Published in Science on March 25, 2005
Genome-wide detection and characterization of positive selection in human populations. Nature (2007) 17.27
Rapid SNP discovery and genetic mapping using sequenced RAD markers. PLoS One (2008) 13.64
Population genomics of parallel adaptation in threespine stickleback using sequenced RAD tags. PLoS Genet (2010) 7.05
Rapid and cost-effective polymorphism identification and genotyping using restriction site associated DNA (RAD) markers. Genome Res (2006) 5.80
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Three periods of regulatory innovation during vertebrate evolution. Science (2011) 2.09
Divergent selection on opsins drives incipient speciation in Lake Victoria cichlids. PLoS Biol (2006) 2.08
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Parallel genetic origins of pelvic reduction in vertebrates. Proc Natl Acad Sci U S A (2006) 1.96
Adaptive divergence in the thyroid hormone signaling pathway in the stickleback radiation. Curr Biol (2010) 1.90
Fast growth increases the selective advantage of a mutation arising recurrently during evolution under metal limitation. PLoS Genet (2009) 1.89
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Adaptive divergence in experimental populations of Pseudomonas fluorescens. III. Mutational origins of wrinkly spreader diversity. Genetics (2007) 1.81
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Extensive linkage disequilibrium and parallel adaptive divergence across threespine stickleback genomes. Philos Trans R Soc Lond B Biol Sci (2012) 1.71
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Genomic hotspots for adaptation: the population genetics of Müllerian mimicry in Heliconius erato. PLoS Genet (2010) 1.61
Population genomics of rapid adaptation by soft selective sweeps. Trends Ecol Evol (2013) 1.60
Evolving New Skeletal Traits by cis-Regulatory Changes in Bone Morphogenetic Proteins. Cell (2016) 1.59
Experimental evolution reveals natural selection on standing genetic variation. Nat Genet (2009) 1.58
The genomic signature of parallel adaptation from shared genetic variation. Mol Ecol (2014) 1.58
Wings, horns, and butterfly eyespots: how do complex traits evolve? PLoS Biol (2009) 1.58
The impact of gene expression variation on the robustness and evolvability of a developmental gene regulatory network. PLoS Biol (2013) 1.57
Genomics of divergence along a continuum of parapatric population differentiation. PLoS Genet (2015) 1.57
Admixture mapping of male nuptial colour and body shape in a recently formed hybrid population of threespine stickleback. Mol Ecol (2012) 1.56
Convergence in pigmentation at multiple levels: mutations, genes and function. Philos Trans R Soc Lond B Biol Sci (2010) 1.54
A genome-wide SNP genotyping array reveals patterns of global and repeated species-pair divergence in sticklebacks. Curr Biol (2011) 1.50
Phenotypic plasticity facilitates recurrent rapid adaptation to introduced predators. Proc Natl Acad Sci U S A (2010) 1.50
Climate change in the oceans: evolutionary versus phenotypically plastic responses of marine animals and plants. Evol Appl (2013) 1.48
Zebrafish eda and edar mutants reveal conserved and ancestral roles of ectodysplasin signaling in vertebrates. PLoS Genet (2008) 1.48
A periodic pattern generator for dental diversity. BMC Biol (2008) 1.47
Convergent evolution in the genetic basis of Müllerian mimicry in heliconius butterflies. Genetics (2008) 1.46
Comparative transcriptome analysis of two oysters, Crassostrea gigas and Crassostrea hongkongensis provides insights into adaptation to hypo-osmotic conditions. PLoS One (2014) 1.46
Parallel genetic architecture of parallel adaptive radiations in mimetic Heliconius butterflies. Genetics (2006) 1.45
Detecting local adaptation using the joint sampling of polymorphism data in the parental and derived populations. Genetics (2008) 1.40
Bentho-pelagic divergence of cichlid feeding architecture was prodigious and consistent during multiple adaptive radiations within African rift-lakes. PLoS One (2010) 1.40
EDA signaling and skin appendage development. Cell Cycle (2006) 1.39
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The probability of genetic parallelism and convergence in natural populations. Proc Biol Sci (2012) 1.35
Wing patterning gene redefines the mimetic history of Heliconius butterflies. Proc Natl Acad Sci U S A (2011) 1.31
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A gene-based genetic linkage map of the collared flycatcher (Ficedula albicollis) reveals extensive synteny and gene-order conservation during 100 million years of avian evolution. Genetics (2008) 1.28
Limited evolutionary rescue of locally adapted populations facing climate change. Philos Trans R Soc Lond B Biol Sci (2013) 1.27
