A Genomic Map of the Effects of Linked Selection in Drosophila
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Tina T. Hu | Shmuel Sattath | G. Coop | Graham P. McVicker | G. Sella | P. Andolfatto | Eyal Elyashiv | T. T. Hu | Alon Strutsovsky | G. McVicker | Guy Sella
[1] W. G. Hill,et al. The effect of linkage on limits to artificial selection. , 1966, Genetical research.
[2] R. Lewontin,et al. The Genetic Basis of Evolutionary Change , 2022 .
[3] T. Maruyama,et al. The age of a rare mutant gene in a large population. , 1974, American journal of human genetics.
[4] J. M. Smith,et al. The hitch-hiking effect of a favourable gene. , 1974, Genetical research.
[5] J. Crow. The genetic basis of evolutionary change , 1975 .
[6] W. Ewens. Mathematical Population Genetics , 1980 .
[7] D C Shields,et al. "Silent" sites in Drosophila genes are not neutral: evidence of selection among synonymous codons. , 1988, Molecular biology and evolution.
[8] N L Kaplan,et al. The "hitchhiking effect" revisited. , 1989, Genetics.
[9] M. Kreitman,et al. Adaptive protein evolution at the Adh locus in Drosophila , 1991, Nature.
[10] C. Aquadro,et al. Levels of naturally occurring DNA polymorphism correlate with recombination rates in D. melanogaster , 1992, Nature.
[11] W. Stephan,et al. Analysis of a genetic hitchhiking model, and its application to DNA polymorphism data from Drosophila melanogaster. , 1993, Molecular biology and evolution.
[12] B. Charlesworth,et al. The effect of deleterious mutations on neutral molecular variation. , 1993, Genetics.
[13] D. Hartl,et al. Codon usage bias and base composition of nuclear genes in Drosophila. , 1993, Genetics.
[14] R. Hudson,et al. How can the low levels of DNA sequence variation in regions of the drosophila genome with low recombination rates be explained? , 1994, Proceedings of the National Academy of Sciences of the United States of America.
[15] T. Mackay,et al. The genomic rate of transposable element movement in Drosophila melanogaster. , 1995, Molecular biology and evolution.
[16] N L Kaplan,et al. Deleterious background selection with recombination. , 1995, Genetics.
[17] H. Akashi,et al. Inferring weak selection from patterns of polymorphism and divergence at "silent" sites in Drosophila DNA. , 1995, Genetics.
[18] B. Charlesworth. Background selection and patterns of genetic diversity in Drosophila melanogaster. , 1996, Genetical research.
[19] B. Charlesworth,et al. The effect of recombination on background selection. , 1996, Genetical research.
[20] Ziheng Yang,et al. PAML: a program package for phylogenetic analysis by maximum likelihood , 1997, Comput. Appl. Biosci..
[21] Nicholas H. Barton,et al. The effect of hitch-hiking on neutral genealogies , 1998 .
[22] A. Caballero,et al. Effective size and polymorphism of linked neutral loci in populations under directional selection. , 1998, Genetics.
[23] Stephen M. Mount,et al. The genome sequence of Drosophila melanogaster. , 2000, Science.
[24] M. Nachman,et al. Estimate of the mutation rate per nucleotide in humans. , 2000, Genetics.
[25] P. Andolfatto,et al. A genome-wide departure from the standard neutral model in natural populations of Drosophila. , 2000, Genetics.
[26] J. Gillespie. Genetic drift in an infinite population. The pseudohitchhiking model. , 2000, Genetics.
[27] W. Stephan,et al. Joint effects of genetic hitchhiking and background selection on neutral variation. , 2000, Genetics.
[28] G. McVean,et al. The effects of Hill-Robertson interference between weakly selected mutations on patterns of molecular evolution and variation. , 2000, Genetics.
[29] R. Hudson. Two-locus sampling distributions and their application. , 2001, Genetics.
[30] Justin C. Fay,et al. Testing the neutral theory of molecular evolution with genomic data from Drosophila , 2002, Nature.
[31] Pardis C Sabeti,et al. Detecting recent positive selection in the human genome from haplotype structure , 2002, Nature.
[32] B. Charlesworth,et al. Muller's ratchet and the pattern of variation at a neutral locus. , 2002, Genetics.
[33] W. Stephan,et al. Detecting a local signature of genetic hitchhiking along a recombining chromosome. , 2002, Genetics.
