Published in Heredity (Edinb) on July 11, 2007
Molecular spandrels: tests of adaptation at the genetic level. Nat Rev Genet (2011) 2.07
Evolutionary biochemistry: revealing the historical and physical causes of protein properties. Nat Rev Genet (2013) 1.76
Quantifying adaptive evolution in the Drosophila immune system. PLoS Genet (2009) 1.74
Pervasive positive selection on duplicated and nonduplicated vertebrate protein coding genes. Genome Res (2008) 1.45
Whole-genome sequencing identifies a recurrent functional synonymous mutation in melanoma. Proc Natl Acad Sci U S A (2013) 1.35
Reconstruction of ancestral metabolic enzymes reveals molecular mechanisms underlying evolutionary innovation through gene duplication. PLoS Biol (2012) 1.27
Near neutrality: leading edge of the neutral theory of molecular evolution. Ann N Y Acad Sci (2008) 1.26
Evolution of adaptive phenotypic traits without positive Darwinian selection. Heredity (Edinb) (2011) 1.24
Allelic imbalance in Drosophila hybrid heads: exons, isoforms, and evolution. Mol Biol Evol (2012) 1.23
Cancer in light of experimental evolution. Curr Biol (2012) 1.17
The evolutionary biology of poxviruses. Infect Genet Evol (2009) 1.17
Comparative genomics of mutualistic viruses of Glyptapanteles parasitic wasps. Genome Biol (2008) 1.17
Codon-based tests of positive selection, branch lengths, and the evolution of mammalian immune system genes. Immunogenetics (2008) 1.15
The branch-site test of positive selection is surprisingly robust but lacks power under synonymous substitution saturation and variation in GC. Mol Biol Evol (2013) 1.14
Effective population size and the efficacy of selection on the X chromosomes of two closely related Drosophila species. Genome Biol Evol (2010) 1.14
Searching for candidate speciation genes using a proteomic approach: seminal proteins in field crickets. Proc Biol Sci (2008) 1.06
Modeling HIV-1 drug resistance as episodic directional selection. PLoS Comput Biol (2012) 1.05
Systematic detection of polygenic cis-regulatory evolution. PLoS Genet (2011) 1.05
Comparative analysis of testis protein evolution in rodents. Genetics (2008) 1.02
The origin of adaptive phenotypes. Proc Natl Acad Sci U S A (2008) 0.99
Structural and functional evolution of the trace amine-associated receptors TAAR3, TAAR4 and TAAR5 in primates. PLoS One (2010) 0.98
Correlated evolution of nearby residues in Drosophilid proteins. PLoS Genet (2011) 0.98
Evidence for negative selection on the gene encoding rhoptry-associated protein 1 (RAP-1) in Plasmodium spp. Infect Genet Evol (2010) 0.96
Comparing patterns of natural selection across species using selective signatures. PLoS Genet (2008) 0.96
Synonymous and nonsynonymous polymorphisms versus divergences in bacterial genomes. Mol Biol Evol (2008) 0.95
Parallel Evolution and Horizontal Gene Transfer of the pst Operon in Firmicutes from Oligotrophic Environments. Int J Evol Biol (2011) 0.94
The evolution of multiple isotypic IgM heavy chain genes in the shark. J Immunol (2008) 0.94
Signatures of rapid evolution in urban and rural transcriptomes of white-footed mice (Peromyscus leucopus) in the New York metropolitan area. PLoS One (2013) 0.93
A recent adaptive transposable element insertion near highly conserved developmental loci in Drosophila melanogaster. Mol Biol Evol (2009) 0.92
Genotype-phenotype associations: substitution models to detect evolutionary associations between phenotypic variables and genotypic evolutionary rate. Bioinformatics (2009) 0.91
Evolution of the βGRP/GNBP/β-1,3-glucanase family of insects. Immunogenetics (2012) 0.90
Evolution of a cluster of innate immune genes (beta-defensins) along the ancestral lines of chicken and zebra finch. Immunome Res (2010) 0.90
Genetic variation among major human geographic groups supports a peculiar evolutionary trend in PAX9. PLoS One (2011) 0.89
Phylogenomic analyses of nuclear genes reveal the evolutionary relationships within the BEP clade and the evidence of positive selection in Poaceae. PLoS One (2013) 0.89
Impact of recurrent gene duplication on adaptation of plant genomes. BMC Plant Biol (2014) 0.89
Origin and diversification of the L-amino oxidase family in innate immune defenses of animals. Immunogenetics (2010) 0.88
