-
1
-
-
0032953881
-
Inferring the fitness effects of DNA mutations from polymorphism and divergence data: Statistical power to detect directional selection under stationarity and free recombination
-
Akashi, H. 1999. Inferring the fitness effects of DNA mutations from polymorphism and divergence data: Statistical power to detect directional selection under stationarity and free recombination. Genetics 151: 221-238.
-
(1999)
Genetics
, vol.151
, pp. 221-238
-
-
Akashi, H.1
-
2
-
-
8844227502
-
Population history and natural selection shape patterns of genetic variation in 132 genes
-
Akey, J., Eberle, M., Rieder, M., Carlson, C., Shriver, M., Nickerson, D., and 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.1
Eberle, M.2
Rieder, M.3
Carlson, C.4
Shriver, M.5
Nickerson, D.6
Kruglyak, L.7
-
3
-
-
0035107550
-
Contrasting patterns of X-linked and autosomal nucleotide variation in African and non-African populations of Drosophila melanogaster and D. simulans
-
Andolfatto, P. 2001. Contrasting patterns of X-linked and autosomal nucleotide variation in African and non-African populations of Drosophila melanogaster and D. simulans. Mol. Biol. Evol. 18: 279-290.
-
(2001)
Mol. Biol. Evol.
, vol.18
, pp. 279-290
-
-
Andolfatto, P.1
-
4
-
-
0033828706
-
A genome wide departure from the standard neutral model in natural populations of Drosophila
-
Andolfatto, P. and Przeworski, M. 2000. A genome wide departure from the standard neutral model in natural populations of Drosophila. Genetics 156: 257-268.
-
(2000)
Genetics
, vol.156
, pp. 257-268
-
-
Andolfatto, P.1
Przeworski, M.2
-
5
-
-
0034967711
-
Regions of lower crossing over harbor more rare variants in African populations of Drosophila melanogaster
-
_. 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
-
-
-
6
-
-
0345730814
-
Linkage disequilibrium patterns across a recombination gradient in African Drosophila melanogaster
-
Andolfatto, P. and Wall, J.D. 2003. Linkage disequilibrium patterns across a recombination gradient in African Drosophila melanogaster. Genetics 165: 1289-1305.
-
(2003)
Genetics
, vol.165
, pp. 1289-1305
-
-
Andolfatto, P.1
Wall, J.D.2
-
7
-
-
0035986849
-
DNA sequence variation at a duplicated gene: Excess of replacement polymorphism and extensive haplotype structure in the Drosophila melanogaster bicoid region
-
Baines, J.F., Chen, Y., Das, A., and Stephan, W. 2002. DNA sequence variation at a duplicated gene: Excess of replacement polymorphism and extensive haplotype structure in the Drosophila melanogaster bicoid region. Mol. Biol. Evol. 19: 989-998.
-
(2002)
Mol. Biol. Evol.
, vol.19
, pp. 989-998
-
-
Baines, J.F.1
Chen, Y.2
Das, A.3
Stephan, W.4
-
8
-
-
3242760033
-
Non-African populations of Drosophila melanogaster have a unique origin
-
Baudry, E., Viginier, B., and Veuille, M. 2004. Non-African populations of Drosophila melanogaster have a unique origin. Mol. Biol. Evol. 21: 1482-1491.
-
(2004)
Mol. Biol. Evol.
, vol.21
, pp. 1482-1491
-
-
Baudry, E.1
Viginier, B.2
Veuille, M.3
-
9
-
-
0027374393
-
African and North American populations of Drosophila melanogaster are very different at the DNA level
-
Begun, D.J. and Aquadro, C.F. 1993. African and North American populations of Drosophila melanogaster are very different at the DNA level. Nature 365: 548-550.
-
(1993)
Nature
, vol.365
, pp. 548-550
-
-
Begun, D.J.1
Aquadro, C.F.2
-
10
-
-
0034705169
-
Reduced X-linked nucleotide polymorphism in Drosophila simulans
-
Begun, D.J. and Whitley, P. 2000. Reduced X-linked nucleotide polymorphism in Drosophila simulans. Proc. Natl. Acad. Sci. 97: 5960-5965.
-
(2000)
Proc. Natl. Acad. Sci.
