Widespread Genomic Signatures of Natural Selection in Hominid Evolution

A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences

Kimura, M. (1980) · Journal of Molecular Evolution · doi:10.1007/bf01731581 · Cited by 29,778 · see citing works

Initial sequencing and analysis of the human genome

International Human Genome Sequencing Consortium, Whitehead Institute for Biomedical Research, C. F. G. R., Lander, E. S., Linton, L. M., Birren, B., Nusbaum, C., Zody, M. C., Baldwin, J., Devon, K., Dewar, K., et al. (2001) · Nature · doi:10.1038/35057062 · Cited by 24,216 · see citing works

Evolutionary trees from DNA sequences: A maximum likelihood approach.

Felsenstein, J. (1981) · Journal of Molecular Evolution · doi:10.1007/bf01734359 · Cited by 14,571 · see citing works

The Human Genome Browser at UCSC

Kent, W. J., Sugnet, C. W., Furey, T. S., Roskin, K. M., Pringle, T. H., Zahler, A. M., & Haussler, A. D. (2002) · Genome Research · doi:10.1101/gr.229102 · Cited by 10,400 · see citing works

Tandem repeats finder: a program to analyze DNA sequences

Benson, G. (1999) · Nucleic Acids Research · doi:10.1093/nar/27.2.573 · Cited by 9,374 · see citing works

Practical Methods of Optimization

Fletcher, R. (2000) · Wiley eBooks · doi:10.1002/9781118723203 · Cited by 7,649 · see citing works

Base-Calling of Automated Sequencer Traces Using Phred. I. Accuracy AssessmentPreprint

Ewing, B., Hillier, L., Wendl, M. C., & Green, P. (1998) · Genome Research · doi:10.1101/gr.8.3.175 · Cited by 6,993 · see citing works

Base-Calling of Automated Sequencer Traces Using <i>Phred.</i> II. Error Probabilities

Ewing, B., & Green, P. (1998) · Genome Research · doi:10.1101/gr.8.3.186 · Cited by 5,439 · see citing works

A second generation human haplotype map of over 3.1 million SNPs

The International HapMap Consortium (2007) · Nature · doi:10.1038/nature06258 · Cited by 4,438 · see citing works

Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes

Siepel, A., Bejerano, G., Pedersen, J. S., Hinrichs, A. S., Hou, M., Rosenbloom, K., Clawson, H., Spieth, J., Hillier, L. W., Richards, S., et al. (2005) · Genome Research · doi:10.1101/gr.3715005 · Cited by 4,408 · cited 5× · see citing works

The hitch-hiking effect of a favourable gene

Smith, J. M., & Haigh, J. (1974) · Genetical Research · doi:10.1017/s0016672300014634 · Cited by 3,415 · see citing works

A Map of Recent Positive Selection in the Human Genome

Voight, B. F., Kudaravalli, S., Wen, X., & Pritchard, J. K. (2006) · PLoS Biology · doi:10.1371/journal.pbio.0040072 · Cited by 2,912 · see citing works

The hitch-hiking effect of a favourable gene

MAYNARD, J., & Haigh, J. (2007) · Genetics Research · doi:10.1017/s0016672308009579 · Cited by 2,663 · 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

Initial sequence of the chimpanzee genome and comparison with the human genome

The Chimpanzee Sequencing and Analysis Consortium (2005) · Nature · doi:10.1038/nature04072 · Cited by 2,459 · see citing works

The effect of deleterious mutations on neutral molecular variation.

Charlesworth, B., Morgan, M. T., & Charlesworth, D. (1993) · Genetics · doi:10.1093/genetics/134.4.1289 · Cited by 1,831 · see citing works

A high-resolution recombination map of the human genome

Kong, A., Gudbjartsson, D. F., Sainz, J., Jonsdottir, G. M., Gudjonsson, S. A., Richardsson, B., Sigurdardottir, S. L., Barnard, J., Hallbeck, B., Másson, G., et al. (2002) · Nature Genetics · doi:10.1038/ng917 · Cited by 1,750 · see citing works

On the genealogy of large populations

Kingmán, J. F. C. (1982) · Journal of Applied Probability · doi:10.2307/3213548 · Cited by 1,651 · see citing works

Evolutionary and biomedical insights from the rhesus macaque genome.

Gibbs, R. A., Rogers, J., Katze, M. G., Bumgarner, R., Weinstock, G. M., Mardis, E. R., Remington, K. A., Strausberg, R. L., Venter, J. C., Wilson, R. K., et al. (2007) · Science · doi:10.1126/science.1139247 · Cited by 1,403 · see citing works

Whole-Genome Patterns of Common DNA Variation in Three Human Populations

Hinds, D., Stuve, L., Nilsen, G. B., Halperin, E., Eskin, E., Ballinger, D., Frazer, K., & Cox, D. (2005) · Science · doi:10.1126/science.1105436 · Cited by 1,245 · see citing works

Human–Mouse Alignments with BLASTZPreprint

Schwartz, S., Kent, W. J., Miller, W., Zhang, Z., Baertsch, R., Hardison, R. C., Haussler, D. H., & Miller, W. (2002) · Genome Research · doi:10.1101/gr.809403 · Cited by 1,231 · see citing works

Estimate of the Mutation Rate per Nucleotide in Humans

Nachman, M. W., & Crowell, S. L. (2000) · Genetics · doi:10.1093/genetics/156.1.297 · Cited by 1,214 · see citing works

A Fine-Scale Map of Recombination Rates and Hotspots Across the Human Genome

Myers, S., Bottolo, L., Freeman, C., McVean, G., & Donnelly, P. (2005) · Science · doi:10.1126/science.1117196 · Cited by 1,134 · see citing works

A Scan for Positively Selected Genes in the Genomes of Humans and Chimpanzees

Nielsen, R., Bustamante, C. D., Clark, A. G., Glanowski, S., Sackton, T. B., Hubisz, M. J., Fledel-Alon, A., Tanenbaum, D. M., Civello, D., White, T. J., et al. (2005) · PLoS Biology · doi:10.1371/journal.pbio.0030170 · Cited by 998 · see citing works

Levels of naturally occurring DNA polymorphism correlate with recombination rates in D. melanogaster

Begun, D. J., & Aquadro, C. F. (1992) · Nature · doi:10.1038/356519a0 · Cited by 962 · see citing works

