-
1
-
-
8844227502
-
Population history and natural selection shape patterns of genetic variation in 132 genes
-
Akey JM, Eberle MA, Rieder MJ, Carlson CS, Shriver MD, Nickerson DA, Kruglyak L. 2004. Population history and natural selection shape patterns of genetic variation in 132 genes. PLoS Biol. 2:e286.
-
(2004)
PLoS Biol
, vol.2
-
-
Akey, J.M.1
Eberle, M.A.2
Rieder, M.J.3
Carlson, C.S.4
Shriver, M.D.5
Nickerson, D.A.6
Kruglyak, L.7
-
2
-
-
0036911353
-
Interrogating a high-density SNP map for signatures of natural selection
-
Akey JM, Zhang G, Zhang K, Jin L, Shriver MD. 2002. Interrogating a high-density SNP map for signatures of natural selection. Genome Res. 12:1805-1814.
-
(2002)
Genome Res
, vol.12
, pp. 1805-1814
-
-
Akey, J.M.1
Zhang, G.2
Zhang, K.3
Jin, L.4
Shriver, M.D.5
-
3
-
-
0034967711
-
Regions of lower crossing over harbor more rare variants in African populations of Drosophila melanogaster
-
Andolfatto P, Przeworski M. 2001. Regions of lower crossing over harbor more rare variants in African populations of Drosophila melanogaster. Genetics. 158:657-665.
-
(2001)
Genetics
, vol.158
, pp. 657-665
-
-
Andolfatto, P.1
Przeworski, M.2
-
4
-
-
0031673084
-
The effect of hitch-hiking on neutral genealogies
-
Barton NH. 1998. The effect of hitch-hiking on neutral genealogies. Genet. Res. 72:123-133.
-
(1998)
Genet. Res
, vol.72
, pp. 123-133
-
-
Barton, N.H.1
-
5
-
-
0345730813
-
Effect of misoriented sites on neutrality tests with outgroup
-
Baudry E, Depaulis F. 2003. Effect of misoriented sites on neutrality tests with outgroup. Genetics. 165:1619-1622.
-
(2003)
Genetics
, vol.165
, pp. 1619-1622
-
-
Baudry, E.1
Depaulis, F.2
-
6
-
-
33746237567
-
Genomic insights into positive selection
-
Biswas S, Akey JM. 2006. Genomic insights into positive selection. Trends Genet. 22:437-446.
-
(2006)
Trends Genet
, vol.22
, pp. 437-446
-
-
Biswas, S.1
Akey, J.M.2
-
7
-
-
0029036829
-
The hitchhiking effect on the site frequency spectrum of DNA polymorphisms
-
Braverman JM, Hudson RR, Kaplan NL, Langley CH, Stephan W. 1995. The hitchhiking effect on the site frequency spectrum of DNA polymorphisms. Genetics. 140:783-796.
-
(1995)
Genetics
, vol.140
, pp. 783-796
-
-
Braverman, J.M.1
Hudson, R.R.2
Kaplan, N.L.3
Langley, C.H.4
Stephan, W.5
-
8
-
-
27544482154
-
Genomic regions exhibiting positive selection identified from dense genotype data
-
Carlson CS, Thomas DJ, Eberle MA, Swanson JE, Livingston RJ, Rieder MJ, Nickerson DA. 2005. Genomic regions exhibiting positive selection identified from dense genotype data. Genome Res. 15:1553-1565.
-
(2005)
Genome Res
, vol.15
, pp. 1553-1565
-
-
Carlson, C.S.1
Thomas, D.J.2
Eberle, M.A.3
Swanson, J.E.4
Livingston, R.J.5
Rieder, M.J.6
Nickerson, D.A.7
-
9
-
-
0029800853
-
Background selection and patterns of genetic diversity in Drosophila melanogaster
-
Charlesworth B. 1996. Background selection and patterns of genetic diversity in Drosophila melanogaster. Genet Res. 68:131-149.
-
(1996)
Genet Res
, vol.68
, pp. 131-149
-
-
Charlesworth, B.1
-
10
-
-
0027305597
-
The effect of deleterious mutations on neutral molecular variation
-
Charlesworth B, Morgan MT, Charlesworth D. 1993. The effect of deleterious mutations on neutral molecular variation. Genetics. 134:1289-1303.
