R-loop-dependent promoter-proximal termination ensures genome stability

INTAC endonuclease and phosphatase modules differentially regulate transcription by RNA polymerase II

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H3K4me3 regulates RNA polymerase II promoter-proximal pause-release

(2023) Hua Wang et al.   NATURE

HOTTIP-dependent R-loop formation regulates CTCF boundary activity and TAD integrity in leukemia

(2022) Huacheng Luo et al.   MOLECULAR CELL

KAS-seq: genome-wide sequencing of single-stranded DNA by N3-kethoxal–assisted labeling

(2022) Ruitu Lyu et al.   Nature Protocols

Walking a tightrope: The complex balancing act of R-loops in genome stability

(2022) Joshua R. Brickner et al.   MOLECULAR CELL

Integrator endonuclease drives promoter-proximal termination at all RNA polymerase II-transcribed loci

(2022) Chad B. Stein et al.   MOLECULAR CELL

R-loop-derived cytoplasmic RNA–DNA hybrids activate an immune response

(2022) Magdalena P. Crossley et al.   NATURE

Integrator is a genome-wide attenuator of non-productive transcription

(2021) Søren Lykke-Andersen et al.   MOLECULAR CELL

Structure of the catalytic core of the Integrator complex

(2021) Moritz M. Pfleiderer et al.   MOLECULAR CELL

Loci-specific phase separation of FET fusion oncoproteins promotes gene transcription

(2021) Linyu Zuo et al.   Nature Communications

Genomic profiling of native R loops with a DNA-RNA hybrid recognition sensor

(2021) Kang Wang et al.   Science Advances

The PP2A-Integrator-CDK9 axis fine-tunes transcription and can be targeted therapeutically in cancer

(2021) Stephin J. Vervoort et al.   CELL

Recognition of RNA by the S9.6 antibody creates pervasive artifacts when imaging RNA:DNA hybrids

(2021) John A. Smolka et al.   JOURNAL OF CELL BIOLOGY

R-loops as Janus-faced modulators of DNA repair

(2021) Aline Marnef et al.   NATURE CELL BIOLOGY

Catalytically inactive, purified RNase H1: A specific and sensitive probe for RNA–DNA hybrid imaging

(2021) Magdalena P. Crossley et al.   JOURNAL OF CELL BIOLOGY

SPT5 stabilizes RNA polymerase II, orchestrates transcription cycles, and maintains the enhancer landscape

(2021) Shibin Hu et al.   MOLECULAR CELL

SPT5 stabilization of promoter-proximal RNA polymerase II

(2021) Yuki Aoi et al.   MOLECULAR CELL

Crystal structure of the INTS3/INTS6 complex reveals the functional importance of INTS3 dimerization in DSB repair

(2021) Yu Jia et al.   Cell Discovery

A Tale of Loops and Tails: The Role of Intrinsically Disordered Protein Regions in R-Loop Recognition and Phase Separation

(2021) Leonardo G. Dettori et al.   Frontiers in Molecular Biosciences

Defining R-loop classes and their contributions to genome instability

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

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

Kethoxal-assisted single-stranded DNA sequencing captures global transcription dynamics and enhancer activity in situ

(2020) Tong Wu et al.   NATURE METHODS

INTS10–INTS13–INTS14 form a functional module of Integrator that binds nucleic acids and the cleavage module

(2020) Kevin Sabath et al.   Nature Communications

Genome-wide R-loop Landscapes during Cell Differentiation and Reprogramming

(2020) Pengze Yan et al.   Cell Reports

The Human Integrator Complex Facilitates Transcriptional Elongation by Endonucleolytic Cleavage of Nascent Transcripts

(2020) Felipe Beckedorff et al.   Cell Reports

R-loops coordinate with SOX2 in regulating reprogramming to pluripotency

(2020) Yaoyi Li et al.   Science Advances

Integrator Recruits Protein Phosphatase 2A to Prevent Pause Release and Facilitate Transcription Termination

(2020) Kai-Lieh Huang et al.   MOLECULAR CELL

Phase separation by ssDNA binding protein controlled via protein−protein and protein−DNA interactions

(2020) Gábor M. Harami et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identification of Integrator-PP2A complex (INTAC), an RNA polymerase II phosphatase

(2020) Hai Zheng et al.   SCIENCE

The Integrator complex at the crossroad of coding and noncoding RNA

(2020) Nina Kirstein et al.   CURRENT OPINION IN CELL BIOLOGY

Transcription-mediated replication hindrance: a major driver of genome instability

(2019) Belén Gómez-González et al.   GENES & DEVELOPMENT

SSB1/SSB2 Proteins Safeguard B Cell Development by Protecting the Genomes of B Cell Precursors

(2019) Matthias Pfeifer et al.   JOURNAL OF IMMUNOLOGY

m6A enhances the phase separation potential of mRNA

(2019) Ryan J. Ries et al.   NATURE

CUT&Tag for efficient epigenomic profiling of small samples and single cells

(2019) Hatice S. Kaya-Okur et al.   Nature Communications

The ENCODE Blacklist: Identification of Problematic Regions of the Genome

(2019) Haley M. Amemiya et al.   Scientific Reports

The Integrator Complex Attenuates Promoter-Proximal Transcription at Protein-Coding Genes

(2019) Nathan D. Elrod et al.   MOLECULAR CELL

The dTAG system for immediate and target-specific protein degradation

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Biomolecular condensates: organizers of cellular biochemistry

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Liquid phase condensation in cell physiology and disease

(2017) Yongdae Shin et al.   SCIENCE

Defining the location of promoter-associated R-loops at near-nucleotide resolution using bisDRIP-seq

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Conflict Resolution in the Genome: How Transcription and Replication Make It Work

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Integrator mediates the biogenesis of enhancer RNAs

(2015) Fan Lai et al.   NATURE

R loops: new modulators of genome dynamics and function

(2015) José M. Santos-Pereira et al.   NATURE REVIEWS GENETICS

R loops regulate promoter-proximal chromatin architecture and cellular differentiation

(2015) Poshen B Chen et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

R loops regulate promoter-proximal chromatin architecture and cellular differentiation

(2015) Poshen B Chen et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Structural Basis of SOSS1 Complex Assembly and Recognition of ssDNA

(2014) Wendan Ren et al.   Cell Reports

Quantitative ChIP-Seq Normalization Reveals Global Modulation of the Epigenome

(2014) David A. Orlando et al.   Cell Reports

Precise Maps of RNA Polymerase Reveal How Promoters Direct Initiation and Pausing

(2013) H. Kwak et al.   SCIENCE

Essential Developmental, Genomic Stability, and Tumour Suppressor Functions of the Mouse Orthologue of hSSB1/NABP2

(2013) Wei Shi et al.   PLoS Genetics

ThehSSB1orthologueObfc2bis essential for skeletogenesis but dispensable for the DNA damage responsein vivo

(2012) Niklas Feldhahn et al.   EMBO JOURNAL

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

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

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(2012) Ben Langmead et al.   NATURE METHODS

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The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

hSSB1 and hSSB2 Form Similar Multiprotein Complexes That Participate in DNA Damage Response

(2009) Yongjiang Li et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

SOSS Complexes Participate in the Maintenance of Genomic Stability

(2009) Jun Huang et al.   MOLECULAR CELL

Single-stranded DNA-binding protein hSSB1 is critical for genomic stability

(2008) Derek J. Richard et al.   NATURE