Published in Science on November 04, 2004
Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution. Genome Res (2005) 8.38
Minimus: a fast, lightweight genome assembler. BMC Bioinformatics (2007) 7.65
Y-chromosome evolution: emerging insights into processes of Y-chromosome degeneration. Nat Rev Genet (2013) 2.08
Dosage compensation via transposable element mediated rewiring of a regulatory network. Science (2013) 1.91
Epigenetic regulation of heterochromatic DNA stability. Curr Opin Genet Dev (2008) 1.80
Low conservation of gene content in the Drosophila Y chromosome. Nature (2008) 1.72
The dot chromosome of Drosophila: insights into chromatin states and their change over evolutionary time. Chromosome Res (2006) 1.70
A sex-ratio meiotic drive system in Drosophila simulans. II: an X-linked distorter. PLoS Biol (2007) 1.69
Polytene chromosomal maps of 11 Drosophila species: the order of genomic scaffolds inferred from genetic and physical maps. Genetics (2008) 1.67
Sex-specific adaptation drives early sex chromosome evolution in Drosophila. Science (2012) 1.58
Origin and evolution of Y chromosomes: Drosophila tales. Trends Genet (2009) 1.53
The temporal dynamics of processes underlying Y chromosome degeneration. Genetics (2008) 1.47
Sex chromosome evolution: molecular aspects of Y-chromosome degeneration in Drosophila. Genome Res (2005) 1.46
The birds and the bees and the flowers and the trees: lessons from genetic mapping of sex determination in plants and animals. Genetics (2010) 1.45
Chromosomal location and gene paucity of the male specific region on papaya Y chromosome. Mol Genet Genomics (2007) 1.35
Gene organization of the liverwort Y chromosome reveals distinct sex chromosome evolution in a haploid system. Proc Natl Acad Sci U S A (2007) 1.31
Evolution of sex chromosomes in insects. Annu Rev Genet (2010) 1.22
Resolving intralocus sexual conflict: genetic mechanisms and time frame. J Hered (2010) 1.19
Evolution of heterochromatic genes of Drosophila. Proc Natl Acad Sci U S A (2005) 1.19
Y not a dead end: epistatic interactions between Y-linked regulatory polymorphisms and genetic background affect global gene expression in Drosophila melanogaster. Genetics (2010) 1.09
Molecular phylogeny of the Drosophila obscura species group, with emphasis on the Old World species. BMC Evol Biol (2007) 1.09
Evolution of sex-dependent gene expression in three recently diverged species of Drosophila. Genetics (2009) 1.04
The epigenome of evolving Drosophila neo-sex chromosomes: dosage compensation and heterochromatin formation. PLoS Biol (2013) 1.03
Estimating tempo and mode of Y chromosome turnover: explaining Y chromosome loss with the fragile Y hypothesis. Genetics (2014) 1.00
Global patterns of sequence evolution in Drosophila. BMC Genomics (2007) 0.99
Efficient identification of Y chromosome sequences in the human and Drosophila genomes. Genome Res (2013) 0.96
Genetic architecture of male sterility and segregation distortion in Drosophila pseudoobscura Bogota-USA hybrids. Genetics (2011) 0.94
Translocation of Y-linked genes to the dot chromosome in Drosophila pseudoobscura. Mol Biol Evol (2010) 0.94
Different autosomes evolved into sex chromosomes in the sister genera of Salix and Populus. Sci Rep (2015) 0.92
Non-allelic gene conversion enables rapid evolutionary change at multiple regulatory sites encoded by transposable elements. Elife (2015) 0.91
Phylogenomic analysis reveals dynamic evolutionary history of the Drosophila heterochromatin protein 1 (HP1) gene family. PLoS Genet (2012) 0.91
Large-scale introgression shapes the evolution of the mating-type chromosomes of the filamentous ascomycete Neurospora tetrasperma. PLoS Genet (2012) 0.89
Comparative Genomic Hybridization (CGH) reveals a neo-X chromosome and biased gene movement in stalk-eyed flies (genus Teleopsis). PLoS Genet (2010) 0.89
How do y-chromosomes modulate genome-wide epigenetic States: genome folding, chromatin sinks, and gene expression. J Genomics (2014) 0.88
The inexorable spread of a newly arisen neo-Y chromosome. PLoS Genet (2008) 0.87
Natural variation of the Y chromosome suppresses sex ratio distortion and modulates testis-specific gene expression in Drosophila simulans. Heredity (Edinb) (2013) 0.87
A neo-sex chromosome that drives postzygotic sex determination in the hessian fly (Mayetiola destructor). Genetics (2009) 0.84
Independent origins of new sex-linked chromosomes in the melanica and robusta species groups of Drosophila. BMC Evol Biol (2008) 0.84
Heterochromatic genes in Drosophila: a comparative analysis of two genes. Genetics (2006) 0.83
