Published in Nature on July 10, 2003
Principles of cancer therapy: oncogene and non-oncogene addiction. Cell (2009) 10.96
Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution. Plant Cell (2004) 6.52
The evolution of gene duplications: classifying and distinguishing between models. Nat Rev Genet (2010) 5.75
Mechanisms of haploinsufficiency revealed by genome-wide profiling in yeast. Genetics (2005) 5.08
Modeling gene and genome duplications in eukaryotes. Proc Natl Acad Sci U S A (2005) 5.00
A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes. Genome Biol (2004) 4.94
Genomics of bacteria and archaea: the emerging dynamic view of the prokaryotic world. Nucleic Acids Res (2008) 4.78
Noise minimization in eukaryotic gene expression. PLoS Biol (2004) 4.36
The evolutionary significance of ancient genome duplications. Nat Rev Genet (2009) 3.95
Aneuploidy: cells losing their balance. Genetics (2008) 3.48
Following tetraploidy in an Arabidopsis ancestor, genes were removed preferentially from one homeolog leaving clusters enriched in dose-sensitive genes. Genome Res (2006) 3.41
Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources. Cell (2014) 3.15
Ohno's dilemma: evolution of new genes under continuous selection. Proc Natl Acad Sci U S A (2007) 3.10
In search of the molecular basis of heterosis. Plant Cell (2003) 2.98
Structure, function, and evolution of transient and obligate protein-protein interactions. Proc Natl Acad Sci U S A (2005) 2.69
The gain and loss of genes during 600 million years of vertebrate evolution. Genome Biol (2006) 2.58
Whole chromosome instability caused by Bub1 insufficiency drives tumorigenesis through tumor suppressor gene loss of heterozygosity. Cancer Cell (2009) 2.58
The gene balance hypothesis: from classical genetics to modern genomics. Plant Cell (2007) 2.56
Positive selection at the protein network periphery: evaluation in terms of structural constraints and cellular context. Proc Natl Acad Sci U S A (2007) 2.55
The ribosomal protein genes and Minute loci of Drosophila melanogaster. Genome Biol (2007) 2.40
Gene and genome duplications: the impact of dosage-sensitivity on the fate of nuclear genes. Chromosome Res (2009) 2.33
What properties characterize the hub proteins of the protein-protein interaction network of Saccharomyces cerevisiae? Genome Biol (2006) 2.27
The relationship among gene expression, the evolution of gene dosage, and the rate of protein evolution. PLoS Genet (2010) 2.20
Gene balance hypothesis: connecting issues of dosage sensitivity across biological disciplines. Proc Natl Acad Sci U S A (2012) 2.20
Genomic analysis of the basal lineage fungus Rhizopus oryzae reveals a whole-genome duplication. PLoS Genet (2009) 2.15
Nonadditive gene expression in diploid and triploid hybrids of maize. Genetics (2004) 2.14
Heterosis. Plant Cell (2010) 2.06
Ohnologs in the human genome are dosage balanced and frequently associated with disease. Proc Natl Acad Sci U S A (2010) 2.02
Coevolution of gene expression among interacting proteins. Proc Natl Acad Sci U S A (2004) 1.96
Preferential duplication of conserved proteins in eukaryotic genomes. PLoS Biol (2004) 1.96
Duplicated genes evolve slower than singletons despite the initial rate increase. BMC Evol Biol (2004) 1.95
Selection to minimise noise in living systems and its implications for the evolution of gene expression. Mol Syst Biol (2008) 1.88
Gene duplication as a mechanism of genomic adaptation to a changing environment. Proc Biol Sci (2012) 1.83
Distinct dosage requirements for the maintenance of long and short telomeres in mTert heterozygous mice. Proc Natl Acad Sci U S A (2004) 1.83
Concern Protein under-wrapping causes dosage sensitivity and decreases gene duplicability. PLoS Genet (2007) 1.80
Ancestral paralogs and pseudoparalogs and their role in the emergence of the eukaryotic cell. Nucleic Acids Res (2005) 1.77
The gene balance hypothesis: implications for gene regulation, quantitative traits and evolution. New Phytol (2009) 1.72
AtEXO70A1, a member of a family of putative exocyst subunits specifically expanded in land plants, is important for polar growth and plant development. Plant J (2006) 1.71
Organismal complexity, protein complexity, and gene duplicability. Proc Natl Acad Sci U S A (2003) 1.67
Pervasive and persistent redundancy among duplicated genes in yeast. PLoS Genet (2008) 1.66
The evolution of fungal metabolic pathways. PLoS Genet (2014) 1.64
Specificity and evolvability in eukaryotic protein interaction networks. PLoS Comput Biol (2006) 1.64
Cell type-specific nuclear pores: a case in point for context-dependent stoichiometry of molecular machines. Mol Syst Biol (2013) 1.63
Complex genomic rearrangements lead to novel primate gene function. Genome Res (2005) 1.62
The aneuploidy paradox: costs and benefits of an incorrect karyotype. Trends Genet (2011) 1.60
Convergent evolution of gene networks by single-gene duplications in higher eukaryotes. EMBO Rep (2004) 1.59
