Published in Curr Biol on July 13, 2004
Highly integrated single-base resolution maps of the epigenome in Arabidopsis. Cell (2008) 32.65
Endogenous siRNAs derived from a pair of natural cis-antisense transcripts regulate salt tolerance in Arabidopsis. Cell (2005) 7.58
Arabidopsis ARGONAUTE1 is an RNA Slicer that selectively recruits microRNAs and short interfering RNAs. Proc Natl Acad Sci U S A (2005) 6.09
Genome-wide profiling and analysis of Arabidopsis siRNAs. PLoS Biol (2007) 5.86
Reinforcement of silencing at transposons and highly repeated sequences requires the concerted action of two distinct RNA polymerases IV in Arabidopsis. Genes Dev (2005) 4.50
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Genome-wide analysis of the RNA-DEPENDENT RNA POLYMERASE6/DICER-LIKE4 pathway in Arabidopsis reveals dependency on miRNA- and tasiRNA-directed targeting. Plant Cell (2007) 3.40
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Role of Arabidopsis AGO6 in siRNA accumulation, DNA methylation and transcriptional gene silencing. EMBO J (2007) 2.79
Four plant Dicers mediate viral small RNA biogenesis and DNA virus induced silencing. Nucleic Acids Res (2006) 2.71
RNA interference-inducing hairpin RNAs in plants act through the viral defence pathway. EMBO Rep (2006) 2.43
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Molecular characterization of geminivirus-derived small RNAs in different plant species. Nucleic Acids Res (2006) 2.26
Tandem repeats upstream of the Arabidopsis endogene SDC recruit non-CG DNA methylation and initiate siRNA spreading. Genes Dev (2008) 2.16
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An RNA polymerase II- and AGO4-associated protein acts in RNA-directed DNA methylation. Nature (2010) 1.82
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Viral genome methylation as an epigenetic defense against geminiviruses. J Virol (2008) 1.58
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Chromatin and siRNA pathways cooperate to maintain DNA methylation of small transposable elements in Arabidopsis. Genome Biol (2005) 1.55
ARGONAUTE4 is required for resistance to Pseudomonas syringae in Arabidopsis. Plant Cell (2007) 1.52
PsRobot: a web-based plant small RNA meta-analysis toolbox. Nucleic Acids Res (2012) 1.43
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The RNA silencing enzyme RNA polymerase v is required for plant immunity. PLoS Genet (2011) 1.34
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RNA polymerase V functions in Arabidopsis interphase heterochromatin organization independently of the 24-nt siRNA-directed DNA methylation pathway. Mol Plant (2009) 1.28
A novel Snf2 protein maintains trans-generational regulatory states established by paramutation in maize. PLoS Biol (2007) 1.27
Suppression of Arabidopsis ARGONAUTE1-mediated slicing, transgene-induced RNA silencing, and DNA methylation by distinct domains of the Cucumber mosaic virus 2b protein. Plant Cell (2012) 1.19
Identification of genes required for de novo DNA methylation in Arabidopsis. Epigenetics (2011) 1.18
Silencing of transposons in plant genomes: kick them when they're down. Genome Biol (2004) 1.15
Small RNA-based silencing strategies for transposons in the process of invading Drosophila species. RNA (2010) 1.13
RNA silencing against geminivirus: complementary action of posttranscriptional gene silencing and transcriptional gene silencing in host recovery. J Virol (2008) 1.12
The de novo cytosine methyltransferase DRM2 requires intact UBA domains and a catalytically mutated paralog DRM3 during RNA-directed DNA methylation in Arabidopsis thaliana. PLoS Genet (2010) 1.12
