Inference of population splits and mixtures from genome-wide allele frequency data

The neighbor-joining method: a new method for reconstructing phylogenetic trees.

Saitou, N., & Nei, M. (1987) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040454 · Cited by 59,962 · see citing works

Inference of Population Structure Using Multilocus Genotype Data

Pritchard, J. K., Stephens, M., & Donnelly, P. (2000) · Genetics · doi:10.1093/genetics/155.2.945 · Cited by 33,871 · see citing works

ESTIMATION OF AVERAGE HETEROZYGOSITY AND GENETIC DISTANCE FROM A SMALL NUMBER OF INDIVIDUALS

Nei, M. (1978) · Genetics · doi:10.1093/genetics/89.3.583 · Cited by 11,499 · see citing works

Application of Phylogenetic Networks in Evolutionary Studies

Huson, D. H., & Bryant, D. (2005) · Molecular Biology and Evolution · doi:10.1093/molbev/msj030 · Cited by 8,751 · see citing works

Solving Least Squares Problems

Lawson, C. L., & Hanson, R. J. (1995) · doi:10.1137/1.9781611971217 · Cited by 7,103 · see citing works

Probabilistic Graphical Models: Principles and Techniques - Adaptive Computation and Machine Learning

Koller, D., & Friedman, N. (2009) · The MIT Press eBooks · Cited by 6,653 · see citing works

Untitled work

(2009) · Cited by 6,153 · see citing works

Population Structure and Eigenanalysis

Patterson, N., Price, A. L., & Reich, D. (2006) · PLoS Genetics · doi:10.1371/journal.pgen.0020190 · Cited by 5,280 · see citing works

A draft sequence of the Neandertal genome

Green, R. E., Krause, J., Briggs, A. W., Maricic, T., Stenzel, U., Kircher, M., Patterson, N., Li, H., Zhai, W., Fritz, M. H.-Y., et al. (2010) · Science · doi:10.1126/science.1188021 · Cited by 4,318 · see citing works

Mitochondrial DNA and human evolution

Cann, R. L., Stoneking, M., & Wilson, A. C. (1987) · Nature · doi:10.1038/325031a0 · Cited by 3,100 · see citing works

Inferring Phylogenies.

Wooding, S. (2004) · The American Journal of Human Genetics · doi:10.1086/383584 · Cited by 3,093 · see citing works

Genetic Structure of Human Populations

Rosenberg, N. A., Pritchard, J. K., Weber, J. L., Cann, H. M., Kídd, K. K., Анатольевич, Ж. Л., & Feldman, M. W. (2002) · Science · doi:10.1126/science.1078311 · Cited by 3,000 · see citing works

Approximate Bayesian computation in population genetics

Beaumont, M. A., Zhang, W., & Balding, D. J. (2002) · Genetics · doi:10.1093/genetics/162.4.2025 · Cited by 2,932 · see citing works

Ancient Admixture in Human History

Patterson, N., Moorjani, P., Luo, Y., Mallick, S., Rohland, N., Zhan, Y., Genschoreck, T., Webster, T., & Reich, D. (2012) · Genetics · doi:10.1534/genetics.112.145037 · Cited by 2,848 · see citing works

Genome sequence, comparative analysis and haplotype structure of the domestic dog

members, B. S. P., Lindblad-Toh, K., Wade, C. M., Mikkelsen, T. S., Karlsson, E. K., Jaffe, D. B., Kamal, M., Clamp, M., Chang, J. L., Kulbokas, E. J., et al. (2005) · Nature · doi:10.1038/nature04338 · Cited by 2,568 · see citing works

Generating samples under a Wright–Fisher neutral model of genetic variation

Hudson, R. R. (2002) · Bioinformatics · doi:10.1093/bioinformatics/18.2.337 · Cited by 2,397 · see citing works

Phylogenetic analysis: models and estimation procedures

Winther, R. G. (2018) · Cambridge University Press eBooks · doi:10.1017/9781316276259.010 · Cited by 2,258 · see citing works

PHYLOGENETIC ANALYSIS: MODELS AND ESTIMATION PROCEDURES

Cavalli-Sforza, L. L., & Edwards, A. W. F. (1967) · Evolution · doi:10.1111/j.1558-5646.1967.tb03411.x · Cited by 2,243 · see citing works

Genetic history of an archaic hominin group from Denisova Cave in Siberia

Reich, D., Green, R. E., Kircher, M., Krause, J., Patterson, N., Durand, E. Y., Viola, B., Briggs, A. W., Stenzel, U., Johnson, P. L. F., et al. (2010) · Nature · doi:10.1038/nature09710 · Cited by 1,991 · see citing works

Worldwide Human Relationships Inferred from Genome-Wide Patterns of Variation

Li, J. Z., Absher, D. M., Tang, H., Southwick, A. M., Casto, A. M., Ramachandran, S., Cann, H. M., Barsh, G. S., Feldman, M. W., Cavalli-Sforza, L. L., et al. (2008) · Science · doi:10.1126/science.1153717 · Cited by 1,947 · see citing works

Inferring the joint demographic history of multiple populations from multidimensional SNP frequency data

Gutenkunst, R. N., Hernandez, R. D., Williamson, S. H., & Bustamante, C. D. (2009) · PLoS Genetics · doi:10.1371/journal.pgen.1000695 · Cited by 1,906 · see citing works

Reconstructing Indian population history

Reich, D., Thangaraj, K., Patterson, N., Price, A. L., & Singh, L. (2009) · Nature · doi:10.1038/nature08365 · Cited by 1,674 · see citing works

DendroPy: a Python library for phylogenetic computing

Sukumaran, J., & Holder, M. T. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq228 · Cited by 1,637 · see citing works

Genes mirror geography within Europe

Novembre, J., Johnson, T., Bryc, K., Kutalik, Z., Boyko, A. R., Auton, A., Indap, A., King, K. S., Bergmann, S., Nelson, M. R., et al. (2008) · Nature · doi:10.1038/nature07331 · Cited by 1,479 · see citing works

Multilocus Methods for Estimating Population Sizes, Migration Rates and Divergence Time, With Applications to the Divergence of Drosophila pseudoobscura and D. persimilis

Hey, J., & Nielsen, R. (2004) · Genetics · doi:10.1534/genetics.103.024182 · Cited by 1,434 · see citing works

Population genomics of domestic and wild yeasts

Liti, G., Carter, D. M., Moses, A. M., Warringer, J., Parts, L., James, S. A., Davey, R., Roberts, I. N., Burt, A., Koufopanou, V., et al. (2008) · Nature · doi:10.1038/nature07743 · Cited by 1,391 · see citing works

Testing for ancient admixture between closely related populations

Durand, E. Y., Patterson, N., Reich, D., & Slatkin, M. (2011) · Molecular Biology and Evolution · doi:10.1093/molbev/msr048 · Cited by 1,375 · see citing works

Phylogenetic Analysis: Models and Estimation Procedures

Cavalli-Sforza, L. L., & Edwards, A. W. F. (1967) · Evolution · doi:10.2307/2406616 · Cited by 1,216 · see citing works

Population growth of human Y chromosomes: a study of Y chromosome microsatellites.