Elucidating the molecular architecture of adaptation via evolve and resequence experiments. Nat Rev Genet (2015) 1.27
Diversification of complex butterfly wing patterns by repeated regulatory evolution of a Wnt ligand. Proc Natl Acad Sci U S A (2012) 1.26
Divergent selection on locally adapted major histocompatibility complex immune genes experimentally proven in the field. Ecol Lett (2012) 1.25
The evolutionary origins of beneficial alleles during the repeated adaptation of garter snakes to deadly prey. Proc Natl Acad Sci U S A (2009) 1.24
Rapid evolution of cold tolerance in stickleback. Proc Biol Sci (2010) 1.24
The biological impact of the human master regulator p53 can be altered by mutations that change the spectrum and expression of its target genes. Mol Cell Biol (2006) 1.24
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Human and non-human primate genomes share hotspots of positive selection. PLoS Genet (2010) 1.24
Independent S-locus mutations caused self-fertility in Arabidopsis thaliana. PLoS Genet (2009) 1.23
Adaptive evolution: evaluating empirical support for theoretical predictions. Nat Rev Genet (2012) 1.22
Ecological causes of morphological evolution in the three-spined stickleback. Ecol Evol (2013) 1.21
Population genomics of parallel phenotypic evolution in stickleback across stream-lake ecological transitions. Proc Biol Sci (2011) 1.21
Integrating evolutionary and functional approaches to infer adaptation at specific loci. Evolution (2010) 1.21
RNA editing: a driving force for adaptive evolution? Bioessays (2009) 1.19
Quantitative trait loci with age-specific effects on fecundity in Drosophila melanogaster. Genetics (2005) 1.17
Genetic and neural modularity underlie the evolution of schooling behavior in threespine sticklebacks. Curr Biol (2013) 1.15
Repeated evolution of reproductive isolation in a marine snail: unveiling mechanisms of speciation. Philos Trans R Soc Lond B Biol Sci (2010) 1.15
Divergence, convergence, and the ancestry of feral populations in the domestic rock pigeon. Curr Biol (2012) 1.14
The adaptive role of transposable elements in the Drosophila genome. Gene (2009) 1.14
The population structure and recent colonization history of Oregon threespine stickleback determined using restriction-site associated DNA-sequencing. Mol Ecol (2013) 1.14
Adaptive diversification in genes that regulate resource use in Escherichia coli. PLoS Genet (2007) 1.14
The distribution of beneficial mutant effects under strong selection. Genetics (2006) 1.13
The genetic basis of parallel and divergent phenotypic responses in evolving populations of Escherichia coli. Proc Biol Sci (2008) 1.12
Natural selection and the genetics of adaptation in threespine stickleback. Philos Trans R Soc Lond B Biol Sci (2010) 1.12
Parallel genetic evolution within and between bacteriophage species of varying degrees of divergence. Genetics (2008) 1.11
Evolution. The synthesis and evolution of a supermodel. Science (2005) 1.10
A speciation gene for left-right reversal in snails results in anti-predator adaptation. Nat Commun (2010) 1.10
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature (2007) 75.09
Genome-wide mapping of in vivo protein-DNA interactions. Science (2007) 64.92
Model-based analysis of ChIP-Seq (MACS). Genome Biol (2008) 51.63
Worldwide human relationships inferred from genome-wide patterns of variation. Science (2008) 22.44
Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Proc Natl Acad Sci U S A (2002) 20.48
Genome sequence of the palaeopolyploid soybean. Nature (2010) 17.82
Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data. Nucleic Acids Res (2005) 17.58
The Sorghum bicolor genome and the diversification of grasses. Nature (2009) 14.62
An integrated software system for analyzing ChIP-chip and ChIP-seq data. Nat Biotechnol (2008) 13.96
Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data. Nat Methods (2008) 11.61
The Chlamydomonas genome reveals the evolution of key animal and plant functions. Science (2007) 11.15
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Genome Res (2004) 9.18
ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia. Genome Res (2012) 9.13
Signals of recent positive selection in a worldwide sample of human populations. Genome Res (2009) 8.38
The amphioxus genome and the evolution of the chordate karyotype. Nature (2008) 8.03
Genetic relationship between five psychiatric disorders estimated from genome-wide SNPs. Nat Genet (2013) 8.02
Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks. Nature (2004) 7.62
Sequence census methods for functional genomics. Nat Methods (2007) 7.38
Population analysis of large copy number variants and hotspots of human genetic disease. Am J Hum Genet (2009) 6.79