Positive and purifying selection on the Drosophila Y chromosome. Mol Biol Evol (2014) 0.83
Sex Bias and Maternal Contribution to Gene Expression Divergence in Drosophila Blastoderm Embryos. PLoS Genet (2015) 0.83
Sex-specific embryonic gene expression in species with newly evolved sex chromosomes. PLoS Genet (2014) 0.82
An XX/XY heteromorphic sex chromosome system in the Australian chelid turtle Emydura macquarii: a new piece in the puzzle of sex chromosome evolution in turtles. Chromosome Res (2008) 0.81
Genomics. Recycling the Y chromosome. Science (2005) 0.80
Is the Y chromosome disappearing?--both sides of the argument. Chromosome Res (2012) 0.79
Rapid turnover of the W chromosome in geographical populations of wild silkmoths, Samia cynthia ssp. Chromosome Res (2013) 0.79
Essential loci in centromeric heterochromatin of Drosophila melanogaster. I: the right arm of chromosome 2. Genetics (2010) 0.78
Introgression in the Drosophila subobscura--D. Madeirensis sister species: evidence of gene flow in nuclear genes despite mitochondrial differentiation. Evolution (2013) 0.78
Confirmation of Single-Locus Sex Determination and Female Heterogamety in Willow Based on Linkage Analysis. PLoS One (2016) 0.78
De novo transcriptome assembly reveals sex-specific selection acting on evolving neo-sex chromosomes in Drosophila miranda. BMC Genomics (2014) 0.77
Sex-ratio meiotic drive and Y-linked resistance in Drosophila affinis. Genetics (2015) 0.77
Mitotic fidelity requires transgenerational action of a testis-restricted HP1. Elife (2015) 0.76
Comparative Expression Dynamics of Intergenic Long Noncoding RNAs in the Genus Drosophila. Genome Biol Evol (2016) 0.76
Should Y stay or should Y go: the evolution of non-recombining sex chromosomes. Bioessays (2012) 0.76
Interspecific Y chromosome variation is sufficient to rescue hybrid male sterility and is influenced by the grandparental origin of the chromosomes. Heredity (Edinb) (2016) 0.76
Recent selection on the Y-to-dot translocation in Drosophila pseudoobscura. Mol Biol Evol (2014) 0.75
Everything you always wanted to know about sex ... in flies. Sex Dev (2010) 0.75
Evolutionary interaction between W/Y chromosome and transposable elements. Genetica (2016) 0.75
The house fly Y Chromosome is young and minimally differentiated from its ancient X Chromosome partner. Genome Res (2017) 0.75
Convergent evolution of Y chromosome gene content in flies. Nat Commun (2017) 0.75
Neo-sex Chromosomes in the Monarch Butterfly, Danaus plexippus. G3 (Bethesda) (2017) 0.75
Finding the missing heritability of complex diseases. Nature (2009) 67.95
The genome sequence of the malaria mosquito Anopheles gambiae. Science (2002) 20.36
Evolution of genes and genomes on the Drosophila phylogeny. Nature (2007) 18.01
Genome-wide associations of gene expression variation in humans. PLoS Genet (2005) 17.27
Evolutionary and biomedical insights from the rhesus macaque genome. Science (2007) 16.21
Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures. Nature (2007) 11.66
Natural selection on protein-coding genes in the human genome. Nature (2005) 10.84
Assessing the evolutionary impact of amino acid mutations in the human genome. PLoS Genet (2008) 8.92
Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution. Genome Res (2005) 8.38
A scan for positively selected genes in the genomes of humans and chimpanzees. PLoS Biol (2005) 8.32
Demographic history and rare allele sharing among human populations. Proc Natl Acad Sci U S A (2011) 7.36
Natural selection shaped regional mtDNA variation in humans. Proc Natl Acad Sci U S A (2002) 6.95
Proportionally more deleterious genetic variation in European than in African populations. Nature (2008) 6.61
Evolution of transcription factor binding sites in Mammalian gene regulatory regions: conservation and turnover. Mol Biol Evol (2002) 6.44
Genomic scans for selective sweeps using SNP data. Genome Res (2005) 6.43
Evolutionary changes in cis and trans gene regulation. Nature (2004) 6.24
Whole-genome shotgun assembly and comparison of human genome assemblies. Proc Natl Acad Sci U S A (2004) 6.08
Natural variation in human membrane transporter genes reveals evolutionary and functional constraints. Proc Natl Acad Sci U S A (2003) 5.77
Recent explosive human population growth has resulted in an excess of rare genetic variants. Science (2012) 5.58
A 3.9-centimorgan-resolution human single-nucleotide polymorphism linkage map and screening set. Am J Hum Genet (2003) 5.34
Localizing recent adaptive evolution in the human genome. PLoS Genet (2007) 5.11