Pritchard, J., Seielstad, M., Pérez-Lezaun, A., & Feldman, M. (1999) · Molecular biology and evolution · doi:10.1093/oxfordjournals.molbev.a026091 · Cited by 1,201 · see citing works

Inference of Population Structure using Dense Haplotype Data

Lawson, D. J., Hellenthal, G., Myers, S., & Falush, D. (2012) · PLoS Genetics · doi:10.1371/journal.pgen.1002453 · Cited by 1,188 · see citing works

Numerical recipes in C (2nd ed.): the art of scientific computing

Press, W. H., Teukolsky, S. A., Vetterling, W. T., & Flannery, B. P. (1992) · Cambridge University Press eBooks · Cited by 1,156 · see citing works

Maximum-Likelihood Estimation of Migration Rates and Effective Population Numbers in Two Populations Using a Coalescent Approach

Beerli, P., & Felsenstein, J. (1999) · Genetics · doi:10.1093/genetics/152.2.763 · Cited by 985 · see citing works

Reconstruction of human evolution: bringing together genetic, archaeological, and linguistic data.

Cavalli-Sforza, L. L., Piazza, A., Menozzi, P., & Mountain, J. L. (1988) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.85.16.6002 · Cited by 910 · see citing works

Genotype, haplotype and copy-number variation in worldwide human populations

Jakobsson, M., Scholz, S. W., Scheet, P. A., Gibbs, J. R., Canzoniero, J. V., Fung, H., Szpiech, Z. A., Degnan, J. H., Wang, K., Guerreiro, R. J., et al. (2008) · Nature · doi:10.1038/nature06742 · Cited by 871 · see citing works

Genome-wide SNP and haplotype analyses reveal a rich history underlying dog domestication

vonHoldt, B. M., Pollinger, J. P., Lohmueller, K. E., Han, E., Parker, H. G., Quignon, P., Degenhardt, J. D., Boyko, A. R., Earl, D. A., Auton, A., et al. (2010) · Nature · doi:10.1038/nature08837 · Cited by 804 · see citing works

An aboriginal Australian genome reveals separate human dispersals into Asia

Rasmussen, M., Guo, X., Wang, Y., Lohmueller, K. E., Rasmussen, S., Albrechtsen, A., Skotte, L., Lindgreen, S., Metspalu, M., Jombart, T., et al. (2011) · Science · doi:10.1126/science.1211177 · Cited by 787 · see citing works

Using Environmental Correlations to Identify Loci Underlying Local Adaptation

Coop, G., Witonsky, D., Rienzo, A. D., & Pritchard, J. K. (2010) · Genetics · doi:10.1534/genetics.110.114819 · Cited by 701 · see citing works

Maximum-likelihood estimation of evolutionary trees from continuous characters.

(1973) · Europe PMC (PubMed Central) · Cited by 700 · see citing works

Interpreting principal component analyses of spatial population genetic variation

Novembre, J., & Stephens, M. (2008) · Nature Genetics · doi:10.1038/ng.139 · Cited by 663 · see citing works

Denisova Admixture and the First Modern Human Dispersals into Southeast Asia and Oceania

Reich, D., Patterson, N., Kircher, M., Delfin, F., Nandineni, M. R., Pugach, I., Ko, A. M.-S., Ko, Y.-C., Jinam, T. A., Phipps, M. E., et al. (2011) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2011.09.005 · Cited by 656 · see citing works

Estimating F-Statistics

Weir, B. S., & Hill, W. G. (2002) · Annual Review of Genetics · doi:10.1146/annurev.genet.36.050802.093940 · Cited by 650 · see citing works

Synthetic Maps of Human Gene Frequencies in Europeans

Menozzi, P., Piazza, A., & Cavalli-Sforza, L. L. (1978) · Science · doi:10.1126/science.356262 · Cited by 639 · see citing works

Calibrating a coalescent simulation of human genome sequence variation

Schaffner, S. F., Foo, C., Gabriel, S., Reich, D., Daly, M. J., & Altshuler, D. (2005) · Genome Research · doi:10.1101/gr.3709305 · Cited by 616 · see citing works

Bayesian inference of ancient human demography from individual genome sequences

Gronau, I., Hubisz, M. J., Gulko, B., Danko, C. G., & Siepel, A. C. (2011) · Nature Genetics · doi:10.1038/ng.937 · Cited by 580 · see citing works

A Genealogical Interpretation of Principal Components Analysis

McVean, G. (2009) · PLoS Genetics · doi:10.1371/journal.pgen.1000686 · Cited by 566 · see citing works

Phylogenetic Networks

Huson, D. H., Rupp, R., & Scornavacca, C. (2010) · Cambridge University Press eBooks · doi:10.1017/cbo9780511974076 · Cited by 562 · see citing works

Sensitive detection of chromosomal segments of distinct ancestry in admixed populations

Price, A. L., Tandon, A., Patterson, N., Barnes, K. C., Rafaels, N., Ruczinski, I., Beaty, T. H., Mathias, R., Reich, D., & Myers, S. (2009) · PLoS Genetics · doi:10.1371/journal.pgen.1000519 · Cited by 539 · see citing works

A Simple Genetic Architecture Underlies Morphological Variation in Dogs

Boyko, A., Quignon, P., Li, L., Schoenebeck, J., Degenhardt, J. D., Lohmueller, K., Zhao, K., Brisbin, A., Parker, H., Vonholdt, B., et al. (2010) · PLoS Biology · doi:10.1371/journal.pbio.1000451 · Cited by 469 · see citing works

EVOLUTIONARY TREES FROM GENE FREQUENCIES AND QUANTITATIVE CHARACTERS: FINDING MAXIMUM LIKELIHOOD ESTIMATES

Felsenstein, J. (1981) · Evolution · doi:10.1111/j.1558-5646.1981.tb04991.x · Cited by 433 · see citing works

Genetic Structure of the Purebred Domestic Dog

Parker, H., Kim, L., Sutter, N., Carlson, S., Lorentzen, T. D., Malek, T. B., Johnson, G. S., DeFrance, H. B., Ostrander, E., & Kruglyak, L. (2004) · Science · doi:10.1126/science.1097406 · Cited by 405 · see citing works

Phylogenetic Networks: Concepts, Algorithms and Applications

Huson, D. H., Rupp, R., & Scornavacca, C. (2011) · Cited by 341 · see citing works

Genomic Ancestry of North Africans Supports Back-to-Africa Migrations

Henn, B. M., Botigué, L. R., Gravel, S., Wang, W., Brisbin, A., Byrnes, J. K., Fadhlaoui-Zid, K., Zalloua, P. A., Moreno-Estrada, A., Bertranpetit, J., et al. (2012) · PLoS Genetics · doi:10.1371/journal.pgen.1002397 · Cited by 331 · see citing works

Population Graphs: the graph theoretic shape of genetic structure

Dyer, R. J., & Nason, J. D. (2004) · Molecular Ecology · doi:10.1111/j.1365-294x.2004.02177.x · Cited by 315 · see citing works

Evolutionary relationships of human populations on a global scale.

