Published in Plant Physiol on February 27, 2008
Genetic variation in microRNA networks: the implications for cancer research. Nat Rev Cancer (2010) 7.39
Evolution and functional diversification of MIRNA genes. Plant Cell (2011) 3.07
A genome-wide characterization of microRNA genes in maize. PLoS Genet (2009) 2.23
MicroRNA gene evolution in Arabidopsis lyrata and Arabidopsis thaliana. Plant Cell (2010) 2.22
Arabidopsis lyrata small RNAs: transient MIRNA and small interfering RNA loci within the Arabidopsis genus. Plant Cell (2010) 2.10
The silkworm (Bombyx mori) microRNAs and their expressions in multiple developmental stages. PLoS One (2008) 1.48
Origins and evolution of microRNA genes in Drosophila species. Genome Biol Evol (2010) 1.31
Potential pitfalls in microRNA profiling. Wiley Interdiscip Rev RNA (2012) 1.14
MicroRNAs in mutagenesis, genomic instability, and DNA repair. Semin Oncol (2011) 1.09
Arabidopsis homologs of the petunia hairy meristem gene are required for maintenance of shoot and root indeterminacy. Plant Physiol (2010) 1.08
Identification of microRNAs from Amur grape (Vitis amurensis Rupr.) by deep sequencing and analysis of microRNA variations with bioinformatics. BMC Genomics (2012) 1.04
Post-transcriptional and post-translational regulations of drought and heat response in plants: a spider's web of mechanisms. Front Plant Sci (2015) 1.01
Structurally different alleles of the ath-MIR824 microRNA precursor are maintained at high frequency in Arabidopsis thaliana. Proc Natl Acad Sci U S A (2008) 0.98
Evidence for widespread positive and negative selection in coding and conserved noncoding regions of Capsella grandiflora. PLoS Genet (2014) 0.97
The small RNA diversity from Medicago truncatula roots under biotic interactions evidences the environmental plasticity of the miRNAome. Genome Biol (2014) 0.96
Neutral evolution of robustness in Drosophila microRNA precursors. Mol Biol Evol (2011) 0.95
Evolution of MIR168 paralogs in Brassicaceae. BMC Evol Biol (2009) 0.94
A computational-based update on microRNAs and their targets in barley (Hordeum vulgare L.). BMC Genomics (2010) 0.94
Haplotype distribution and evolutionary pattern of miR-17 and miR-124 families based on population analysis. PLoS One (2009) 0.92
Selection and mutation on microRNA target sequences during rice evolution. BMC Genomics (2008) 0.90
Identification of common carp (Cyprinus carpio) microRNAs and microRNA-related SNPs. BMC Genomics (2012) 0.87
Reexamining microRNA site accessibility in Drosophila: a population genomics study. PLoS One (2009) 0.86
Systematic analysis of microRNA targeting impacted by small insertions and deletions in human genome. PLoS One (2012) 0.84
MicroRNA sequence variation potentially contributes to within-species functional divergence in the nematode Caenorhabditis briggsae. Genetics (2011) 0.82
Sequence variation and selection of small RNAs in domesticated rice. BMC Evol Biol (2010) 0.82
Genome-wide identification and analysis of miRNA-related single nucleotide polymorphisms (SNPs) in rice. Rice (N Y) (2013) 0.81
The miR9863 family regulates distinct Mla alleles in barley to attenuate NLR receptor-triggered disease resistance and cell-death signaling. PLoS Genet (2014) 0.80
Illumina microRNA profiles reveal the involvement of miR397a in Citrus adaptation to long-term boron toxicity via modulating secondary cell-wall biosynthesis. Sci Rep (2016) 0.80
MicroRNAs in plants: Possible contributions to phenotypic diversity. Plant Signal Behav (2008) 0.80
Microevolution of nematode miRNAs reveals diverse modes of selection. Genome Biol Evol (2014) 0.79
Association genetics in Populus reveals the interactions between Pto-miR160a and its target Pto-ARF16. Mol Genet Genomics (2016) 0.79
In silico identification and characterization of conserved miRNAs and their target genes in sweet potato (Ipomoea batatas L.) expressed sequence tags (ESTs). Plant Signal Behav (2013) 0.78
Pleiotropic constraints, expression level, and the evolution of miRNA sequences. J Mol Evol (2013) 0.77
Genome-wide identification and evolutionary analysis of positively selected miRNA genes in domesticated rice. Mol Genet Genomics (2014) 0.77
Association genetics in Populus reveals the interactions between Pt-miR397a and its target genes. Sci Rep (2015) 0.76
Expression variations of miRNAs and mRNAs in rice (Oryza sativa). Genome Biol Evol (2016) 0.75
Landscape of fluid sets of hairpin-derived 21-/24-nt-long small RNAs at seed set uncovers special epigenetic features in Picea glauca. Genome Biol Evol (2017) 0.75