Diverse MHC IIB allele repertoire increases parasite resistance and body condition in the Long-tailed giant rat (Leopoldamys sabanus). BMC Evol Biol (2009) 0.88
Adaptive evolution of the venom-targeted vWF protein in opossums that eat pitvipers. PLoS One (2011) 0.87
Sexual selection and the evolutionary dynamics of the major histocompatibility complex. Proc Biol Sci (2014) 0.87
Positive Darwinian selection drives the evolution of the morphology-related gene, EPCAM, in particularly species-rich lineages of African cichlid fishes. J Mol Evol (2011) 0.86
Synthesis of Experimental Molecular Biology and Evolutionary Biology: An Example from the World of Vision. Bioscience (2012) 0.86
Identification of fast-evolving genes in the scleractinian coral Acropora using comparative EST analysis. PLoS One (2011) 0.86
Maternal-fetal conflict: rapidly evolving proteins in the rodent placenta. Mol Biol Evol (2010) 0.86
Distinctive pattern of sequence polymorphism in the NS3 protein of hepatitis C virus type 1b reflects conflicting evolutionary pressures. J Gen Virol (2008) 0.86
Post-duplication charge evolution of phosphoglucose isomerases in teleost fishes through weak selection on many amino acid sites. BMC Evol Biol (2007) 0.85
Detecting clusters of mutations. PLoS One (2008) 0.84
Transcriptome analysis of a North American songbird, Melospiza melodia. DNA Res (2012) 0.84
A case-by-case evolutionary analysis of four imprinted retrogenes. Evolution (2011) 0.83
The nearly neutral and selection theories of molecular evolution under the fisher geometrical framework: substitution rate, population size, and complexity. Genetics (2012) 0.83
Independent evolution of functional MHC class II DRB genes in New World bat species. Immunogenetics (2012) 0.83
Generation of divergent uroplakin tetraspanins and their partners during vertebrate evolution: identification of novel uroplakins. BMC Evol Biol (2014) 0.83
MHC class II DRB diversity, selection pattern and population structure in a neotropical bat species, Noctilio albiventris. Heredity (Edinb) (2011) 0.83
Evidence for positive selection in putative virulence factors within the Paracoccidioides brasiliensis species complex. PLoS Negl Trop Dis (2008) 0.83
Evolutionary genetics as a tool to target genes involved in phenotypes of medical relevance. Evol Appl (2009) 0.82
Molecular evolution, mutation size and gene pleiotropy: a geometric reexamination. Genetics (2010) 0.82
Runaway evolution of the male-specific exon of the doublesex gene in Diptera. Gene (2010) 0.82
Accumulation of slightly deleterious mutations in the mitochondrial genome: a hallmark of animal domestication. Gene (2012) 0.82
CpG site degeneration triggered by the loss of functional constraint created a highly polymorphic macaque drug-metabolizing gene, CYP1A2. BMC Evol Biol (2011) 0.81
Conflicting selection pressures target the NS3 protein in hepatitis C virus genotypes 1a and 1b. Virus Res (2009) 0.81
Balancing selection and genetic drift at major histocompatibility complex class II genes in isolated populations of golden snub-nosed monkey (Rhinopithecus roxellana). BMC Evol Biol (2012) 0.80
Conflicting selection pressures on T-cell epitopes in HIV-1 subtype B. Infect Genet Evol (2011) 0.80
Molecular evolutionary analysis of vertebrate transducins: a role for amino acid variation in photoreceptor deactivation. J Mol Evol (2013) 0.80
Heterogeneity in genetic diversity among non-coding loci fails to fit neutral coalescent models of population history. PLoS One (2012) 0.80
Diversification of porcine MHC class II genes: evidence for selective advantage. Immunogenetics (2009) 0.80
Microevolutionary dynamics of a macroevolutionary key innovation in a Lepidopteran herbivore. BMC Evol Biol (2010) 0.80
Genome-wide functional divergence after the symbiosis of proteobacteria with insects unraveled through a novel computational approach. PLoS Comput Biol (2009) 0.79
Ongoing purifying selection on intergenic spacers in group A streptococcus. Infect Genet Evol (2010) 0.79
From adaptation to molecular evolution. Heredity (Edinb) (2011) 0.79
Molecular evolution of the genomic RNA of Apple stem grooving capillovirus. J Mol Evol (2012) 0.79
