Published in Nucleic Acids Res on November 04, 2011
The maize methylome influences mRNA splice sites and reveals widespread paramutation-like switches guided by small RNA. Genome Res (2013) 1.78
CHH islands: de novo DNA methylation in near-gene chromatin regulation in maize. Genome Res (2012) 1.36
Spreading of heterochromatin is limited to specific families of maize retrotransposons. PLoS Genet (2012) 1.25
Accessible DNA and relative depletion of H3K9me2 at maize loci undergoing RNA-directed DNA methylation. Plant Cell (2014) 1.16
Pericentric and centromeric transcription: a perfect balance required. Chromosome Res (2012) 1.08
Genomic distribution of H3K9me2 and DNA methylation in a maize genome. PLoS One (2014) 1.03
The First Rule of Plant Transposable Element Silencing: Location, Location, Location. Plant Cell (2016) 0.96
Nascent transcription affected by RNA polymerase IV in Zea mays. Genetics (2015) 0.84
The low-recombining pericentromeric region of barley restricts gene diversity and evolution but not gene expression. Plant J (2014) 0.84
Maize chromosomal knobs are located in gene-dense areas and suppress local recombination. Chromosoma (2012) 0.83
Stable Patterns of CENH3 Occupancy Through Maize Lineages Containing Genetically Similar Centromeres. Genetics (2015) 0.82
Structure and Function of Centromeric and Pericentromeric Heterochromatin in Arabidopsis thaliana. Front Plant Sci (2015) 0.80
Gene Expression and Chromatin Modifications Associated with Maize Centromeres. G3 (Bethesda) (2015) 0.79
Chromatin state analysis of the barley epigenome reveals a higher-order structure defined by H3K27me1 and H3K27me3 abundance. Plant J (2015) 0.78
Meiosis, unreduced gametes, and parthenogenesis: implications for engineering clonal seed formation in crops. Plant Reprod (2015) 0.76
Repeat Composition of CenH3-chromatin and H3K9me2-marked heterochromatin in Sugar Beet (Beta vulgaris). BMC Plant Biol (2016) 0.76
Generation of a Maize B Centromere Minimal Map Containing the Central Core Domain. G3 (Bethesda) (2015) 0.75
PmiRExAt: plant miRNA expression atlas database and web applications. Database (Oxford) (2016) 0.75
Genomic analysis of the DNA replication timing program during mitotic S phase in maize (Zea mays L.) root tips. Plant Cell (2017) 0.75
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol (2009) 235.12
An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans. Science (2001) 44.16
Human DNA methylomes at base resolution show widespread epigenomic differences. Nature (2009) 34.27
The microRNA Registry. Nucleic Acids Res (2004) 29.45
The B73 maize genome: complexity, diversity, and dynamics. Science (2009) 18.73
Regulation of heterochromatic silencing and histone H3 lysine-9 methylation by RNAi. Science (2002) 17.04
Establishing, maintaining and modifying DNA methylation patterns in plants and animals. Nat Rev Genet (2010) 15.70
Genome-wide evolutionary analysis of eukaryotic DNA methylation. Science (2010) 8.46
Conservation and divergence of methylation patterning in plants and animals. Proc Natl Acad Sci U S A (2010) 7.30
A first-generation haplotype map of maize. Science (2009) 6.82
Cohesin: its roles and mechanisms. Annu Rev Genet (2009) 6.19
Requirement of heterochromatin for cohesion at centromeres. Science (2001) 5.02
Centromeric chromatin exhibits a histone modification pattern that is distinct from both euchromatin and heterochromatin. Nat Struct Mol Biol (2004) 4.95
BS Seeker: precise mapping for bisulfite sequencing. BMC Bioinformatics (2010) 4.66
Comprehensive analysis of heterochromatin- and RNAi-mediated epigenetic control of the fission yeast genome. Nat Genet (2005) 4.66
RNA-mediated chromatin-based silencing in plants. Curr Opin Cell Biol (2009) 4.11
Cell cycle control of centromeric repeat transcription and heterochromatin assembly. Nature (2008) 3.60
Phosphorylation of H2A by Bub1 prevents chromosomal instability through localizing shugoshin. Science (2009) 3.30
Arabidopsis TFL2/LHP1 specifically associates with genes marked by trimethylation of histone H3 lysine 27. PLoS Genet (2007) 3.11