Paleontological Evidence to Date the Tree of Life

Benton, M. J., & Donoghue, P. C. J. (2006) · Molecular Biology and Evolution · doi:10.1093/molbev/msl150 · Cited by 916 · see citing works

Evolution's cauldron: Duplication, deletion, and rearrangement in the mouse and human genomes

Kent, W. J., Baertsch, R., Hinrichs, A., Miller, W., & Haussler, D. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1932072100 · Cited by 850 · see citing works

Genomic Divergences between Humans and Other Hominoids and the Effective Population Size of the Common Ancestor of Humans and Chimpanzees

Chen, F.-C., & Li, W. (2001) · The American Journal of Human Genetics · doi:10.1086/318206 · Cited by 720 · see citing works

Population Genomics: Whole-Genome Analysis of Polymorphism and Divergence in Drosophila simulans

Begun, D. J., Holloway, A. K., Stevens, K., Hillier, L. W., Poh, Y.-P., Hahn, M. W., Nista, P. M., Jones, C. D., Kern, A. D., Dewey, C. N., et al. (2007) · PLoS Biology · doi:10.1371/journal.pbio.0050310 · Cited by 629 · see citing works

Most Rare Missense Alleles Are Deleterious in Humans: Implications for Complex Disease and Association Studies

Kryukov, G. V., Pennacchio, L. A., & Sunyaev, S. R. (2007) · The American Journal of Human Genetics · doi:10.1086/513473 · Cited by 598 · see citing works

Genetic evidence for complex speciation of humans and chimpanzees

Patterson, N. J., Richter, D. J., Gnerre, S., Lander, E. S., & Reich, D. (2006) · Nature · doi:10.1038/nature04789 · Cited by 582 · see citing works

Localizing Recent Adaptive Evolution in the Human Genome.

Williamson, S. H., Hubisz, M. J., Clark, A. G., Payseur, B. A., Bustamante, C. D., & Nielsen, R. (2007) · PLoS Genetics · doi:10.1371/journal.pgen.0030090 · Cited by 507 · see citing works

Ascertainment bias in studies of human genome-wide polymorphismPreprint

Clark, A. G., Hubisz, M. J., Bustamante, C. D., Williamson, S., & Nielsen, R. (2005) · Genome Research · doi:10.1101/gr.4107905 · Cited by 503 · see citing works

The UCSC Known Genes

Hsu, F., Kent, W. J., Clawson, H., Kuhn, R. M., Diekhans, M., & Haussler, D. H. (2006) · Bioinformatics · doi:10.1093/bioinformatics/btl048 · Cited by 503 · see citing works

Genetic hitchhiking

Barton, N. (2000) · Philosophical Transactions of the Royal Society B Biological Sciences · doi:10.1098/rstb.2000.0716 · Cited by 475 · see citing works

Deleterious background selection with recombination.

Hudson, R. R., & Kaplan, N. L. (1995) · Genetics · doi:10.1093/genetics/141.4.1605 · Cited by 457 · see citing works

A genome-wide comparison of recent chimpanzee and human segmental duplications

Cheng, Z., Ventura, M., She, X., Khaitovich, P., Graves, T., Osoegawa, K., Church, D., DeJong, P., Wilson, R. K., Pääbo, S., et al. (2005) · Nature · doi:10.1038/nature04000 · Cited by 398 · see citing works

Bayesian Markov chain Monte Carlo sequence analysis reveals varying neutral substitution patterns in mammalian evolution

Hwang, D. G., & Green, P. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0404142101 · Cited by 390 · see citing works

The distribution of fitness effects of new deleterious amino acid mutations in humans.

Eyre-Walker, A., Woolfit, M., & Phelps, T. (2006) · Genetics · doi:10.1534/genetics.106.057570 · Cited by 377 · see citing works

Human SNP variability and mutation rate are higher in regions of high recombination

Lercher, M. J., & Hurst, L. D. (2002) · Trends in Genetics · doi:10.1016/s0168-9525(02)02669-0 · Cited by 367 · see citing works

Comparison of Fine-Scale Recombination Rates in Humans and Chimpanzees

Winckler, W., Myers, S. R., Richter, D. J., Onofrio, R. C., McDonald, G. J., Bontrop, R. E., McVean, G., Gabriel, S., Reich, D., Donnelly, P., et al. (2005) · Science · doi:10.1126/science.1105322 · Cited by 357 · see citing works

Direct estimates of human per nucleotide mutation rates at 20 loci causing mendelian diseases

Kondrashov, A. S. (2002) · Human Mutation · doi:10.1002/humu.10147 · Cited by 336 · see citing works

On the genealogy of large populations

Kingmán, J. F. C. (1982) · Journal of Applied Probability · doi:10.1017/s0021900200034446 · Cited by 316 · see citing works

The effect of recombination on background selection

Nordborg, M., Charlesworth, B., & Charlesworth, D. (1996) · Genetics Research · doi:10.1017/s0016672300033619 · Cited by 312 · see citing works

Single nucleotide polymorphisms and recombination rate in humans.

Nachman, M. (2001) · Trends in Genetics · doi:10.1016/s0168-9525(01)02409-x · Cited by 310 · see citing works

Genomic Relationships and Speciation Times of Human, Chimpanzee, and Gorilla Inferred from a Coalescent Hidden Markov Model

Hobolth, A., Christensen, O. F., Mailund, T., & Schierup, M. H. (2007) · PLoS Genetics · doi:10.1371/journal.pgen.0030007 · Cited by 309 · see citing works

GNU Scientific Library Reference Manual - Third Edition

Gough, B. (2003) · Cited by 308 · see citing works

Covariation in Frequencies of Substitution, Deletion, Transposition, and Recombination During Eutherian EvolutionPreprint

Hardison, R. C., Roskin, K. M., Yang, S., Diekhans, M., Kent, W. J., Weber, R. J., Elnitski, L. L., Li, J., O’Connor, M. J., Kolbe, D. L., et al. (2003) · Genome Research · doi:10.1101/gr.844103 · Cited by 282 · see citing works

28-Way vertebrate alignment and conservation track in the UCSC Genome BrowserPreprint

Miller, W., Rosenbloom, K. R., Hardison, R. C., Hou, M., Taylor, J., Raney, B. J., Burhans, R. C., King, D. C., Baertsch, R., Blankenberg, D. J., et al. (2007) · Genome Research · doi:10.1101/gr.6761107 · Cited by 280 · see citing works

