Genome-wide mapping reveals R-loops associated with centromeric repeats in maize

Regulatory R-loops as facilitators of gene expression and genome stability

(2020) Christof Niehrs et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The R-loop Atlas of Arabidopsis Development and Responses to Environmental Stimuli

(2020) Wei Xu et al.   PLANT CELL

Back-spliced RNA from retrotransposon binds to centromere and regulates centromeric chromatin loops in maize

(2020) Yalin Liu et al.   PLOS BIOLOGY

Cohesin SA1 and SA2 are RNA binding proteins that localize to RNA containing regions on DNA

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Centromeric Transcription: A Conserved Swiss-Army Knife

(2020) Ganesan Arunkumar et al.   Genes

Active retrotransposons help maintain pericentromeric heterochromatin required for faithful cell division

(2020) Yajing Hao et al.   GENOME RESEARCH

RAD51-dependent recruitment of TERRA lncRNA to telomeres through R-loops

(2020) Marianna Feretzaki et al.   NATURE

The extruded non-template strand determines the architecture of R-loops

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ALBA protein complex reads genic R-loops to maintain genome stability in Arabidopsis

(2019) Wei Yuan et al.   Science Advances

Characterization of functional relationships of R-loops with gene transcription and epigenetic modifications in rice

(2019) Yuan Fang et al.   GENOME RESEARCH

Centromere Satellite Repeats Have Undergone Rapid Changes in Polyploid Wheat Subgenomes

(2019) Handong Su et al.   PLANT CELL

Regulation of kinetochore configuration during mitosis

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Transcribing Centromeres: Noncoding RNAs and Kinetochore Assembly

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R-loop generation during transcription: Formation, processing and cellular outcomes

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Functions of Replication Protein A as a Sensor of R Loops and a Regulator of RNaseH1

(2017) Hai Dang Nguyen et al.   MOLECULAR CELL

Improved maize reference genome with single-molecule technologies

(2017) Yinping Jiao et al.   NATURE

Ten principles of heterochromatin formation and function

(2017) Robin C. Allshire et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

RNase H1 Cooperates with DNA Gyrases to Restrict R-Loops and Maintain Genome Integrity in Arabidopsis Chloroplasts

(2017) Zhuo Yang et al.   PLANT CELL

Cohesion and centromere activity are required for phosphorylation of histone H3 in maize

(2017) Yang Liu et al.   PLANT JOURNAL

A mitosis-specific and R loop–driven ATR pathway promotes faithful chromosome segregation

(2017) Lilian Kabeche et al.   SCIENCE

Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown

(2016) Mihaela Pertea et al.   Nature Protocols

Dynamic chromatin changes associated withde novocentromere formation in maize euchromatin

(2016) Handong Su et al.   PLANT JOURNAL

Co-transcriptional R-loops are the main cause of estrogen-induced DNA damage

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Constitutive heterochromatin formation and transcription in mammals

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Gene Expression and Chromatin Modifications Associated with Maize Centromeres

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Evolution of gene structure in the conifer Picea glauca: a comparative analysis of the impact of intron size

(2014) Juliana Stival Sena et al.   BMC PLANT BIOLOGY

Accessible DNA and Relative Depletion of H3K9me2 at Maize Loci Undergoing RNA-Directed DNA Methylation

(2014) Jonathan I. Gent et al.   PLANT CELL

R Loops Are Linked to Histone H3 S10 Phosphorylation and Chromatin Condensation

(2013) Maikel Castellano-Pozo et al.   MOLECULAR CELL

R-Loop Stabilization Represses Antisense Transcription at the Arabidopsis FLC Locus

(2013) Q. Sun et al.   SCIENCE

DNA-RNA hybrid formation mediates RNAi-directed heterochromatin formation

(2012) Mina Nakama et al.   GENES TO CELLS

R-Loop Formation Is a Distinctive Characteristic of Unmethylated Human CpG Island Promoters

(2012) Paul A. Ginno et al.   MOLECULAR CELL

R Loops: From Transcription Byproducts to Threats to Genome Stability

(2012) Andrés Aguilera et al.   MOLECULAR CELL

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Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications

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R-loop-mediated genomic instability is caused by impairment of replication fork progression

(2011) W. Gan et al.   GENES & DEVELOPMENT

Collisions between Replication and Transcription Complexes Cause Common Fragile Site Instability at the Longest Human Genes

(2011) Anne Helmrich et al.   MOLECULAR CELL

RNase H and Multiple RNA Biogenesis Factors Cooperate to Prevent RNA:DNA Hybrids from Generating Genome Instability

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Dual recognition of CENP-A nucleosomes is required for centromere assembly

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Mammalian Mitochondrial DNA Replication Intermediates Are Essentially Duplex but Contain Extensive Tracts of RNA/DNA Hybrid

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Initiation of bacteriophage T4 DNA replication and replication fork dynamics: a review in the Virology Journal series on bacteriophage T4 and its relatives

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DNA Binding of Centromere Protein C (CENPC) Is Stabilized by Single-Stranded RNA

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Maize Centromeres: Structure, Function, Epigenetics

(2009) James A. Birchler et al.   Annual Review of Genetics

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(2009) Dal-Hoe Koo et al.   PLANT JOURNAL

The B73 Maize Genome: Complexity, Diversity, and Dynamics

(2009) P. S. Schnable et al.   SCIENCE

Recognition of the unique structure of DNA:RNA hybrids

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Sustained retrotransposition is mediated by nucleotide deletions and interelement recombinations

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Intergenic Locations of Rice Centromeric Chromatin

(2008) Huihuang Yan et al.   PLOS BIOLOGY

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY

Satellite DNAs between selfishness and functionality: Structure, genomics and evolution of tandem repeats in centromeric (hetero)chromatin

(2007) Miroslav Plohl et al.   GENE