ROR1/RPA2A, a putative replication protein A2, functions in epigenetic gene silencing and in regulation of meristem development in Arabidopsis. Plant Cell (2005) 1.09
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Virus-induced gene silencing of argonaute genes in Nicotiana benthamiana demonstrates that extensive systemic silencing requires Argonaute1-like and Argonaute4-like genes. Plant Physiol (2006) 1.04
Confining euchromatin/heterochromatin territory: jumonji crosses the line. Genes Dev (2010) 1.03
Arabidopsis double-stranded RNA binding protein DRB3 participates in methylation-mediated defense against geminiviruses. J Virol (2013) 1.00
Identification and characterization of Dicer-like, Argonaute and RNA-dependent RNA polymerase gene families in maize. Plant Cell Rep (2011) 1.00
Small RNAs break out: the molecular cell biology of mobile small RNAs. Nat Rev Mol Cell Biol (2014) 0.99
Plant microRNAs display differential 3' truncation and tailing modifications that are ARGONAUTE1 dependent and conserved across species. Plant Cell (2013) 0.98
Reconstruction of Arabidopsis thaliana fully integrated small RNA pathway. Funct Integr Genomics (2009) 0.96
Genome-wide computational identification of WG/GW Argonaute-binding proteins in Arabidopsis. Nucleic Acids Res (2010) 0.96
Epigenetics and its implications for plant biology. 1. The epigenetic network in plants. Ann Bot (2005) 0.95
A Role for CHH Methylation in the Parent-of-Origin Effect on Altered Circadian Rhythms and Biomass Heterosis in Arabidopsis Intraspecific Hybrids. Plant Cell (2014) 0.93
Genome-wide negative feedback drives transgenerational DNA methylation dynamics in Arabidopsis. PLoS Genet (2015) 0.93
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A Pol V-mediated silencing, independent of RNA-directed DNA methylation, applies to 5S rDNA. PLoS Genet (2009) 0.92
Mobile small RNAs regulate genome-wide DNA methylation. Proc Natl Acad Sci U S A (2016) 0.91
RNA-directed DNA methylation: mechanisms and functions. Plant Signal Behav (2010) 0.89
Plant small RNAs: biogenesis, mode of action and their roles in abiotic stresses. Genomics Proteomics Bioinformatics (2011) 0.89
Revisiting RNA-directed DNA methylation. RNA Biol (2013) 0.87
Transgenerational maintenance of transgene body CG but not CHG and CHH methylation. Epigenetics (2012) 0.87
Genome-wide identification of microRNA and siRNA responsive to endophytic beneficial diazotrophic bacteria in maize. BMC Genomics (2014) 0.84
Role of RNA interference (RNAi) in the Moss Physcomitrella patens. Int J Mol Sci (2013) 0.82
Natural variation in epigenetic pathways affects the specification of female gamete precursors in Arabidopsis. Plant Cell (2015) 0.82
DNA methylation mediated control of gene expression is critical for development of crown gall tumors. PLoS Genet (2013) 0.82
DNA methylation epigenetically silences crossover hot spots and controls chromosomal domains of meiotic recombination in Arabidopsis. Genes Dev (2015) 0.81
Combined Large-Scale Phenotyping and Transcriptomics in Maize Reveals a Robust Growth Regulatory Network. Plant Physiol (2016) 0.81
DRD1-Pol V-dependent self-silencing of an exogenous silencer restricts the non-cell autonomous silencing of an endogenous target gene. Plant J (2011) 0.80
Differential sRNA regulation in leaves and roots of sugarcane under water depletion. PLoS One (2014) 0.80
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Alternate approaches to repress endogenous microRNA activity in Arabidopsis thaliana. Plant Signal Behav (2011) 0.78
Epiallelic variation in Arabidopsis thaliana. Cold Spring Harb Symp Quant Biol (2012) 0.77
Molecular cloning and characterisation of SlAGO family in tomato. BMC Plant Biol (2013) 0.77