Fine-scale recombination patterns differ between chimpanzees and humans

Ptak, S. E., Hinds, D. A., Koehler, K., Nickel, B., Patil, N., Ballinger, D. G., Przeworski, M., Frazer, K. A., & Pääbo, S. (2005) · Nature Genetics · doi:10.1038/ng1529 · Cited by 279 · see citing works

Single-nucleotide mutation rate increases close to insertions/deletions in eukaryotes

Tian, D., Wang, Q., Zhang, P., Araki, H., Yang, S., Kreitman, M., Nagylaki, T., Hudson, R. R., Bergelson, J. M., & Chen, J. (2008) · Nature · doi:10.1038/nature07175 · Cited by 267 · see citing works

A burst of segmental duplications in the genome of the African great ape ancestor

Marquès‐Bonet, T., Kidd, J. M., Ventura, M., Graves, T., Cheng, Z., Hillier, L., Jiang, Z., Baker, C. A., Malfavon-Borja, R., Fulton, L. A., et al. (2009) · Nature · doi:10.1038/nature07744 · Cited by 245 · see citing works

SCORING PAIRWISE GENOMIC SEQUENCE ALIGNMENTS

Chiaromonte, F., Yap, V. B., & MILLER, W. (2001) · Pacific Symposium on Biocomputing (PSB) · doi:10.1142/9789812799623_0012 · Cited by 214 · see citing works

Quantifying the Slightly Deleterious Mutation Model of Molecular Evolution

Eyre‐Walker, A., Keightley, P. D., Smith, N. G. C., & Gaffney, D. J. (2002) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a004039 · Cited by 209 · see citing works

Evidence for Widespread Degradation of Gene Control Regions in Hominid Genomes

Keightley, P. D., Lercher, M. J., & Eyre‐Walker, A. (2005) · PLoS Biology · doi:10.1371/journal.pbio.0030042 · Cited by 203 · see citing works

DNA Variability and Recombination Rates at X-Linked Loci in Humans

Nachman, M. W., Bauer, V. L., Crowell, S. L., & Aquadro, C. F. (1998) · Genetics · doi:10.1093/genetics/150.3.1133 · Cited by 202 · see citing works

Joint Effects of Genetic Hitchhiking and Background Selection on Neutral Variation

Kim, Y., & Stephan, W. (2000) · Genetics · doi:10.1093/genetics/155.3.1415 · Cited by 186 · see citing works

Genome-Wide Identification of Human Functional DNA Using a Neutral Indel Model

Lunter, G. A., Ponting, C. P., & Hein, J. (2006) · PLoS Computational Biology · doi:10.1371/journal.pcbi.0020005 · Cited by 174 · see citing works

GC-biased gene conversion promotes the fixation of deleterious amino acid changes in primates

Galtier, N., Duret, L., Glémin, S., & Ranwez, V. (2008) · Trends in Genetics · doi:10.1016/j.tig.2008.10.011 · Cited by 174 · see citing works

Pattern of Sequence Variation Across 213 Environmental Response GenesPreprint

Livingston, R. J., von Niederhausern, A. C., Jegga, A. G., Crawford, D. C., Carlson, C. S., Rieder, M. J., Gowrisankar, S., Aronow, B. J., Weiss, R. B., & Nickerson, D. A. (2004) · Genome Research · doi:10.1101/gr.2730004 · Cited by 173 · see citing works

Hotspots of Biased Nucleotide Substitutions in Human Genes

Berglund, J., Pollard, K. S., & Webster, M. T. (2009) · PLoS Biology · doi:10.1371/journal.pbio.1000026 · Cited by 152 · see citing works

Why do human diversity levels vary at a megabase scale?Preprint

Hellmann, I., Prüfer, K., Ji, H., Zody, M. C., Pääbo, S., & Ptak, S. E. (2005) · Genome Research · doi:10.1101/gr.3461105 · Cited by 152 · see citing works

Genomic data support the hominoid slowdown and an Early Oligocene estimate for the hominoid-cercopithecoid divergence.

Steiper, M. E., Young, N. M., & Sukarna, T. Y. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0407270101 · Cited by 149 · see citing works

Pervasive Hitchhiking at Coding and Regulatory Sites in Humans

Cai, J. J., Macpherson, J. M., Sella, G., & Petrov, D. A. (2009) · PLoS Genetics · doi:10.1371/journal.pgen.1000336 · Cited by 133 · see citing works

An initial genetic linkage map of the rhesus macaque (Macaca mulatta) genome using human microsatellite loci

Rogers, J., Garcia, R., Shelledy, W. R., Kaplan, J., Arya, A., Johnson, Z., Bergstrom, M. L., Novakowski, L., Nair, P., Vinson, A., et al. (2005) · Genomics · doi:10.1016/j.ygeno.2005.10.004 · Cited by 128 · see citing works

A Model of the Statistical Power of Comparative Genome Sequence Analysis

Eddy, S. R. (2004) · PLoS Biology · doi:10.1371/journal.pbio.0030010 · Cited by 119 · see citing works

Genomewide Spatial Correspondence Between Nonsynonymous Divergence and Neutral Polymorphism Reveals Extensive Adaptation in Drosophila

Macpherson, J. M., Sella, G., Davis, J. C., & Petrov, D. A. (2007) · Genetics · doi:10.1534/genetics.107.080226 · Cited by 116 · see citing works

Regions of Lower Crossing Over Harbor More Rare Variants in African Populations of Drosophila melanogaster

Andolfatto, P., & Przeworski, M. (2001) · Genetics · doi:10.1093/genetics/158.2.657 · Cited by 106 · see citing works

Patterns and rates of intron divergence between humans and chimpanzees

Gazave, É., Marquès‐Bonet, T., Fernando, O., Charlesworth, B., & Navarro, A. (2007) · Genome biology · doi:10.1186/gb-2007-8-2-r21 · Cited by 100 · see citing works

Population genetic analysis of shotgun assemblies of genomic sequences from multiple individualsPreprint

Hellmann, I., Mang, Y., Gu, Z., Li, P., Vega, F. M. D. L., Clark, A. G., & Nielsen, R. (2008) · Genome Research · doi:10.1101/gr.074187.107 · Cited by 95 · see citing works

How can the low levels of DNA sequence variation in regions of the drosophila genome with low recombination rates be explained?

