Published in PLoS One on September 10, 2008
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The population genetics of dN/dS. PLoS Genet (2008) 3.88
Dynamical resonance can account for seasonality of influenza epidemics. Proc Natl Acad Sci U S A (2004) 3.73
Retroviral DNA integration: viral and cellular determinants of target-site selection. PLoS Pathog (2006) 3.67
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Identification of transcription factor binding sites in the human genome sequence. Mamm Genome (2002) 2.00
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Inferring the dynamics of diversification: a coalescent approach. PLoS Biol (2010) 1.91
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Reinforcement of pre-zygotic isolation and karyotype evolution in Agrodiaetus butterflies. Nature (2005) 1.76
Aging and gene expression in the primate brain. PLoS Biol (2005) 1.76
Vaccinating to protect a vulnerable subpopulation. PLoS Med (2007) 1.76
Reconciling molecular phylogenies with the fossil record. Proc Natl Acad Sci U S A (2011) 1.72
Variations in the progranulin gene affect global gene expression in frontotemporal lobar degeneration. Hum Mol Genet (2008) 1.68
Genomic analysis of sleep deprivation reveals translational regulation in the hippocampus. Physiol Genomics (2012) 1.64
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Immune history shapes specificity of pandemic H1N1 influenza antibody responses. J Exp Med (2013) 1.47
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GATA and Nkx factors synergistically regulate tissue-specific gene expression and development in vivo. Development (2007) 1.39
CTCF binding site classes exhibit distinct evolutionary, genomic, epigenomic and transcriptomic features. Genome Biol (2009) 1.38
Hopx and Hdac2 interact to modulate Gata4 acetylation and embryonic cardiac myocyte proliferation. Dev Cell (2010) 1.38
Evolution, safety, and highly pathogenic influenza viruses. Science (2012) 1.36
Gene profiling of human adipose tissue during evoked inflammation in vivo. Diabetes (2009) 1.34
Maternal depletion of CTCF reveals multiple functions during oocyte and preimplantation embryo development. Development (2008) 1.32
Position and distance specificity are important determinants of cis-regulatory motifs in addition to evolutionary conservation. Nucleic Acids Res (2007) 1.28
The polymorphism frequency spectrum of finitely many sites under selection. Genetics (2008) 1.22
Functional analysis of Hes-1 in preadipocytes. Mol Endocrinol (2005) 1.21
Young proteins experience more variable selection pressures than old proteins. Genome Res (2010) 1.19
Genome landscapes and bacteriophage codon usage. PLoS Comput Biol (2008) 1.18
Identifying signatures of selection in genetic time series. Genetics (2013) 1.16
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Regulation of lung endoderm progenitor cell behavior by miR302/367. Development (2011) 1.14
Genetic and physiological activation of osmosensitive gene expression mimics transcriptional signatures of pathogen infection in C. elegans. PLoS One (2010) 1.13
A mammalian promoter model links cis elements to genetic networks. Biochem Biophys Res Commun (2006) 1.11
The structure of genealogies in the presence of purifying selection: a fitness-class coalescent. Genetics (2011) 1.11
Selection biases the prevalence and type of epistasis along adaptive trajectories. Evolution (2013) 1.07
Why transcription factor binding sites are ten nucleotides long. Genetics (2012) 1.07
Evolution and persistence of influenza A and other diseases. Math Biosci (2004) 1.07
Age-correlated gene expression in normal and neurodegenerative human brain tissues. PLoS One (2010) 1.06
Genome-wide expression profiling and bioinformatics analysis of diurnally regulated genes in the mouse prefrontal cortex. Genome Biol (2007) 1.05
Single hemagglutinin mutations that alter both antigenicity and receptor binding avidity influence influenza virus antigenic clustering. J Virol (2013) 1.04
Some consequences of demographic stochasticity in population genetics. Genetics (2010) 1.02
Persistent expression of Pax3 in the neural crest causes cleft palate and defective osteogenesis in mice. J Clin Invest (2008) 1.01
