Published in Mol Biol Evol on December 21, 2009
Variation in the mutation rate across mammalian genomes. Nat Rev Genet (2011) 3.09
Differential relationship of DNA replication timing to different forms of human mutation and variation. Am J Hum Genet (2012) 2.33
Evaluating genome-scale approaches to eukaryotic DNA replication. Nat Rev Genet (2010) 2.04
Comparative analysis of DNA replication timing reveals conserved large-scale chromosomal architecture. PLoS Genet (2010) 1.68
The genomic landscape shaped by selection on transposable elements across 18 mouse strains. Genome Biol (2012) 1.63
Heterogeneous polymerase fidelity and mismatch repair bias genome variation and composition. Genome Res (2014) 1.23
Navigating the rapids: the development of regulated next-generation sequencing-based clinical trial assays and companion diagnostics. Front Oncol (2014) 1.12
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Late-replicating CNVs as a source of new genes. Biol Open (2013) 0.84
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Reconstructing the demographic history of the human lineage using whole-genome sequences from human and three great apes. Genome Biol Evol (2012) 0.78
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The role of mutation rate variation and genetic diversity in the architecture of human disease. PLoS One (2014) 0.75
Perturbations in the Replication Program Contribute to Genomic Instability in Cancer. Int J Mol Sci (2017) 0.75
Male Mutation Bias Is the Main Force Shaping Chromosomal Substitution Rates in Monotreme Mammals. Genome Biol Evol (2017) 0.75
Clustering of housekeeping genes provides a unified model of gene order in the human genome. Nat Genet (2002) 6.89
Dosage sensitivity and the evolution of gene families in yeast. Nature (2003) 6.77
Hearing silence: non-neutral evolution at synonymous sites in mammals. Nat Rev Genet (2006) 5.97
Comparisons of dN/dS are time dependent for closely related bacterial genomes. J Theor Biol (2005) 5.20
Metabolic network analysis of the causes and evolution of enzyme dispensability in yeast. Nature (2004) 4.06
Stratus not altocumulus: a new view of the yeast protein interaction network. PLoS Biol (2006) 3.44
Human SNP variability and mutation rate are higher in regions of high recombination. Trends Genet (2002) 3.11
Positively charged residues are the major determinants of ribosomal velocity. PLoS Biol (2013) 3.11
Coexpression of neighboring genes in Caenorhabditis elegans is mostly due to operons and duplicate genes. Genome Res (2003) 3.10
Evidence for selection on synonymous mutations affecting stability of mRNA secondary structure in mammals. Genome Biol (2005) 2.94
Evidence for purifying selection against synonymous mutations in mammalian exonic splicing enhancers. Mol Biol Evol (2005) 2.85
The signature of selection mediated by expression on human genes. Genome Res (2003) 2.56
Evolution of chromosome organization driven by selection for reduced gene expression noise. Nat Genet (2007) 2.55
Chance and necessity in the evolution of minimal metabolic networks. Nature (2006) 2.48
Genomic function: Rate of evolution and gene dispensability. Nature (2003) 2.40
Evolutionary and physiological importance of hub proteins. PLoS Comput Biol (2006) 2.34
Splicing and the evolution of proteins in mammals. PLoS Biol (2007) 2.32
Genome-wide analysis of coordinate expression and evolution of human cis-encoded sense-antisense transcripts. Trends Genet (2005) 2.04
Evidence for co-evolution of gene order and recombination rate. Nat Genet (2003) 1.84
Still stratus not altocumulus: further evidence against the date/party hub distinction. PLoS Biol (2007) 1.84
Metabolic trade-offs and the maintenance of the fittest and the flattest. Nature (2011) 1.82
A unification of mosaic structures in the human genome. Hum Mol Genet (2003) 1.79
How do synonymous mutations affect fitness? Bioessays (2007) 1.63
Genes that escape X-inactivation in humans have high intraspecific variability in expression, are associated with mental impairment but are not slow evolving. Mol Biol Evol (2013) 1.61
Similar rates but different modes of sequence evolution in introns and at exonic silent sites in rodents: evidence for selectively driven codon usage. Mol Biol Evol (2004) 1.55