[34] Molly Przeworski,et al. The signature of positive selection at randomly chosen loci. , 2002, Genetics.
[35] Adam Eyre-Walker,et al. Adaptive protein evolution in Drosophila , 2002, Nature.
[36] M. Nachman,et al. Gene density and human nucleotide polymorphism. , 2002, Molecular biology and evolution.
[37] G. Rubin,et al. A Drosophila full-length cDNA resource , 2002, Genome Biology.
[38] Wolfgang Stephan,et al. Selective sweeps in the presence of interference among partially linked loci. , 2003, Genetics.
[39] B. Payseur,et al. Selection at linked sites in the partial selfer Caenorhabditis elegans. , 2003, Molecular biology and evolution.
[40] Alexey S Kondrashov,et al. Direct estimates of human per nucleotide mutation rates at 20 loci causing mendelian diseases , 2003, Human mutation.
[41] Paul Fearnhead,et al. Consistency of estimators of the population-scaled recombination rate. , 2003, Theoretical population biology.
[42] S. Nuzhdin,et al. Mutation accumulation and the effect of copia insertions in Drosophila melanogaster. , 2004, Genetical research.
[43] H. Innan,et al. Pattern of polymorphism after strong artificial selection in a domestication event. , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[44] R. Nielsen,et al. Linkage Disequilibrium as a Signature of Selective Sweeps , 2004, Genetics.
[45] J. Hermisson,et al. Soft Sweeps , 2005, Genetics.
[46] Mattias Jakobsson,et al. The Pattern of Polymorphism in Arabidopsis thaliana , 2005, PLoS biology.
[47] G. Coop,et al. THE SIGNATURE OF POSITIVE SELECTION ON STANDING GENETIC VARIATION , 2005, Evolution; international journal of organic evolution.
[48] Brian Charlesworth,et al. Patterns of intron sequence evolution in Drosophila are dependent upon length and GC content , 2005, Genome Biology.
[49] P. Andolfatto. Adaptive evolution of non-coding DNA in Drosophila , 2005, Nature.
[50] Carlos Bustamante,et al. Genomic scans for selective sweeps using SNP data. , 2005, Genome research.
[51] Kevin R. Thornton,et al. Approximate Bayesian Inference Reveals Evidence for a Recent, Severe Bottleneck in a Netherlands Population of Drosophila melanogaster , 2006, Genetics.
[52] C. Wiuf. Consistency of estimators of population scaled parameters using composite likelihood , 2006, Journal of mathematical biology.
[53] W. Stephan,et al. Inferring the Demographic History and Rate of Adaptive Substitution in Drosophila , 2006, PLoS genetics.
[54] D. Halligan,et al. Ubiquitous selective constraints in the Drosophila genome revealed by a genome-wide interspecies comparison. , 2006, Genome research.
[55] J. Hermisson,et al. Soft sweeps II--molecular population genetics of adaptation from recurrent mutation or migration. , 2006, Molecular biology and evolution.
[56] Joachim Hermisson,et al. Soft Sweeps III: The Signature of Positive Selection from Recurrent Mutation , 2006, PLoS genetics.
[57] Kosuke M. Teshima,et al. Directional Positive Selection on an Allele of Arbitrary Dominance , 2006, Genetics.
[58] J. Pritchard,et al. A Map of Recent Positive Selection in the Human Genome , 2006, PLoS biology.
[59] D. Charlesworth,et al. Testing for Effects of Recombination Rate on Nucleotide Diversity in Natural Populations of Arabidopsis lyrata , 2006, Genetics.
[60] Alan Robertson,et al. Inbreeding in artificial selection programmes. , 1961, Genetical research.
[61] B. Charlesworth,et al. Direct estimation of per nucleotide and genomic deleterious mutation rates in Drosophila , 2007, Nature.
[62] Colin N. Dewey,et al. Population Genomics: Whole-Genome Analysis of Polymorphism and Divergence in Drosophila simulans , 2007, PLoS biology.
[63] B. Charlesworth,et al. Background Selection in Single Genes May Explain Patterns of Codon Bias , 2007, Genetics.
[64] Peter Andolfatto,et al. Hitchhiking effects of recurrent beneficial amino acid substitutions in the Drosophila melanogaster genome. , 2007, Genome research.
[65] Saverio Vicario,et al. Codon usage in twelve species of Drosophila , 2007, BMC Evolutionary Biology.