RNA Pol II subunit Rpb7 promotes centromeric transcription and RNAi-directed chromatin silencing. Genes Dev (2005) 2.99
Epigenetic centromere propagation and the nature of CENP-a nucleosomes. Cell (2011) 2.74
Centromeric retroelements and satellites interact with maize kinetochore protein CENH3. Plant Cell (2002) 2.55
Heterochromatin and RNAi are required to establish CENP-A chromatin at centromeres. Science (2008) 2.45
Genome-wide and organ-specific landscapes of epigenetic modifications and their relationships to mRNA and small RNA transcriptomes in maize. Plant Cell (2009) 2.39
A super-resolution map of the vertebrate kinetochore. Proc Natl Acad Sci U S A (2010) 2.36
Epigenetic engineering shows H3K4me2 is required for HJURP targeting and CENP-A assembly on a synthetic human kinetochore. EMBO J (2010) 2.17
Chromatin immunoprecipitation reveals that the 180-bp satellite repeat is the key functional DNA element of Arabidopsis thaliana centromeres. Genetics (2003) 2.05
Maize centromeres: organization and functional adaptation in the genetic background of oat. Plant Cell (2004) 2.01
High frequency of centromere inactivation resulting in stable dicentric chromosomes of maize. Proc Natl Acad Sci U S A (2006) 1.98
Centromere-encoded RNAs are integral components of the maize kinetochore. Proc Natl Acad Sci U S A (2004) 1.95
The Arabidopsis LHP1 protein colocalizes with histone H3 Lys27 trimethylation. Nat Struct Mol Biol (2007) 1.93
Distinct size distribution of endogeneous siRNAs in maize: Evidence from deep sequencing in the mop1-1 mutant. Proc Natl Acad Sci U S A (2008) 1.92
The kinetochore is an enhancer of pericentric cohesin binding. PLoS Biol (2004) 1.79
Human centromeric chromatin is a dynamic chromosomal domain that can spread over noncentromeric DNA. Proc Natl Acad Sci U S A (2006) 1.72
Maize centromere structure and evolution: sequence analysis of centromeres 2 and 5 reveals dynamic Loci shaped primarily by retrotransposons. PLoS Genet (2009) 1.71
Mu transposon insertion sites and meiotic recombination events co-localize with epigenetic marks for open chromatin across the maize genome. PLoS Genet (2009) 1.70
Polycomb silencing of KNOX genes confines shoot stem cell niches in Arabidopsis. Curr Biol (2008) 1.69
Production of viable gametes without meiosis in maize deficient for an ARGONAUTE protein. Plant Cell (2011) 1.67
Loss of RNA-dependent RNA polymerase 2 (RDR2) function causes widespread and unexpected changes in the expression of transposons, genes, and 24-nt small RNAs. PLoS Genet (2009) 1.54
Synthetic heterochromatin bypasses RNAi and centromeric repeats to establish functional centromeres. Science (2009) 1.48
Partitioning of the maize epigenome by the number of methyl groups on histone H3 lysines 9 and 27. Genetics (2006) 1.47
Genome size and transposable element content as determined by high-throughput sequencing in maize and Zea luxurians. Genome Biol Evol (2011) 1.43
Epigenetic control of centromere behavior. Annu Rev Genet (2007) 1.42
DNA binding of centromere protein C (CENPC) is stabilized by single-stranded RNA. PLoS Genet (2010) 1.38
Methylation of histone H3 in euchromatin of plant chromosomes depends on basic nuclear DNA content. Plant J (2003) 1.30
Widespread gene conversion in centromere cores. PLoS Biol (2010) 1.29
A Caenorhabditis elegans RNA-directed RNA polymerase in sperm development and endogenous RNA interference. Genetics (2009) 1.28
Genomic and genetic characterization of rice Cen3 reveals extensive transcription and evolutionary implications of a complex centromere. Plant Cell (2006) 1.27
Epigenetic modification of centromeric chromatin: hypomethylation of DNA sequences in the CENH3-associated chromatin in Arabidopsis thaliana and maize. Plant Cell (2008) 1.25
Cloning of small RNA molecules. Curr Protoc Mol Biol (2005) 1.23
Assembly of additional heterochromatin distinct from centromere-kinetochore chromatin is required for de novo formation of human artificial chromosome. J Cell Sci (2005) 1.19
Heterochromatin is required for normal distribution of Neurospora crassa CenH3. Mol Cell Biol (2011) 1.18
Intergenic locations of rice centromeric chromatin. PLoS Biol (2008) 1.13
