Published in BMC Genomics on March 16, 2010
Long noncoding RNAs in C. elegans. Genome Res (2012) 1.69
A Novel Candidate Gene for Temperature-Dependent Sex Determination in the Common Snapping Turtle. Genetics (2016) 1.42
A 3,000-loci transcription map of chromosome 3B unravels the structural and functional features of gene islands in hexaploid wheat. Plant Physiol (2011) 1.10
Support for multiple classes of local expression clusters in Drosophila melanogaster, but no evidence for gene order conservation. Genome Biol (2011) 1.07
Deep transcriptome sequencing provides new insights into the structural and functional organization of the wheat genome. Genome Biol (2015) 0.97
Integrated mapping and characterization of the gene underlying the okra leaf trait in Gossypium hirsutum L. J Exp Bot (2015) 0.84
Coexpression of linked gene pairs persists long after their separation. Genome Biol Evol (2011) 0.80
Analysis of cellulose synthase genes from domesticated apple identifies collinear genes WDR53 and CesA8A: partial co-expression, bicistronic mRNA, and alternative splicing of CESA8A. J Exp Bot (2012) 0.78
Gene expression: sizing it all up. Front Genet (2011) 0.77
Transcriptome analysis of a petal anthocyanin polymorphism in the arctic mustard, Parrya nudicaulis. PLoS One (2014) 0.76
Functional characterization of open chromatin in bidirectional promoters of rice. Sci Rep (2016) 0.76
Suppression of expression between adjacent genes within heterologous modules in yeast. G3 (Bethesda) (2014) 0.76
Histone modifications facilitate the coexpression of bidirectional promoters in rice. BMC Genomics (2016) 0.76
Minimal regulatory spaces in yeast genomes. BMC Genomics (2011) 0.76
A comparative gene analysis with rice identified orthologous group II HKT genes and their association with Na(+) concentration in bread wheat. BMC Plant Biol (2016) 0.75
Isolation and Functional Characterization of Bidirectional Promoters in Rice. Front Plant Sci (2016) 0.75
Physical mapping of immune-related genes in Yesso scallop (Patinopecten yessoensis) using fluorescent in situ hybridization. Comp Cytogenet (2016) 0.75
Genome-wide identification of physically clustered genes suggests chromatin-level co-regulation in male reproductive development in Arabidopsis thaliana. Nucleic Acids Res (2017) 0.75
A low-temperature-responsive element involved in the regulation of the Arabidopsis thaliana At1g71850/At1g71860 divergent gene pair. Plant Cell Rep (2016) 0.75
Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature (2000) 70.33
Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters. Science (2008) 16.48
The Arabidopsis Information Resource (TAIR): gene structure and function annotation. Nucleic Acids Res (2007) 14.24
Divergent transcription from active promoters. Science (2008) 11.03
Bidirectional promoters generate pervasive transcription in yeast. Nature (2009) 9.29
Clustering of housekeeping genes provides a unified model of gene order in the human genome. Nat Genet (2002) 6.89
Dynamic genome architecture in the nuclear space: regulation of gene expression in three dimensions. Nat Rev Genet (2007) 6.14
An abundance of bidirectional promoters in the human genome. Genome Res (2004) 5.90
The evolutionary dynamics of eukaryotic gene order. Nat Rev Genet (2004) 5.79
Widespread bidirectional promoters are the major source of cryptic transcripts in yeast. Nature (2009) 4.96
The role of Rat1 in coupling mRNA 3'-end processing to transcription termination: implications for a unified allosteric-torpedo model. Genes Dev (2006) 3.36
Coexpression of neighboring genes in Caenorhabditis elegans is mostly due to operons and duplicate genes. Genome Res (2003) 3.10
Genomic gene clustering analysis of pathways in eukaryotes. Genome Res (2003) 2.89
Coexpression of neighboring genes in the genome of Arabidopsis thaliana. Genome Res (2004) 2.52
Divergent transcription: a new feature of active promoters. Cell Cycle (2009) 2.50
The TAIR database. Methods Mol Biol (2007) 1.89
Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana. Genome Biol (2006) 1.85
Budding yeast RNA polymerases I and II employ parallel mechanisms of transcriptional termination. Genes Dev (2008) 1.64
Chromatin remodelling is a major source of coexpression of linked genes in yeast. Trends Genet (2007) 1.55
Mechanisms for the environmental regulation of gene expression: ecological aspects of animal development. J Biosci (2005) 1.41
Islands of co-expressed neighbouring genes in Arabidopsis thaliana suggest higher-order chromosome domains. Plant J (2006) 1.33
Local coexpression domains of two to four genes in the genome of Arabidopsis. Plant Physiol (2005) 1.18
Comparative analysis of divergent and convergent gene pairs and their expression patterns in rice, Arabidopsis, and populus. Plant Physiol (2008) 1.05
Searching for bidirectional promoters in Arabidopsis thaliana. BMC Bioinformatics (2009) 1.05
Co-expressed yeast genes cluster over a long range but are not regularly spaced. J Mol Biol (2006) 1.02
Bicistronic and fused monocistronic transcripts are derived from adjacent loci in the Arabidopsis genome. RNA (2005) 1.01