Hudson, R. R. (1994) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.91.15.6815 · Cited by 80 · see citing works

Inferring the Mode of Speciation From Genomic Data

Osada, N., & Wu, C. (2005) · Genetics · doi:10.1534/genetics.104.029231 · Cited by 77 · see citing works

Gene density and human nucleotide polymorphism.

Payseur, B., & Nachman, M. (2002) · Molecular biology and evolution · doi:10.1093/oxfordjournals.molbev.a004086 · Cited by 72 · see citing works

An attempt to estimate the effective size of the ancestral species common to two extant species from which homologous genes are sequenced

Takahata, N. (1986) · Genetics Research · doi:10.1017/s001667230002499x · Cited by 61 · see citing works

Evolutionary constraints in conserved nongenic sequences of mammalsPreprint

Keightley, P. D., Kryukov, G. V., Sunyaev, S. R., Halligan, D. L., & Gaffney, D. J. (2005) · Genome Research · doi:10.1101/gr.3942005 · Cited by 55 · see citing works

The Effect of Gene Flow on the Coalescent Time in the Human-Chimpanzee Ancestral Population

Innan, H. (2006) · Molecular Biology and Evolution · doi:10.1093/molbev/msj109 · Cited by 55 · see citing works

Evolutionary Biology: How Did the Human Species Form?

Barton, N. (2006) · Current Biology · doi:10.1016/j.cub.2006.07.032 · Cited by 52 · see citing works

Ancestral Population Sizes and Species Divergence Times in the Primate Lineage on the Basis of Intron and BAC End Sequences

Satta, Y., Hickerson, M. J., Watanabe, H., Ó’hUigín, C., & Klein, J. (2004) · Journal of Molecular Evolution · doi:10.1007/s00239-004-2639-2 · Cited by 50 · see citing works

Fitting background-selection predictions to levels of nucleotide variation and divergence along the human autosomes.Preprint

Reed, F. A., Akey, J., & Aquadro, C. (2005) · Genome Research · doi:10.1101/gr.3413205 · Cited by 47 · see citing works

Correcting Estimators of θ and Tajima's D for Ascertainment Biases Caused by the Single-Nucleotide Polymorphism Discovery Process

Ramírez-Soriano, A., & Nielsen, R. (2008) · Genetics · doi:10.1534/genetics.108.094060 · Cited by 36 · see citing works

A rhesus macaque radiation hybrid map and comparative analysis with the human genome

Murphy, W. J., Agarwala, R., Schäffer, A. A., Stephens, R. M., Smith, C., Crumpler, N., David, V. A., & O’Brien, S. J. (2005) · Genomics · doi:10.1016/j.ygeno.2005.05.013 · Cited by 32 · see citing works

A general framework for estimating the relative pathogenicity of human genetic variants

Kircher, M., Witten, D. M., Jain, P., O'Roak, B. J., Cooper, G. M., & Shendure, J. (2014) · Nature Genetics · doi:10.1038/ng.2892 · Cited by 6,183 · see citing works

LD Score regression distinguishes confounding from polygenicity in genome-wide association studies

Schizophrenia Working Group of the Psychiatric Genomics Consortium, Bulik-Sullivan, B. K., Loh, P.-R., Finucane, H. K., Ripke, S., Yang, J., Patterson, N., Daly, M. J., Price, A. L., & Neale, B. M. (2015) · Nature Genetics · doi:10.1038/ng.3211 · Cited by 5,559 · 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

An integrated map of structural variation in 2,504 human genomes

Sudmant, P. H., Rausch, T., Gardner, E. J., Handsaker, R. E., Abyzov, A., Huddleston, J., Zhang, Y., Ye, K., Jun, G., Hsi-Yang Fritz, M., et al. (2015) · Nature · doi:10.1038/nature15394 · Cited by 2,354 · see citing works

Sequencing of 53,831 diverse genomes from the NHLBI TOPMed Program

Taliun, D., Harris, D. N., Kessler, M. D., Carlson, J., Szpiech, Z. A., Torres, R., Taliun, S. A. G., Corvelo, A., Gogarten, S. M., Kang, H. M., et al. (2021) · Nature · doi:10.1038/s41586-021-03205-y · Cited by 2,213 · 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

Common schizophrenia alleles are enriched in mutation-intolerant genes and in regions under strong background selection

GERAD1 Consortium, Pardiñas, A. F., CRESTAR Consortium, Holmans, P., Pocklington, A. J., Escott-Price, V., Ripke, S., Carrera, N., Legge, S. E., Bishop, S., et al. (2018) · Nature Genetics · doi:10.1038/s41588-018-0059-2 · Cited by 1,552 · see citing works

The genomic landscape of Neanderthal ancestry in present-day humans

Sankararaman, S., Mallick, S., Dannemann, M., Prüfer, K., Kelso, J., Pääbo, S., Patterson, N., & Reich, D. (2014) · Nature · doi:10.1038/nature12961 · Cited by 1,107 · see citing works

The genetics of human adaptation: hard sweeps, soft sweeps, and polygenic adaptation

Pritchard, J. K., Pickrell, J. K., & Coop, G. (2010) · Current Biology · doi:10.1016/j.cub.2009.11.055 · Cited by 932 · see citing works

Insights into hominid evolution from the gorilla genome sequence

Scally, A., Dutheil, J. Y., Hillier, L. W., Jordan, G. E., Goodhead, I., Herrero, J., Hobolth, A., Lappalainen, T., Mailund, T., Marquès‐Bonet, T., et al. (2012) · Nature · doi:10.1038/nature10842 · Cited by 760 · see citing works

Estimating and interpreting <i>F</i> _ST : The impact of rare variants

Bhatia, G., Patterson, N., Sankararaman, S., & Price, A. L. (2013) · Genome Research · doi:10.1101/gr.154831.113 · Cited by 612 · see citing works

dbNSFP v4: a comprehensive database of transcript-specific functional predictions and annotations for human nonsynonymous and splice-site SNVs

Liu, X., Li, C., Mou, C., Dong, Y., & Tu, Y.-C. (2020) · Genome Medicine · doi:10.1186/s13073-020-00803-9 · Cited by 652 · see citing works

Comparative genetic architectures of schizophrenia in East Asian and European populations