Identification and analysis of genetic variations in pri-miRNAs expressed specifically or at a high level in sheep skeletal muscle. PLoS One (2015) 0.75
Synteny and comparative analysis of miRNA retention, conservation, and structure across Brassicaceae reveals lineage- and sub-genome-specific changes. Funct Integr Genomics (2016) 0.75
Adaptive sequence evolution is driven by biotic stress in a pair of orchid species (Dactylorhiza) with distinct ecological optima. Mol Ecol (2017) 0.75
Primer3 on the WWW for general users and for biologist programmers. Methods Mol Biol (2000) 128.08
Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell (2005) 96.87
Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res (2003) 77.89
Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics (1989) 73.50
On the number of segregating sites in genetical models without recombination. Theor Popul Biol (1975) 60.96
Prediction of mammalian microRNA targets. Cell (2003) 53.70
Combinatorial microRNA target predictions. Nat Genet (2005) 50.48
miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Res (2006) 39.25
DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics (2003) 32.63
The microRNA Registry. Nucleic Acids Res (2004) 29.45
Genetic analysis of genome-wide variation in human gene expression. Nature (2004) 27.28
Evolution at two levels in humans and chimpanzees. Science (1975) 21.07
Prediction of plant microRNA targets. Cell (2002) 19.20
Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA. Nature (2000) 19.15
Hitchhiking under positive Darwinian selection. Genetics (2000) 14.72
MicroRNAS and their regulatory roles in plants. Annu Rev Plant Biol (2006) 14.44
Computational identification of plant microRNAs and their targets, including a stress-induced miRNA. Mol Cell (2004) 12.97
Role of microRNAs in plant and animal development. Science (2003) 12.45
Regulation of flowering time and floral organ identity by a MicroRNA and its APETALA2-like target genes. Plant Cell (2003) 11.69
microRNA target predictions in animals. Nat Genet (2006) 10.76
A genome-wide map of conserved microRNA targets in C. elegans. Curr Biol (2006) 10.14
The pattern of polymorphism in Arabidopsis thaliana. PLoS Biol (2005) 10.13
The contributions of sex, genotype and age to transcriptional variance in Drosophila melanogaster. Nat Genet (2001) 8.70
Specific effects of microRNAs on the plant transcriptome. Dev Cell (2005) 8.48
A mutation creating a potential illegitimate microRNA target site in the myostatin gene affects muscularity in sheep. Nat Genet (2006) 8.37
Sequence variants in SLITRK1 are associated with Tourette's syndrome. Science (2005) 8.20
Coaxial stacking of helixes enhances binding of oligoribonucleotides and improves predictions of RNA folding. Proc Natl Acad Sci U S A (1994) 8.06
Intra- and interspecific variation in primate gene expression patterns. Science (2002) 7.92
The evolution of gene regulation by transcription factors and microRNAs. Nat Rev Genet (2007) 7.92
High-throughput sequencing of Arabidopsis microRNAs: evidence for frequent birth and death of MIRNA genes. PLoS One (2007) 7.34
Variation in gene expression within and among natural populations. Nat Genet (2002) 7.19
Highly specific gene silencing by artificial microRNAs in Arabidopsis. Plant Cell (2006) 7.06
microRNA target predictions across seven Drosophila species and comparison to mammalian targets. PLoS Comput Biol (2005) 6.77
Radial patterning of Arabidopsis shoots by class III HD-ZIP and KANADI genes. Curr Biol (2003) 6.67
Evolution of gene expression in the Drosophila melanogaster subgroup. Nat Genet (2003) 6.60
Individuality and variation in gene expression patterns in human blood. Proc Natl Acad Sci U S A (2003) 6.49
Human polymorphism at microRNAs and microRNA target sites. Proc Natl Acad Sci U S A (2007) 4.87
Recognition and cleavage of primary microRNA precursors by the nuclear processing enzyme Drosha. EMBO J (2004) 4.54
Natural selection on human microRNA binding sites inferred from SNP data. Nat Genet (2006) 4.34
Modulation of floral development by a gibberellin-regulated microRNA. Development (2004) 4.31
Temporal regulation of shoot development in Arabidopsis thaliana by miR156 and its target SPL3. Development (2006) 4.16
Detection of 91 potential conserved plant microRNAs in Arabidopsis thaliana and Oryza sativa identifies important target genes. Proc Natl Acad Sci U S A (2004) 3.97