The Suv39h-HP1 histone methylation pathway is dispensable for enrichment and protection of cohesin at centromeres in mammalian cells. Chromosoma (2007) 1.11
Histone modifications associated with both A and B chromosomes of maize. Chromosome Res (2008) 1.10
Genome-wide mapping of cytosine methylation revealed dynamic DNA methylation patterns associated with genes and centromeres in rice. Plant J (2010) 1.09
A paucity of heterochromatin at functional human neocentromeres. Epigenetics Chromatin (2010) 1.09
Mitotic centromeric targeting of HP1 and its binding to Sgo1 are dispensable for sister-chromatid cohesion in human cells. Mol Biol Cell (2011) 1.09
A minimal CENP-A core is required for nucleation and maintenance of a functional human centromere. EMBO J (2007) 1.08
Phosphoserines on maize CENTROMERIC HISTONE H3 and histone H3 demarcate the centromere and pericentromere during chromosome segregation. Plant Cell (2005) 1.03
Epigenetic inheritance of centromeres. Cold Spring Harb Symp Quant Biol (2010) 0.97
Heterochromatin protein 1 (HP1) proteins do not drive pericentromeric cohesin enrichment in human cells. PLoS One (2009) 0.95
Distinct DNA methylation patterns associated with active and inactive centromeres of the maize B chromosome. Genome Res (2011) 0.94
Reinterpreting pericentromeric heterochromatin. Curr Opin Plant Biol (2006) 0.93
Transcription of Satellite DNAs in Mammals. Prog Mol Subcell Biol (2011) 0.90
Super-stretched pachytene chromosomes for fluorescence in situ hybridization mapping and immunodetection of DNA methylation. Plant J (2009) 0.87
Cell cycle regulated transcription of heterochromatin in mammals vs. fission yeast: functional conservation or coincidence? Cell Cycle (2008) 0.84
The B73 maize genome: complexity, diversity, and dynamics. Science (2009) 18.73
Genome sequence and analysis of the tuber crop potato. Nature (2011) 7.77
The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus). Nature (2008) 5.54
The genome sequence and structure of rice chromosome 1. Nature (2002) 4.99
A standardized kinesin nomenclature. J Cell Biol (2004) 4.43
Sequence and analysis of rice chromosome 4. Nature (2002) 4.39
Sequencing of a rice centromere uncovers active genes. Nat Genet (2004) 3.66
Centromeric retroelements and satellites interact with maize kinetochore protein CENH3. Plant Cell (2002) 2.55
Gene RB cloned from Solanum bulbocastanum confers broad spectrum resistance to potato late blight. Proc Natl Acad Sci U S A (2003) 2.43
Functional rice centromeres are marked by a satellite repeat and a centromere-specific retrotransposon. Plant Cell (2002) 2.40
A molecular view of plant centromeres. Trends Plant Sci (2003) 2.26
Gene amplification confers glyphosate resistance in Amaranthus palmeri. Proc Natl Acad Sci U S A (2009) 2.23
Chromatin immunoprecipitation reveals that the 180-bp satellite repeat is the key functional DNA element of Arabidopsis thaliana centromeres. Genetics (2003) 2.05
Copy number variation of multiple genes at Rhg1 mediates nematode resistance in soybean. Science (2012) 2.01
Maize centromeres: organization and functional adaptation in the genetic background of oat. Plant Cell (2004) 2.01
Centromere-encoded RNAs are integral components of the maize kinetochore. Proc Natl Acad Sci U S A (2004) 1.95
Molecular and cytological analyses of large tracks of centromeric DNA reveal the structure and evolutionary dynamics of maize centromeres. Genetics (2003) 1.92
High-resolution mapping of epigenetic modifications of the rice genome uncovers interplay between DNA methylation, histone methylation, and gene expression. Plant Cell (2008) 1.85
Maize centromere structure and evolution: sequence analysis of centromeres 2 and 5 reveals dynamic Loci shaped primarily by retrotransposons. PLoS Genet (2009) 1.71
Chromatin immunoprecipitation cloning reveals rapid evolutionary patterns of centromeric DNA in Oryza species. Proc Natl Acad Sci U S A (2005) 1.64
Identification of miniature inverted-repeat transposable elements (MITEs) and biogenesis of their siRNAs in the Solanaceae: new functional implications for MITEs. Genome Res (2008) 1.63
