200
J. D. Wall
Gignoux CR, Henn BM, Mountain JL (2011) Rapid, global demographic expansions after the
origins of agriculture. Proc Natl Acad Sci USA 108:6044–6049
Gravel S, Henn BM, Gutenkunst RN, Indap AR, Marth GT, Clark AG, Yu F, Gibbs RA, 1000
Genomes Project, Bustamante CD (2011) Demographic history and rare allele sharing among
human populations. Proc Natl Acad Sci USA 108:11983–11988
Green RE, Krause J, Briggs AW, Maricic T, Stenzel U, Kircher M, Patterson N, Li H, Zhai W, Fritz
MHY et al (2010) A draft sequence of the Neandertal genome. Science 328:710–722
Gronau I, Hubisz MJ, Gulko B, Danko CG, Siepel A (2011) Bayesian inference of ancient human
demography from individual genome sequences. Nat Genet 43:1031–1034
Gutenkunst RN, Hernandez RD, Williamson SH, Bustamante CD (2009) Inferring the joint
demographic history of multiple populations from multidimensional SNP frequency data. PLoS
Genet 5:e1000695
Haak W, Balanovsky O, Sanchez JJ, Koshel S, Zaporozhchenko V, Adler CJ, Der Sarkissian CS,
Brandt G, Schwarz C, Nicklisch N et al (2010) Ancient DNA from European early neolithic
farmers reveals their near eastern affinities. PLoS Biol 8:e1000536
Hammer MF, Mendez FL, Cox MP, Woerner AE, Wall JD (2008) Sex-biased evolutionary forces
shape genomic patterns of human diversity. PLoS Genet 4:e1000202
Hammer MF, Woerner AE, Mendez FL, Watkins JC, Cox MP, Wall JD (2010) The ratio of human
X chromosome to autosome diversity is positively correlated with genetic distance from genes.
Nat Genet 42:830–831
Hammer MF, Woerner AE, Mendez FL, Watkins JD, Wall JD (2011) Genetic evidence for archaic
admixture in Africa. Proc Natl Acad Sci USA 108:15123–15128
Harney E, Nayak A, Patterson N, Joglekar P, Mushrif-Tripathy V et al (2019) Ancient DNA from
the skeletons of Roopkund Lake reveals Mediterranean migrants in India. Nat Commun 10:3670
Hayakawa T, Aki I, Varki A, Satta Y, Takahata N (2006) Fixation of the human-specific CMPN-Acetylneuraminic acid hydroxylase pseudogene and implications of haplotype diversity for
human evolution. Genetics 172:1139–1146
Henn BM, Gignoux CR, Jobin M, Granka JM, Macpherson JM, Kidd JM, Rodriguez-Botigue L,
Ramachandran S, Hon L, Brisbin A et al (2011) Hunter-gatherer genomic diversity suggests a
southern African origin for modern humans. Proc Natl Acad Sci USA 108:5154–5162
Hsieh P, Woerner AE, Wall JD, Lachance J, Tishkoff SA et al (2016) Model-based analyses of
whole-genome data reveal a complex evolutionary history involving archaic introgression in
central African pygmies. Genome Res 26:291–300
International HapMap 3 Consortium (2010) Integrating common and rare genetic variation in
diverse human populations. Nature 467:52–58
International HapMap Consortium (2005) A haplotype map of the human genome. Nature
437:1299–1320
International HapMap Consortium (2007) A second generation human haplotype map of over 3.1
million SNPs. Nature 449:851–861
Jackson JP (2001) In ways unacademical: the reception of Carleton S. Coon’s the origin of races.
J History Biol 34:247–285
Jacobs GS, Hudjashov G, Saag L, Kusuma P, Darusallam CC, Lawson DJ, Mondal M, Pagani L et
al (2019) Multiple deeply divergent Denisovan ancestries in Papuans. Cell 177:1010–1021.e32
Jakobsson M, Scholz SW, Scheet P, Gibbs JR, VanLiere JM, Fung HC, Szpiech ZA, Degnan JH,
Wang K, Guerreiro R et al (2008) Genotype, haplotype and copy-number variation in worldwide
human populations. Nature 451:998–1003
Jones S, Martin RD, Pilbeam DR (eds) (1994) The Cambridge encylopedia of human evolution.