Functional diversification of paralogous transcription factors via divergence in DNA binding site motif and in expression. PLoS One (2008) 0.99
Spatial patterns in discordant diagnostic test results for Chagas disease: links to transmission hotspots. Clin Infect Dis (2009) 0.98
Retracing micro-epidemics of Chagas disease using epicenter regression. PLoS Comput Biol (2011) 0.98
Generalized population models and the nature of genetic drift. Theor Popul Biol (2011) 0.98
Directionality in the evolution of influenza A haemagglutinin. Proc Biol Sci (2008) 0.97
Recurring genomic breaks in independent lineages support genomic fragility. BMC Evol Biol (2006) 0.96
Matrix dimensions bias demographic inferences: implications for comparative plant demography. Am Nat (2010) 0.96
Reconstructing influenza incidence by deconvolution of daily mortality time series. Proc Natl Acad Sci U S A (2009) 0.96
Sex and age dimorphism of myocardial gene expression in nonischemic human heart failure. Circ Cardiovasc Genet (2008) 0.96
The role of epistasis in protein evolution. Nature (2013) 0.96
Rational spatio-temporal strategies for controlling a Chagas disease vector in urban environments. J R Soc Interface (2010) 0.95
MetaProm: a neural network based meta-predictor for alternative human promoter prediction. BMC Genomics (2007) 0.94
Evidence for coregulation of myocardial gene expression by MEF2 and NFAT in human heart failure. Circ Cardiovasc Genet (2009) 0.94
Resistin gene variation is associated with systemic inflammation but not plasma adipokine levels, metabolic syndrome or coronary atherosclerosis in nondiabetic Caucasians. Clin Endocrinol (Oxf) (2008) 0.93
Intrinsically disordered proteins and conformational noise: implications in cancer. Cell Cycle (2012) 0.92
Dynamics of neutral and selected alleles when the offspring distribution is skewed. Genetics (2012) 0.92
CTCF binding site sequence differences are associated with unique regulatory and functional trends during embryonic stem cell differentiation. Nucleic Acids Res (2013) 0.92
Genome-wide survey of natural selection on functional, structural, and network properties of polymorphic sites in Saccharomyces paradoxus. Mol Biol Evol (2011) 0.92
Motifs and cis-regulatory modules mediating the expression of genes co-expressed in presynaptic neurons. Genome Biol (2009) 0.90
Determinants of expression variability. Nucleic Acids Res (2014) 0.89
Variola virus topoisomerase: DNA cleavage specificity and distribution of sites in Poxvirus genomes. Virology (2007) 0.88
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Dense subgraph computation via stochastic search: application to detect transcriptional modules. Bioinformatics (2006) 0.86
Correlated changes between regulatory cis elements and condition-specific expression in paralogous gene families. Nucleic Acids Res (2009) 0.85
Widespread evidence of viral miRNAs targeting host pathways. BMC Bioinformatics (2013) 0.85
Patterns of sequence conservation in presynaptic neural genes. Genome Biol (2006) 0.84
PTM-Switchboard--a database of posttranslational modifications of transcription factors, the mediating enzymes and target genes. Nucleic Acids Res (2008) 0.83
On the accessibility of adaptive phenotypes of a bacterial metabolic network. PLoS Comput Biol (2009) 0.83
The evolution of genetic architectures underlying quantitative traits. Proc Biol Sci (2013) 0.83
Three independent determinants of protein evolutionary rate. J Mol Evol (2013) 0.83
The evolution of complex gene regulation by low-specificity binding sites. Proc Biol Sci (2013) 0.82
TREMOR--a tool for retrieving transcriptional modules by incorporating motif covariance. Nucleic Acids Res (2007) 0.82
Regulating the regulators: modulators of transcription factor activity. Methods Mol Biol (2010) 0.82
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Epistasis increases the rate of conditionally neutral substitution in an adapting population. Genetics (2011) 0.82
A note on efficient computation of haplotypes via perfect phylogeny. J Comput Biol (2004) 0.81
Computational analysis of constraints on noncoding regions, coding regions and gene expression in relation to Plasmodium phenotypic diversity. PLoS One (2008) 0.81
A tutorial of the poisson random field model in population genetics. Adv Bioinformatics (2008) 0.81