Repeatless and repeat-based centromeres in potato: implications for centromere evolution. Plant Cell (2012) 1.54
Dasheng: a recently amplified nonautonomous long terminal repeat element that is a major component of pericentromeric regions in rice. Genetics (2002) 1.51
Phenotypic and transcriptomic changes associated with potato autopolyploidization. Genetics (2007) 1.49
Sequence, annotation, and analysis of synteny between rice chromosome 3 and diverged grass species. Genome Res (2005) 1.48
Partitioning of the maize epigenome by the number of methyl groups on histone H3 lysines 9 and 27. Genetics (2006) 1.47
Molecular and functional dissection of the maize B chromosome centromere. Plant Cell (2005) 1.43
Genome-wide identification of regulatory DNA elements and protein-binding footprints using signatures of open chromatin in Arabidopsis. Plant Cell (2012) 1.38
DNA binding of centromere protein C (CENPC) is stabilized by single-stranded RNA. PLoS Genet (2010) 1.38
Transcription and histone modifications in the recombination-free region spanning a rice centromere. Plant Cell (2005) 1.37
CHH islands: de novo DNA methylation in near-gene chromatin regulation in maize. Genome Res (2012) 1.36
Chromosomal location and gene paucity of the male specific region on papaya Y chromosome. Mol Genet Genomics (2007) 1.35
Sequencing papaya X and Yh chromosomes reveals molecular basis of incipient sex chromosome evolution. Proc Natl Acad Sci U S A (2012) 1.35
Widespread gene conversion in centromere cores. PLoS Biol (2010) 1.29
Low X/Y divergence in four pairs of papaya sex-linked genes. Plant J (2007) 1.28
Genomic and genetic characterization of rice Cen3 reveals extensive transcription and evolutionary implications of a complex centromere. Plant Cell (2006) 1.27
A fine physical map of the rice chromosome 4. Genome Res (2002) 1.26
Spreading of heterochromatin is limited to specific families of maize retrotransposons. PLoS Genet (2012) 1.25
Epigenetic modification of centromeric chromatin: hypomethylation of DNA sequences in the CENH3-associated chromatin in Arabidopsis thaliana and maize. Plant Cell (2008) 1.25
Maximum likelihood methods reveal conservation of function among closely related kinesin families. J Mol Evol (2002) 1.24
Resolution of fluorescence in-situ hybridization mapping on rice mitotic prometaphase chromosomes, meiotic pachytene chromosomes and extended DNA fibers. Chromosome Res (2002) 1.23
Fused sister kinetochores initiate the reductional division in meiosis I. Nat Cell Biol (2009) 1.23
Whole-genome sequencing of Oryza brachyantha reveals mechanisms underlying Oryza genome evolution. Nat Commun (2013) 1.22
High-resolution mapping of open chromatin in the rice genome. Genome Res (2011) 1.19
Structure, divergence, and distribution of the CRR centromeric retrotransposon family in rice. Mol Biol Evol (2004) 1.18
Chromosome rearrangements during domestication of cucumber as revealed by high-density genetic mapping and draft genome assembly. Plant J (2012) 1.17
Chromatin structure and physical mapping of chromosome 6 of potato and comparative analyses with tomato. Genetics (2008) 1.14
Independently regulated neocentromere activity of two classes of tandem repeat arrays. Plant Cell (2002) 1.13
Intergenic locations of rice centromeric chromatin. PLoS Biol (2008) 1.13
DNA methylation and heterochromatinization in the male-specific region of the primitive Y chromosome of papaya. Genome Res (2008) 1.12
The CentO satellite confers translational and rotational phasing on cenH3 nucleosomes in rice centromeres. Proc Natl Acad Sci U S A (2013) 1.11
Suppression of the vacuolar invertase gene prevents cold-induced sweetening in potato. Plant Physiol (2010) 1.11
Centromere repositioning in cucurbit species: implication of the genomic impact from centromere activation and inactivation. Proc Natl Acad Sci U S A (2009) 1.11
Histone modifications associated with both A and B chromosomes of maize. Chromosome Res (2008) 1.10
Genome-wide mapping of cytosine methylation revealed dynamic DNA methylation patterns associated with genes and centromeres in rice. Plant J (2010) 1.09