Schizophrenia Working Group of the Psychiatric Genomics Consortium, Lam, M., Indonesia Schizophrenia Consortium, Genetic REsearch on schizophreniA neTwork-China and the Netherlands (GREAT-CN), Chen, C.-Y., Li, Z., Martin, A. R., Bryois, J., Ma, X., Gaspar, H., et al. (2019) · Nature Genetics · doi:10.1038/s41588-019-0512-x · Cited by 655 · see citing works

Resurrecting Surviving Neandertal Lineages from Modern Human Genomes

Vernot, B., & Akey, J. M. (2014) · Science · doi:10.1126/science.1245938 · Cited by 562 · see citing works

Ancient gene flow from early modern humans into Eastern Neanderthals

Kuhlwilm, M., Gronau, I., Hubisz, M. J., de Filippo, C., Prado-Martinez, J., Kircher, M., Fu, Q., Burbano, H. A., Lalueza-Fox, C., de la Rasilla, M., et al. (2016) · Nature · doi:10.1038/nature16544 · Cited by 577 · 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

The bonobo genome compared with the chimpanzee and human genomes

Prüfer, K., Munch, K., Hellmann, I., Akagi, K., Miller, J. R., Walenz, B., Koren, S., Sutton, G., Kodira, C., Winer, R., et al. (2012) · Nature · doi:10.1038/nature11128 · Cited by 579 · see citing works

Contrasting genetic architectures of schizophrenia and other complex diseases using fast variance-components analysis

Schizophrenia Working Group of the Psychiatric Genomics Consortium, Loh, P.-R., Bhatia, G., Gusev, A., Finucane, H. K., Bulik-Sullivan, B. K., Pollack, S. J., de Candia, T. R., Lee, S. H., Wray, N. R., et al. (2015) · Nature Genetics · doi:10.1038/ng.3431 · Cited by 449 · see citing works

The Combined Landscape of Denisovan and Neanderthal Ancestry in Present-Day Humans

Sankararaman, S., Mallick, S., Patterson, N., & Reich, D. (2016) · Current Biology · doi:10.1016/j.cub.2016.03.037 · Cited by 465 · see citing works

Linkage disequilibrium–dependent architecture of human complex traits shows action of negative selection

Gazal, S., Finucane, H. K., Furlotte, N. A., Loh, P.-R., Palamara, P. F., Liu, X., Schoech, A., Bulik-Sullivan, B., Neale, B. M., Gusev, A., et al. (2017) · Nature Genetics · doi:10.1038/ng.3954 · Cited by 525 · see citing works

Excavating Neandertal and Denisovan DNA from the genomes of Melanesian individuals

Vernot, B., Tucci, S., Kelso, J., Schraiber, J. G., Wolf, A. B., Gittelman, R. M., Dannemann, M., Grote, S., McCoy, R. C., Norton, H., et al. (2016) · Science · doi:10.1126/science.aad9416 · Cited by 459 · see citing works

Variation in the mutation rate across mammalian genomes

Hodgkinson, A., & Eyre-Walker, A. (2011) · Nature Reviews Genetics · doi:10.1038/nrg3098 · Cited by 487 · 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

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 Genetic Cost of Neanderthal Introgression

Harris, K., & Nielsen, R. (2016) · Genetics · doi:10.1534/genetics.116.186890 · Cited by 419 · see citing works

Genomic signatures of selection at linked sites: unifying the disparity among species

Cutter, A. D., & Payseur, B. A. (2013) · Nature Reviews Genetics · doi:10.1038/nrg3425 · Cited by 465 · see citing works

The Date of Interbreeding between Neandertals and Modern Humans

Sankararaman, S., Patterson, N., Li, H., Pääbo, S., & Reich, D. (2012) · PLoS Genetics · doi:10.1371/journal.pgen.1002947 · Cited by 460 · see citing works

Adaptation–not by sweeps alone

Pritchard, J. K., & Di Rienzo, A. (2010) · Nature Reviews Genetics · doi:10.1038/nrg2880 · Cited by 445 · see citing works

Genetic evidence for two founding populations of the Americas

Skoglund, P., Mallick, S., Bortolini, M. C., Chennagiri, N., Hünemeier, T., Petzl‐Erler, M. L., Salzano, F. M., Patterson, N. J., & Reich, D. (2015) · Nature · doi:10.1038/nature14895 · Cited by 441 · see citing works

Classic Selective Sweeps Were Rare in Recent Human Evolution

Hernandez, R. D., Kelley, J. L., Elyashiv, E., Melton, S., Auton, A., McVean, G., 1000 Genomes Project, Sella, G., & Przeworski, M. (2011) · Science · doi:10.1126/science.1198878 · Cited by 427 · see citing works

Detection of human adaptation during the past 2000 years

Field, Y., Boyle, E. A., Telis, N., Gao, Z., Gaulton, K. J., Golan, D., Yengo, L., Rocheleau, G., Froguel, P., McCarthy, M. I., et al. (2016) · Science · doi:10.1126/science.aag0776 · Cited by 383 · see citing works

Signatures of negative selection in the genetic architecture of human complex traits

Zeng, J., de Vlaming, R., Wu, Y., Robinson, M. R., Lloyd-Jones, L. R., Yengo, L., Yap, C. X., Xue, A., Sidorenko, J., McRae, A. F., et al. (2018) · Nature Genetics · doi:10.1038/s41588-018-0101-4 · Cited by 391 · see citing works

Genome-wide patterns and properties of de novo mutations in humans

Francioli, L. C., Polak, P. P., Koren, A., Menelaou, A., Chun, S., Renkens, I., van Duijn, C. M., Swertz, M. A., Wijmenga, C., van Ommen, G. B., et al. (2015) · Nature Genetics · doi:10.1038/ng.3292 · Cited by 381 · see citing works

Ultraconserved elements are novel phylogenomic markers that resolve placental mammal phylogeny when combined with species-tree analysisPreprint

McCormack, J. E., Faircloth, B. C., Crawford, N. G., Gowaty, P. A., Brumfield, R. T., & Glenn, T. C. (2011) · Genome Research · doi:10.1101/gr.125864.111 · Cited by 379 · see citing works

Bottlenecks and Selective Sweeps during Domestication Have Increased Deleterious Genetic Variation in Dogs

