Published in Mol Biol Evol on June 02, 2004
The distribution of fitness effects of new deleterious amino acid mutations in humans. Genetics (2006) 3.63
Variation in the mutation rate across mammalian genomes. Nat Rev Genet (2011) 3.09
Phylogenetic reconstruction of orthology, paralogy, and conserved synteny for dog and human. PLoS Comput Biol (2006) 3.07
The scale of mutational variation in the murid genome. Genome Res (2005) 1.95
Understanding what determines the frequency and pattern of human germline mutations. Nat Rev Genet (2009) 1.77
Comparison of the chicken and turkey genomes reveals a higher rate of nucleotide divergence on microchromosomes than macrochromosomes. Genome Res (2004) 1.73
Variable molecular clocks in hominoids. Proc Natl Acad Sci U S A (2006) 1.66
Adaptive evolution of conserved noncoding elements in mammals. PLoS Genet (2007) 1.45
Genomic neighborhoods for Arabidopsis retrotransposons: a role for targeted integration in the distribution of the Metaviridae. Genome Biol (2004) 1.27
Mutational pattern and frequency of induced nucleotide changes in mouse ENU mutagenesis. BMC Mol Biol (2007) 1.17
The human genomic melting map. PLoS Comput Biol (2007) 1.14
A genome-wide view of mutation rate co-variation using multivariate analyses. Genome Biol (2011) 0.97
Selective constraints in experimentally defined primate regulatory regions. PLoS Genet (2008) 0.92
Significant selective constraint at 4-fold degenerate sites in the avian genome and its consequence for detection of positive selection. Genome Biol Evol (2011) 0.88
A population-based LD map of the human chromosome 6p. Immunogenetics (2005) 0.87
Intronic AT skew is a defendable proxy for germline transcription but does not predict crossing-over or protein evolution rates in Drosophila melanogaster. J Mol Evol (2010) 0.79
The genome of a songbird. Nature (2010) 5.90
The evolutionary dynamics of eukaryotic gene order. Nat Rev Genet (2004) 5.79
A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms. Nature (2004) 5.24
Adaptive evolution of bacterial metabolic networks by horizontal gene transfer. Nat Genet (2005) 4.19
An integrated view of protein evolution. Nat Rev Genet (2006) 3.86
Prediction of effective genome size in metagenomic samples. Genome Biol (2007) 3.73
Evidence for widespread degradation of gene control regions in hominid genomes. PLoS Biol (2005) 3.47
Comparative functional analysis of the Caenorhabditis elegans and Drosophila melanogaster proteomes. PLoS Biol (2009) 3.09
Rescue of a severely bottlenecked wolf (Canis lupus) population by a single immigrant. Proc Biol Sci (2003) 2.76
Quantifying the slightly deleterious mutation model of molecular evolution. Mol Biol Evol (2002) 2.65
Mutation rate variation in the mammalian genome. Curr Opin Genet Dev (2003) 2.63
Gene transfer from bacteria and archaea facilitated evolution of an extremophilic eukaryote. Science (2013) 2.51
Chance and necessity in the evolution of minimal metabolic networks. Nature (2006) 2.48
Phylogenomic analysis reveals bees and wasps (Hymenoptera) at the base of the radiation of Holometabolous insects. Genome Res (2006) 2.42
Genes of domestic mammals augmented by backcrossing with wild ancestors. Trends Genet (2005) 2.04
Cattle domestication in the Near East was followed by hybridization with aurochs bulls in Europe. Proc Biol Sci (2005) 2.01
Male-biased mutation rate and divergence in autosomal, z-linked and w-linked introns of chicken and Turkey. Mol Biol Evol (2004) 2.01
EvolView, an online tool for visualizing, annotating and managing phylogenetic trees. Nucleic Acids Res (2012) 1.90
An mRNA blueprint for C4 photosynthesis derived from comparative transcriptomics of closely related C3 and C4 species. Plant Physiol (2010) 1.87
Evolutionary strata on the chicken Z chromosome: implications for sex chromosome evolution. Genetics (2004) 1.80
Prehistoric contacts over the Straits of Gibraltar indicated by genetic analysis of Iberian Bronze Age cattle. Proc Natl Acad Sci U S A (2005) 1.74