Genome-wide association study provides evidence for a breast cancer risk locus at 6q22.33. Proc Natl Acad Sci U S A (2008) 4.76
Recent and ongoing selection in the human genome. Nat Rev Genet (2007) 4.62
The functional spectrum of low-frequency coding variation. Genome Biol (2011) 4.42
Deep resequencing reveals excess rare recent variants consistent with explosive population growth. Nat Commun (2010) 4.39
Transcriptome-wide identification of novel imprinted genes in neonatal mouse brain. PLoS One (2008) 4.03
Reconstituting the frequency spectrum of ascertained single-nucleotide polymorphism data. Genetics (2004) 3.65
Linkage disequilibrium and the mapping of complex human traits. Trends Genet (2002) 3.38
Regulatory changes underlying expression differences within and between Drosophila species. Nat Genet (2008) 3.24
Dynamic evolution of the innate immune system in Drosophila. Nat Genet (2007) 3.09
Darwinian and demographic forces affecting human protein coding genes. Genome Res (2009) 3.01
Genes regulated by mating, sperm, or seminal proteins in mated female Drosophila melanogaster. Curr Biol (2004) 2.84
Thrice out of Africa: ancient and recent expansions of the honey bee, Apis mellifera. Science (2006) 2.64
Population genetic analysis of shotgun assemblies of genomic sequences from multiple individuals. Genome Res (2008) 2.46
Genetic basis of natural variation in D. melanogaster antibacterial immunity. Science (2004) 2.38
Evolution of protein-coding genes in Drosophila. Trends Genet (2008) 2.36
Genomic analyses of transcription factor binding, histone acetylation, and gene expression reveal mechanistically distinct classes of estrogen-regulated promoters. Mol Cell Biol (2007) 2.33
Fine-scale heterogeneity in crossover rate in the garnet-scalloped region of the Drosophila melanogaster X chromosome. Genetics (2013) 2.17
Balancing selection maintains a form of ERAP2 that undergoes nonsense-mediated decay and affects antigen presentation. PLoS Genet (2010) 2.14
Mapping determinants of variation in energy metabolism, respiration and flight in Drosophila. Genetics (2003) 2.07
Sperm competitive ability in Drosophila melanogaster associated with variation in male reproductive proteins. Genetics (2004) 2.01
Population genetics: malaria variorum. Nature (2002) 1.97
Evolutionary processes acting on candidate cis-regulatory regions in humans inferred from patterns of polymorphism and divergence. PLoS Genet (2009) 1.97
Compensatory cis-trans evolution and the dysregulation of gene expression in interspecific hybrids of Drosophila. Genetics (2005) 1.93
Population genetic structure of the people of Qatar. Am J Hum Genet (2010) 1.91
Full-exon resequencing reveals toll-like receptor variants contribute to human susceptibility to tuberculosis disease. PLoS One (2007) 1.89
Understanding the accuracy of statistical haplotype inference with sequence data of known phase. Genet Epidemiol (2007) 1.87
Contrasting infection strategies in generalist and specialist wasp parasitoids of Drosophila melanogaster. PLoS Pathog (2007) 1.82
Sequence diversity and haplotype structure in the human ABCB1 (MDR1, multidrug resistance transporter) gene. Pharmacogenetics (2003) 1.79
Population genetic inference from personal genome data: impact of ancestry and admixture on human genomic variation. Am J Hum Genet (2012) 1.75
Tracing the evolutionary history of Drosophila regulatory regions with models that identify transcription factor binding sites. Mol Biol Evol (2003) 1.75
The evolutionary costs of immunological maintenance and deployment. BMC Evol Biol (2008) 1.74
Low conservation of gene content in the Drosophila Y chromosome. Nature (2008) 1.72
Targets of balancing selection in the human genome. Mol Biol Evol (2009) 1.69
Genomewide distribution of high-frequency, completely mismatching SNP haplotype pairs observed to be common across human populations. Am J Hum Genet (2003) 1.66
Extended linkage disequilibrium surrounding the hemoglobin E variant due to malarial selection. Am J Hum Genet (2004) 1.61
Polymorphisms in a human kidney xenobiotic transporter, OCT2, exhibit altered function. Pharmacogenetics (2002) 1.57
Conjuring SNPs to detect associations. Nat Genet (2007) 1.57
A genome-wide approach to identifying novel-imprinted genes. Hum Genet (2007) 1.55
Origin and evolution of Y chromosomes: Drosophila tales. Trends Genet (2009) 1.53
Analysis of genetic variation in Ashkenazi Jews by high density SNP genotyping. BMC Genet (2008) 1.53
Estrogen receptor genotypes and haplotypes associated with breast cancer risk. Cancer Res (2004) 1.52