Antiquity of microRNAs and their targets in land plants. Plant Cell (2005) 3.88
MicroRNAs and their regulatory roles in animals and plants. J Cell Physiol (2007) 3.38
A multilocus sequence survey in Arabidopsis thaliana reveals a genome-wide departure from a neutral model of DNA sequence polymorphism. Genetics (2005) 2.97
The balance between the MIR164A and CUC2 genes controls leaf margin serration in Arabidopsis. Plant Cell (2006) 2.96
Evidence for selection on synonymous mutations affecting stability of mRNA secondary structure in mammals. Genome Biol (2005) 2.94
Widespread selection for local RNA secondary structure in coding regions of bacterial genes. Genome Res (2003) 2.81
Natural variation in cardiac metabolism and gene expression in Fundulus heteroclitus. Nat Genet (2004) 2.75
A novel assay for viral microRNA function identifies a single nucleotide polymorphism that affects Drosha processing. J Virol (2006) 2.71
Gene regulation: ancient microRNA target sequences in plants. Nature (2004) 2.61
Selection under domestication: evidence for a sweep in the rice waxy genomic region. Genetics (2006) 2.42
Maintenance of pre-mRNA secondary structure by epistatic selection. Proc Natl Acad Sci U S A (1995) 2.14
VariScan: Analysis of evolutionary patterns from large-scale DNA sequence polymorphism data. Bioinformatics (2005) 1.46
Evolution of plant microRNA gene families. Cell Res (2007) 1.30
RNA stem-loops: to be or not to be cleaved by RNAse III. RNA (2007) 1.28
A Multiparent Advanced Generation Inter-Cross to fine-map quantitative traits in Arabidopsis thaliana. PLoS Genet (2009) 3.97
Genome-wide patterns of nucleotide polymorphism in domesticated rice. PLoS Genet (2007) 3.83
The cost of inbreeding in Arabidopsis. Nature (2002) 3.80
Epistatic interaction between Arabidopsis FRI and FLC flowering time genes generates a latitudinal cline in a life history trait. Proc Natl Acad Sci U S A (2004) 3.51
A latitudinal cline in flowering time in Arabidopsis thaliana modulated by the flowering time gene FRIGIDA. Proc Natl Acad Sci U S A (2004) 2.99
The evolutionary dynamics of plant duplicate genes. Curr Opin Plant Biol (2005) 2.63
Evolution of crop species: genetics of domestication and diversification. Nat Rev Genet (2013) 2.59
The extent of linkage disequilibrium in rice (Oryza sativa L.). Genetics (2007) 2.56
Molecular evidence for a single evolutionary origin of domesticated rice. Proc Natl Acad Sci U S A (2011) 2.53
Selection under domestication: evidence for a sweep in the rice waxy genomic region. Genetics (2006) 2.42
The early stages of duplicate gene evolution. Proc Natl Acad Sci U S A (2003) 2.34
A conserved mutation in an ethylene biosynthesis enzyme leads to andromonoecy in melons. Science (2008) 2.11
Genotype-environment interactions at quantitative trait loci affecting inflorescence development in Arabidopsis thaliana. Genetics (2003) 1.92
Molecular evidence on the origin and evolution of glutinous rice. Genetics (2002) 1.86
Quantitative trait loci for inflorescence development in Arabidopsis thaliana. Genetics (2002) 1.84
Linkage disequilibrium mapping of Arabidopsis CRY2 flowering time alleles. Genetics (2004) 1.81
Fitness effects associated with the major flowering time gene FRIGIDA in Arabidopsis thaliana in the field. Am Nat (2007) 1.76
Epialleles via DNA methylation: consequences for plant evolution. Trends Ecol Evol (2004) 1.74
Convergent evolution and parallelism in plant domestication revealed by an expanding archaeological record. Proc Natl Acad Sci U S A (2014) 1.73
Phylogeography of Asian wild rice, Oryza rufipogon: a genome-wide view. Mol Ecol (2012) 1.70
Novel loci control variation in reproductive timing in Arabidopsis thaliana in natural environments. Genetics (2002) 1.63
Candidate gene association mapping of Arabidopsis flowering time. Genetics (2009) 1.58
Contrasting evolutionary forces in the Arabidopsis thaliana floral developmental pathway. Genetics (2002) 1.55
Current perspectives and the future of domestication studies. Proc Natl Acad Sci U S A (2014) 1.45
Heterogeneous selection at specific loci in natural environments in Arabidopsis thaliana. Genetics (2003) 1.44
Functional and geographical differentiation of candidate balanced polymorphisms in Arabidopsis thaliana. Mol Ecol (2009) 1.43
Vernalization sensitivity in Arabidopsis thaliana (Brassicaceae): the effects of latitude and FLC variation. Am J Bot (2005) 1.37
The evolution of molecular genetic pathways and networks. Bioessays (2004) 1.33