A metabolic network in the evolutionary context: multiscale structure and modularity. Proc Natl Acad Sci U S A (2006) 1.59
Mammalian X chromosome inactivation evolved as a dosage-compensation mechanism for dosage-sensitive genes on the X chromosome. Proc Natl Acad Sci U S A (2012) 1.55
Revealing static and dynamic modular architecture of the eukaryotic protein interaction network. Mol Syst Biol (2007) 1.53
Phylogenetic analysis of the "ECE" (CYC/TB1) clade reveals duplications predating the core eudicots. Proc Natl Acad Sci U S A (2006) 1.53
Protein interactions in human genetic diseases. Genome Biol (2008) 1.52
Predicting mendelian disease-causing non-synonymous single nucleotide variants in exome sequencing studies. PLoS Genet (2013) 1.51
Maintenance of duplicate genes and their functional redundancy by reduced expression. Trends Genet (2010) 1.51
Concern Subfunctionalization reduces the fitness cost of gene duplication in humans by buffering dosage imbalances. BMC Genomics (2011) 1.49
Evolution of genome architecture. Int J Biochem Cell Biol (2008) 1.48
Identification and analysis of evolutionarily cohesive functional modules in protein networks. Genome Res (2006) 1.48
Novel specificities emerge by stepwise duplication of functional modules. Genome Res (2005) 1.47
Whole-genome duplication in teleost fishes and its evolutionary consequences. Mol Genet Genomics (2014) 1.47
Impact of gene expression noise on organismal fitness and the efficacy of natural selection. Proc Natl Acad Sci U S A (2011) 1.46
DYRK1A-dosage imbalance perturbs NRSF/REST levels, deregulating pluripotency and embryonic stem cell fate in Down syndrome. Am J Hum Genet (2008) 1.45
Chimeric protein complexes in hybrid species generate novel phenotypes. PLoS Genet (2013) 1.45
Transcription factor families have much higher expansion rates in plants than in animals. Plant Physiol (2005) 1.44
Developmental Dynamics of X-Chromosome Dosage Compensation by the DCC and H4K20me1 in C. elegans. PLoS Genet (2015) 1.44
Understanding Brassicaceae evolution through ancestral genome reconstruction. Genome Biol (2015) 1.44
All duplicates are not equal: the difference between small-scale and genome duplication. Genome Biol (2007) 1.41
Gene expression variability within and between human populations and implications toward disease susceptibility. PLoS Comput Biol (2010) 1.39
Specificity in protein interactions and its relationship with sequence diversity and coevolution. Proc Natl Acad Sci U S A (2007) 1.39
Gene expression analysis of the function of the male-specific lethal complex in Drosophila. Genetics (2005) 1.39
Biological consequences of dosage dependent gene regulatory systems. Biochim Biophys Acta (2007) 1.39
Functional diversification of duplicate genes through subcellular adaptation of encoded proteins. Genome Biol (2008) 1.37
A differential dosage hypothesis for parental effects in seed development. Plant Cell (2004) 1.37
The current excitement about copy-number variation: how it relates to gene duplications and protein families. Curr Opin Struct Biol (2008) 1.36
Convergent gene loss following gene and genome duplications creates single-copy families in flowering plants. Proc Natl Acad Sci U S A (2013) 1.35
Consistent patterns of rate asymmetry and gene loss indicate widespread neofunctionalization of yeast genes after whole-genome duplication. Genetics (2006) 1.34
Gene dosage balance in cellular pathways: implications for dominance and gene duplicability. Genetics (2004) 1.32
Chromosomal dynamism in progeny of outbreak-related sorbitol-fermenting enterohemorrhagic Escherichia coli O157:NM. Appl Environ Microbiol (2006) 1.30
Dosage sensitivity shapes the evolution of copy-number varied regions. PLoS One (2010) 1.30
Lateral genetic transfer: open issues. Philos Trans R Soc Lond B Biol Sci (2009) 1.29
Role of translational coupling in robustness of bacterial chemotaxis pathway. PLoS Biol (2009) 1.28
Widespread correlations between dominance and homozygous effects of mutations: implications for theories of dominance. Genetics (2005) 1.28
Comparative genomic analysis of C4 photosynthetic pathway evolution in grasses. Genome Biol (2009) 1.27
Eya1 gene dosage critically affects the development of sensory epithelia in the mammalian inner ear. Hum Mol Genet (2008) 1.25
Exploring the molecular etiology of dominant-negative mutations. Plant Cell (2007) 1.24
The maternally expressed WRKY transcription factor TTG2 controls lethality in interploidy crosses of Arabidopsis. PLoS Biol (2008) 1.23
Gene dosage and gene duplicability. Genetics (2008) 1.23
Duplicate gene evolution and expression in the wake of vertebrate allopolyploidization. BMC Evol Biol (2008) 1.22
Two-phase resolution of polyploidy in the Arabidopsis metabolic network gives rise to relative and absolute dosage constraints. Plant Cell (2011) 1.22
Expression reduction in mammalian X chromosome evolution refutes Ohno's hypothesis of dosage compensation. Proc Natl Acad Sci U S A (2012) 1.22