RNAi mediated broad-spectrum transgenic resistance in Nicotiana benthamiana to chilli-infecting begomoviruses. Plant Cell Rep (2015) 0.76
Mobile small RNAs and their role in regulating cytosine methylation of DNA. RNA Biol (2016) 0.76
Genome-wide transcriptome analysis of female-sterile rice ovule shed light on its abortive mechanism. Planta (2016) 0.76
Mechanisms underlying epigenetic regulation in Arabidopsis thaliana. Integr Comp Biol (2014) 0.76
Analysis of Chromatin Regulators Reveals Specific Features of Rice DNA Methylation Pathways. Plant Physiol (2016) 0.76
Accurate Chromosome Segregation at First Meiotic Division Requires AGO4, a Protein Involved in RNA-Dependent DNA Methylation in Arabidopsis thaliana. Genetics (2016) 0.75
Identification and characterization of microRNAs in Humulus lupulus using high-throughput sequencing and their response to Citrus bark cracking viroid (CBCVd) infection. BMC Genomics (2016) 0.75
An 11bp region with stem formation potential is essential for de novo DNA methylation of the RPS element. PLoS One (2013) 0.75
Translational repression by a miniature inverted-repeat transposable element in the 3' untranslated region. Nat Commun (2017) 0.75
A Multigenic Network of ARGONAUTE4 Clade Members Controls Early Megaspore Formation in Arabidopsis. Genetics (2016) 0.75
Genome-Wide Identification of Dicer-Like, Argonaute, and RNA-Dependent RNA Polymerase Gene Families in Brassica Species and Functional Analyses of Their Arabidopsis Homologs in Resistance to Sclerotinia sclerotiorum. Front Plant Sci (2016) 0.75
Viral suppressor proteins show varying abilities and effectiveness to suppress transgene-induced post-transcriptional gene silencing of endogenous Chalcone synthase in transgenic Arabidopsis. Plant Cell Rep (2008) 0.75
The efficacy of antisense-based construct for inducing resistance against Croton yellow vein mosaic virus in Nicotiana tabacum. Virus Genes (2017) 0.75
Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning. Nature (2008) 26.78
A uniform system for microRNA annotation. RNA (2003) 20.28
Cleavage of Scarecrow-like mRNA targets directed by a class of Arabidopsis miRNA. Science (2002) 18.37
Establishing, maintaining and modifying DNA methylation patterns in plants and animals. Nat Rev Genet (2010) 15.70
microRNA-directed phasing during trans-acting siRNA biogenesis in plants. Cell (2005) 14.81
Genetic and functional diversification of small RNA pathways in plants. PLoS Biol (2004) 12.21
Control of leaf morphogenesis by microRNAs. Nature (2003) 11.36
Role of transposable elements in heterochromatin and epigenetic control. Nature (2004) 10.51
Endogenous and silencing-associated small RNAs in plants. Plant Cell (2002) 10.07
ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone methylation. Science (2003) 9.54
Control of CpNpG DNA methylation by the KRYPTONITE histone H3 methyltransferase. Nature (2002) 9.51
Genome-wide erasure of DNA methylation in mouse primordial germ cells is affected by AID deficiency. Nature (2010) 8.84
P1/HC-Pro, a viral suppressor of RNA silencing, interferes with Arabidopsis development and miRNA unction. Dev Cell (2003) 8.42
Genome streamlining in a cosmopolitan oceanic bacterium. Science (2005) 8.11
UHRF1 plays a role in maintaining DNA methylation in mammalian cells. Science (2007) 7.90
Criteria for annotation of plant MicroRNAs. Plant Cell (2008) 7.49
Epigenetic inheritance in plants. Nature (2007) 7.40
High-throughput sequencing of Arabidopsis microRNAs: evidence for frequent birth and death of MIRNA genes. PLoS One (2007) 7.34
Conservation and divergence of methylation patterning in plants and animals. Proc Natl Acad Sci U S A (2010) 7.30