Retracted Darwinian selection on a selfing locus. Science (2004) 1.29
Selection on rapidly evolving proteins in the Arabidopsis genome. Genetics (2003) 1.25
The evolution of plant development. Am J Bot (2004) 1.24
Molecular phylogeography of domesticated barley traces expansion of agriculture in the Old World. Genetics (2007) 1.20
High-diversity genes in the Arabidopsis genome. Genetics (2005) 1.19
Variation, sex, and social cooperation: molecular population genetics of the social amoeba Dictyostelium discoideum. PLoS Genet (2010) 1.19
Independent origins of self-compatibility in Arabidopsis thaliana. Mol Ecol (2007) 1.19
Genomic variation in rice: genesis of highly polymorphic linkage blocks during domestication. PLoS Genet (2006) 1.18
Possible loss of the chloroplast genome in the parasitic flowering plant Rafflesia lagascae (Rafflesiaceae). Mol Biol Evol (2014) 1.16
Molecular population genetics of the Arabidopsis CLAVATA2 region. The genomic scale of variation and selection in a selfing species. Genetics (2003) 1.12
The genetic architecture of shoot branching in Arabidopsis thaliana: a comparative assessment of candidate gene associations vs. quantitative trait locus mapping. Genetics (2007) 1.11
Population genomics of the Arabidopsis thaliana flowering time gene network. Mol Biol Evol (2009) 1.05
Genome-wide patterns of Arabidopsis gene expression in nature. PLoS Genet (2012) 1.05
Regional modulation of a stochastically expressed factor determines photoreceptor subtypes in the Drosophila retina. Dev Cell (2013) 1.00
Climate envelope modelling reveals intraspecific relationships among flowering phenology, niche breadth and potential range size in Arabidopsis thaliana. Ecol Lett (2012) 1.00
Integration of responses within and across Arabidopsis natural accessions uncovers loci controlling root systems architecture. Proc Natl Acad Sci U S A (2013) 0.99
Molecular population genetics and phenotypic diversification of two populations of the thermophilic cyanobacterium Mastigocladus laminosus. Appl Environ Microbiol (2006) 0.99
Migration, isolation and hybridization in island crop populations: the case of Madagascar rice. Mol Ecol (2010) 0.98
Evolutionary and ecological genomics of Arabidopsis. Plant Physiol (2005) 0.96
Molecular population genetics of redundant floral-regulatory genes in Arabidopsis thaliana. Mol Biol Evol (2004) 0.96
Storytelling and story testing in domestication. Proc Natl Acad Sci U S A (2014) 0.96
Longitudinal trends in climate drive flowering time clines in North American Arabidopsis thaliana. Ecol Evol (2012) 0.96
The cooperative amoeba: Dictyostelium as a model for social evolution. Trends Genet (2010) 0.95
Complex rearrangements lead to novel chimeric gene fusion polymorphisms at the Arabidopsis thaliana MAF2-5 flowering time gene cluster. Mol Biol Evol (2009) 0.94
The genetics of plant morphological evolution. Curr Opin Plant Biol (2002) 0.94
Natural selection in gene-dense regions shapes the genomic pattern of polymorphism in wild and domesticated rice. Mol Biol Evol (2011) 0.94
The molecular genetic basis of plant adaptation. Am J Bot (2006) 0.93
The evolution of plant genomes: scaling up from a population perspective. Curr Opin Genet Dev (2009) 0.88
Plasticity regulators modulate specific root traits in discrete nitrogen environments. PLoS Genet (2013) 0.87
Molecular relationships between Australian annual wild rice, Oryza meridionalis, and two related perennial forms. Rice (N Y) (2013) 0.86
Comparative plant genomics. Frontiers and prospects. Plant Physiol (2005) 0.85
GAI homologues in the Hawaiian silversword alliance (Asteraceae-Madiinae): molecular evolution of growth regulators in a rapidly diversifying plant lineage. Mol Biol Evol (2002) 0.83
Patterns of nucleotide variation in homoeologous regulatory genes in the allotetraploid Hawaiian silversword alliance (Asteraceae). Mol Ecol (2003) 0.82
Levels and patterns of nucleotide variation in domestication QTL regions on rice chromosome 3 suggest lineage-specific selection. PLoS One (2011) 0.78
Different evolutionary histories of two cation/proton exchanger gene families in plants. BMC Plant Biol (2013) 0.78
Heterogeneous evolution of the Myc-like Anthocyanin regulatory gene and its phylogenetic utility in Cornus L. (Cornaceae). Mol Phylogenet Evol (2004) 0.78
Evolutionary patterns in the antR-Cor gene in the dwarf dogwood complex (Cornus, Cornaceae). Genetica (2006) 0.77
Retraction. Science (2008) 0.75