, vol.97
, pp. 5960-5965
-
-
Begun, D.J.1
Whitley, P.2
-
11
-
-
0029036829
-
The hitchiking effect on the site frequency spectrum of DNA polymorphism
-
Braverman, J.M., Hudson, R.R., Kaplan, N.L., Langley, C.H., and Stephan, W. 1995. The hitchiking effect on the site frequency spectrum of DNA polymorphism. 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
-
12
-
-
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: 131-150.
-
(1996)
Genet. Res.
, vol.68
, pp. 131-150
-
-
Charlesworth, B.1
-
13
-
-
0031901554
-
Measures of divergence between populations and the effect of forces that reduce variability
-
_. 1998. Measures of divergence between populations and the effect of forces that reduce variability. Mol. Biol. Evol. 15: 538-543.
-
(1998)
Mol. Biol. Evol.
, vol.15
, pp. 538-543
-
-
-
14
-
-
0023998356
-
Genetic variation of Drosophila melanogaster natural populations
-
David, J.R. and Capy, P. 1988. Genetic variation of Drosophila melanogaster natural populations. Trends Genet. 4: 106-111.
-
(1988)
Trends Genet.
, vol.4
, pp. 106-111
-
-
David, J.R.1
Capy, P.2
-
15
-
-
0041817568
-
Inference of population structure using multi-locus data: Linked loci and correlated allele frequencies
-
Falush, D., Stephens, M., and Pritchard, J.K. 2003. Inference of population structure using multi-locus data: Linked loci and correlated allele frequencies. Genetics 164: 1567-1587.
-
(2003)
Genetics
, vol.164
, pp. 1567-1587
-
-
Falush, D.1
Stephens, M.2
Pritchard, J.K.3
-
16
-
-
0033911640
-
Hitchhiking under positive Darwinian selection
-
Fay, J.C. and 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
-
17
-
-
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
-
18
-
-
0034082076
-
Genetic drift in an infinite population: The pseudohitchiking model
-
Gillespie, J.H. 2000. Genetic drift in an infinite population: The pseudohitchiking model. Genetics 155: 909-919.
-
(2000)
Genetics
, vol.155
, pp. 909-919
-
-
Gillespie, J.H.1
-
19
-
-
0347065347
-
Demography and natural selection have shaped genetic variation in Drosophila melanogaster: A multi-locus approach
-
Glinka, S., Ometto, L., Mousset, S., Stephan, W., and De Lorenzo, D. 2003. Demography and natural selection have shaped genetic variation in Drosophila melanogaster: A multi-locus approach. Genetics 165: 1269-1278.
-
(2003)
Genetics
, vol.165
, pp. 1269-1278
-
-
Glinka, S.1
Ometto, L.2
Mousset, S.3
Stephan, W.4
De Lorenzo, D.5
-
20
-
-
0035989428
-
Muller's ratchet and the pattern of variation at a neutral locus
-
Gordo, I., Navarro, A., and Charlesworth, B. 2002. Muller's ratchet and the pattern of variation at a neutral locus. Genetics 161: 835-848.
-
(2002)
Genetics
, vol.161
, pp. 835-848
-
-
Gordo, I.1
Navarro, A.2
Charlesworth, B.3
-
21
-
-
0036790812
-
Hitchhiking mapping: A population-based fine-mapping strategy for adaptive mutations in Drosophila melanogaster
-
Harr, B., Kauer, M., and Schlötterer, C. 2002. Hitchhiking mapping: A population-based fine-mapping strategy for adaptive mutations in Drosophila melanogaster. Proc. Natl. Acad. Sci. 99: 12949-12954.
-
(2002)
Proc. Natl. Acad. Sci.
, vol.99
, pp. 12949-12954
-
-
Harr, B.1
Kauer, M.2
Schlötterer, C.3
-
22
-
-
0033057484
-
X chromosome evidence for ancient human histories
-
Harris, E.E. and Hey, J. 1999. X chromosome evidence for ancient human histories. Proc. Natl. Acad. Sci. 96: 3320-3324.
-
(1999)
Proc. Natl. Acad. Sci.
, vol.96
, pp. 3320-3324
-
-
Harris, E.E.1
Hey, J.2
-
23
-
-
0023612034
-
Estimating the recombination parameter of a finite population without selection
-
Hudson, R.R. 1987. Estimating the recombination parameter of a finite population without selection. Genet. Res. 50: 245-250.
