66
P. Sjödin et al.
Cann HM, de Toma C, Cazes L, Legrand MF, Morel V et al (2002) A human genome diversity cell
line panel. Science 296:261–262
Cavalli-Sforza LL, Edwards AWF (1967) Phylogenetic analysis -models and estimation procedures. Am J Hum Gen 19:233–257
Cavalli-Sforza LL, Menozzi P, Piazza A (1994) The History and Geography of Human Genes.
Princeton University Press, Princeton, NJ
Chakraborty R, Jin L (1993) A unified approach to study hypervariable polymorphisms: statistical
considerations of determining relatedness and population distances. In: DNA fingerprinting:
state of the science. Birkhäuser, Basel, pp 153–175
Chen C, Durand E, Forbes F, François O (2007) Bayesian clustering algorithms ascertaining spatial
population structure: a new computer program and a comparison study. Mol Ecol Notes 7:747–
756
Corander J, Waldmann P, Sillanpää MJ (2003) Bayesian analysis of genetic differentiation between
populations. Genetics 163:367–374
Csilléry K, Blum MGB, Gaggiotti OE, François O (2010) Approximate Bayesian computation in
practice. Trends Ecol Evol 25:410–418
Csilléry K, François O, Blum MGB (2012) abc: an R package for approximate Bayesian
computation (ABC). Methods Ecol Evol 3:475–479
Duforet-Frebourg N, Blum MGB (2014) Nonstationary patterns of isolation-by-distance: inferring
measure of local genetic differentiation with Bayesian kriging. Evolution 68:1110–1123
Ewens WJ, Spielman RS (1995) The transmission/disequilibrium test: history, subdivision, and
admixture. Am J Hum Genet 57:455–464
Excoffier L, Lischer HEL (2010) Arlequin suite ver 3.5: a new series of programs to perform
population genetics analyses under Linux and Windows. Mol Ecol Res 10:564–567
Falush D, Stephens M, Pritchard JK (2003) Inference of population structure using multilocus
genotype data: linked loci and correlated allele frequencies. Genetics 164:1567–1587
Felsenstein, J (1983) Parsimony in systematics: biological and statistical issues. Annu Rev Ecol
Syst 14:313–333
Foreman L, Smith A, Evett I (1997) Bayesian analysis of DNA profiling data in forensic
identification applications. J R Stat Soc A 160:429–469
Goldstein DB, Ruiz Linares A, Cavalli-Sforza LL, Feldman MW (1995) Genetic absolute dating
based on microsatellites and the origin of modern humans. Proc Natl Acad Sci USA 92:6723–
6727
Green RE, Krause J, Briggs AW, Maricic T, Stenzel U et al (2010) A draft sequence of the
Neandertal genome. Science 328:710–722
Guillot G, Estoup A, Mortier F, Cosson JF (2005) A spatial statistical model for landscape genetics.
Genetics 170:1261–1280
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
Hey J, Nielsen R (2004) Multilocus methods for estimating population sizes, migration rates
and divergence time, with applications to the divergence of Drosophila pseudoobscura and D.
persimilis. Genetics 167:747–760
Hey J, Nielsen R (2007) Integration within the Felsenstein equation for improved Markov chain
Monte Carlo methods in population genetics. Proc Natl Acad Sci USA 104:2785–2790
Holsinger KE, Weir BS (2009) Genetics in geographically structured populations: defining,
estimating and interpreting F(ST). Nat Rev Genet 10:639–650
Jakobsson M, Rosenberg NA (2007) CLUMPP: a cluster matching and permutation program for
dealing with label switching and multimodality in analysis of population structure. Bioinformatics 23:1801–1806
Jakobsson M, Scholz SW, Scheet P, Gibbs JR, VanLiere JM et al (2008) Genotype, haplotype and
copy-number variation in worldwide human populations. Nature 451:998–1003
Jay F, Sjödin P, Jakobsson M, Blum MGM (2013) Anisotropic isolation by distance: the main
orientations of human genetic differentiation. Mol Biol Evol 30:513–525
P. Sjödin et al.
Cann HM, de Toma C, Cazes L, Legrand MF, Morel V et al (2002) A human genome diversity cell
line panel. Science 296:261–262
Cavalli-Sforza LL, Edwards AWF (1967) Phylogenetic analysis -models and estimation procedures. Am J Hum Gen 19:233–257
Cavalli-Sforza LL, Menozzi P, Piazza A (1994) The History and Geography of Human Genes.