Marsden, C. D., Ortega-Del Vecchyo, D., O’Brien, D. P., Taylor, J. F., Ramirez, O., Vilà, C., Marques-Bonet, T., Schnabel, R. D., Wayne, R. K., & Lohmueller, K. E. (2016) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1512501113 · Cited by 333 · see citing works

Genome-Wide Inference of Ancestral Recombination Graphs

Rasmussen, M. D., Hubisz, M. J., Gronau, I., & Siepel, A. (2014) · PLoS Genetics · doi:10.1371/journal.pgen.1004342 · Cited by 371 · see citing works

Reduced signal for polygenic adaptation of height in UK Biobank

Berg, J. J., Harpak, A., Sinnott-Armstrong, N., Joergensen, A. M., Mostafavi, H., Field, Y., Boyle, E. A., Zhang, X., Racimo, F., Pritchard, J. K., et al. (2019) · eLife · doi:10.7554/elife.39725 · Cited by 339 · see citing works

Multiple Deeply Divergent Denisovan Ancestries in Papuans

Jacobs, G. S., Hudjashov, G., Saag, L., Kusuma, P., Darusallam, C. C., Lawson, D. J., Mondal, M., Pagani, L., Ricaut, F.-X., Stoneking, M., et al. (2019) · Cell · doi:10.1016/j.cell.2019.02.035 · Cited by 346 · see citing works

Evolutionary History and Adaptation from High-Coverage Whole-Genome Sequences of Diverse African Hunter-Gatherers

Lachance, J., Vernot, B., Elbers, C. C., Ferwerda, B., Froment, A., Bodo, J.-M., Lema, G., Fu, W., Nyambo, T., Rebbeck, T. R., et al. (2012) · Cell · doi:10.1016/j.cell.2012.07.009 · Cited by 334 · see citing works

A direct characterization of human mutation based on microsatellites

Sun, J. X., Helgason, A., Másson, G., Ebenesersdóttir, S. S., Li, H., Mallick, S., Gnerre, S., Patterson, N. J., Kong, A., Reich, D., et al. (2012) · Nature Genetics · doi:10.1038/ng.2398 · Cited by 342 · see citing works

Natural Selection Constrains Neutral Diversity across A Wide Range of Species

Corbett-Detig, R. B., Hartl, D. L., & Sackton, T. B. (2015) · PLoS Biology · doi:10.1371/journal.pbio.1002112 · Cited by 331 · see citing works

The genomic consequences of hybridization

Moran, B. M., Payne, C. Y., Langdon, Q. K., Powell, D. L., Brandvain, Y. J., & Schumer, M. E. (2021) · eLife · doi:10.7554/elife.69016 · Cited by 326 · see citing works

S weep F inder 2: increased sensitivity, robustness and flexibility

DeGiorgio, M., Huber, C. D., Hubisz, M. J., Hellmann, I., & Nielsen, R. (2016) · Bioinformatics · doi:10.1093/bioinformatics/btw051 · Cited by 322 · 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

The Strength of Selection against Neanderthal Introgression

Juric, I., Aeschbacher, S., & Coop, G. (2016) · PLOS Genetics · doi:10.1371/journal.pgen.1006340 · Cited by 309 · see citing works

The Effects of Deleterious Mutations on Evolution at Linked Sites

Charlesworth, B. (2012) · Genetics · doi:10.1534/genetics.111.134288 · Cited by 304 · see citing works

Determinants of Mutation Rate Variation in the Human Germline

Ségurel, L., Wyman, M. J., & Przeworski, M. (2014) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev-genom-031714-125740 · Cited by 289 · see citing works

The gene tree delusion

Springer, M. S., & Gatesy, J. (2015) · Molecular Phylogenetics and Evolution · doi:10.1016/j.ympev.2015.07.018 · Cited by 281 · see citing works

The deleterious mutation load is insensitive to recent population history.

Simons, Y. B., Turchin, M. C., Pritchard, J. K., & Sella, G. (2014) · Nature Genetics · doi:10.1038/ng.2896 · Cited by 279 · see citing works

Patterns of coding variation in the complete exomes of three Neandertals

Castellano, S., Parra, G., Sánchez-Quinto, F. A., Racimo, F., Kuhlwilm, M., Kircher, M., Sawyer, S., Fu, Q., Heinze, A., Nickel, B., et al. (2014) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1405138111 · Cited by 247 · see citing works

Uganda Genome Resource Enables Insights into Population History and Genomic Discovery in Africa

Gurdasani, D., Carstensen, T., Fatumo, S., Chen, G., Franklin, C. S., Prado-Martinez, J., Bouman, H. J., Abascal, F., Haber, M., Tachmazidou, I., et al. (2019) · Cell · doi:10.1016/j.cell.2019.10.004 · Cited by 254 · see citing works

The Effect of Strong Purifying Selection on Genetic Diversity

Cvijović, I., Good, B. H., & Desai, M. M. (2018) · Genetics · doi:10.1534/genetics.118.301058 · Cited by 245 · see citing works

Evidence of Abundant Purifying Selection in Humans for Recently Acquired Regulatory Functions

Ward, L. D., & Kellis, M. (2012) · Science · doi:10.1126/science.1225057 · Cited by 209 · see citing works

Inferring Demographic History from a Spectrum of Shared Haplotype Lengths

Harris, K., & Nielsen, R. (2013) · PLoS Genetics · doi:10.1371/journal.pgen.1003521 · Cited by 229 · see citing works

Limits of long-term selection against Neandertal introgression

Petr, M., Pääbo, S., Kelso, J., & Vernot, B. (2019) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1814338116 · Cited by 211 · see citing works

A genetic method for dating ancient genomes provides a direct estimate of human generation interval in the last 45,000 years

Moorjani, P., Sankararaman, S., Fu, Q., Przeworski, M., Patterson, N. J., & Reich, D. (2016) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1514696113 · Cited by 201 · see citing works

Incomplete lineage sorting patterns among human, chimpanzee, and orangutan suggest recent orangutan speciation and widespread selectionPreprint

Hobolth, A., Dutheil, J. Y., Hawks, J. D., Schierup, M. H., & Mailund, T. (2011) · Genome Research · doi:10.1101/gr.114751.110 · Cited by 213 · see citing works