Chromatin remodelling is a major source of coexpression of linked genes in yeast. Trends Genet (2007) 1.55
Distinct physiological and behavioural functions for parental alleles of imprinted Grb10. Nature (2011) 1.52
Evolution of cis-regulatory elements in duplicated genes of yeast. Trends Genet (2003) 1.49
GroEL dependency affects codon usage--support for a critical role of misfolding in gene evolution. Mol Syst Biol (2010) 1.43
Exonic splicing regulatory elements skew synonymous codon usage near intron-exon boundaries in mammals. Mol Biol Evol (2007) 1.43
Leukocyte tyrosine kinase functions in pigment cell development. PLoS Genet (2008) 1.41
Evidence against the selfish operon theory. Trends Genet (2004) 1.38
Evidence for a preferential targeting of 3'-UTRs by cis-encoded natural antisense transcripts. Nucleic Acids Res (2005) 1.37
Evidence for a trade-off between translational efficiency and splicing regulation in determining synonymous codon usage in Drosophila melanogaster. Mol Biol Evol (2007) 1.36
Evidence for variation in abundance of antisense transcripts between multicellular animals but no relationship between antisense transcriptionand organismic complexity. Genome Res (2006) 1.35
Human antisense genes have unusually short introns: evidence for selection for rapid transcription. Trends Genet (2005) 1.35
The impact of the nucleosome code on protein-coding sequence evolution in yeast. PLoS Genet (2008) 1.34
Biased codon usage near intron-exon junctions: selection on splicing enhancers, splice-site recognition or something else? Trends Genet (2005) 1.33
Evidence that the human X chromosome is enriched for male-specific but not female-specific genes. Mol Biol Evol (2003) 1.32
The evolution of isochores: evidence from SNP frequency distributions. Genetics (2002) 1.29
A mixture of "cheats" and "co-operators" can enable maximal group benefit. PLoS Biol (2010) 1.27
Predicting the virulence of MRSA from its genome sequence. Genome Res (2014) 1.23
How biologically relevant are interaction-based modules in protein networks? Genome Biol (2004) 1.22
Gametophytic selection in Arabidopsis thaliana supports the selective model of intron length reduction. PLoS Genet (2005) 1.20
Imprinted chromosomal regions of the human genome have unusually high recombination rates. Genetics (2003) 1.15
Maternally-inherited Grb10 reduces placental size and efficiency. Dev Biol (2009) 1.14
The price of silent mutations. Sci Am (2009) 1.14
Genomic regionality in rates of evolution is not explained by clustering of genes of comparable expression profile. Genome Res (2004) 1.14
Direct and indirect consequences of meiotic recombination: implications for genome evolution. Trends Genet (2011) 1.13
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
Noisy splicing, more than expression regulation, explains why some exons are subject to nonsense-mediated mRNA decay. BMC Biol (2009) 1.11
Comparative evolutionary analysis of VPS33 homologues: genetic and functional insights. Hum Mol Genet (2005) 1.10
How common are intragene windows with KA > KS owing to purifying selection on synonymous mutations? J Mol Evol (2007) 1.09
Stochasticity in protein levels drives colinearity of gene order in metabolic operons of Escherichia coli. PLoS Biol (2009) 1.08
Is the synonymous substitution rate in mammals gene-specific? Mol Biol Evol (2002) 1.08
Support for multiple classes of local expression clusters in Drosophila melanogaster, but no evidence for gene order conservation. Genome Biol (2011) 1.07
The determinants of gene order conservation in yeasts. Genome Biol (2007) 1.05
Great majority of recombination events in Arabidopsis are gene conversion events. Proc Natl Acad Sci U S A (2012) 1.05
Co-expressed yeast genes cluster over a long range but are not regularly spaced. J Mol Biol (2006) 1.02
Why there is more to protein evolution than protein function: splicing, nucleosomes and dual-coding sequence. Biochem Soc Trans (2009) 1.01
Is optimal gene order impossible? Trends Genet (2006) 0.98
Young intragenic miRNAs are less coexpressed with host genes than old ones: implications of miRNA-host gene coevolution. Nucleic Acids Res (2012) 0.98
Dosage compensation on the active X chromosome minimizes transcriptional noise of X-linked genes in mammals. Genome Biol (2009) 0.97