-
(1987)
Genet. Res.
, vol.50
, pp. 245-250
-
-
Hudson, R.R.1
-
24
-
-
0033886350
-
A new statistic for detecting differentiation
-
_. 2000. A new statistic for detecting differentiation. Genetics 155: 2011-2014.
-
(2000)
Genetics
, vol.155
, pp. 2011-2014
-
-
-
25
-
-
0035692320
-
Two-locus sampling distributions and their application
-
_. 2001. Two-locus sampling distributions and their application. Genetics 159: 1805-1817.
-
(2001)
Genetics
, vol.159
, pp. 1805-1817
-
-
-
26
-
-
0036184745
-
Generating samples under a Wright-Fisher neutral model of genetic variation
-
_. 2002. Generating samples under a Wright-Fisher neutral model of genetic variation. Bioinformatics 18: 337-338.
-
(2002)
Bioinformatics
, vol.18
, pp. 337-338
-
-
-
27
-
-
0023339852
-
A test of molecular evolution based on nucleotide data
-
Hudson, R.R., Kreitman, M., and Aguadé, M. 1987. A test of molecular evolution based on nucleotide data. Genetics 116: 153-159.
-
(1987)
Genetics
, vol.116
, pp. 153-159
-
-
Hudson, R.R.1
Kreitman, M.2
Aguadé, M.3
-
28
-
-
0026512283
-
A statistical test for detecting geographic subdivision
-
Hudson, R.R., Boos, D.D., and Kaplan, N.L. 1992. A statistical test for detecting geographic subdivision. Mol. Biol. Evol. 9: 138-151.
-
(1992)
Mol. Biol. Evol.
, vol.9
, pp. 138-151
-
-
Hudson, R.R.1
Boos, D.D.2
Kaplan, N.L.3
-
29
-
-
0028215929
-
Evidence for positive selection in the superoxide dismutase (Sod) region of Drosophila melanogaster
-
Hudson, R.R., Bailey, K., Skarecky, D., Kwiatowski, J., and Ayala, F.J. 1994. Evidence for positive selection in the superoxide dismutase (Sod) region of Drosophila melanogaster. Genetics 136: 1329-1340.
-
(1994)
Genetics
, vol.136
, pp. 1329-1340
-
-
Hudson, R.R.1
Bailey, K.2
Skarecky, D.3
Kwiatowski, J.4
Ayala, F.J.5
-
30
-
-
0036160352
-
Chromosomal patterns of microsatellite variability contrast sharply in African and Non-African populations of Drosophila melanogaster
-
Kauer, M., Zangerl, B., Dieringer, D., and Schlötterer, C. 2002. Chromosomal patterns of microsatellite variability contrast sharply in African and Non-African populations of Drosophila melanogaster. Genetics 160: 247-256.
-
(2002)
Genetics
, vol.160
, pp. 247-256
-
-
Kauer, M.1
Zangerl, B.2
Dieringer, D.3
Schlötterer, C.4
-
31
-
-
0346991744
-
A microsatellite variability screen for positive selection associated with the "out of Africa" habitat expansion of Drosophila melanogaster
-
Kauer, M.O., Dieringer, D., and Schlötterer, C. 2003. A microsatellite variability screen for positive selection associated with the "out of Africa" habitat expansion of Drosophila melanogaster. Genetics 165: 1137-1148.
-
(2003)
Genetics
, vol.165
, pp. 1137-1148
-
-
Kauer, M.O.1
Dieringer, D.2
Schlötterer, C.3
-
32
-
-
0038586483
-
A genome scan to detect candidate regions influenced by local natural selection in human populations
-
Kayser, M., Brauer, S., and Stoneking, M. 2003. A genome scan to detect candidate regions influenced by local natural selection in human populations. Mol. Biol. Evol. 20: 893-900.
-
(2003)
Mol. Biol. Evol.
, vol.20
, pp. 893-900
-
-
Kayser, M.1
Brauer, S.2
Stoneking, M.3
-
33
-
-
0036189827
-
Detecting a local signature of genetic hitchhiking along a recombining chromosome
-
Kim, Y. and 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
-
34
-
-
0020560127
-
Nucleotide polymorphism at the alcohol dehydrogenase locus of Drosophila melanogaster
-
Kreitman, M. 1983. Nucleotide polymorphism at the alcohol dehydrogenase locus of Drosophila melanogaster. Nature 304: 412-417.