-
(1993)
Genetics
, vol.134
, pp. 1289-1303
-
-
Charlesworth, B.1
Morgan, M.T.2
Charlesworth, D.3
-
11
-
-
0028863202
-
The pattern of neutral molecular variation under the background selection model
-
Charlesworth D, Charlesworth B, Morgan MT. 1995. The pattern of neutral molecular variation under the background selection model. Genetics. 141:1619-1632.
-
(1995)
Genetics
, vol.141
, pp. 1619-1632
-
-
Charlesworth, D.1
Charlesworth, B.2
Morgan, M.T.3
-
12
-
-
0348011482
-
Power of neutrality tests to detect bottlenecks and hitchhiking
-
Depaulis F, Mousset S, Veuille M. 2003. Power of neutrality tests to detect bottlenecks and hitchhiking. J Mol Evol. 57(Suppl. 1):S190-200.
-
(2003)
J Mol Evol
, vol.57
, Issue.SUPPL. 1
-
-
Depaulis, F.1
Mousset, S.2
Veuille, M.3
-
13
-
-
0015310384
-
The sampling theory of selectively neutral alleles
-
Ewens WJ. 1972. The sampling theory of selectively neutral alleles. Theor Popul Biol. 3:87-112.
-
(1972)
Theor Popul Biol
, vol.3
, pp. 87-112
-
-
Ewens, W.J.1
-
15
-
-
0033911640
-
Hitchhiking under positive Darwinian selection
-
Fay JC, Wu C-I. 2000. Hitchhiking under positive Darwinian selection. Genetics. 155:1405-1413.
-
(2000)
Genetics
, vol.155
, pp. 1405-1413
-
-
Fay, J.C.1
Wu, C.-I.2
-
16
-
-
0242609180
-
Sequence divergence, functional constraint, and selection in protein evolution
-
Fay JC, Wu C-I. 2003. Sequence divergence, functional constraint, and selection in protein evolution. Annu Rev Genomics Hum Genet. 4:213-235.
-
(2003)
Annu Rev Genomics Hum Genet
, vol.4
, pp. 213-235
-
-
Fay, J.C.1
Wu, C.-I.2
-
17
-
-
0029391126
-
Statistical properties of segregating sites
-
Fu Y-X. 1995. Statistical properties of segregating sites. Theor Popul Biol. 48:172-197.
-
(1995)
Theor Popul Biol
, vol.48
, pp. 172-197
-
-
Fu, Y.-X.1
-
18
-
-
0030821992
-
Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection
-
Fu Y-X. 1997. Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics. 147:915-925.
-
(1997)
Genetics
, vol.147
, pp. 915-925
-
-
Fu, Y.-X.1
-
20
-
-
0000427008
-
The effect of purifying selection on genealogies
-
Donnelly P, Tavaré S, editors, New York, NY: Springer-Verlag. p
-
Golding B. 1997. The effect of purifying selection on genealogies. In: Donnelly P, Tavaré S, editors. Progress in population genetics and human evolution. New York, NY: Springer-Verlag. p. 271-285.
-
(1997)
Progress in population genetics and human evolution
, pp. 271-285
-
-
Golding, B.1
-
21
-
-
0020744702
-
Properties of a neutral allele model with intragenic recombination
-
Hudson RR. 1983. Properties of a neutral allele model with intragenic recombination. Theor Popul Biol. 23:183-201.
-
(1983)
Theor Popul Biol
, vol.23
, pp. 183-201
-
-
Hudson, R.R.1
-
22
-
-
0001935493
-
Gene genealogies and the coalescent process
-
Futuyma D, Antonovics J, editors, New York, NY: Oxford University Press. p
-
Hudson RR. 1990. Gene genealogies and the coalescent process. In: Futuyma D, Antonovics J, editors. Oxford surveys in evolutionary biology. New York, NY: Oxford University Press. p. 1-44.
-
(1990)
Oxford surveys in evolutionary biology
, pp. 1-44
-
-
Hudson, R.R.1
-
23
-
-
0000601292
-
The how and why of generating gene genealogies
-
Takahata N, Clark AG, editors, Sunderland, MA: Sinauer. p
-
Hudson RR. 1993. The how and why of generating gene genealogies. In: Takahata N, Clark AG, editors. Mechanisms of molecular evolution. Sunderland, MA: Sinauer. p. 23-36.