Nei, M., & Roychoudhury, A. K. (1993) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040059 · Cited by 310 · see citing works

Detecting Selection in Population Trees: The Lewontin and Krakauer Test Extended

Bonhomme, M., Chevalet, C., Servin, B., Boitard, S., Abdallah, J., Blott, S. C., & SanCristobal, M. (2010) · Genetics · doi:10.1534/genetics.110.117275 · Cited by 280 · see citing works

Measurement of the human allele frequency spectrum demonstrates greater genetic drift in East Asians than in Europeans

Keinan, A., Mullikin, J. C., Patterson, N., & Reich, D. (2007) · Nature Genetics · doi:10.1038/ng2116 · Cited by 272 · see citing works

Genic variation within and between the three major races of man, Caucasoids, Negroids, and Mongoloids.

Nei, M., & Roychoudhury, A. K. (1974) · PubMed · Cited by 249 · see citing works

A new approach to estimate parameters of speciation models with application to apesPreprint

Becquet, C., & Przeworski, M. (2007) · Genome Research · doi:10.1101/gr.6409707 · Cited by 245 · see citing works

The History of African Gene Flow into Southern Europeans, Levantines, and Jews

Moorjani, P., Patterson, N. J., Hirschhorn, J. N., Keinan, A., Hao, L., Atzmon, G., Burns, E. R., D, H. O. M., Price, A. L., & Reich, D. (2011) · PLoS Genetics · doi:10.1371/journal.pgen.1001373 · Cited by 240 · see citing works

Assessing Population Differentiation and Isolation from Single-Nucleotide Polymorphism Data

Nicholson, G., Smith, A. V., Jónsson, F., Gústafsson, Ó., Stefánsson, K., & Donnelly, P. (2002) · Journal of the Royal Statistical Society Series B (Statistical Methodology) · doi:10.1111/1467-9868.00357 · Cited by 223 · see citing works

Demographic History of Oceania Inferred from Genome-wide Data

Wollstein, A., Lao, O., Becker, C., Brauer, S., Trent, R. J., Nürnberg, P., Stoneking, M., & Kayser, M. (2010) · Current Biology · doi:10.1016/j.cub.2010.10.040 · Cited by 218 · see citing works

Identifying Hybridization Events in the Presence of Coalescence via Model Selection

Kubatko, L. S. (2009) · Systematic Biology · doi:10.1093/sysbio/syp055 · Cited by 181 · see citing works

Analysis of Genomic Admixture in Uyghur and Its Implication in Mapping Strategy

Xu, S., Huang, W., Qian, J., & Li, J. (2008) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2008.01.017 · Cited by 178 · see citing works

Mitochondrial DNA and human evolution

Cann, R. L. (1996) · Oxford University Press eBooks · doi:10.1093/acprof:oso/9780198523901.003.0008 · Cited by 178 · see citing works

Explaining worldwide patterns of human genetic variation using a coalescent-based serial founder model of migration outward from Africa

DeGiorgio, M., Jakobsson, M., & Rosenberg, N. A. (2009) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0903341106 · Cited by 175 · see citing works

Evolutionary Trees From Gene Frequencies and Quantitative Characters: Finding Maximum Likelihood Estimates

Felsenstein, J. (1981) · Evolution · doi:10.2307/2408134 · Cited by 168 · see citing works

Analysis of evolution: Evolutionary rates, independence and treeness

Cavalli-Sforza, L. L., & Piazza, A. (1975) · Theoretical Population Biology · doi:10.1016/0040-5809(75)90029-5 · Cited by 157 · see citing works

Principal Component Analysis under Population Genetic Models of Range Expansion and Admixture

François, O., Currat, M., Ray, N., Han, E., Excoffier, L., & Novembre, J. (2010) · Molecular Biology and Evolution · doi:10.1093/molbev/msq010 · Cited by 149 · see citing works

How can we infer geography and history from gene frequencies?

Felsenstein, J. (1982) · Journal of Theoretical Biology · doi:10.1016/0022-5193(82)90152-7 · Cited by 148 · see citing works

Analytic review: some current problems of human population genetics.

Cavalli-Sforza, L. L. (1973) · PubMed · Cited by 111 · see citing works

Phylogenetic Networks: Concepts, Algorithms and Applications

Kelk, S. M. (2011) · Systematic Biology · doi:10.1093/sysbio/syr054 · Cited by 108 · see citing works

The complete dog book,

Bruette, W. A. (1921) · doi:10.5962/bhl.title.42425 · Cited by 101 · see citing works

Inferring Human Colonization History Using a Copying Model

Hellenthal, G., Auton, A., & Falush, D. (2008) · PLoS Genetics · doi:10.1371/journal.pgen.1000078 · Cited by 91 · see citing works

Perspectives on Human Population Structure at the Cusp of the Sequencing Era

Novembre, J., & Ramachandran, S. (2011) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev-genom-090810-183123 · Cited by 86 · see citing works

Genome-wide Comparison of African-Ancestry Populations from CARe and Other Cohorts Reveals Signals of Natural Selection

Bhatia, G., Patterson, N. J., Paşaniuc, B., Zaitlen, N., Genovese, G., Pollack, S. J., Mallick, S., Myers, S., Tandon, A., Spencer, C. C. A., et al. (2011) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2011.07.025 · Cited by 85 · see citing works

MAXIMUM-LIKELIHOOD ESTIMATION OF POPULATION DIVERGENCE TIMES AND POPULATION PHYLOGENY IN MODELS WITHOUT MUTATION

Nielsen, R., Mountain, J. L., Huelsenbeck, J. P., & Slatkin, M. (1998) · Evolution · doi:10.1111/j.1558-5646.1998.tb03692.x · Cited by 56 · see citing works

A Two-Stage Pruning Algorithm for Likelihood Computation for a Population Tree

RoyChoudhury, A., Felsenstein, J., & Thompson, E. A. (2008) · Genetics · doi:10.1534/genetics.107.085753 · Cited by 52 · see citing works

Evolutionary trees and admixture: phylogenetic inference when some populations are hybridized

Lathrop, M. G. (1982) · Annals of Human Genetics · doi:10.1111/j.1469-1809.1982.tb00716.x · Cited by 45 · see citing works

Reconstructing Population Histories from Single Nucleotide Polymorphism Data

Sirén, J., Marttinen, P., & Corander, J. (2010) · Molecular Biology and Evolution · doi:10.1093/molbev/msq236 · Cited by 43 · see citing works

Population genomics of domestic and wild yeastsPreprint

Carter, D. M., Liti, G., Moses, A. M., et al. (2008) · Nature Precedings · doi:10.1038/npre.2008.1988.1 · Cited by 33 · see citing works

Maximum-Likelihood Estimation of Population Divergence Times and Population Phylogeny in Models without Mutation