Comparison of the chicken and turkey genomes reveals a higher rate of nucleotide divergence on microchromosomes than macrochromosomes. Genome Res (2004) 1.73
The recombination landscape of the zebra finch Taeniopygia guttata genome. Genome Res (2010) 1.72
X-chromosome-wide profiling of MSL-1 distribution and dosage compensation in Drosophila. Genes Dev (2006) 1.70
Limited number of patrilines in horse domestication. Nat Genet (2004) 1.70
Shotgun proteomics data from multiple organisms reveals remarkable quantitative conservation of the eukaryotic core proteome. Proteomics (2010) 1.64
Deterministic mutation rate variation in the human genome. Genome Res (2002) 1.63
An integrated approach to characterize genetic interaction networks in yeast metabolism. Nat Genet (2011) 1.62
Horizontal gene acquisitions by eukaryotes as drivers of adaptive evolution. Bioessays (2013) 1.60
Microsatellite evolution inferred from human-chimpanzee genomic sequence alignments. Proc Natl Acad Sci U S A (2002) 1.59
From wild wolf to domestic dog: gene expression changes in the brain. Brain Res Mol Brain Res (2004) 1.59
OGEE: an online gene essentiality database. Nucleic Acids Res (2011) 1.54
Pleiotropic constraint hampers the resolution of sexual antagonism in vertebrate gene expression. Am Nat (2008) 1.51
Strong regional biases in nucleotide substitution in the chicken genome. Mol Biol Evol (2006) 1.50
The evolutionary causes and consequences of sex-biased gene expression. Nat Rev Genet (2013) 1.50
Fast-X on the Z: rapid evolution of sex-linked genes in birds. Genome Res (2007) 1.49
Ecological and genetic spatial structuring in the Canadian lynx. Nature (2003) 1.49
Similar gene expression profiles do not imply similar tissue functions. Trends Genet (2006) 1.46
Evidence for turnover of functional noncoding DNA in mammalian genome evolution. Genomics (2004) 1.45
Male-driven biased gene conversion governs the evolution of base composition in human alu repeats. Mol Biol Evol (2005) 1.44
Comparative genomics based on massive parallel transcriptome sequencing reveals patterns of substitution and selection across 10 bird species. Mol Ecol (2010) 1.44
Plant and animal glycolate oxidases have a common eukaryotic ancestor and convergently duplicated to evolve long-chain 2-hydroxy acid oxidases. Mol Biol Evol (2014) 1.44
Insertion-deletion polymorphisms (indels) as genetic markers in natural populations. BMC Genet (2008) 1.43
Genetic mapping in a natural population of collared flycatchers (Ficedula albicollis): conserved synteny but gene order rearrangements on the avian Z chromosome. Genetics (2006) 1.41
Analysis of recombination in Campylobacter jejuni from MLST population data. J Mol Evol (2005) 1.40
A novel method with improved power to detect recombination hotspots from polymorphism data reveals multiple hotspots in human genes. Am J Hum Genet (2005) 1.39
Reduced variation on the chicken Z chromosome. Genetics (2004) 1.39
To what extent do microsatellite markers reflect genome-wide genetic diversity in natural populations? Mol Ecol (2008) 1.37
Genomics of natural bird populations: a gene-based set of reference markers evenly spread across the avian genome. Mol Ecol (2007) 1.36
The chicken (Gallus gallus) Z chromosome contains at least three nonlinear evolutionary strata. Genetics (2008) 1.33
Low levels of nucleotide diversity in mammalian Y chromosomes. Mol Biol Evol (2003) 1.33
Heterozygosity-fitness correlations in zebra finches: microsatellite markers can be better than their reputation. Mol Ecol (2012) 1.33
Compositional evolution of noncoding DNA in the human and chimpanzee genomes. Mol Biol Evol (2003) 1.32
Next generation molecular ecology. Mol Ecol (2010) 1.30
The evolution of isochores: evidence from SNP frequency distributions. Genetics (2002) 1.29
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
Genome-wide analysis of microsatellite polymorphism in chicken circumventing the ascertainment bias. Genome Res (2008) 1.27
Chicken W: a genetically uniform chromosome in a highly variable genome. Proc Natl Acad Sci U S A (2004) 1.26