-
(1993)
Mechanisms of molecular evolution
, pp. 23-36
-
-
Hudson, R.R.1
-
24
-
-
0036184745
-
Generating samples under a Wright-Fisher neutral model of genetic variation
-
Hudson RR. 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
-
26
-
-
0028846610
-
Deleterious background selection with recombination
-
Hudson RR, Kaplan NL. 1995. Deleterious background selection with recombination. Genetics. 141:1605-1617.
-
(1995)
Genetics
, vol.141
, pp. 1605-1617
-
-
Hudson, R.R.1
Kaplan, N.L.2
-
27
-
-
0023339852
-
A test of neutral molecular evolution based on nucleotide data
-
Hudson RR, Kreitman M, Aguade M. 1987. A test of neutral molecular evolution based on nucleotide data. Genetics. 116:153-159.
-
(1987)
Genetics
, vol.116
, pp. 153-159
-
-
Hudson, R.R.1
Kreitman, M.2
Aguade, M.3
-
28
-
-
33746428696
-
Modified Hudson-Kreitman-Aguade test and twodimensional evaluation of neutrality tests
-
Innan H. 2006. Modified Hudson-Kreitman-Aguade test and twodimensional evaluation of neutrality tests. Genetics. 173:1725-1733.
-
(2006)
Genetics
, vol.173
, pp. 1725-1733
-
-
Innan, H.1
-
29
-
-
23344438911
-
Distinguishing between selective sweeps and demography using DNA polymorphism data
-
Jensen JD, Kim Y, DuMont VB, Aquadro CF, Bustamante CD. 2005. Distinguishing between selective sweeps and demography using DNA polymorphism data. Genetics. 170:1401-1410.
-
(2005)
Genetics
, vol.170
, pp. 1401-1410
-
-
Jensen, J.D.1
Kim, Y.2
DuMont, V.B.3
Aquadro, C.F.4
Bustamante, C.D.5
-
30
-
-
0015308863
-
-
Karlin S, McGregor J. 1972. Addendum to a paper of W. Ewens. Theor Popul Biol. 3:113-116.
-
Karlin S, McGregor J. 1972. Addendum to a paper of W. Ewens. Theor Popul Biol. 3:113-116.
-
-
-
-
31
-
-
3843073210
-
Linkage disequilibrium as a signature of selective sweeps
-
Kim Y, Nielsen R. 2004. Linkage disequilibrium as a signature of selective sweeps. Genetics. 167:1513-1524.
-
(2004)
Genetics
, vol.167
, pp. 1513-1524
-
-
Kim, Y.1
Nielsen, R.2
-
32
-
-
0036189827
-
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. Genetics. 160:765-777.
-
(2002)
Genetics
, vol.160
, pp. 765-777
-
-
Kim, Y.1
Stephan, W.2
-
33
-
-
0014494672
-
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. Genetics. 61:893-903.
-
(1969)
Genetics
, vol.61
, pp. 893-903
-
-
Kimura, M.1
-
34
-
-
18244425603
-
Average time until fixation of a mutant allele in a finite population under continued mutation pressure: Studies by analytical, numerical, and pseudo-sampling methods
-
Kimura M. 1980. Average time until fixation of a mutant allele in a finite population under continued mutation pressure: Studies by analytical, numerical, and pseudo-sampling methods. Proc Natl Acad Sci USA. 77:522-526.
-
(1980)
Proc Natl Acad Sci USA
, vol.77
, pp. 522-526
-
-
Kimura, M.1
-
36
-
-
33750491918
-
-
Li H, Stephan W. 2006. Inferring the demographic history and rate of adaptive substitution in. Drosophila. PLoS Genet. 2:e166.
-
Li H, Stephan W. 2006. Inferring the demographic history and rate of adaptive substitution in. Drosophila. PLoS Genet. 2:e166.
-
-
-
-
37
-
-
0016220238
-
The hitch-hiking effect of a favourable gene
-
Maynard Smith J, Haigh J. 1974. The hitch-hiking effect of a favourable gene. Genet Res. 23:23-35.