Eukaryotic gene regulation in three dimensions and its impact on genome evolution. Curr Opin Genet Dev (2008) 1.00
Molecular biology: termination by torpedo. Nature (2004) 0.94
Local coexpression domains in the genome of rice show no microsynteny with Arabidopsis domains. Plant Mol Biol (2007) 0.93
Evolutionary conservation of neighbouring gene pairs in plants. Gene (2009) 0.93
Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines. Nature (2010) 10.66
The evolutionary dynamics of eukaryotic gene order. Nat Rev Genet (2004) 5.79
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
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
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
X-chromosome-wide profiling of MSL-1 distribution and dosage compensation in Drosophila. Genes Dev (2006) 1.70
Shotgun proteomics data from multiple organisms reveals remarkable quantitative conservation of the eukaryotic core proteome. Proteomics (2010) 1.64
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
OGEE: an online gene essentiality database. Nucleic Acids Res (2011) 1.54
Similar gene expression profiles do not imply similar tissue functions. Trends Genet (2006) 1.46
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
Predicting C4 photosynthesis evolution: modular, individually adaptive steps on a Mount Fuji fitness landscape. Cell (2013) 1.24
Natural variation at Strubbelig Receptor Kinase 3 drives immune-triggered incompatibilities between Arabidopsis thaliana accessions. Nat Genet (2010) 1.22
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
Arabidopsis thaliana leaf form evolved via loss of KNOX expression in leaves in association with a selective sweep. Curr Biol (2010) 1.19
Co-variation between seed dormancy, growth rate and flowering time changes with latitude in Arabidopsis thaliana. PLoS One (2013) 1.19
Imprinted chromosomal regions of the human genome have unusually high recombination rates. Genetics (2003) 1.15
Adaptive walks toward a moving optimum. Genetics (2007) 1.15
Adaptation to different rates of environmental change in Chlamydomonas. Evolution (2009) 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
Genome-wide acceleration of protein evolution in flies (Diptera). BMC Evol Biol (2006) 1.10
Gene expression, synteny, and local similarity in human noncoding mutation rates. Mol Biol Evol (2004) 1.09
Horizontal gene transfer depends on gene content of the host. Bioinformatics (2005) 1.02
Genetic basis of adaptation in Arabidopsis thaliana: local adaptation at the seed dormancy QTL DOG1. Evolution (2012) 1.00
Influence of mutation rate on estimators of genetic differentiation--lessons from Arabidopsis thaliana. BMC Genet (2010) 0.93
Flagellin perception varies quantitatively in Arabidopsis thaliana and its relatives. Mol Biol Evol (2012) 0.93
Amino acid composition in endothermic vertebrates is biased in the same direction as in thermophilic prokaryotes. BMC Evol Biol (2010) 0.92
Genome-wide analysis of cis-regulatory divergence between species in the Arabidopsis genus. Mol Biol Evol (2012) 0.91
Human functional genetic studies are biased against the medically most relevant primate-specific genes. BMC Evol Biol (2010) 0.90
Widespread interspecific divergence in cis-regulation of transposable elements in the Arabidopsis genus. Mol Biol Evol (2011) 0.90
ColorTree: a batch customization tool for phylogenic trees. BMC Res Notes (2009) 0.88
Regional similarities in polymorphism in the human genome extend over many megabases. Trends Genet (2002) 0.87
Genetic and evolutionary perspectives on the interplay between plant immunity and development. Curr Opin Plant Biol (2011) 0.83
The effects of network neighbours on protein evolution. PLoS One (2011) 0.83
TreeSnatcher plus: capturing phylogenetic trees from images. BMC Bioinformatics (2012) 0.83
The spectrum of mutations controlling complex traits and the genetics of fitness in plants. Curr Opin Genet Dev (2013) 0.83
The cause and consequences of natural variation: the genome era takes off! Curr Opin Plant Biol (2008) 0.83
Unusual linkage patterns of ligands and their cognate receptors indicate a novel reason for non-random gene order in the human genome. BMC Evol Biol (2005) 0.80
Horizontal gene transfers as metagenomic gene duplications. Mol Biosyst (2012) 0.80
Coexpression of linked gene pairs persists long after their separation. Genome Biol Evol (2011) 0.80
Does negative auto-regulation increase gene duplicability? BMC Evol Biol (2009) 0.79
A gene's ability to buffer variation is predicted by its fitness contribution and genetic interactions. PLoS One (2011) 0.77
Understanding the degradation of hominid gene control. PLoS Comput Biol (2006) 0.76
Minimal regulatory spaces in yeast genomes. BMC Genomics (2011) 0.76
Assessing the influence of adjacent gene orientation on the evolution of gene upstream regions in Arabidopsis thaliana. Genetics (2010) 0.76
An adaptive path through jungle DNA. Nat Genet (2006) 0.75
Can we always sweep the details of RNA-processing under the carpet? Phys Biol (2013) 0.75