Nielsen, R., Mountain, J. L., Huelsenbeck, J. P., et al. (1998) · Evolution · doi:10.2307/2411262 · Cited by 27 · see citing works

Ancient Admixture in Human History

Patterson, N., Moorjani, P., Luo, Y., Mallick, S., Rohland, N., Zhan, Y., Genschoreck, T., Webster, T., & Reich, D. (2012) · Genetics · doi:10.1534/genetics.112.145037 · Cited by 2,848 · see citing works

A high-coverage genome sequence from an archaic denisovan individual

Meyer, M., Kircher, M., Gansauge, M.-T., Li, H., Racimo, F., Mallick, S., Schraiber, J. G., Jay, F., Prüfer, K., de Filippo, C., et al. (2012) · Science · doi:10.1126/science.1224344 · Cited by 1,967 · see citing works

Massive migration from the steppe was a source for Indo-European languages in Europe

Haak, W., Lazaridis, I., Patterson, N., Rohland, N., Mallick, S., Llamas, B., Brandt, G., Nordenfelt, S., Harney, E., Stewardson, K., et al. (2015) · Nature · doi:10.1038/nature14317 · Cited by 1,940 · see citing works

fastSTRUCTURE: Variational Inference of Population Structure in Large SNP Data Sets

Raj, A., Stephens, M., & Pritchard, J. K. (2014) · Genetics · doi:10.1534/genetics.114.164350 · Cited by 1,666 · see citing works

Ancient human genomes suggest three ancestral populations for present-day Europeans

Lazaridis, I., Patterson, N., Mittnik, A., Renaud, G., Mallick, S., Kirsanow, K., Sudmant, P. H., Schraiber, J. G., Castellano, S., Lipson, M., et al. (2014) · Nature · doi:10.1038/nature13673 · Cited by 1,357 · see citing works

Dsuite ‐ Fast <i>D</i> ‐statistics and related admixture evidence from VCF files

Malinsky, M., Matschiner, M., & Svardal, H. (2021) · Molecular Ecology Resources · doi:10.1111/1755-0998.13265 · Cited by 992 · see citing works

Upper Palaeolithic Siberian genome reveals dual ancestry of Native Americans

Raghavan, M., Skoglund, P., Graf, K. E., Metspalu, M., Albrechtsen, A., Moltke, I., Rasmussen, S., Stafford Jr, T. W., Orlando, L., Metspalu, E., et al. (2014) · Nature · doi:10.1038/nature12736 · Cited by 963 · see citing works

ipyrad: Interactive assembly and analysis of RADseq datasets

Eaton, D. A. R., & Overcast, I. (2019) · Bioinformatics · doi:10.1093/bioinformatics/btz966 · Cited by 883 · see citing works

Wild Mouse Gut Microbiota Promotes Host Fitness and Improves Disease Resistance

Rosshart, S. P., Vassallo, B. G., Angeletti, D., Hutchinson, D. S., Morgan, A. P., Takeda, K., Hickman, H. D., McCulloch, J. A., Badger, J. H., Ajami, N. J., et al. (2017) · Cell · doi:10.1016/j.cell.2017.09.016 · Cited by 862 · see citing works

A genetic atlas of human admixture history

Hellenthal, G., Busby, G. B. J., Band, G., Wilson, J. F., Capelli, C., Falush, D., & Myers, S. (2014) · Science · doi:10.1126/science.1243518 · Cited by 798 · see citing works

Genome sequencing highlights the dynamic early history of dogs

Freedman, A. H., Gronau, I., Schweizer, R. M., Ortega-Del Vecchyo, D., Han, E., Silva, P. M., Galaverni, M., Fan, Z., Marx, P., Lorente-Galdos, B., et al. (2014) · PLoS Genetics · doi:10.1371/journal.pgen.1004016 · Cited by 624 · see citing works

Visualizing spatial population structure with estimated effective migration surfaces

Petkova, D., Novembre, J., & Stephens, M. (2015) · Nature Genetics · doi:10.1038/ng.3464 · Cited by 624 · see citing works

DNA analysis of an early modern human from Tianyuan Cave, China

Fu, Q., Meyer, M., Gao, X., Stenzel, U., Burbano, H. A., Kelso, J., & Pääbo, S. (2013) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1221359110 · Cited by 608 · see citing works

Robust Identification of Local Adaptation from Allele Frequencies

Günther, T., & Coop, G. (2013) · Genetics · doi:10.1534/genetics.113.152462 · Cited by 591 · see citing works

The genome of a Late Pleistocene human from a Clovis burial site in western Montana

Rasmussen, M., Anzick, S. L., Waters, M. R., Skoglund, P., DeGiorgio, M., Stafford, T. W., Rasmussen, S., Moltke, I., Albrechtsen, A., Doyle, S. M., et al. (2014) · Nature · doi:10.1038/nature13025 · Cited by 562 · see citing works

A tutorial on how not to over-interpret STRUCTURE and ADMIXTURE bar plots

Lawson, D. J., van Dorp, L., & Falush, D. (2018) · Nature Communications · doi:10.1038/s41467-018-05257-7 · Cited by 560 · see citing works

Whole-genome sequences of Malawi cichlids reveal multiple radiations interconnected by gene flow

Malinsky, M., Svardal, H., Tyers, A. M., Miska, E. A., Genner, M. J., Turner, G. F., & Durbin, R. M. (2018) · Nature Ecology & Evolution · doi:10.1038/s41559-018-0717-x · Cited by 557 · see citing works

A genomic perspective on hybridization and speciation

Payseur, B. A., & Rieseberg, L. H. (2016) · Molecular Ecology · doi:10.1111/mec.13557 · Cited by 544 · see citing works

Genomic evidence for the Pleistocene and recent population history of Native Americans

Raghavan, M., Steinrücken, M., Harris, K., Schiffels, S., Rasmussen, S., DeGiorgio, M., Albrechtsen, A., Valdiosera, C., Ávila-Arcos, M. C., Malaspinas, A.-S., et al. (2015) · Science · doi:10.1126/science.aab3884 · Cited by 540 · see citing works

Inferring Phylogenetic Networks with Maximum Pseudolikelihood under Incomplete Lineage Sorting

Solís‐Lemus, C., & Ané, C. (2016) · PLoS Genetics · doi:10.1371/journal.pgen.1005896 · Cited by 526 · see citing works

Worldwide Patterns of Ancestry, Divergence, and Admixture in Domesticated Cattle

Decker, J. E., McKay, S. D., Rolf, M. M., Kim, J., Molina Alcalá, A., Sonstegard, T. S., Hanotte, O., Götherström, A., Seabury, C. M., Praharani, L., et al. (2014) · PLoS Genetics · doi:10.1371/journal.pgen.1004254 · Cited by 521 · see citing works

The prehistoric peopling of Southeast Asia

McColl, H., Racimo, F., Vinner, L., Demeter, F., Gakuhari, T., Moreno-Mayar, J. V., van Driem, G., Gram Wilken, U., Seguin-Orlando, A., de la Fuente Castro, C., et al. (2018) · Science · doi:10.1126/science.aat3628 · Cited by 517 · see citing works