Identification by full-coverage array CGH of human DNA copy number increases relative to chimpanzee and gorilla. Genome Res (2005) 1.51
Impact of microRNA regulation on variation in human gene expression. Genome Res (2012) 1.49
Y chromosome and other heterochromatic sequences of the Drosophila melanogaster genome: how far can we go? Genetica (2003) 1.49
Mapping multiple Quantitative Trait Loci by Bayesian classification. Genetics (2004) 1.46
Natural genetic variation in male reproductive genes contributes to nontransitivity of sperm competitive ability in Drosophila melanogaster. Mol Ecol (2012) 1.46
Independent effects of cis- and trans-regulatory variation on gene expression in Drosophila melanogaster. Genetics (2008) 1.45
Associations between sperm competition and natural variation in male reproductive genes on the third chromosome of Drosophila melanogaster. Genetics (2007) 1.45
Genetic variation in Drosophila melanogaster resistance to infection: a comparison across bacteria. Genetics (2006) 1.44
Methods for human demographic inference using haplotype patterns from genomewide single-nucleotide polymorphism data. Genetics (2009) 1.42
Analyses of X-linked and autosomal genetic variation in population-scale whole genome sequencing. Nat Genet (2011) 1.41
Disentangling the relationship between sex-biased gene expression and X-linkage. Genome Res (2012) 1.40
The linkage disequilibrium maps of three human chromosomes across four populations reflect their demographic history and a common underlying recombination pattern. Genome Res (2005) 1.40
Robustness of inference of haplotype block structure. J Comput Biol (2003) 1.38
Population genomic inferences from sparse high-throughput sequencing of two populations of Drosophila melanogaster. Genome Biol Evol (2009) 1.36
Inferring genetic ancestry: opportunities, challenges, and implications. Am J Hum Genet (2010) 1.36
Post-mating gene expression profiles of female Drosophila melanogaster in response to time and to four male accessory gland proteins. Genetics (2008) 1.33
Genome sequencing reveals complex speciation in the Drosophila simulans clade. Genome Res (2012) 1.31
Knowledge-driven analysis identifies a gene-gene interaction affecting high-density lipoprotein cholesterol levels in multi-ethnic populations. PLoS Genet (2012) 1.31
Optimal haplotype block-free selection of tagging SNPs for genome-wide association studies. Genome Res (2004) 1.28
Genetic incompatibilities are widespread within species. Nature (2013) 1.28
Larval rearing environment affects several post-copulatory traits in Drosophila melanogaster. Biol Lett (2007) 1.27
Molecular population genetics of inducible antibacterial peptide genes in Drosophila melanogaster. Mol Biol Evol (2003) 1.27
Rehabilitation and the single cell. Curr Opin Cell Biol (2006) 1.26
Neutral genomic regions refine models of recent rapid human population growth. Proc Natl Acad Sci U S A (2013) 1.25
Genes involved in convergent evolution of eusociality in bees. Proc Natl Acad Sci U S A (2011) 1.24
A survey for novel imprinted genes in the mouse placenta by mRNA-seq. Genetics (2011) 1.24
Gene-based testing of interactions in association studies of quantitative traits. PLoS Genet (2013) 1.23
Specificity determinants and diversification of the Brassica self-incompatibility pollen ligand. Proc Natl Acad Sci U S A (2003) 1.23
Contributions of 18 additional DNA sequence variations in the gene encoding apolipoprotein E to explaining variation in quantitative measures of lipid metabolism. Am J Hum Genet (2002) 1.22
The resolution of sexual antagonism by gene duplication. Genetics (2011) 1.18
Population growth inflates the per-individual number of deleterious mutations and reduces their mean effect. Genetics (2013) 1.17
Contrasting the efficacy of selection on the X and autosomes in Drosophila. Mol Biol Evol (2007) 1.16
Mining genetic epidemiology data with Bayesian networks application to APOE gene variation and plasma lipid levels. J Comput Biol (2005) 1.15
Function and evolution of DNA methylation in Nasonia vitripennis. PLoS Genet (2013) 1.14
Sex linkage, sex-specific selection, and the role of recombination in the evolution of sexually dimorphic gene expression. Evolution (2010) 1.13
Bayesian sperm competition estimates. Genetics (2003) 1.12
Parent-of-origin effects on mRNA expression in Drosophila melanogaster not caused by genomic imprinting. Genetics (2006) 1.11
Population dynamics of PIWI-interacting RNAs (piRNAs) and their targets in Drosophila. Genome Res (2009) 1.10