-
(1974)
Genet Res
, vol.23
, pp. 23-35
-
-
Maynard Smith, J.1
Haigh, J.2
-
38
-
-
29444452921
-
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
-
39
-
-
27544437635
-
Genomic scans for selective sweeps using SNP data
-
Nielsen R, Williamson S, Kim Y, Hubisz MJ, Clark AG, Bustamante C. 2005. Genomic scans for selective sweeps using SNP data. Genome Res. 15:1566-1575.
-
(2005)
Genome Res
, vol.15
, pp. 1566-1575
-
-
Nielsen, R.1
Williamson, S.2
Kim, Y.3
Hubisz, M.J.4
Clark, A.G.5
Bustamante, C.6
-
40
-
-
0036196885
-
The signature of positive selection at randomly chosen loci
-
Przeworski M. 2002. The signature of positive selection at randomly chosen loci. Genetics. 160:1179-1189.
-
(2002)
Genetics
, vol.160
, pp. 1179-1189
-
-
Przeworski, M.1
-
42
-
-
0035107520
-
Recombination and the frequency spectrum in Drosophila melanogaster and Drosophila simulans
-
Przeworski M, Wall JD, Andolfatto P. 2001. Recombination and the frequency spectrum in Drosophila melanogaster and Drosophila simulans. Mol Biol Evol. 18:291-298.
-
(2001)
Mol Biol Evol
, vol.18
, pp. 291-298
-
-
Przeworski, M.1
Wall, J.D.2
Andolfatto, P.3
-
43
-
-
0037167852
-
Detecting recent positive selection in the human genome from haplotype structure
-
Sabeti PC, Reich DE, Higgins JM, et al. 2002. Detecting recent positive selection in the human genome from haplotype structure. Nature. 419:832-837.
-
(2002)
Nature
, vol.419
, pp. 832-837
-
-
Sabeti, P.C.1
Reich, D.E.2
Higgins, J.M.3
-
44
-
-
33745121154
-
Positive natural selection in the human lineage
-
Sabeti PC, Schaffner SF, Fry B, Lohmueller J, Varilly P, Shamovsky O, Palma A, Mikkelsen TS, Altshuler D, Lander ES. 2006. Positive natural selection in the human lineage. Science. 312:1614-1620.
-
(2006)
Science
, vol.312
, pp. 1614-1620
-
-
Sabeti, P.C.1
Schaffner, S.F.2
Fry, B.3
Lohmueller, J.4
Varilly, P.5
Shamovsky, O.6
Palma, A.7
Mikkelsen, T.S.8
Altshuler, D.9
Lander, E.S.10
-
45
-
-
0029099781
-
Properties of statistical tests of neutrality for DNA polymorphism data
-
Simonsen KL, Churchill GA, Aquadro CF. 1995. Properties of statistical tests of neutrality for DNA polymorphism data. Genetics. 141:413-429.
-
(1995)
Genetics
, vol.141
, pp. 413-429
-
-
Simonsen, K.L.1
Churchill, G.A.2
Aquadro, C.F.3
-
46
-
-
0028124538
-
An exact test for neutrality based on the Ewens sampling distribution
-
Slatkin M. 1994. An exact test for neutrality based on the Ewens sampling distribution. Genet Res. 64:71-74.
-
(1994)
Genet Res
, vol.64
, pp. 71-74
-
-
Slatkin, M.1
-
47
-
-
33646180401
-
The hitchhiking effect on linkage disequilibrium between linked neutral loci
-
Stephan W, Song YS, Langley CH. 2006. The hitchhiking effect on linkage disequilibrium between linked neutral loci. Genetics. 172:2647-2663.
-
(2006)
Genetics
, vol.172
, pp. 2647-2663
-
-
Stephan, W.1
Song, Y.S.2
Langley, C.H.3
-
48
-
-
0021066244
-
Evolutionary relationship of DNA sequences in finite populations
-
Tajima F. 1983. Evolutionary relationship of DNA sequences in finite populations. Genetics. 105:437-460.
-
(1983)
Genetics
, vol.105
, pp. 437-460
-
-
Tajima, F.1
-
49
-
-
0024313579
-
Statistical method for testing the neutral mutation hypothesis by DNA polymorphism
-
Tajima F. 1989. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics. 123:585-595.
-
(1989)
Genetics
, vol.123
, pp. 585-595
-
-
Tajima, F.1
-
50
-
-
33744815615
-
How reliable are empirical genomic scans for selective sweeps?
