Biometrics12(1), 57-66.
    • (1956) Biometrics , vol.12 , Issue.1 , pp. 57-66
    • Kimura, M.1
  • 25
    • 0000660047 scopus 로고
    • Diffusion models in population genetics
    • Kimura, M., 1964. Diffusion models in population genetics. J. Appl. Probab. 1(2), 177-232.
    • (1964) J. Appl. Probab. , vol.1 , Issue.2 , pp. 177-232
    • Kimura, M.1
  • 26
    • 0014494672 scopus 로고
    • The number of heterozygous nucleotide sites maintained in a finite population due to steady flux of mutations
    • Kimura, M., 1969. The number of heterozygous nucleotide sites maintained in a finite population due to steady flux of mutations. Genetics61(4), 893.
    • (1969) Genetics , vol.61 , Issue.4 , pp. 893
    • Kimura, M.1
  • 27
    • 0017725107 scopus 로고
    • Maintenance of genetic variability under mutation and selection pressures in population
    • Li, W., 1977. Maintenance of genetic variability under mutation and selection pressures in population. Proc. Natl. Acad. Sci. USA74(6), 2509-2513.
    • (1977) Proc. Natl. Acad. Sci. USA , vol.74 , Issue.6 , pp. 2509-2513
    • Li, W.1
  • 28
    • 0016754761 scopus 로고
    • Loss of variability at one locus in a finite population
    • Littler, R., 1975. Loss of variability at one locus in a finite population. Math. Biosci. 25(1-2), 151-163.
    • (1975) Math. Biosci. , vol.25 , Issue.1-2 , pp. 151-163
    • Littler, R.1
  • 29
    • 0016692199 scopus 로고
    • Transition densities for neutral multi-allele diffusion models
    • Littler, R., Fackerell, E., 1975. Transition densities for neutral multi-allele diffusion models. Biometrics31(1), 117-123.
    • (1975) Biometrics , vol.31 , Issue.1 , pp. 117-123
    • Littler, R.1    Fackerell, E.2
  • 30
    • 1642282195 scopus 로고    scopus 로고
    • The allele frequency spectrum in genome-wide human variation data reveals signals of differential demographic history in three large world populations
    • Marth, G., Czabarka, E., Murvai, J., Sherry, S., 2004. The allele frequency spectrum in genome-wide human variation data reveals signals of differential demographic history in three large world populations. Genetics166(1), 351.
    • (2004) Genetics , vol.166 , Issue.1 , pp. 351
    • Marth, G.1    Czabarka, E.2    Murvai, J.3    Sherry, S.4
  • 31
    • 0016629918 scopus 로고
    • The bottleneck effect and genetic variability in populations
    • Nei, M., Maruyama, T., Chakraborty, R., 1975. The bottleneck effect and genetic variability in populations. Evolution29(1), 1-10.
    • (1975) Evolution , vol.29 , Issue.1 , pp. 1-10
    • Nei, M.1    Maruyama, T.2    Chakraborty, R.3
  • 32
    • 29444452921 scopus 로고    scopus 로고
    • Molecular signatures of natural selection
    • Nielsen, R., 2005. Molecular signatures of natural selection. Annu. Rev. Genet. 39, 197-218.
    • (2005) Annu. Rev. Genet. , vol.39 , pp. 197-218
    • Nielsen, R.1
  • 33
    • 0014569408 scopus 로고
    • Linkage disequilibrium at steady state determined by random genetic drift and recurrent mutation
    • Ohta, T., Kimura, M., 1969. Linkage disequilibrium at steady state determined by random genetic drift and recurrent mutation. Genetics63(1), 229.
    • (1969) Genetics , vol.63 , Issue.1 , pp. 229
    • Ohta, T.1    Kimura, M.2
  • 34
    • 0141566652 scopus 로고    scopus 로고
    • New explicit expressions for relative frequencies of single-nucleotide polymorphisms with application to statistical inference on population growth
    • Polanski, A., Kimmel, M., 2003. New explicit expressions for relative frequencies of single-nucleotide polymorphisms with application to statistical inference on population growth. Genetics165(1), 427.