Genome-Wide Scan for Adaptive Divergence and Association with Population-Specific Covariates

Gautier, M. (2015) · Genetics · doi:10.1534/genetics.115.181453 · Cited by 505 · see citing works

A population genetic signal of polygenic adaptation

Berg, J. J., & Coop, G. (2014) · PLoS Genetics · doi:10.1371/journal.pgen.1004412 · Cited by 487 · see citing works

The genetics of Mexico recapitulates Native American substructure and affects biomedical traits

Moreno-Estrada, A., Gignoux, C. R., Fernández-López, J. C., Zakharia, F., Sikora, M., Contreras, A. V., Acuña-Alonzo, V., Sandoval, K., Eng, C., Romero-Hidalgo, S., et al. (2014) · Science · doi:10.1126/science.1251688 · Cited by 478 · see citing works

Inferring admixture histories of human populations using linkage disequilibrium

Loh, P.-R., Lipson, M., Patterson, N., Moorjani, P., Pickrell, J. K., Reich, D., & Berger, B. (2013) · Genetics · doi:10.1534/genetics.112.147330 · Cited by 466 · see citing works

Ancient DNA indicates human population shifts and admixture in northern and southern China

Yang, M. A., Fan, X., Sun, B., Chen, C., Lang, J., Ko, Y., Tsang, C.-H., Chiu, H.-L., Wang, T., Bao, Q., et al. (2020) · Science · doi:10.1126/science.aba0909 · Cited by 465 · see citing works

PhyloNetworks: A Package for Phylogenetic Networks

Solís‐Lemus, C., Bastide, P., & Ané, C. (2017) · Molecular Biology and Evolution · doi:10.1093/molbev/msx235 · Cited by 457 · see citing works

The Reference Genome of Tea Plant and Resequencing of 81 Diverse Accessions Provide Insights into Its Genome Evolution and Adaptation

Xia, E., Tong, W., Hou, Y., An, Y., Chen, L., Wu, Q., Liu, Y., Yu, J., Li, F., Li, R., et al. (2020) · Molecular Plant · doi:10.1016/j.molp.2020.04.010 · Cited by 457 · see citing works

Genomic and archaeological evidence suggest a dual origin of domestic dogs

Frantz, L., Mullin, V. E., Pionnier-Capitan, M., Lebrasseur, O., Ollivier, M., Perri, A. R., Linderholm, A. E., Mattiangeli, V., Teasdale, M. D., Dimopoulos, E. A., et al. (2016) · Science · doi:10.1126/science.aaf3161 · Cited by 449 · see citing works

Genomic Analyses Reveal the Influence of Geographic Origin, Migration, and Hybridization on Modern Dog Breed Development

Parker, H. G., Dreger, D. L., Rimbault, M., Davis, B. W., Mullen, A. B., Carpintero-Ramirez, G., & Ostrander, E. A. (2017) · Cell Reports · doi:10.1016/j.celrep.2017.03.079 · Cited by 438 · see citing works

Terminal Pleistocene Alaskan genome reveals first founding population of Native Americans

Moreno-Mayar, J. V., Potter, B. A., Vinner, L., Steinrücken, M., Rasmussen, S., Terhorst, J., Kamm, J., Albrechtsen, A., Malaspinas, A., Sikora, M., et al. (2018) · Nature · doi:10.1038/nature25173 · Cited by 423 · see citing works

Genomic insights into the peopling of the Southwest Pacific

Skoglund, P., Posth, C., Sirak, K., Spriggs, M., Valentin, F., Bedford, S., Clark, G. R., Reepmeyer, C., Petchey, F., Fernandes, D., et al. (2016) · Nature · doi:10.1038/nature19844 · Cited by 414 · see citing works

Natural selection interacts with recombination to shape the evolution of hybrid genomes

Schumer, M., Xu, C., Powell, D. L., Durvasula, A., Skov, L., Holland, C., Blazier, J. C., Sankararaman, S., Andolfatto, P., Rosenthal, G. G., et al. (2018) · Science · doi:10.1126/science.aar3684 · Cited by 412 · see citing works

Reconstructing Prehistoric African Population Structure

Skoglund, P., Thompson, J. C., Prendergast, M. E., Mittnik, A., Sirak, K. A., Hajdinjak, M., Salie, T., Rohland, N., Mallick, S., Peltzer, A., et al. (2017) · Cell · doi:10.1016/j.cell.2017.08.049 · Cited by 410 · see citing works

OptM : estimating the optimal number of migration edges on population trees using Treemix

Fitak, R. R. (2021) · Biology Methods and Protocols · doi:10.1093/biomethods/bpab017 · Cited by 404 · see citing works

Whole-Genome Resequencing Reveals World-Wide Ancestry and Adaptive Introgression Events of Domesticated Cattle in East Asia

Chen, N., Cai, Y., Chen, Q., Li, R., Wang, K., Huang, Y., Hu, S., Huang, S., Zhang, H., Zheng, Z., et al. (2018) · Nature Communications · doi:10.1038/s41467-018-04737-0 · Cited by 403 · see citing works

Characterization of Greater Middle Eastern genetic variation for enhanced disease gene discovery

Greater Middle East Variome Consortium, Scott, E. M., Halees, A., Itan, Y., Spencer, E. G., He, Y., Azab, M. A., Gabriel, S. B., Belkadi, A., Boisson, B., et al. (2016) · Nature Genetics · doi:10.1038/ng.3592 · Cited by 376 · see citing works

Ancient genomes revisit the ancestry of domestic and Przewalski’s horses

Gaunitz, C., Fages, A., Hanghøj, K., Albrechtsen, A., Khan, N., Schubert, M., Seguin‐Orlando, A., Owens, I. J., Felkel, S., Bignon‐Lau, O., et al. (2018) · Science · doi:10.1126/science.aao3297 · Cited by 371 · see citing works

Genomic Diversity and Admixture Differs for Stone-Age Scandinavian Foragers and Farmers

Skoglund, P., Malmström, H., Omrak, A., Raghavan, M., Valdiosera, C. E., Günther, T., Hall, P. N., Tambets, K., Parik, J., Sjögren, K.-G., et al. (2014) · Science · doi:10.1126/science.1253448 · Cited by 369 · see citing works

Early human dispersals within the Americas

Moreno-Mayar, J. V., Vinner, L., Damgaard, P. D. B., Castro, C. D. L. F., Chan, J., Spence, J. P., Allentoft, M. E., Vimala, T., Racimo, F., Pinotti, T., et al. (2018) · Science · doi:10.1126/science.aav2621 · Cited by 365 · see citing works

High-depth African genomes inform human migration and health

Choudhury, A., Aron, S., Botigué, L. R., Sengupta, D., Botha, G., Bensellak, T., Wells, G., Kumuthini, J., Shriner, D., Fakim, Y. J., et al. (2020) · Nature · doi:10.1038/s41586-020-2859-7 · Cited by 355 · see citing works