-
Teshima KM, Coop G, Przeworski M. 2006. How reliable are empirical genomic scans for selective sweeps? Genome Res. 16:702-712.
-
(2006)
Genome Res
, vol.16
, pp. 702-712
-
-
Teshima, K.M.1
Coop, G.2
Przeworski, M.3
-
51
-
-
33644763127
-
Approximate Bayesian inference reveals evidence for a recent, severe bottleneck in a Netherlands population of Drosophila melanogaster
-
Thornton K, Andolfatto P. 2006. Approximate Bayesian inference reveals evidence for a recent, severe bottleneck in a Netherlands population of Drosophila melanogaster. Genetics. 172:1607-1619.
-
(2006)
Genetics
, vol.172
, pp. 1607-1619
-
-
Thornton, K.1
Andolfatto, P.2
-
53
-
-
0032884643
-
Recombination and the power of statistical tests of neutrality
-
Wall JD. 1999. Recombination and the power of statistical tests of neutrality. Genet Res. 74:65-79.
-
(1999)
Genet Res
, vol.74
, pp. 65-79
-
-
Wall, J.D.1
-
54
-
-
0033955443
-
A comparison of estimators of the population recombination rate
-
Wall JD. 2000. A comparison of estimators of the population recombination rate. Mol Biol Evol. 17:156-163.
-
(2000)
Mol Biol Evol
, vol.17
, pp. 156-163
-
-
Wall, J.D.1
-
55
-
-
0036743513
-
Testing models of selection and demography in Drosophila simulans
-
Wall JD, Andolfatto P, Przeworski M. 2002. Testing models of selection and demography in Drosophila simulans. Genetics. 162:203-216.
-
(2002)
Genetics
, vol.162
, pp. 203-216
-
-
Wall, J.D.1
Andolfatto, P.2
Przeworski, M.3
-
56
-
-
0034984837
-
Coalescent simulations and statistical tests of neutrality. Mol Biol Evol
-
author reply 1136-1138
-
Wall JD, Hudson RR. 2001. Coalescent simulations and statistical tests of neutrality. Mol Biol Evol. 18:1134-1135; author reply 1136-1138.
-
(2001)
, vol.18
, pp. 1134-1135
-
-
Wall, J.D.1
Hudson, R.R.2
-
57
-
-
30444460720
-
Global landscape of recent inferred Darwinian selection for Homo sapiens
-
Wang ET, Kodama G, Baldi P, Moyzis RK. 2006. Global landscape of recent inferred Darwinian selection for Homo sapiens. Proc Natl Acad Sci USA. 103:135-140.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 135-140
-
-
Wang, E.T.1
Kodama, G.2
Baldi, P.3
Moyzis, R.K.4
-
58
-
-
0016491430
-
On the number of segregating sites in genetical models without recombination
-
Watterson GA. 1975. On the number of segregating sites in genetical models without recombination. Theor Popul Biol. 7:256-276.
-
(1975)
Theor Popul Biol
, vol.7
, pp. 256-276
-
-
Watterson, G.A.1
-
59
-
-
0017886236
-
The homozygosity test of neutrality
-
Watterson GA. 1978. The homozygosity test of neutrality. Genetics. 88:405-417.
-
(1978)
Genetics
, vol.88
, pp. 405-417
-
-
Watterson, G.A.1
-
60
-
-
0001771498
-
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
-
61
-
-
33751342650
-
Statistical tests for detecting positive selection by utilizing high-frequency variants
-
Zeng K, Fu Y.-X, Shi S, Wu C-I. 2006. Statistical tests for detecting positive selection by utilizing high-frequency variants. Genetics. 174:1431-1439.
-
(2006)
Genetics
, vol.174
, pp. 1431-1439
-
-
Zeng, K.1
Fu, Y.-X.2
Shi, S.3
Wu, C.-I.4
-
62
-
-
34547681436
-
Comparisons of site- and haplotype-frequency methods for detecting positive selection
-
Zeng K, Mano S, Shi S, Wu C-I. 2007. Comparisons of site- and haplotype-frequency methods for detecting positive selection. Mol Biol Evol. 24:1562-1574.
-
(2007)
Mol Biol Evol
, vol.24
, pp. 1562-1574
-
-
Zeng, K.1
Mano, S.2
Shi, S.3
Wu, C.-I.4
|