86
D. Enard
Lohmueller KE, Albrechtsen A, Li Y, Kim SY, Korneliussen T, Vinckenbosch N, Tian G, HuertaSanchez E, Feder AF, Grarup N et al (2011) Natural selection affects multiple aspects of genetic
variation at putatively neutral sites across the human genome. PLoS Genet 7(10):e1002326
Maynard Smith J, Haigh J (1974) The hitch-hiking effect of a favourable gene. Genet Res 23(1):23–
35
McDonald JH, Kreitman M (1991) Adaptive protein evolution at the Adh locus in Drosophila.
Nature 351(6328):652–654
Messer PW, Petrov DA (2013a) Frequent adaptation and the McDonald-Kreitman test. Proc Natl
Acad Sci USA 110(21):8615–8620
Messer PW, Petrov DA (2013b) Population genomics of rapid adaptation by soft selective sweeps.
Trends Ecol Evol 28(11):659–669
Nielsen R, Williamson S, Kim Y, Hubisz MJ, Clark AG, Bustamante C (2005) Genomic scans for
selective sweeps using SNP data. Genome Res 15(11):1566–1575
Nielsen R, Hellmann I, Hubisz M, Bustamante C, Clark AG (2007) Recent and ongoing selection
in the human genome. Nat Rev Genet 8(11):857–868
Ohta T, Gillespie JH (1996) Development of neutral and nearly neutral theories. Theor Popul Biol
49(2):128–142
O’Reilly PF, Birney E, Balding DJ (2008) Confounding between recombination and selection, and
the Ped/Pop method for detecting selection. Genome Res 18(8):1304–1313
Przeworski M (2002) The signature of positive selection at randomly chosen loci. Genetics
160(3):1179–1189
Przeworski M, Coop G, Wall JD (2005) The signature of positive selection on standing genetic
variation. Evolution 59(11):2312–2323
Ramirez-Soriano A, Nielsen R (2009) Correcting estimators of theta and Tajima’s D for ascertainment biases caused by the single-nucleotide polymorphism discovery process. Genetics
181(2):701–710
Sabeti PC, Reich DE, Higgins JM, Levine HZ, Richter DJ, Schaffner SF, Gabriel SB, Platko
JV, Patterson NJ, McDonald GJ et al (2002) Detecting recent positive selection in the human
genome from haplotype structure. Nature 419(6909):832–837
Sabeti PC, Varilly P, Fry B, Lohmueller J, Hostetter E, Cotsapas C, Xie X, Byrne EH, McCarroll
SA, Gaudet R et al (2007) Genome-wide detection and characterization of positive selection in
human populations. Nature 449(7164):913–918
Tajima F (1989) Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123(3):585–595
Voight BF, Kudaravalli S, Wen X, Pritchard JK (2006) A map of recent positive selection in the
human genome. PLoS Biol 4(3):e72
Zeng K, Charlesworth B (2011) The joint effects of background selection and genetic recombination on local gene genealogies. Genetics 189(1):251–266
Zeng K, Fu YX, Shi S, Wu CI (2006) Statistical tests for detecting positive selection by utilizing
high-frequency variants. Genetics 174(3):1431–1439
D. Enard
Lohmueller KE, Albrechtsen A, Li Y, Kim SY, Korneliussen T, Vinckenbosch N, Tian G, HuertaSanchez E, Feder AF, Grarup N et al (2011) Natural selection affects multiple aspects of genetic
variation at putatively neutral sites across the human genome. PLoS Genet 7(10):e1002326
Maynard Smith J, Haigh J (1974) The hitch-hiking effect of a favourable gene. Genet Res 23(1):23–
35
McDonald JH, Kreitman M (1991) Adaptive protein evolution at the Adh locus in Drosophila.
Nature 351(6328):652–654
Messer PW, Petrov DA (2013a) Frequent adaptation and the McDonald-Kreitman test. Proc Natl
Acad Sci USA 110(21):8615–8620
Messer PW, Petrov DA (2013b) Population genomics of rapid adaptation by soft selective sweeps.
Trends Ecol Evol 28(11):659–669
Nielsen R, Williamson S, Kim Y, Hubisz MJ, Clark AG, Bustamante C (2005) Genomic scans for
selective sweeps using SNP data. Genome Res 15(11):1566–1575
Nielsen R, Hellmann I, Hubisz M, Bustamante C, Clark AG (2007) Recent and ongoing selection
in the human genome. Nat Rev Genet 8(11):857–868
Ohta T, Gillespie JH (1996) Development of neutral and nearly neutral theories. Theor Popul Biol
49(2):128–142
O’Reilly PF, Birney E, Balding DJ (2008) Confounding between recombination and selection, and
the Ped/Pop method for detecting selection. Genome Res 18(8):1304–1313
Przeworski M (2002) The signature of positive selection at randomly chosen loci. Genetics
160(3):1179–1189
Przeworski M, Coop G, Wall JD (2005) The signature of positive selection on standing genetic
variation. Evolution 59(11):2312–2323
Ramirez-Soriano A, Nielsen R (2009) Correcting estimators of theta and Tajima’s D for ascertainment biases caused by the single-nucleotide polymorphism discovery process. Genetics
181(2):701–710
Sabeti PC, Reich DE, Higgins JM, Levine HZ, Richter DJ, Schaffner SF, Gabriel SB, Platko
JV, Patterson NJ, McDonald GJ et al (2002) Detecting recent positive selection in the human
genome from haplotype structure. Nature 419(6909):832–837
Sabeti PC, Varilly P, Fry B, Lohmueller J, Hostetter E, Cotsapas C, Xie X, Byrne EH, McCarroll
SA, Gaudet R et al (2007) Genome-wide detection and characterization of positive selection in
human populations. Nature 449(7164):913–918
Tajima F (1989) Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123(3):585–595
Voight BF, Kudaravalli S, Wen X, Pritchard JK (2006) A map of recent positive selection in the
human genome. PLoS Biol 4(3):e72
Zeng K, Charlesworth B (2011) The joint effects of background selection and genetic recombination on local gene genealogies. Genetics 189(1):251–266
Zeng K, Fu YX, Shi S, Wu CI (2006) Statistical tests for detecting positive selection by utilizing
high-frequency variants. Genetics 174(3):1431–1439