MHC and adaptive immunity in teleost fishes. Immunogenetics (2017) 0.79
mtDNA haplotypes differ in their probability of being eliminated by a mass die-off in an abundant seabird. Heredity (Edinb) (2012) 0.78
Evolutionary genomics of human intellectual disability. Evol Appl (2009) 0.78
High intralocus variability and interlocus recombination promote immunological diversity in a minimal major histocompatibility system. BMC Evol Biol (2014) 0.78
Purifying selection and genetic drift shaped Pleistocene evolution of the mitochondrial genome in an endangered Australian freshwater fish. Heredity (Edinb) (2017) 0.77
Genomic basis of ecological niche divergence among cryptic sister species of non-biting midges. BMC Genomics (2013) 0.77
Molecular Evidence for Functional Divergence and Decay of a Transcription Factor Derived from Whole-Genome Duplication in Arabidopsis thaliana. Plant Physiol (2015) 0.77
Signatures of selection in loci governing major colour patterns in Heliconius butterflies and related species. BMC Evol Biol (2010) 0.77
Evolutionary genetics of an S-like polymorphism in Papaveraceae with putative function in self-incompatibility. PLoS One (2011) 0.77
Positive Selection in Rapidly Evolving Plastid-Nuclear Enzyme Complexes. Genetics (2016) 0.76
Molecular adaptation and resilience of the insect's nuclear receptor USP. BMC Evol Biol (2012) 0.76
The site-wise log-likelihood score is a good predictor of genes under positive selection. J Mol Evol (2013) 0.76
Directional Darwinian Selection in proteins. BMC Bioinformatics (2013) 0.76
Pleistocene divergence across a mountain range and the influence of selection on mitogenome evolution in threatened Australian freshwater cod species. Heredity (Edinb) (2016) 0.76
The flow of antimicrobial peptide genes through a genetic barrier between Mytilus edulis and M. galloprovincialis. J Mol Evol (2009) 0.76
Physicochemical evolution and molecular adaptation of the cetacean osmoregulation-related gene UT-A2 and implications for functional studies. Sci Rep (2015) 0.76
Toll-like receptors (TLRs) and mannan-binding lectin (MBL): on constant alert in a hostile environment. Ups J Med Sci (2011) 0.75
"The Environment is Everything That Isn't Me": Molecular Mechanisms and Evolutionary Dynamics of Insect Clocks in Variable Surroundings. Front Physiol (2016) 0.75
Gonadal transcriptomics elucidate patterns of adaptive evolution within marine rockfishes (Sebastes). BMC Genomics (2015) 0.75
Finding Direction in the Search for Selection. J Mol Evol (2016) 0.75
Refuting the hypothesis that the acquisition of germ plasm accelerates animal evolution. Nat Commun (2016) 0.75
The effects of low-impact mutations in digital organisms. Theor Biol Med Model (2011) 0.75
Elevated levels of adaption in Helicobacter pylori genomes from Japan; a link to higher incidences of gastric cancer? Evol Med Public Health (2015) 0.75
Multiple Polyploidization Events across Asteraceae with Two Nested Events in the Early History Revealed by Nuclear Phylogenomics. Mol Biol Evol (2016) 0.75
Adaptive Evolution Hotspots at the GC-Extremes of the Human Genome: Evidence for Two Functionally Distinct Pathways of Positive Selection. Adv Bioinformatics (2010) 0.75
Phylogenetic analyses: A toolbox expanding towards Bayesian methods. Int J Plant Genomics (2008) 0.75
The effects of linkage on comparative estimators of selection. BMC Evol Biol (2013) 0.75
LEC-2, a highly variable lectin in the lichen Peltigera membranacea. Symbiosis (2012) 0.75
Significance of positive selection and gene duplication in adaptive evolution: in memory of Austin L. Hughes. Immunogenetics (2016) 0.75
Positive and relaxed selection associated with flight evolution and loss in insect transcriptomes. Gigascience (2017) 0.75
Prediction of harmful variants on mitochondrial genes: Test of habitat-dependent and demographic effects in a euryhaline fish. Ecol Evol (2017) 0.75
Evolution of adaptive phenotypic traits without positive Darwinian selection. Heredity (Edinb) (2011) 1.24
Evolutionary diversification of protein-coding genes of hantaviruses. Mol Biol Evol (2000) 1.18
Very large long-term effective population size in the virulent human malaria parasite Plasmodium falciparum. Proc Biol Sci (2001) 1.18