-
(1983)
Nature
, vol.304
, pp. 412-417
-
-
Kreitman, M.1
-
35
-
-
0000792280
-
Historical biogeography of the Drosophila melanogaster species subgroup
-
Lachaise, D., Cariou, M.L., David, J.R., Lemeunier, F., Tsacas, L., and Ashburner, M. 1988. Historical biogeography of the Drosophila melanogaster species subgroup. Evol. Biol. 22: 159-225.
-
(1988)
Evol. Biol.
, vol.22
, pp. 159-225
-
-
Lachaise, D.1
Cariou, M.L.2
David, J.R.3
Lemeunier, F.4
Tsacas, L.5
Ashburner, M.6
-
36
-
-
0346734143
-
Markov chain Monte Carlo without likelihoods
-
Marjoram, P., Molitor, V., Plagnol, V., and Tavare, S. 2003. Markov chain Monte Carlo without likelihoods. Proc. Natl. Acad. Sci. 100: 15324-15328.
-
(2003)
Proc. Natl. Acad. Sci.
, vol.100
, pp. 15324-15328
-
-
Marjoram, P.1
Molitor, V.2
Plagnol, V.3
Tavare, S.4
-
37
-
-
0022352290
-
Population bottlenecks and non-equilibrium models in population genetics. II. Number of alleles in a small population that was formed by a recent bottleneck
-
Maruyama, T. and Fuerst, P.A. 1985a. Population bottlenecks and non-equilibrium models in population genetics. II. Number of alleles in a small population that was formed by a recent bottleneck. Genetics 111: 675-689.
-
(1985)
Genetics
, vol.111
, pp. 675-689
-
-
Maruyama, T.1
Fuerst, P.A.2
-
38
-
-
0022350081
-
Population bottlenecks and non-equilibrium models in population genetics. III. Genic homozygosity in populations which experience periodic bottlenecks
-
_. 1985b. Population bottlenecks and non-equilibrium models in population genetics. III. Genic homozygosity in populations which experience periodic bottlenecks. Genetics 111: 691-703.
-
(1985)
Genetics
, vol.111
, pp. 691-703
-
-
-
39
-
-
0026428610
-
Adaptive protein evolution at the Adh locus in Drosophila
-
McDonald, J.H. and Kreitman, M. 1991. Adaptive protein evolution at the Adh locus in Drosophila. Nature 351: 652-654.
-
(1991)
Nature
, vol.351
, pp. 652-654
-
-
McDonald, J.H.1
Kreitman, M.2
-
40
-
-
0037396691
-
Efficient high-throughput resequencing of genomic DNA
-
Miller, R.D., Duan, S., Lovins, E.G., Kloss, E.F., and Kwok, P.Y. 2003. Efficient high-throughput resequencing of genomic DNA. Genome Res. 13: 717-720.
-
(2003)
Genome Res.
, vol.13
, pp. 717-720
-
-
Miller, R.D.1
Duan, S.2
Lovins, E.G.3
Kloss, E.F.4
Kwok, P.Y.5
-
41
-
-
0037297271
-
Evidence of a high rate of selective sweeps in African Drosophila melanogaster
-
Mousset, S., Brazier, L., Cariou, M.L., Chartois, F., Depaulis, F., and Veuille, M. 2003. Evidence of a high rate of selective sweeps in African Drosophila melanogaster. Genetics 163: 599-609.
-
(2003)
Genetics
, vol.163
, pp. 599-609
-
-
Mousset, S.1
Brazier, L.2
Cariou, M.L.3
Chartois, F.4
Depaulis, F.5
Veuille, M.6
-
42
-
-
4644285473
-
Detecting the footprint of positive selection in a European population of Drosophila melanogaster: Multi-locus pattern of variation and distance to coding regions
-
Orengo, D.J. and Aguadé, M. 2004. Detecting the footprint of positive selection in a European population of Drosophila melanogaster: Multi-locus pattern of variation and distance to coding regions. Genetics 167: 1759-1766.