Cambridge University Press, Cambridge
Jones ER, Gonzalez-Fortes G, Connell S, Siska V, Eriksson A et al (2015) Upper Palaeolithic
genomes reveal deep roots of modern Eurasians. Nat Commun 6:8912
Kamm JA, Terhorst J, Song YS (2017) Efficient computation of the joint sample frequency spectra
for multiple populations. J Comp Graph Stat 26:182–194
Kamm J, Terhorst J, Durbin R, Song YS (2019) Efficiently inferring the demographic history of
many populations with allele count data. J Am Stat Assoc 115:1472–1487
J. D. Wall
Gignoux CR, Henn BM, Mountain JL (2011) Rapid, global demographic expansions after the
origins of agriculture. Proc Natl Acad Sci USA 108:6044–6049
Gravel S, Henn BM, Gutenkunst RN, Indap AR, Marth GT, Clark AG, Yu F, Gibbs RA, 1000
Genomes Project, Bustamante CD (2011) Demographic history and rare allele sharing among
human populations. Proc Natl Acad Sci USA 108:11983–11988
Green RE, Krause J, Briggs AW, Maricic T, Stenzel U, Kircher M, Patterson N, Li H, Zhai W, Fritz
MHY et al (2010) A draft sequence of the Neandertal genome. Science 328:710–722
Gronau I, Hubisz MJ, Gulko B, Danko CG, Siepel A (2011) Bayesian inference of ancient human
demography from individual genome sequences. Nat Genet 43:1031–1034
Gutenkunst RN, Hernandez RD, Williamson SH, Bustamante CD (2009) Inferring the joint
demographic history of multiple populations from multidimensional SNP frequency data. PLoS
Genet 5:e1000695
Haak W, Balanovsky O, Sanchez JJ, Koshel S, Zaporozhchenko V, Adler CJ, Der Sarkissian CS,
Brandt G, Schwarz C, Nicklisch N et al (2010) Ancient DNA from European early neolithic
farmers reveals their near eastern affinities. PLoS Biol 8:e1000536
Hammer MF, Mendez FL, Cox MP, Woerner AE, Wall JD (2008) Sex-biased evolutionary forces
shape genomic patterns of human diversity. PLoS Genet 4:e1000202
Hammer MF, Woerner AE, Mendez FL, Watkins JC, Cox MP, Wall JD (2010) The ratio of human
X chromosome to autosome diversity is positively correlated with genetic distance from genes.
Nat Genet 42:830–831
Hammer MF, Woerner AE, Mendez FL, Watkins JD, Wall JD (2011) Genetic evidence for archaic
admixture in Africa. Proc Natl Acad Sci USA 108:15123–15128
Harney E, Nayak A, Patterson N, Joglekar P, Mushrif-Tripathy V et al (2019) Ancient DNA from
the skeletons of Roopkund Lake reveals Mediterranean migrants in India. Nat Commun 10:3670
Hayakawa T, Aki I, Varki A, Satta Y, Takahata N (2006) Fixation of the human-specific CMPN-Acetylneuraminic acid hydroxylase pseudogene and implications of haplotype diversity for
human evolution. Genetics 172:1139–1146
Henn BM, Gignoux CR, Jobin M, Granka JM, Macpherson JM, Kidd JM, Rodriguez-Botigue L,
Ramachandran S, Hon L, Brisbin A et al (2011) Hunter-gatherer genomic diversity suggests a
southern African origin for modern humans. Proc Natl Acad Sci USA 108:5154–5162
Hsieh P, Woerner AE, Wall JD, Lachance J, Tishkoff SA et al (2016) Model-based analyses of
whole-genome data reveal a complex evolutionary history involving archaic introgression in
central African pygmies. Genome Res 26:291–300
International HapMap 3 Consortium (2010) Integrating common and rare genetic variation in
diverse human populations. Nature 467:52–58
International HapMap Consortium (2005) A haplotype map of the human genome. Nature
437:1299–1320
International HapMap Consortium (2007) A second generation human haplotype map of over 3.1
million SNPs. Nature 449:851–861
Jackson JP (2001) In ways unacademical: the reception of Carleton S. Coon’s the origin of races.
J History Biol 34:247–285
Jacobs GS, Hudjashov G, Saag L, Kusuma P, Darusallam CC, Lawson DJ, Mondal M, Pagani L et
al (2019) Multiple deeply divergent Denisovan ancestries in Papuans. Cell 177:1010–1021.e32
Jakobsson M, Scholz SW, Scheet P, Gibbs JR, VanLiere JM, Fung HC, Szpiech ZA, Degnan JH,
Wang K, Guerreiro R et al (2008) Genotype, haplotype and copy-number variation in worldwide
human populations. Nature 451:998–1003
Jones S, Martin RD, Pilbeam DR (eds) (1994) The Cambridge encylopedia of human evolution.
Cambridge University Press, Cambridge
Jones ER, Gonzalez-Fortes G, Connell S, Siska V, Eriksson A et al (2015) Upper Palaeolithic
genomes reveal deep roots of modern Eurasians. Nat Commun 6:8912
Kamm JA, Terhorst J, Song YS (2017) Efficient computation of the joint sample frequency spectra
for multiple populations. J Comp Graph Stat 26:182–194
Kamm J, Terhorst J, Durbin R, Song YS (2019) Efficiently inferring the demographic history of
many populations with allele count data. J Am Stat Assoc 115:1472–1487