Princeton University Press, Princeton, NJ
Chakraborty R, Jin L (1993) A unified approach to study hypervariable polymorphisms: statistical
considerations of determining relatedness and population distances. In: DNA fingerprinting:
state of the science. Birkhäuser, Basel, pp 153–175
Chen C, Durand E, Forbes F, François O (2007) Bayesian clustering algorithms ascertaining spatial
population structure: a new computer program and a comparison study. Mol Ecol Notes 7:747–
756
Corander J, Waldmann P, Sillanpää MJ (2003) Bayesian analysis of genetic differentiation between
populations. Genetics 163:367–374
Csilléry K, Blum MGB, Gaggiotti OE, François O (2010) Approximate Bayesian computation in
practice. Trends Ecol Evol 25:410–418
Csilléry K, François O, Blum MGB (2012) abc: an R package for approximate Bayesian
computation (ABC). Methods Ecol Evol 3:475–479
Duforet-Frebourg N, Blum MGB (2014) Nonstationary patterns of isolation-by-distance: inferring
measure of local genetic differentiation with Bayesian kriging. Evolution 68:1110–1123
Ewens WJ, Spielman RS (1995) The transmission/disequilibrium test: history, subdivision, and
admixture. Am J Hum Genet 57:455–464
Excoffier L, Lischer HEL (2010) Arlequin suite ver 3.5: a new series of programs to perform
population genetics analyses under Linux and Windows. Mol Ecol Res 10:564–567
Falush D, Stephens M, Pritchard JK (2003) Inference of population structure using multilocus
genotype data: linked loci and correlated allele frequencies. Genetics 164:1567–1587
Felsenstein, J (1983) Parsimony in systematics: biological and statistical issues. Annu Rev Ecol
Syst 14:313–333
Foreman L, Smith A, Evett I (1997) Bayesian analysis of DNA profiling data in forensic
identification applications. J R Stat Soc A 160:429–469
Goldstein DB, Ruiz Linares A, Cavalli-Sforza LL, Feldman MW (1995) Genetic absolute dating
based on microsatellites and the origin of modern humans. Proc Natl Acad Sci USA 92:6723–
6727
Green RE, Krause J, Briggs AW, Maricic T, Stenzel U et al (2010) A draft sequence of the
Neandertal genome. Science 328:710–722
Guillot G, Estoup A, Mortier F, Cosson JF (2005) A spatial statistical model for landscape genetics.
Genetics 170:1261–1280
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
Hey J, Nielsen R (2004) Multilocus methods for estimating population sizes, migration rates
and divergence time, with applications to the divergence of Drosophila pseudoobscura and D.
persimilis. Genetics 167:747–760
Hey J, Nielsen R (2007) Integration within the Felsenstein equation for improved Markov chain
Monte Carlo methods in population genetics. Proc Natl Acad Sci USA 104:2785–2790
Holsinger KE, Weir BS (2009) Genetics in geographically structured populations: defining,
estimating and interpreting F(ST). Nat Rev Genet 10:639–650
Jakobsson M, Rosenberg NA (2007) CLUMPP: a cluster matching and permutation program for
dealing with label switching and multimodality in analysis of population structure. Bioinformatics 23:1801–1806
Jakobsson M, Scholz SW, Scheet P, Gibbs JR, VanLiere JM et al (2008) Genotype, haplotype and
copy-number variation in worldwide human populations. Nature 451:998–1003
Jay F, Sjödin P, Jakobsson M, Blum MGM (2013) Anisotropic isolation by distance: the main
orientations of human genetic differentiation. Mol Biol Evol 30:513–525