Small interfering RNA-induced transcriptional gene silencing in human cells. Science (2004) 7.29
Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans. Nature (2009) 6.44
Gardening the genome: DNA methylation in Arabidopsis thaliana. Nat Rev Genet (2005) 6.39
Negative feedback regulation of Dicer-Like1 in Arabidopsis by microRNA-guided mRNA degradation. Curr Biol (2003) 6.36
Evolution of microRNA genes by inverted duplication of target gene sequences in Arabidopsis thaliana. Nat Genet (2004) 6.34
Hierarchical action and inhibition of plant Dicer-like proteins in antiviral defense. Science (2006) 6.33
Genome-wide profiling and analysis of Arabidopsis siRNAs. PLoS Biol (2007) 5.86
Dissecting Arabidopsis thaliana DICER function in small RNA processing, gene silencing and DNA methylation patterning. Nat Genet (2006) 5.81
Specificity of ARGONAUTE7-miR390 interaction and dual functionality in TAS3 trans-acting siRNA formation. Cell (2008) 5.73
Specialization and evolution of endogenous small RNA pathways. Nat Rev Genet (2007) 5.68
Locus-specific control of asymmetric and CpNpG methylation by the DRM and CMT3 methyltransferase genes. Proc Natl Acad Sci U S A (2002) 5.49
Role of the arabidopsis DRM methyltransferases in de novo DNA methylation and gene silencing. Curr Biol (2002) 5.47
Relationship between nucleosome positioning and DNA methylation. Nature (2010) 5.27
An ARGONAUTE4-containing nuclear processing center colocalized with Cajal bodies in Arabidopsis thaliana. Cell (2006) 5.22
Epigenetic reprogramming in plant and animal development. Science (2010) 5.18
DICER-LIKE 4 functions in trans-acting small interfering RNA biogenesis and vegetative phase change in Arabidopsis thaliana. Proc Natl Acad Sci U S A (2005) 5.16
RNA silencing genes control de novo DNA methylation. Science (2004) 5.11
One-way control of FWA imprinting in Arabidopsis endosperm by DNA methylation. Science (2003) 5.00
Interplay between two epigenetic marks. DNA methylation and histone H3 lysine 9 methylation. Curr Biol (2002) 4.98
Expression of Arabidopsis MIRNA genes. Plant Physiol (2005) 4.85
The Arabidopsis chromatin-modifying nuclear siRNA pathway involves a nucleolar RNA processing center. Cell (2006) 4.82
DICER-LIKE1: blind men and elephants in Arabidopsis development. Trends Plant Sci (2002) 4.72
The Arabidopsis lyrata genome sequence and the basis of rapid genome size change. Nat Genet (2011) 4.65
PRG-1 and 21U-RNAs interact to form the piRNA complex required for fertility in C. elegans. Mol Cell (2008) 4.48
DEMETER, a DNA glycosylase domain protein, is required for endosperm gene imprinting and seed viability in arabidopsis. Cell (2002) 4.31
Whole-genome analysis of histone H3 lysine 27 trimethylation in Arabidopsis. PLoS Biol (2007) 4.30
Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation. Curr Biol (2003) 4.27
MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant. Genome Res (2006) 4.08
Applications of DNA tiling arrays for whole-genome analysis. Genomics (2005) 3.94
Methylation of tRNAAsp by the DNA methyltransferase homolog Dnmt2. Science (2006) 3.87
Viral RNA silencing suppressors inhibit the microRNA pathway at an intermediate step. Genes Dev (2004) 3.78
Reiterated WG/GW motifs form functionally and evolutionarily conserved ARGONAUTE-binding platforms in RNAi-related components. Genes Dev (2007) 3.75
Regulation of AUXIN RESPONSE FACTOR3 by TAS3 ta-siRNA affects developmental timing and patterning in Arabidopsis. Curr Biol (2006) 3.71
The SRA methyl-cytosine-binding domain links DNA and histone methylation. Curr Biol (2007) 3.70
DNA methylation profiling identifies CG methylation clusters in Arabidopsis genes. Curr Biol (2005) 3.54