Distribution of retroelements in centromeres and neocentromeres of maize. Genetics (2003) 1.07
Megabase-scale inversion polymorphism in the wild ancestor of maize. Genetics (2012) 1.05
Phosphoserines on maize CENTROMERIC HISTONE H3 and histone H3 demarcate the centromere and pericentromere during chromosome segregation. Plant Cell (2005) 1.03
Persistent whole-chromosome aneuploidy is generally associated with nascent allohexaploid wheat. Proc Natl Acad Sci U S A (2013) 1.02
Highly condensed potato pericentromeric heterochromatin contains rDNA-related tandem repeats. Genetics (2002) 1.02
Rice as a model for centromere and heterochromatin research. Chromosome Res (2007) 1.01
Transcription and evolutionary dynamics of the centromeric satellite repeat CentO in rice. Mol Biol Evol (2006) 1.01
Precise centromere mapping using a combination of repeat junction markers and chromatin immunoprecipitation-polymerase chain reaction. Genetics (2006) 1.01
Organization and evolution of subtelomeric satellite repeats in the potato genome. G3 (Bethesda) (2011) 1.00
RNA as a structural and regulatory component of the centromere. Annu Rev Genet (2012) 1.00
Sobo, a recently amplified satellite repeat of potato, and its implications for the origin of tandemly repeated sequences. Genetics (2005) 0.99
Analysis of 90 Mb of the potato genome reveals conservation of gene structures and order with tomato but divergence in repetitive sequence composition. BMC Genomics (2008) 0.99
Sgt1, but not Rar1, is essential for the RB-mediated broad-spectrum resistance to potato late blight. BMC Plant Biol (2008) 0.98
The centromeric regions of potato chromosomes contain megabase-sized tandem arrays of telomere-similar sequence. Chromosoma (2004) 0.98
Next-generation sequencing, FISH mapping and synteny-based modeling reveal mechanisms of decreasing dysploidy in Cucumis. Plant J (2013) 0.98
Agrobacterium-mediated transient gene expression and silencing: a rapid tool for functional gene assay in potato. PLoS One (2009) 0.97
Maize centromeres expand and adopt a uniform size in the genetic background of oat. Genome Res (2013) 0.97
Four loci on abnormal chromosome 10 contribute to meiotic drive in maize. Genetics (2003) 0.95
Structural diversity and differential transcription of the patatin multicopy gene family during potato tuber development. Genetics (2005) 0.95
Centromere inactivation and epigenetic modifications of a plant chromosome with three functional centromeres. Chromosoma (2010) 0.95
Marcus rhoades, preferential segregation and meiotic drive. Genetics (2003) 0.95
Higher copy numbers of the potato RB transgene correspond to enhanced transcript and late blight resistance levels. Mol Plant Microbe Interact (2009) 0.95
Intrinsic karyotype stability and gene copy number variations may have laid the foundation for tetraploid wheat formation. Proc Natl Acad Sci U S A (2013) 0.94
Distinct DNA methylation patterns associated with active and inactive centromeres of the maize B chromosome. Genome Res (2011) 0.94
Reinterpreting pericentromeric heterochromatin. Curr Opin Plant Biol (2006) 0.93
Correlation between transcript abundance of the RB gene and the level of the RB-mediated late blight resistance in potato. Mol Plant Microbe Interact (2009) 0.93
Global sequence characterization of rice centromeric satellite based on oligomer frequency analysis in large-scale sequencing data. Bioinformatics (2010) 0.93
The meiotic drive system on maize abnormal chromosome 10 contains few essential genes. Genetica (2003) 0.93
Evolution of chromosome 6 of Solanum species revealed by comparative fluorescence in situ hybridization mapping. Chromosoma (2010) 0.93
Construction of physical maps for the sex-specific regions of papaya sex chromosomes. BMC Genomics (2012) 0.92
Copy number variation in potato - an asexually propagated autotetraploid species. Plant J (2013) 0.92
Comparative FISH mapping of Daucus species (Apiaceae family). Chromosome Res (2011) 0.92
Distinct influences of tandem repeats and retrotransposons on CENH3 nucleosome positioning. Epigenetics Chromatin (2011) 0.91