    • (2003) Genetics , vol.165 , Issue.1 , pp. 427
    • Polanski, A.1    Kimmel, M.2
  • 35
    • 0036196885 scopus 로고    scopus 로고
    • The signature of positive selection at randomly chosen loci
    • Przeworski, M., 2002. The signature of positive selection at randomly chosen loci. Genetics160(3), 1179.
    • (2002) Genetics , vol.160 , Issue.3 , pp. 1179
    • Przeworski, M.1
  • 36
    • 0035107520 scopus 로고    scopus 로고
    • Recombination and the frequency spectrum in Drosophila melanogaster and Drosophila simulans
    • Przeworski, M., Wall, J., Andolfatto, P., 2001. Recombination and the frequency spectrum in Drosophila melanogaster and Drosophila simulans. Mol. Biol. Evol. 18(3), 291.
    • (2001) Mol. Biol. Evol. , vol.18 , Issue.3 , pp. 291
    • Przeworski, M.1    Wall, J.2    Andolfatto, P.3
  • 37
    • 0004258932 scopus 로고
    • Cambridge: Cambridge University Press
    • Roach, G., 1982. Green's Functions. Cambridge University Press, Cambridge.
    • (1982) Green's Functions
    • Roach, G.1
  • 38
    • 0026460082 scopus 로고
    • Population genetics of polymorphism and divergence
    • Sawyer, S., Hartl, D., 1992. Population genetics of polymorphism and divergence. Genetics132(4), 1161.
    • (1992) Genetics , vol.132 , Issue.4 , pp. 1161
    • Sawyer, S.1    Hartl, D.2
  • 39
    • 84972578789 scopus 로고
    • Equations differentielles provenant de la genetique des populations
    • Shimakura, N., 1977. Equations differentielles provenant de la genetique des populations. Tohoku Math. J. 29, 287.
    • (1977) Tohoku Math. J. , vol.29 , pp. 287
    • Shimakura, N.1
  • 40
    • 0024762773 scopus 로고
    • The effect of change in population size on DNA polymorphism
    • Tajima, F., 1989. The effect of change in population size on DNA polymorphism. Genetics123(3), 597.
    • (1989) Genetics , vol.123 , Issue.3 , pp. 597
    • Tajima, F.1
  • 41
    • 0021514720 scopus 로고
    • Line-of-descent and genealogical processes, and their applications in population genetics models
    • Tavaré, S., 1984. Line-of-descent and genealogical processes, and their applications in population genetics models. Theor. Popul. Biol. 26(2), 119-164.
    • (1984) Theor. Popul. Biol. , vol.26 , Issue.2 , pp. 119-164
    • Tavaré, S.1
  • 42
    • 0035205317 scopus 로고    scopus 로고
    • The discovery of single-nucleotide polymorphisms and inferences about human demographic history
    • Wakeley, J., Nielsen, R., Liu-Cordero, S., Ardlie, K., 2001. The discovery of single-nucleotide polymorphisms and inferences about human demographic history. Am. J. Hum. Genet. 69(6), 1332-1347.
    • (2001) Am. J. Hum. Genet. , vol.69 , Issue.6 , pp. 1332-1347
    • Wakeley, J.1    Nielsen, R.2    Liu-Cordero, S.3    Ardlie, K.4
  • 43
    • 0017642207 scopus 로고
    • Heterosis or neutrality?
    • Watterson, G., 1977. Heterosis or neutrality? Genetics85(4), 789.
    • (1977) Genetics , vol.85 , Issue.4 , pp. 789
    • Watterson, G.1
  • 44
    • 0001111819 scopus 로고
    • The distribution of gene frequencies under irreversible mutation
    • Wright, S., 1938. The distribution of gene frequencies under irreversible mutation. Proc. Natl. Acad. Sci. USA24(7), 253.
    • (1938) Proc. Natl. Acad. Sci. USA , vol.24 , Issue.7 , pp. 253
    • Wright, S.1
  • 45
    • 0001530804 scopus 로고
    • Statistical genetics and evolution
    • Wright, S., 1942. Statistical genetics and evolution. Bull. Am. Math. Soc. 48(4), 223-246.
    • (1942) Bull. Am. Math. Soc. , vol.48 , Issue.4 , pp. 223-246
    • Wright, S.1


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