A worldwide survey of genome sequence variation provides insight into the evolutionary history of the honeybee Apis mellifera

Wållberg, A., Fan, H., Wellhagen, G. J., Dahle, B., Kawata, M., Haddad, N. J., Simões, Z. L. P., Allsopp, M. H., Kandemi̇r, İ., la Rúa, P. D., et al. (2014) · Nature Genetics · doi:10.1038/ng.3077 · Cited by 354 · see citing works

Inferring Phylogenetic Networks Using PhyloNet

Wen, D., Yu, Y., Zhu, J., & Nakhleh, L. K. (2018) · Systematic Biology · doi:10.1093/sysbio/syy015 · Cited by 352 · see citing works

Out of southern East Asia: the natural history of domestic dogs across the world

Wang, G., Zhai, W., Yang, H., Wang, L., Li, Z., Yan-hu, L., Fan, R., Yin, T., Zhu, C., Poyarkov, A. D., et al. (2015) · Cell Research · doi:10.1038/cr.2015.147 · Cited by 350 · see citing works

Million-year-old DNA sheds light on the genomic history of mammoths

van der Valk, T., Pečnerová, P., Díez-del-Molino, D., Bergström, A., Oppenheimer, J., Hartmann, S., Xenikoudakis, G., Thomas, J. A., Dehasque, M., Sağlıcan, E., et al. (2021) · Nature · doi:10.1038/s41586-021-03224-9 · Cited by 345 · see citing works

Detecting Signatures of Selection Through Haplotype Differentiation Among Hierarchically Structured Populations

Fariello, M. I., Boitard, S., Naya, H., SanCristobal, M., & Servin, B. (2013) · Genetics · doi:10.1534/genetics.112.147231 · Cited by 343 · see citing works

Evidence of long-term gene flow and selection during domestication from analyses of Eurasian wild and domestic pig genomes

Frantz, L., Schraiber, J. G., Madsen, O., Megens, H., Cagan, A., Bosse, M., Paudel, Y., Crooijmans, R. P. M. A., Larson, G., & Groenen, M. A. M. (2015) · Nature Genetics · doi:10.1038/ng.3394 · Cited by 342 · see citing works

The genetic prehistory of southern Africa

Pickrell, J. K., Patterson, N. J., Barbieri, C., Berthold, F., Gerlach, L., Güldemann, T., Kure, B., Mpoloka, S. W., Nakagawa, H., Naumann, C., et al. (2012) · Nature Communications · doi:10.1038/ncomms2140 · Cited by 342 · see citing works

Whole-Genome Sequencing of Native Sheep Provides Insights into Rapid Adaptations to Extreme Environments

Yang, J. H., Li, W., Lv, F., He, S., Tian, S., Peng, W., Sun, Y., Zhao, Y., Tu, X.-L., Zhang, M., et al. (2016) · Molecular Biology and Evolution · doi:10.1093/molbev/msw129 · Cited by 342 · see citing works

Convergent genomic signatures of domestication in sheep and goats

Alberto, F. J., Boyer, F., Orozco-terWengel, P., Streeter, I., Servin, B., de Villemereuil, P., Benjelloun, B., Librado, P., Biscarini, F., Colli, L., et al. (2018) · Nature Communications · doi:10.1038/s41467-018-03206-y · Cited by 339 · see citing works

Adaptive introgression underlies polymorphic seasonal camouflage in snowshoe hares

Jones, M. R., Mills, L. S., Alves, P. C., Callahan, C. M., Alves, J. M., Lafferty, D. J. R., Jiggins, F. M., Jensen, J. D., Melo‐Ferreira, J., & Good, J. M. (2018) · Science · doi:10.1126/science.aar5273 · Cited by 331 · see citing works

A beginner's guide to low‐coverage whole genome sequencing for population genomics

Lou, R. N., Jacobs, A., Wilder, A. P., & Therkildsen, N. O. (2021) · Molecular Ecology · doi:10.1111/mec.16077 · Cited by 331 · see citing works

The genetic prehistory of the New World Arctic

Raghavan, M., DeGiorgio, M., Albrechtsen, A., Moltke, I., Skoglund, P., Korneliussen, T. S., Grønnow, B., Appelt, M., Gulløv, H. C., Friesen, T. M., et al. (2014) · Science · doi:10.1126/science.1255832 · Cited by 329 · see citing works

Tracking Five Millennia of Horse Management with Extensive Ancient Genome Time Series

Fages, A., Hanghøj, K., Khan, N., Gaunitz, C., Seguin‐Orlando, A., Leonardi, M., Constantz, C. M., Gamba, C., Al‐Rasheid, K. A. S., Albizuri, S., et al. (2019) · Cell · doi:10.1016/j.cell.2019.03.049 · Cited by 328 · see citing works

Stable recombination hotspots in birds

Singhal, S., Leffler, E. M., Sannareddy, K., Turner, I., Venn, O., Hooper, D. M., Strand, A. I., Li, Q., Raney, B. J., Balakrishnan, C. N., et al. (2015) · Science · doi:10.1126/science.aad0843 · Cited by 327 · see citing works

Prehistoric genomes reveal the genetic foundation and cost of horse domestication

Schubert, M., Jónsson, H., Chang, D., Der Sarkissian, C., Ermini, L., Ginolhac, A., Albrechtsen, A., Dupanloup, I., Foucal, A., Petersen, B., et al. (2014) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1416991111 · Cited by 324 · see citing works

Genomic structure in Europeans dating back at least 36,200 years

Seguin-Orlando, A., Korneliussen, T. S., Sikora, M., Malaspinas, A.-S., Manica, A., Moltke, I., Albrechtsen, A., Ko, A., Margaryan, A., Moiseyev, V., et al. (2014) · Science · doi:10.1126/science.aaa0114 · Cited by 315 · see citing works

Whole-genome sequencing of 128 camels across Asia reveals origin and migration of domestic Bactrian camels

Ming, L., Yuan, L., Yi, L., Ding, G., Hasi, S., Chen, G., Jambl, T., Hedayat-Evright, N., Batmunkh, M., Бадмаевна, Г. Х., et al. (2020) · Communications Biology · doi:10.1038/s42003-019-0734-6 · Cited by 315 · see citing works

The Chromosome-Level Genome Sequence of the Autotetraploid Alfalfa and Resequencing of Core Germplasms Provide Genomic Resources for Alfalfa Research

Shen, C., Du, H., Chen, Z., Lu, H., Zhu, F., Chen, H., Meng, X., Liu, Q., Liu, P., Zheng, L., et al. (2020) · Molecular Plant · doi:10.1016/j.molp.2020.07.003 · Cited by 308 · see citing works

Inferring Continuous and Discrete Population Genetic Structure Across Space

Bradburd, G. S., Coop, G., & Ralph, P. L. (2018) · Genetics · doi:10.1534/genetics.118.301333 · Cited by 306 · see citing works