Copy-number variation: the balance between gene dosage and expression in Drosophila melanogaster. Genome Biol Evol (2011) 1.21
Extensive rewiring and complex evolutionary dynamics in a C. elegans multiparameter transcription factor network. Mol Cell (2013) 1.21
Modes of gene duplication contribute differently to genetic novelty and redundancy, but show parallels across divergent angiosperms. PLoS One (2011) 1.20
Novel genes exhibit distinct patterns of function acquisition and network integration. Genome Biol (2010) 1.19
Incomplete sex chromosome dosage compensation in the Indian meal moth, Plodia interpunctella, based on de novo transcriptome assembly. Genome Biol Evol (2012) 1.19
Genes encoding subunits of stable complexes are clustered on the yeast chromosomes: an interpretation from a dosage balance perspective. Genetics (2004) 1.19
Comparative transcriptomics in the Triticeae. BMC Genomics (2009) 1.19
Paralogs in polyploids: one for all and all for one? Plant Cell (2005) 1.18
The (in)dependence of alternative splicing and gene duplication. PLoS Comput Biol (2007) 1.17
Expansive evolution of the trehalose-6-phosphate phosphatase gene family in Arabidopsis. Plant Physiol (2012) 1.16
Posttranslational regulation impacts the fate of duplicated genes. Proc Natl Acad Sci U S A (2009) 1.16
Preferential protection of protein interaction network hubs in yeast: evolved functionality of genetic redundancy. Proc Natl Acad Sci U S A (2008) 1.13
The genetic landscape of a cell. Science (2010) 16.52
Clustering of housekeeping genes provides a unified model of gene order in the human genome. Nat Genet (2002) 6.89
Hearing silence: non-neutral evolution at synonymous sites in mammals. Nat Rev Genet (2006) 5.97
The evolutionary dynamics of eukaryotic gene order. Nat Rev Genet (2004) 5.79
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
Plasticity of genetic interactions in metabolic networks of yeast. Proc Natl Acad Sci U S A (2007) 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
An integrated approach to characterize genetic interaction networks in yeast metabolism. Nat Genet (2011) 1.62
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
Bacterial evolution of antibiotic hypersensitivity. Mol Syst Biol (2013) 1.58
Integration of horizontally transferred genes into regulatory interaction networks takes many million years. Mol Biol Evol (2007) 1.56
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
Natural selection promotes the conservation of linkage of co-expressed genes. Trends Genet (2002) 1.39
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
Systems-biology approaches for predicting genomic evolution. Nat Rev Genet (2011) 1.23
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
The price of silent mutations. Sci Am (2009) 1.14
Maternally-inherited Grb10 reduces placental size and efficiency. Dev Biol (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
Is the synonymous substitution rate in mammals gene-specific? Mol Biol Evol (2002) 1.08
Stochasticity in protein levels drives colinearity of gene order in metabolic operons of Escherichia coli. PLoS Biol (2009) 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
Molecular chaperones as regulatory elements of cellular networks. Curr Opin Cell Biol (2005) 1.07
Great majority of recombination events in Arabidopsis are gene conversion events. Proc Natl Acad Sci U S A (2012) 1.05
The determinants of gene order conservation in yeasts. Genome Biol (2007) 1.05
Co-expressed yeast genes cluster over a long range but are not regularly spaced. J Mol Biol (2006) 1.02
Timing of replication is a determinant of neutral substitution rates but does not explain slow Y chromosome evolution in rodents. Mol Biol Evol (2009) 1.02
Why there is more to protein evolution than protein function: splicing, nucleosomes and dual-coding sequence. Biochem Soc Trans (2009) 1.01
Cell cycle regulation by feed-forward loops coupling transcription and phosphorylation. Mol Syst Biol (2009) 1.01
Conditional DNA repair mutants enable highly precise genome engineering. Nucleic Acids Res (2014) 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 form of a trade-off determines the response to competition. Ecol Lett (2013) 0.90
The small introns of antisense genes are better explained by selection for rapid transcription than by "genomic design". Genetics (2005) 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
Monoallelic expression and tissue specificity are associated with high crossover rates. Trends Genet (2009) 0.89
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
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
Nonsense-mediated decay targets have multiple sequence-related features that can inhibit translation. Mol Syst Biol (2010) 0.86
Positive charge loading at protein termini is due to membrane protein topology, not a translational ramp. Mol Biol Evol (2013) 0.86
Competition between transposable elements and mutator genes in bacteria. Mol Biol Evol (2012) 0.85