-
(2004)
Genetics
, vol.167
, pp. 1759-1766
-
-
Orengo, D.J.1
Aguadé, M.2
-
43
-
-
0032735986
-
Population growth of human Y chromosomes: A study of Y chromosome microsatellites
-
Pritchard, J.K., Seielstad, M.T., Perez-Lezaun, A., and Feldman, M.W. 1999. Population growth of human Y chromosomes: A study of Y chromosome microsatellites. Mol. Biol. Evol. 16: 1791-1798.
-
(1999)
Mol. Biol. Evol.
, vol.16
, pp. 1791-1798
-
-
Pritchard, J.K.1
Seielstad, M.T.2
Perez-Lezaun, A.3
Feldman, M.W.4
-
44
-
-
0034118493
-
Inference of population structure using multi-locus data
-
Pritchard, J.K., Stephens, M., and Donnelly, P. 2000. Inference of population structure using multi-locus data. Genetics 155: 945-959.
-
(2000)
Genetics
, vol.155
, pp. 945-959
-
-
Pritchard, J.K.1
Stephens, M.2
Donnelly, P.3
-
45
-
-
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
-
46
-
-
0041817545
-
Estimating the time since the fixation of a beneficial allele
-
_. 2003. Estimating the time since the fixation of a beneficial allele. Genetics 164: 1667-1676.
-
(2003)
Genetics
, vol.164
, pp. 1667-1676
-
-
-
47
-
-
0035107520
-
Recombination and the frequency spectrum in Drosophila melanogaster and Drosophila simulans
-
Przeworski, M., Wall, J.D., and 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
-
48
-
-
10344221021
-
Disentangling the effects of demography and selection in human history
-
Stajich, J.E. and Hahn, M.W. 2005. Disentangling the effects of demography and selection in human history. Mol. Biol. Evol. 22: 63-73.
-
(2005)
Mol. Biol. Evol.
, vol.22
, pp. 63-73
-
-
Stajich, J.E.1
Hahn, M.W.2
-
49
-
-
4143088044
-
Genome scans of DNA variability in humans reveal evidence for selective sweeps outside of Africa
-
Storz, J., Payseur, B.A., and Nachman, M.W. 2004. Genome scans of DNA variability in humans reveal evidence for selective sweeps outside of Africa. Mol. Biol. Evol. 21: 1800-1811.
-
(2004)
Mol. Biol. Evol.
, vol.21
, pp. 1800-1811
-
-
Storz, J.1
Payseur, B.A.2
Nachman, M.W.3
-
50
-
-
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
-
51
-
-
0024313579
-
Statistical method for testing the neutral mutation hypothesis
-
_. 1989. Statistical method for testing the neutral mutation hypothesis. Genetics 123: 585-595.
-
(1989)
Genetics
, vol.123
, pp. 585-595
-
-
-
52
-
-
3042595170
-
Selection versus demography: A multilocus investigation of the domestication process in maize
-
Tenaillon, M., U'Ren, J., Tenaillon, O., and Gaut, B. 2004. Selection versus demography: A multilocus investigation of the domestication process in maize. Mol. Biol. Evol. 21: 1214.
-
(2004)
Mol. Biol. Evol.
, vol.21
, pp. 1214
-
-
Tenaillon, M.1
U'Ren, J.2
Tenaillon, O.3
Gaut, B.4
-
53
-
-
0344464730
-
Libsequence: A C++ class library for evolutionary genetic analysis
-
Thornton, K. 2003. Libsequence: A C++ class library for evolutionary genetic analysis. Bioinformatics 19: 2325-2327.
-
(2003)
Bioinformatics
, vol.19
, pp. 2325-2327
-
-
Thornton, K.1
-
54
-
-
0033955443
-
A comparison of estimators of the population recombination rate
-
Wall, J.D. 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, J.D., Andolfatto, P., and 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
-
-
0016491430
-
On the number of segregating sites in genetical models without recombination
-
Watterson, G.A. 1975. On the number of segregating sites in genetical models without recombination. Theor. Pop. Biol. 7: 256-276.
-
(1975)
Theor. Pop. Biol.
, vol.7
, pp. 256-276
-
-
Watterson, G.A.1
-
58
-
-
84876620930
-
-
http://pritch.bsd.uchicago.edu/; Structure.
-
Structure
-
-
-
59
-
-
32744459761
-
-
http://www.molpopgen.org; Libsequence.
-
Libsequence
-
-
|