Chimpanzee genomic diversity reveals ancient admixture with bonobos

de Manuel, M., Kuhlwilm, M., Frandsen, P., Sousa, V. C., Desai, T., Prado-Martinez, J., Hernández-Rodríguez, J., Dupanloup, I., Lao, Ó., Hallast, P., et al. (2016) · Science · doi:10.1126/science.aag2602 · Cited by 297 · see citing works

Reconstructing Austronesian population history in Island Southeast Asia

Lipson, M., Loh, P., Patterson, N. J., Moorjani, P., Ko, Y., Stoneking, M., Berger, B., & Reich, D. (2014) · Nature Communications · doi:10.1038/ncomms5689 · Cited by 296 · see citing works

Animal domestication in the era of ancient genomics

Frantz, L., Bradley, D. G., Larson, G., & Orlando, L. (2020) · Nature Reviews Genetics · doi:10.1038/s41576-020-0225-0 · Cited by 290 · see citing works

Dual domestications and origin of traits in grapevine evolution

Dong, Y., Duan, S., Xia, Q., Liang, Z., Xiao, D., Margaryan, K., Musayev, M., Goryslavets, S., Zdunić, G., Bert, P., et al. (2023) · Science · doi:10.1126/science.add8655 · Cited by 290 · see citing works

The genetics of monarch butterfly migration and warning colouration

Zhan, S., Zhang, W., Niitepõld, K., Hsu, J. L., Haeger, J. F., Zalucki, M. P., Altizer, S., de Roode, J. C., Reppert, S. M., & Kronforst, M. R. (2014) · Nature · doi:10.1038/nature13812 · Cited by 288 · see citing works

Admixture into and within sub-Saharan Africa

Busby, G., Band, G., Le, S. Q., Jallow, M., Bougama, E., Mangano, V. D., Amenga-Etego, L. N.-K., Enimil, A. K., Apinjoh, T. O., Ndila, C., et al. (2016) · eLife · doi:10.7554/elife.15266 · Cited by 288 · see citing works

Genome-culture coevolution promotes rapid divergence of killer whale ecotypes

Foote, A. D., Vijay, N., Ávila‐Arcos, M. C., Baird, R. W., Durban, J. W., Fumagalli, M., Gibbs, R. A., Hanson, M. B., Korneliussen, T. S., Martin, M. D., et al. (2016) · Nature Communications · doi:10.1038/ncomms11693 · Cited by 288 · see citing works

863 genomes reveal the origin and domestication of chicken

Wang, M.-S., Thakur, M., Peng, M.-S., Jiang, Y., Frantz, L. A. F., Li, M., Zhang, J.-J., Wang, S., Peters, J., Otecko, N. O., et al. (2020) · Cell Research · doi:10.1038/s41422-020-0349-y · Cited by 286 · see citing works

Understanding the origin of species with genome-scale data: modelling gene flow

Sousa, V. C., & Hey, J. (2013) · Nature Reviews Genetics · doi:10.1038/nrg3446 · Cited by 284 · see citing works

Ancient genomes link early farmers from Atapuerca in Spain to modern-day Basques

Günther, T., Valdiosera, C., Malmström, H., Ureña, I., Rodriguez-Varela, R., Sverrisdóttir, Ó. O., Daskalaki, E. A., Skoglund, P., Naidoo, T., Svensson, E. M., et al. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1509851112 · Cited by 278 · see citing works

On the limits of fitting complex models of population history to f-statistics

Maier, R., Flegontov, P., Flegontova, O., Işıldak, U., Changmai, P., & Reich, D. (2023) · eLife · doi:10.7554/elife.85492 · Cited by 274 · see citing works

The Genome Landscape of Indigenous African Cattle

Kim, J., Hanotte, O., Mwai, O. A., Dessie, T., Bashir, S., Diallo, B., Agaba, M., Kim, K., Kwak, W., Sung, S., et al. (2017) · Genome biology · doi:10.1186/s13059-017-1153-y · Cited by 271 · see citing works

Toward a new history and geography of human genes informed by ancient DNA

Pickrell, J. K., & Reich, D. (2014) · Trends in Genetics · doi:10.1016/j.tig.2014.07.007 · Cited by 271 · see citing works

Whole-Genome Resequencing of a Worldwide Collection of Rapeseed Accessions Reveals the Genetic Basis of Ecotype Divergence

Wu, D., Liang, Z., Yan, T., Xu, Y. C., Xuan, L., Tang, J., Zhou, G., Lohwasser, U., Hua, S., Wang, H., et al. (2018) · Molecular Plant · doi:10.1016/j.molp.2018.11.007 · Cited by 262 · see citing works

The future of ancient DNA: Technical advances and conceptual shifts

Hofreiter, M., Paijmans, J. L. A., Goodchild, H., Speller, C., Barlow, A., Fortes, G. G., Thomas, J. A., Ludwig, A., & Collins, M. J. (2014) · BioEssays · doi:10.1002/bies.201400160 · Cited by 260 · see citing works

Speciation and introgression between Mimulus nasutus and Mimulus guttatus

Brandvain, Y., Kenney, A. M., Flagel, L., Coop, G., & Sweigart, A. L. (2014) · PLoS Genetics · doi:10.1371/journal.pgen.1004410 · Cited by 259 · see citing works

A model species for agricultural pest genomics: the genome of the Colorado potato beetle, Leptinotarsa decemlineata (Coleoptera: Chrysomelidae)

Schoville, S. D., Chen, Y. H., Andersson, M. N., Benoit, J. B., Bhandari, A., Bowsher, J. H., Brevik, K. A., Cappelle, K., Chen, M.-J. M., Childers, A. K., et al. (2018) · Scientific Reports · doi:10.1038/s41598-018-20154-1 · Cited by 258 · see citing works

Admixture, Population Structure, and F -Statistics

Peter, B. M. (2016) · Genetics · doi:10.1534/genetics.115.183913 · Cited by 256 · see citing works

Recent History of Aedes aegypti : Vector Genomics and Epidemiology Records

Powell, J. R., Gloria‐Soria, A., & Kotsakiozi, P. (2018) · BioScience · doi:10.1093/biosci/biy119 · Cited by 255 · see citing works

Ancient Genomics of Modern Humans: The First Decade

Skoglund, P., & Mathieson, I. (2018) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev-genom-083117-021749 · Cited by 246 · see citing works

A graph-based genome and pan-genome variation of the model plant Setaria

He, Q., Tang, S., Zhi, H., Chen, J., Zhang, J., Liang, H., Alam, O., Li, H., Zhang, H., Xing, L., et al. (2023) · Nature Genetics · doi:10.1038/s41588-023-01423-w · Cited by 244 · see citing works

Admixture facilitates genetic adaptations to high altitude in Tibet

Jeong, C., Alkorta‐Aranburu, G., Basnyat, B., Neupane, M., Witonsky, D., Pritchard, J. K., Beall, C. M., & Rienzo, A. D. (2014) · Nature Communications · doi:10.1038/ncomms4281 · Cited by 237 · see citing works

40,000-Year-Old Individual from Asia Provides Insight into Early Population Structure in Eurasia