Copy number variation, chromosome rearrangement, and their association with recombination during avian evolution. Genome Res (2010) 1.26
Bottlenecked but long-lived: high genetic diversity retained in white-tailed eagles upon recovery from population decline. Biol Lett (2006) 1.24
Predicting C4 photosynthesis evolution: modular, individually adaptive steps on a Mount Fuji fitness landscape. Cell (2013) 1.24
Sex-linkage of sexually antagonistic genes is predicted by female, but not male, effects in birds. Evolution (2009) 1.22
The unique genomic properties of sex-biased genes: insights from avian microarray data. BMC Genomics (2008) 1.22
Heterogeneity in the rate and pattern of germline mutation at individual microsatellite loci. Nucleic Acids Res (2002) 1.22
Recombination drives vertebrate genome contraction. PLoS Genet (2012) 1.20
Faster-Z evolution is predominantly due to genetic drift. Mol Biol Evol (2009) 1.20
Younger genes are less likely to be essential than older genes, and duplicates are less likely to be essential than singletons of the same age. Mol Biol Evol (2012) 1.19
Fixation biases affecting human SNPs. Trends Genet (2004) 1.19
Dynamic evolution of base composition: causes and consequences in avian phylogenomics. Mol Biol Evol (2011) 1.17
Ontogenetic complexity of sexual dimorphism and sex-specific selection. Mol Biol Evol (2010) 1.16
Nonlinear dynamics of nonsynonymous (dN) and synonymous (dS) substitution rates affects inference of selection. Genome Biol Evol (2009) 1.15
Imprinted chromosomal regions of the human genome have unusually high recombination rates. Genetics (2003) 1.15
Levels of linkage disequilibrium in a wild bird population. Biol Lett (2006) 1.15
Life history and the male mutation bias. Evolution (2003) 1.14
Speciation in Ficedula flycatchers. Philos Trans R Soc Lond B Biol Sci (2010) 1.14
The genomic landscape of short insertion and deletion polymorphisms in the chicken (Gallus gallus) Genome: a high frequency of deletions in tandem duplicates. Genetics (2007) 1.13
Fast accumulation of nonsynonymous mutations on the female-specific W chromosome in birds. J Mol Evol (2005) 1.12
Transcriptional coupling of neighboring genes and gene expression noise: evidence that gene orientation and noncoding transcripts are modulators of noise. Genome Biol Evol (2011) 1.12
Molecular evolution of genes in avian genomes. Genome Biol (2010) 1.12
A high-density linkage map enables a second-generation collared flycatcher genome assembly and reveals the patterns of avian recombination rate variation and chromosomal evolution. Mol Ecol (2014) 1.11
Y chromosome conserved anchored tagged sequences (YCATS) for the analysis of mammalian male-specific DNA. Mol Ecol (2003) 1.11
Genome-wide acceleration of protein evolution in flies (Diptera). BMC Evol Biol (2006) 1.10
Nonrandom distribution of genes with sex-biased expression in the chicken genome. Evolution (2006) 1.09
Gene conversion drives the evolution of HINTW, an ampliconic gene on the female-specific avian W chromosome. Mol Biol Evol (2005) 1.08
Insertion events of CR1 retrotransposable elements elucidate the phylogenetic branching order in galliform birds. Mol Biol Evol (2006) 1.07
Are sex-biased genes more dispensable? Biol Lett (2009) 1.07
Co-expression of neighbouring genes in Arabidopsis: separating chromatin effects from direct interactions. BMC Genomics (2010) 1.06
Natural selection in avian protein-coding genes expressed in brain. Mol Ecol (2008) 1.03
Demographic divergence history of pied flycatcher and collared flycatcher inferred from whole-genome re-sequencing data. PLoS Genet (2013) 1.03
Horizontal gene transfer depends on gene content of the host. Bioinformatics (2005) 1.02
Substitution rate variation at human CpG sites correlates with non-CpG divergence, methylation level and GC content. Genome Biol (2011) 1.01
MHC class II genes in European wolves: a comparison with dogs. Immunogenetics (2002) 1.01
Rapid evolution of female-biased, but not male-biased, genes expressed in the avian brain. Mol Biol Evol (2007) 1.00