The Phaeodactylum genome reveals the evolutionary history of diatom genomes. Nature (2008) 6.70
Identification and functional analysis of human transcriptional promoters. Genome Res (2003) 6.23
Adaptation from standing genetic variation. Trends Ecol Evol (2007) 6.09
An abundance of bidirectional promoters in the human genome. Genome Res (2004) 5.90
Adaptive evolution of pelvic reduction in sticklebacks by recurrent deletion of a Pitx1 enhancer. Science (2009) 5.64
The Trichoplax genome and the nature of placozoans. Nature (2008) 5.56
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The genomic basis of adaptive evolution in threespine sticklebacks. Nature (2012) 5.20
The latitudinal gradient in recent speciation and extinction rates of birds and mammals. Science (2007) 4.97
The Paleozoic origin of enzymatic lignin decomposition reconstructed from 31 fungal genomes. Science (2012) 4.93
A validated regulatory network for Th17 cell specification. Cell (2012) 4.82
Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors. Genome Res (2012) 4.80
Candidate-gene approaches for studying complex genetic traits: practical considerations. Nat Rev Genet (2002) 4.76
The genome of the Western clawed frog Xenopus tropicalis. Science (2010) 4.70
The Arabidopsis lyrata genome sequence and the basis of rapid genome size change. Nat Genet (2011) 4.65
Coding potential of laboratory and clinical strains of human cytomegalovirus. Proc Natl Acad Sci U S A (2003) 4.37
Prominent use of distal 5' transcription start sites and discovery of a large number of additional exons in ENCODE regions. Genome Res (2007) 4.33
The high-quality draft genome of peach (Prunus persica) identifies unique patterns of genetic diversity, domestication and genome evolution. Nat Genet (2013) 4.20
Distinct DNA methylation patterns characterize differentiated human embryonic stem cells and developing human fetal liver. Genome Res (2009) 4.11
Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets. Genome Res (2008) 4.08
Green evolution and dynamic adaptations revealed by genomes of the marine picoeukaryotes Micromonas. Science (2009) 4.05
Ribosomal mutations cause p53-mediated dark skin and pleiotropic effects. Nat Genet (2008) 4.02
Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature (2012) 4.00
Comprehensive analysis of transcriptional promoter structure and function in 1% of the human genome. Genome Res (2005) 3.85
cis-Regulatory changes in Kit ligand expression and parallel evolution of pigmentation in sticklebacks and humans. Cell (2007) 3.72
Genomic analysis of organismal complexity in the multicellular green alga Volvox carteri. Science (2010) 3.70
Direct isolation and identification of promoters in the human genome. Genome Res (2005) 3.68
Dynamic DNA methylation across diverse human cell lines and tissues. Genome Res (2013) 3.61
The tiny eukaryote Ostreococcus provides genomic insights into the paradox of plankton speciation. Proc Natl Acad Sci U S A (2007) 3.58
Genome-wide association and meta-analysis of bipolar disorder in individuals of European ancestry. Proc Natl Acad Sci U S A (2009) 3.49
The genetic architecture of parallel armor plate reduction in threespine sticklebacks. PLoS Biol (2004) 3.46
Genome sequence of the lignocellulose-bioconverting and xylose-fermenting yeast Pichia stipitis. Nat Biotechnol (2007) 3.42
The role of geography in human adaptation. PLoS Genet (2009) 3.41
Defining functional DNA elements in the human genome. Proc Natl Acad Sci U S A (2014) 3.35
Human-specific loss of regulatory DNA and the evolution of human-specific traits. Nature (2011) 3.30
Genomic determination of the glucocorticoid response reveals unexpected mechanisms of gene regulation. Genome Res (2009) 3.30
The genome of Tetranychus urticae reveals herbivorous pest adaptations. Nature (2011) 3.29
Comparative genomics modeling of the NRSF/REST repressor network: from single conserved sites to genome-wide repertoire. Genome Res (2006) 3.23
Reference genome sequence of the model plant Setaria. Nat Biotechnol (2012) 3.21
The Selaginella genome identifies genetic changes associated with the evolution of vascular plants. Science (2011) 3.10
Diverse and specific gene expression responses to stresses in cultured human cells. Mol Biol Cell (2004) 3.02
Natural selection on a major armor gene in threespine stickleback. Science (2008) 3.01
Early bursts of body size and shape evolution are rare in comparative data. Evolution (2010) 2.97
The master sex-determination locus in threespine sticklebacks is on a nascent Y chromosome. Curr Biol (2004) 2.90
Obligate biotrophy features unraveled by the genomic analysis of rust fungi. Proc Natl Acad Sci U S A (2011) 2.84