Archaic Hominin Admixture Facilitated Adaptation to Out-of-Africa Environments

Gittelman, R. M., Schraiber, J. G., Vernot, B., Mikacenic, C., Wurfel, M. M., & Akey, J. M. (2016) · Current Biology · doi:10.1016/j.cub.2016.10.041 · Cited by 181 · see citing works

Evidence that RNA Viruses Drove Adaptive Introgression between Neanderthals and Modern Humans

Enard, D., & Petrov, D. A. (2018) · Cell · doi:10.1016/j.cell.2018.08.034 · Cited by 208 · see citing works

Inference of the Distribution of Selection Coefficients for New Nonsynonymous Mutations Using Large Samples

Kim, B. Y., Huber, C. D., & Lohmueller, K. E. (2017) · Genetics · doi:10.1534/genetics.116.197145 · Cited by 194 · see citing works

Inference and analysis of population-specific fine-scale recombination maps across 26 diverse human populations

Spence, J. P., & Song, Y. S. (2019) · Science Advances · doi:10.1126/sciadv.aaw9206 · Cited by 184 · see citing works

Methods and models for unravelling human evolutionary history

Schraiber, J. G., & Akey, J. M. (2015) · Nature Reviews Genetics · doi:10.1038/nrg4005 · Cited by 167 · see citing works

Genome-wide signals of positive selection in human evolutionPreprint

Enard, D., Messer, P. W., & Petrov, D. A. (2014) · Genome Research · doi:10.1101/gr.164822.113 · Cited by 167 · see citing works

Interpreting differentiation landscapes in the light of long-term linked selection

Burri, R. (2017) · Evolution Letters · doi:10.1002/evl3.14 · Cited by 162 · see citing works

Recovering signals of ghost archaic introgression in African populations

Durvasula, A., & Sankararaman, S. (2020) · Science Advances · doi:10.1126/sciadv.aax5097 · Cited by 158 · see citing works

A Genomic Map of the Effects of Linked Selection in Drosophila

Elyashiv, E., Sattath, S., Hu, T. T., Strutsovsky, A., McVicker, G., Andolfatto, P., Coop, G., & Sella, G. (2016) · PLoS Genetics · doi:10.1371/journal.pgen.1006130 · Cited by 164 · see citing works

Natural Selection Affects Multiple Aspects of Genetic Variation at Putatively Neutral Sites across the Human Genome

Lohmueller, K. E., Albrechtsen, A., Li, Y., Kim, S. Y., Korneliussen, T. S., Vinckenbosch, N., Tian, G., Huerta‐Sánchez, E., Feder, A. F., Grarup, N., et al. (2011) · PLoS Genetics · doi:10.1371/journal.pgen.1002326 · Cited by 149 · see citing works

Background selection and biased gene conversion affect more than 95% of the human genome and bias demographic inferences

Pouyet, F., Aeschbacher, S., Thiéry, A., & Excoffier, L. (2018) · eLife · doi:10.7554/elife.36317 · Cited by 153 · see citing works

Background Selection as Baseline for Nucleotide Variation across the Drosophila Genome

Comeron, J. M. (2014) · PLoS Genetics · doi:10.1371/journal.pgen.1004434 · Cited by 150 · see citing works

Detecting positive selection in the genome

Booker, T. R., Jackson, B., & Keightley, P. D. (2017) · BMC Biology · doi:10.1186/s12915-017-0434-y · Cited by 143 · see citing works

Complex History of Admixture between Modern Humans and Neandertals

Vernot, B., & Akey, J. M. (2015) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2015.01.006 · Cited by 149 · see citing works

Effects of Selection at Linked Sites on Patterns of Genetic Variability

Charlesworth, B., & Jensen, J. D. (2021) · Annual Review of Ecology Evolution and Systematics · doi:10.1146/annurev-ecolsys-010621-044528 · Cited by 144 · see citing works

Evolutionary perspectives on health and medicine

Stearns, S. C., Nesse, R. M., Govindaraju, D. R., & Ellison, P. T. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0914475107 · Cited by 144 · see citing works

Quantifying the relationship between genetic diversity and population size suggests natural selection cannot explain Lewontin’s Paradox

Buffalo, V. (2021) · eLife · doi:10.7554/elife.67509 · Cited by 142 · see citing works

Determining the factors driving selective effects of new nonsynonymous mutations

Huber, C. D., Kim, B. Y., Marsden, C. D., & Lohmueller, K. E. (2017) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1619508114 · Cited by 140 · see citing works

Evidence for Pervasive Adaptive Protein Evolution in Wild Mice

Halligan, D. L., Oliver, F., Eyre‐Walker, A., Harr, B., & Keightley, P. D. (2010) · PLoS Genetics · doi:10.1371/journal.pgen.1000825 · Cited by 137 · see citing works

Towards the identification of the loci of adaptive evolution

Pardo‐Díaz, C., Salazar, C. A., & Jiggins, C. D. (2014) · Methods in Ecology and Evolution · doi:10.1111/2041-210x.12324 · Cited by 131 · see citing works

Detecting recent selective sweeps while controlling for mutation rate and background selection

Huber, C. D., DeGiorgio, M., Hellmann, I., & Nielsen, R. (2015) · Molecular Ecology · doi:10.1111/mec.13351 · Cited by 124 · see citing works

Selection and Adaptation in the Human Genome

Fu, W., & Akey, J. M. (2013) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev-genom-091212-153509 · Cited by 123 · see citing works

Population-specific causal disease effect sizes in functionally important regions impacted by selection

Shi, H., Gazal, S., Kanai, M., Koch, E. M., Schoech, A. P., Siewert, K. M., Kim, S. S., Luo, Y., Amariuta, T., Huang, H., et al. (2021) · Nature Communications · doi:10.1038/s41467-021-21286-1 · Cited by 119 · see citing works

A DNA language model based on multispecies alignment predicts the effects of genome-wide variants

Benegas, G., Albors, C., Aw, A. J., Ye, C., & Song, Y. S. (2025) · Nature Biotechnology · doi:10.1038/s41587-024-02511-w · Cited by 118 · see citing works

Estimating the genome-wide contribution of selection to temporal allele frequency change

Buffalo, V., & Coop, G. (2020) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1919039117 · Cited by 116 · see citing works

Natural Selection Reduced Diversity on Human Y Chromosomes

Sayres, M. A. W., Lohmueller, K. E., & Nielsen, R. (2014) · PLoS Genetics · doi:10.1371/journal.pgen.1004064 · Cited by 115 · see citing works