[66] Sònia Casillas,et al. Purifying selection maintains highly conserved noncoding sequences in Drosophila. , 2007, Molecular biology and evolution.
[67] M. Hubisz,et al. Maximum likelihood estimation of ancestral codon usage bias parameters in Drosophila. , 2006, Molecular biology and evolution.
[68] D. Petrov,et al. Genomewide Spatial Correspondence Between Nonsynonymous Divergence and Neutral Polymorphism Reveals Extensive Adaptation in Drosophila , 2007, Genetics.
[69] P. Andolfatto,et al. The Impact of Natural Selection on the Genome: Emerging Patterns in Drosophila and Arabidopsis , 2008 .
[70] F. Hospital,et al. Selective Sweep at a Quantitative Trait Locus in the Presence of Background Genetic Variation , 2008, Genetics.
[71] P. Andolfatto,et al. Positive and negative selection on noncoding DNA in Drosophila simulans. , 2008, Molecular biology and evolution.
[72] Joseph K. Pickrell,et al. The Role of Geography in Human Adaptation , 2009, PLoS genetics.
[73] Guy Sella,et al. Pervasive Hitchhiking at Coding and Regulatory Sites in Humans , 2009, PLoS genetics.
[74] B. Charlesworth,et al. Studying Patterns of Recent Evolution at Synonymous Sites and Intronic Sites in Drosophila melanogaster , 2009, Journal of Molecular Evolution.
[75] V. Hartenstein,et al. Drosophila melanogaster , 2005 .
[76] P. Green,et al. Widespread Genomic Signatures of Natural Selection in Hominid Evolution , 2009, PLoS genetics.
[77] D. Petrov,et al. Pervasive Natural Selection in the Drosophila Genome? , 2009, PLoS genetics.
[78] Marian Thomson,et al. Analysis of the genome sequences of three Drosophila melanogaster spontaneous mutation accumulation lines. , 2009, Genome research.
[79] Sylvain Arlot,et al. A survey of cross-validation procedures for model selection , 2009, 0907.4728.
[80] H. P. de Vladar,et al. The statistical mechanics of a polygenic character under stabilizing selection, mutation and drift , 2010, Journal of The Royal Society Interface.
[81] Peter L. Ralph,et al. Parallel Adaptation: One or Many Waves of Advance of an Advantageous Allele? , 2010, Genetics.
[82] W. Stephan. Genetic hitchhiking versus background selection: the controversy and its implications , 2010, Philosophical Transactions of the Royal Society B: Biological Sciences.
[83] Joseph K. Pickrell,et al. The Genetics of Human Adaptation: Hard Sweeps, Soft Sweeps, and Polygenic Adaptation , 2010, Current Biology.
[84] J. Parsch,et al. On the utility of short intron sequences as a reference for the detection of positive and negative selection in Drosophila. , 2010, Molecular biology and evolution.
[85] P. Shannon,et al. Analysis of Genetic Inheritance in a Family Quartet by Whole-Genome Sequencing , 2010, Science.
[86] Ryan D. Hernandez,et al. Classic Selective Sweeps Were Rare in Recent Human Evolution , 2011, Science.
[87] Bryan D. Kolaczkowski,et al. Genomic Differentiation Between Temperate and Tropical Australian Populations of Drosophila melanogaster , 2011, Genetics.
[88] P. Andolfatto,et al. Effective Population Size and the Efficacy of Selection on the X Chromosomes of Two Closely Related Drosophila Species , 2010, Genome biology and evolution.
[89] J. Hermisson,et al. Selective sweeps for recessive alleles and for other modes of dominance , 2010, Journal of mathematical biology.
[90] Daniel J. Wilson,et al. A Population Genetics-Phylogenetics Approach to Inferring Natural Selection in Coding Sequences , 2011, PLoS genetics.
[91] Boris I. Shraiman,et al. Correlated Evolution of Nearby Residues in Drosophilid Proteins , 2011, PLoS genetics.
[92] R. Durbin,et al. Inference of human population history from individual whole-genome sequences. , 2011, Nature.
[93] Y. Rinott,et al. Pervasive Adaptive Protein Evolution Apparent in Diversity Patterns around Amino Acid Substitutions in Drosophila simulans , 2011, PLoS genetics.
[94] S. Steinberg,et al. Rate of de novo mutations and the importance of father’s age to disease risk , 2012, Nature.