Dual histone H3 methylation marks at lysines 9 and 27 required for interaction with CHROMOMETHYLASE3. EMBO J (2004) 3.51
DNA methylation controls histone H3 lysine 9 methylation and heterochromatin assembly in Arabidopsis. EMBO J (2002) 3.50
5-Hydroxymethylcytosine is associated with enhancers and gene bodies in human embryonic stem cells. Genome Biol (2011) 3.48
ASRP: the Arabidopsis Small RNA Project Database. Nucleic Acids Res (2005) 3.46
Distinct argonaute-mediated 22G-RNA pathways direct genome surveillance in the C. elegans germline. Mol Cell (2009) 3.43
RNAi, DRD1, and histone methylation actively target developmentally important non-CG DNA methylation in arabidopsis. PLoS Genet (2006) 3.41
Genome-wide analysis of the RNA-DEPENDENT RNA POLYMERASE6/DICER-LIKE4 pathway in Arabidopsis reveals dependency on miRNA- and tasiRNA-directed targeting. Plant Cell (2007) 3.40
The SRA domain of UHRF1 flips 5-methylcytosine out of the DNA helix. Nature (2008) 3.28
Role of CG and non-CG methylation in immobilization of transposons in Arabidopsis. Curr Biol (2003) 3.11
Two-step recruitment of RNA-directed DNA methylation to tandem repeats. PLoS Biol (2006) 3.09
Evolution and functional diversification of MIRNA genes. Plant Cell (2011) 3.07
Role of RNA polymerase IV in plant small RNA metabolism. Proc Natl Acad Sci U S A (2007) 3.05
Comprehensive analysis of silencing mutants reveals complex regulation of the Arabidopsis methylome. Cell (2013) 3.02
Dimethylation of histone H3 lysine 9 is a critical mark for DNA methylation and gene silencing in Arabidopsis thaliana. Chromosoma (2004) 3.00
Small RNA binding is a common strategy to suppress RNA silencing by several viral suppressors. EMBO J (2006) 3.00
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Sequence and expression differences underlie functional specialization of Arabidopsis microRNAs miR159 and miR319. Dev Cell (2007) 2.90
Genome-wide analysis of mono-, di- and trimethylation of histone H3 lysine 4 in Arabidopsis thaliana. Genome Biol (2009) 2.86
Retracted Small RNA duplexes function as mobile silencing signals between plant cells. Science (2010) 2.76
Identification and characterization of human cytomegalovirus-encoded microRNAs. J Virol (2005) 2.73
Genome-wide association of histone H3 lysine nine methylation with CHG DNA methylation in Arabidopsis thaliana. PLoS One (2008) 2.69
Unique functionality of 22-nt miRNAs in triggering RDR6-dependent siRNA biogenesis from target transcripts in Arabidopsis. Nat Struct Mol Biol (2010) 2.63
Pattern formation via small RNA mobility. Genes Dev (2009) 2.50
AGO1-miR173 complex initiates phased siRNA formation in plants. Proc Natl Acad Sci U S A (2008) 2.34
MicroRNAs inhibit the translation of target mRNAs on the endoplasmic reticulum in Arabidopsis. Cell (2013) 2.28
Mass spectrometry analysis of Arabidopsis histone H3 reveals distinct combinations of post-translational modifications. Nucleic Acids Res (2004) 2.28
MicroRNA gene evolution in Arabidopsis lyrata and Arabidopsis thaliana. Plant Cell (2010) 2.22
Dual binding of chromomethylase domains to H3K9me2-containing nucleosomes directs DNA methylation in plants. Cell (2012) 2.19
Regulation of DNMT1 stability through SET7-mediated lysine methylation in mammalian cells. Proc Natl Acad Sci U S A (2009) 2.18
Tandem repeats upstream of the Arabidopsis endogene SDC recruit non-CG DNA methylation and initiate siRNA spreading. Genes Dev (2008) 2.16
Repression of AUXIN RESPONSE FACTOR10 by microRNA160 is critical for seed germination and post-germination stages. Plant J (2007) 2.15
Histone methylation in higher plants. Annu Rev Plant Biol (2010) 2.13