Direct and indirect consequences of meiotic recombination: implications for genome evolution

Webster, M. T., & Hurst, L. D. (2011) · Trends in Genetics · doi:10.1016/j.tig.2011.11.002 · Cited by 110 · see citing works

Genomic history of the Sardinian population

Chiang, C. W. K., Marcus, J. H., Sidore, C., Biddanda, A., Al-Asadi, H., Żołędziewska, M., Pitzalis, M., Busonero, F., Maschio, A., Pistis, G., et al. (2018) · Nature Genetics · doi:10.1038/s41588-018-0215-8 · Cited by 103 · see citing works

Ancestral Population Genomics: The Coalescent Hidden Markov Model Approach

Dutheil, J. Y., Ganapathy, G., Hobolth, A., Mailund, T., Uyenoyama, M. K., & Schierup, M. H. (2009) · Genetics · doi:10.1534/genetics.109.103010 · Cited by 109 · see citing works

Estimating Divergence Time and Ancestral Effective Population Size of Bornean and Sumatran Orangutan Subspecies Using a Coalescent Hidden Markov Model

Mailund, T., Dutheil, J. Y., Hobolth, A., Lunter, G. A., & Schierup, M. H. (2011) · PLoS Genetics · doi:10.1371/journal.pgen.1001319 · Cited by 107 · see citing works

Contributions of Protein-Coding and Regulatory Change to Adaptive Molecular Evolution in Murid Rodents

Halligan, D. L., Kousathanas, A., Ness, R. W., Harr, B., Eöry, L., Keane, T., Adams, D. J., & Keightley, P. D. (2013) · PLoS Genetics · doi:10.1371/journal.pgen.1003995 · Cited by 101 · see citing works

MORE ACCURATE PHYLOGENIES INFERRED FROM LOW-RECOMBINATION REGIONS IN THE PRESENCE OF INCOMPLETE LINEAGE SORTING

Pease, J. B., & Hahn, M. W. (2013) · Evolution · doi:10.1111/evo.12118 · Cited by 107 · see citing works

Personal and population genomics of human regulatory variationPreprint

Vernot, B., Stergachis, A. B., Maurano, M. T., Vierstra, J. D., Neph, S. J., Thurman, R. E., Stamatoyannopoulos, J. A., & Akey, J. M. (2012) · Genome Research · doi:10.1101/gr.134890.111 · Cited by 107 · see citing works

Height-reducing variants and selection for short stature in Sardinia

Żołędziewska, M., The Understanding Society Scientific Group, Sidore, C., Chiang, C. W. K., Sanna, S., Mulas, A., Steri, M., Busonero, F., Marcus, J. H., Marongiu, M., et al. (2015) · Nature Genetics · doi:10.1038/ng.3403 · Cited by 98 · see citing works

Quantifying the Variation in the Effective Population Size Within a Genome

Gossmann, T. I., Woolfit, M., & Eyre‐Walker, A. (2011) · Genetics · doi:10.1534/genetics.111.132654 · Cited by 100 · see citing works

Detecting signatures of positive selection in non-model species using genomic data

Weigand, H., & Leese, F. (2018) · Zoological Journal of the Linnean Society · doi:10.1093/zoolinnean/zly007 · Cited by 99 · see citing works

Population genetic inference from personal genome data: impact of ancestry and admixture on human genomic variation

Kidd, J. M., Gravel, S., Byrnes, J., Moreno-Estrada, A., Musharoff, S., Bryc, K., Degenhardt, J. D., Brisbin, A., Sheth, V., Chen, R., et al. (2012) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2012.08.025 · Cited by 95 · see citing works

Genetic Diversity in the Interference Selection Limit

Good, B. H., Walczak, A. M., Neher, R. A., & Desai, M. M. (2014) · PLoS Genetics · doi:10.1371/journal.pgen.1004222 · Cited by 97 · see citing works

Natural Selection and Genetic Diversity in the Butterfly Heliconius melpomene

Martin, S. H., Möst, M., Palmer, W. J., Salazar, C. A., McMillan, W. O., Jiggins, F. M., & Jiggins, C. D. (2016) · Genetics · doi:10.1534/genetics.115.183285 · Cited by 96 · see citing works

Recombination in the Human Pseudoautosomal Region PAR1

Hinch, A. G., Altemose, N., Noor, N., Donnelly, P., & Myers, S. R. (2014) · PLoS Genetics · doi:10.1371/journal.pgen.1004503 · Cited by 94 · see citing works

Human Population Differentiation Is Strongly Correlated with Local Recombination Rate

Keinan, A., & Reich, D. (2010) · PLoS Genetics · doi:10.1371/journal.pgen.1000886 · Cited by 92 · see citing works

Detecting ancient positive selection in humans using extended lineage sorting

Peyrégne, S., Boyle, M. J., Dannemann, M., & Prüfer, K. (2017) · Genome Research · doi:10.1101/gr.219493.116 · Cited by 93 · see citing works

Trans genomic capture and sequencing of primate exomes reveals new targets of positive selectionPreprint

George, R. D., McVicker, G., Diederich, R., Ng, S. B. H., MacKenzie, A. P., Swanson, W. J., Shendure, J., & Thomas, J. H. (2011) · Genome Research · doi:10.1101/gr.121327.111 · Cited by 89 · see citing works

P (2009) Widespread genomic signatures of natural selection in hominid evolution. PLoS Genet 5: e1000471. doi:10.1371/journal.pgen.1000471

McVicker, G., Gordon, D., Davis, C. P., & Green, P. (2016)

Processes shaping human genomic diversity

Coop, G. (2014) · Figshare · doi:10.6084/m9.figshare.980688

Natural Selection, Genetic Variation, and Human Diversity

Emery, L. S., & Akey, J. M. (2021) · Springer eBooks · doi:10.1007/978-3-030-61646-5_9

Broad-scale variation in human genetic diversity levels is predicted by purifying selection on coding and non-coding elements

Murphy, D. A., Elyashiv, E., Amster, G., & Sella, G. (2022) · eLife · doi:10.7554/elife.76065 · Cited by 58 · see citing works

Examining the effect of natural selection on linked neutral divergence

Phung, T. N. (2016) · Figshare · doi:10.6084/m9.figshare.3494192