[95] Peter L. Ralph,et al. Patterns of Neutral Diversity Under General Models of Selective Sweeps , 2011, Genetics.
[96] Daniel B. Weissman,et al. Limits to the Rate of Adaptive Substitution in Sexual Populations , 2012, PLoS genetics.
[97] B. Charlesworth. The Role of Background Selection in Shaping Patterns of Molecular Evolution and Variation: Evidence from Variability on the Drosophila X Chromosome , 2012, Genetics.
[98] P. Andolfatto,et al. Revisiting an Old Riddle: What Determines Genetic Diversity Levels within Species? , 2012, PLoS biology.
[99] J. M. Comeron,et al. The Many Landscapes of Recombination in Drosophila melanogaster , 2012, PLoS genetics.
[100] Kevin R. Thornton,et al. The Drosophila melanogaster Genetic Reference Panel , 2012, Nature.
[101] Andrew H. Chan,et al. Genome-Wide Fine-Scale Recombination Rate Variation in Drosophila melanogaster , 2012, PLoS genetics.
[102] C. Vogl,et al. Unconstrained evolution in short introns? – An analysis of genome‐wide polymorphism and divergence data from Drosophila , 2012, Journal of evolutionary biology.
[103] E. Stone,et al. Joint genotyping on the fly: Identifying variation among a sequenced panel of inbred lines , 2012, Genome research.
[104] R. Nielsen,et al. Distinguishing between Selective Sweeps from Standing Variation and from a De Novo Mutation , 2012, PLoS genetics.
[105] W. Stephan,et al. Demographic Inference Reveals African and European Admixture in the North American Drosophila melanogaster Population , 2013, Genetics.
[106] B. Payseur,et al. Genomic signatures of selection at linked sites: unifying the disparity among species , 2013, Nature Reviews Genetics.
[107] Philipp W. Messer,et al. Recent selective sweeps in Drosophila were abundant and primarily soft , 2013 .
[108] Phil Green,et al. Comment on “Evidence of Abundant Purifying Selection in Humans for Recently Acquired Regulatory Functions” , 2013, Science.
[109] Kevin R. Thornton,et al. Abundance and Distribution of Transposable Elements in Two Drosophila QTL Mapping Resources , 2013, Molecular biology and evolution.
[110] Kevin R. Thornton,et al. A second-generation assembly of the Drosophila simulans genome provides new insights into patterns of lineage-specific divergence , 2013, Genome research.
[111] K. Lehmann,et al. Whole‐genome sequencing of two North American Drosophila melanogaster populations reveals genetic differentiation and positive selection , 2013, Molecular ecology.
[112] B. Charlesworth. Background selection 20 years on: the Wilhelmine E. Key 2012 invitational lecture. , 2013, The Journal of heredity.
[113] Laura Ponting,et al. FlyBase 102—advanced approaches to interrogating FlyBase , 2013, Nucleic Acids Res..
[114] Benjamin H. Good,et al. Genetic Diversity in the Interference Selection Limit , 2014, PLoS genetics.
[115] H. P. de Vladar,et al. Stability and Response of Polygenic Traits to Stabilizing Selection and Mutation , 2014, Genetics.
[116] M. Blanchette,et al. Evidence for Widespread Positive and Negative Selection in Coding and Conserved Noncoding Regions of Capsella grandiflora , 2014, bioRxiv.
[117] Josep M. Comeron,et al. Background Selection as Baseline for Nucleotide Variation across the Drosophila Genome , 2014, bioRxiv.
[118] D. Begun,et al. Differential strengths of positive selection revealed by hitchhiking effects at small physical scales in Drosophila melanogaster. , 2014, Molecular biology and evolution.
[119] G. Coop,et al. A Population Genetic Signal of Polygenic Adaptation , 2013, PLoS genetics.
[120] Timothy B Sackton,et al. Natural Selection Constrains Neutral Diversity across A Wide Range of Species , 2014, bioRxiv.
[121] G. Coop,et al. A Coalescent Model for a Sweep of a Unique Standing Variant , 2015, Genetics.
[122] Philipp W. Messer,et al. Recent Selective Sweeps in North American Drosophila melanogaster Show Signatures of Soft Sweeps , 2013, PLoS genetics.
[123] Erik Kaestner,et al. The Origins Of Genome Architecture , 2016 .