Yang, M. A., Gao, X., Theunert, C., Tong, H., Aximu‐Petri, A., Nickel, B., Slatkin, M., Meyer, M., Pääbo, S., Kelso, J. F., et al. (2017) · Current Biology · doi:10.1016/j.cub.2017.09.030 · Cited by 237 · see citing works

Species boundaries in the human pathogen Paracoccidioides

Turissini, D. A., Gómez, O. M., Teixeira, M. D. M., McEwen, J. G., & Matute, D. R. (2017) · Fungal Genetics and Biology · doi:10.1016/j.fgb.2017.05.007 · Cited by 236 · see citing works

The deep population history of northern East Asia from the Late Pleistocene to the Holocene

Mao, X., Zhang, H., Qiao, S., Liu, Y., Chang, F., Xie, P., Zhang, M., Wang, T., Li, M., Cao, P., et al. (2021) · Cell · doi:10.1016/j.cell.2021.04.040 · Cited by 234 · see citing works

Pervasive introgression facilitated domestication and adaptation in the Bos species complex

Wu, D., Ding, X., Wang, S., Wójcik, J. M., Zhang, Y., Tokarska, M., Li, Y., Wang, M.-S., Faruque, O., Nielsen, R., et al. (2018) · Nature Ecology & Evolution · doi:10.1038/s41559-018-0562-y · Cited by 233 · see citing works

Genetic structure in village dogs reveals a Central Asian domestication origin

Shannon, L. M., Boyko, R. H., Castelhano, M. G., Corey, E. E., Hayward, J. J., McLean, C., White, M. E., Said, M. A., Anita, B. A., Ikombe, N. B., et al. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1516215112 · Cited by 229 · see citing works

Genome sequencing of the extinct Eurasian wild aurochs, Bos primigenius, illuminates the phylogeography and evolution of cattle

Park, S. D. E., Magee, D. A., McGettigan, P., Teasdale, M. D., Edwards, C. J., Lohan, A. J., Murphy, A., Braud, M., Donoghue, M. T. A., Liu, Y., et al. (2015) · Genome biology · doi:10.1186/s13059-015-0790-2 · Cited by 228 · see citing works

Genomic Evidence for Complex Domestication History of the Cultivated Tomato in Latin America

Razifard, H., Ramos, A., Valle, A. L. D., Bodary, C., Goetz, E., Manser, E. J., Li, X., Zhang, L., Visa, S., Tieman, D. M., et al. (2019) · Molecular Biology and Evolution · doi:10.1093/molbev/msz297 · Cited by 223 · see citing works

Ancient goat genomes reveal mosaic domestication in the Fertile Crescent

Daly, K. G., Delser, P. M., Mullin, V. E., Scheu, A., Mattiangeli, V., Teasdale, M. D., Hare, A. J., Bürger, J., Verdugo, M. P., Collins, M. J., et al. (2018) · Science · doi:10.1126/science.aas9411 · Cited by 223 · see citing works

Genomic Analyses Reveal Potential Independent Adaptation to High Altitude in Tibetan Chickens

Wang, M., Li, Y., Peng, M., Zhong, L., Wang, Z., Li, Q., Tu, X.-L., Dong, Y., Zhu, C., Wang, L., et al. (2015) · Molecular Biology and Evolution · doi:10.1093/molbev/msv071 · Cited by 222 · see citing works

Ancient genomic changes associated with domestication of the horse

Librado, P., Gamba, C., Gaunitz, C., Sarkissian, C. S. I. D., Pruvost, M., Albrechtsen, A., Fages, A., Khan, N., Schubert, M., Jagannathan, V., et al. (2017) · Science · doi:10.1126/science.aam5298 · Cited by 222 · see citing works

Genomic landscape of human diversity across Madagascar

Pierron, D., Heiske, M., Razafindrazaka, H., Rakoto, I., Rabetokotany, N., Ravololomanga, B., Rakotozafy, L., Rakotomalala, M., Razafiarivony, M., Rasoarifetra, B., et al. (2017) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1704906114 · Cited by 222 · see citing works

High-dimensional asymptotics of prediction: Ridge regression and classification

Dobriban, E., & Wager, S. (2018) · The Annals of Statistics · doi:10.1214/17-aos1549 · Cited by 220 · see citing works

Speciation with gene flow in equids despite extensive chromosomal plasticity

Jónsson, H., Schubert, M., Seguin‐Orlando, A., Ginolhac, A., Petersen, L., Fumagalli, M., Albrechtsen, A., Petersen, B., Korneliussen, T. S., Vilstrup, J. T., et al. (2014) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1412627111 · Cited by 219 · see citing works

Genetic Signatures Reveal High-Altitude Adaptation in a Set of Ethiopian Populations

Huerta‐Sánchez, E., DeGiorgio, M., Pagani, L., Tarekegn, A., Ekong, R., Antão, T., Cardona, A., Montgomery, H., Cavalleri, G. L., Robbins, P. A., et al. (2013) · Molecular Biology and Evolution · doi:10.1093/molbev/mst089 · Cited by 217 · see citing works

Genome-wide data substantiate Holocene gene flow from India to Australia

Pugach, I., Delfin, F. C., Gunnarsdóttir, E. D., Kayser, M., & Stoneking, M. (2013) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1211927110 · Cited by 216 · see citing works

Assessing the performance of qpAdm: a statistical tool for studying population admixture

Harney, É., Patterson, N. J., Reich, D., & Wakeley, J. (2021) · Genetics · doi:10.1093/genetics/iyaa045 · Cited by 216 · see citing works

Historical introgression among the American live oaks and the comparative nature of tests for introgression

Eaton, D. A. R., Hipp, A. L., González‐Rodríguez, A., & Cavender-Bares, J. M. (2015) · Evolution · doi:10.1111/evo.12758 · Cited by 212 · see citing works

Migration from trees to graphs

Bahcall, O. G. (2012) · Nature Genetics · doi:10.1038/ng.2514

Inference of Locus-Specific Population Mixtures from Linked Genome-Wide Allele Frequencies

Reyna-Blanco, C. S., Caduff, M., Galimberti, M., Leuenberger, C., & Wegmann, D. (2024) · Molecular Biology and Evolution · doi:10.1093/molbev/msae137 · Cited by 2 · see citing works

Inference of complex population histories using whole-genome sequences from multiple populations

Steinrücken, M., Kamm, J., Spence, J. P., & Song, Y. S. (2019) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1905060116 · Cited by 80 · see citing works

Efficient Moment-Based Inference of Admixture Parameters and Sources of Gene Flow

Lipson, M., Loh, P., Levin, A., Reich, D., Patterson, N. J., & Berger, B. (2013) · Molecular Biology and Evolution · doi:10.1093/molbev/mst099 · Cited by 118 · see citing works

Inferring the joint demographic history of multiple populations from multidimensional SNP frequency data

Gutenkunst, R. N., Hernandez, R. D., Williamson, S. H., & Bustamante, C. D. (2009) · PLoS Genetics · doi:10.1371/journal.pgen.1000695 · Cited by 1,906 · see citing works