Finding exonic islands in a sea of non-coding sequence: splicing related constraints on protein composition and evolution are common in intron-rich genomes. Genome Biol (2008) 0.96
Do Alu repeats drive the evolution of the primate transcriptome? Genome Biol (2008) 0.96
Evidence for common short natural trans sense-antisense pairing between transcripts from protein coding genes. Genome Biol (2008) 0.94
Duplication and retention biases of essential and non-essential genes revealed by systematic knockdown analyses. PLoS Genet (2013) 0.93
Molecular genetics: The sound of silence. Nature (2011) 0.92
The evolution, impact and properties of exonic splice enhancers. Genome Biol (2013) 0.92
Understanding the limits to generalizability of experimental evolutionary models. Nature (2008) 0.91
Atypical at skew in Firmicute genomes results from selection and not from mutation. PLoS Genet (2011) 0.91
Late-replicating domains have higher divergence and diversity in Drosophila melanogaster. Mol Biol Evol (2011) 0.91
The small introns of antisense genes are better explained by selection for rapid transcription than by "genomic design". Genetics (2005) 0.90
The form of a trade-off determines the response to competition. Ecol Lett (2013) 0.90
Clustering of tissue-specific genes underlies much of the similarity in rates of protein evolution of linked genes. J Mol Evol (2002) 0.90
Do Wolbachia-associated incompatibilities promote polyandry? Evolution (2007) 0.89
Error prevention and mitigation as forces in the evolution of genes and genomes. Nat Rev Genet (2011) 0.89
Monoallelic expression and tissue specificity are associated with high crossover rates. Trends Genet (2009) 0.89
Birt Hogg-Dubé syndrome-associated FLCN mutations disrupt protein stability. Hum Mutat (2011) 0.89
Evidence that replication-associated mutation alone does not explain between-chromosome differences in substitution rates. Genome Biol Evol (2009) 0.88
Can mutation or fixation biases explain the allele frequency distribution of human single nucleotide polymorphisms (SNPs)? Gene (2002) 0.87
Comparison of Iroquois gene expression in limbs/fins of vertebrate embryos. J Anat (2010) 0.87
Positive charge loading at protein termini is due to membrane protein topology, not a translational ramp. Mol Biol Evol (2013) 0.86
Nonsense-mediated decay targets have multiple sequence-related features that can inhibit translation. Mol Syst Biol (2010) 0.86
Competition between transposable elements and mutator genes in bacteria. Mol Biol Evol (2012) 0.85
Causes and consequences of crossing-over evidenced via a high-resolution recombinational landscape of the honey bee. Genome Biol (2015) 0.84
Human genetics: mystery of the mutagenic male. Nature (2002) 0.83
A test of the null model for 5' UTR evolution based on GC content. Mol Biol Evol (2008) 0.83
Evolutionary genomics: A positive becomes a negative. Nature (2009) 0.81
Identification of a new pebp2alphaA2 isoform from zebrafish runx2 capable of inducing osteocalcin gene expression in vitro. J Bone Miner Res (2005) 0.81
A simple metric of promoter architecture robustly predicts expression breadth of human genes suggesting that most transcription factors are positive regulators. Genome Biol (2014) 0.80
Dissecting dispensability. Nat Genet (2005) 0.80
Protein rates of evolution are predicted by double-strand break events, independent of crossing-over rates. Genome Biol Evol (2009) 0.80
Does negative auto-regulation increase gene duplicability? BMC Evol Biol (2009) 0.79
Evidence for a priming effect on maternal resource allocation: implications for interbrood competition. Proc Biol Sci (2003) 0.79
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
Late replicating domains are highly recombining in females but have low male recombination rates: implications for isochore evolution. PLoS One (2011) 0.78
Evidence for deep phylogenetic conservation of exonic splice-related constraints: splice-related skews at exonic ends in the brown alga Ectocarpus are common and resemble those seen in humans. Genome Biol Evol (2013) 0.77
Genes that Escape X-Inactivation in Humans Have High Intraspecific Variability in Expression, Are Associated with Mental Impairment but Are Not Slow Evolving. Mol Biol Evol (2015) 0.77
Evolution encoded. Sci Am (2004) 0.77