Transcription-associated topoisomerase 2α (TOP2A) activity is a major effector of cytotoxicity induced by G-quadruplex ligands

Emerging roles for R-loop structures in the management of topological stress

(2020) Frederic Chedin et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The primary mechanism of cytotoxicity of the chemotherapeutic agent CX-5461 is topoisomerase II poisoning

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

The regulation and functions of DNA and RNA G-quadruplexes

(2020) Dhaval Varshney et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

CX-5461 activates the DNA damage response and demonstrates therapeutic efficacy in high-grade serous ovarian cancer

(2020) Elaine Sanij et al.   Nature Communications

DNA:RNA hybrid G-quadruplex formation upstream of transcription start site

(2020) Jia-yu Zhang et al.   Scientific Reports

A Genetic Map of the Response to DNA Damage in Human Cells

(2020) Michele Olivieri et al.   CELL

Topoisomerase II contributes to DNA secondary structure-mediated double-stranded breaks

(2020) Karol Szlachta et al.   NUCLEIC ACIDS RESEARCH

rDNA Chromatin Activity Status as a Biomarker of Sensitivity to the RNA Polymerase I Transcription Inhibitor CX-5461

(2020) Jinbae Son et al.   Frontiers in Cell and Developmental Biology

BRD4 prevents the accumulation of R-loops and protects against transcription–replication collision events and DNA damage

(2020) Fred C. Lam et al.   Nature Communications

G-Quadruplexes in RNA Biology: Recent Advances and Future Directions

(2020) Leïla Dumas et al.   TRENDS IN BIOCHEMICAL SCIENCES

RTEL1 Regulates G4/R-Loops to Avert Replication-Transcription Collisions

(2020) Panagiotis Kotsantis et al.   Cell Reports

Replication of G Quadruplex DNA

(2019) Leticia Koch Lerner et al.   Genes

R-Loops as Cellular Regulators and Genomic Threats

(2019) Madzia P. Crossley et al.   MOLECULAR CELL

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

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

First-in-Human RNA Polymerase I Transcription Inhibitor CX-5461 in Patients with Advanced Hematological Cancers: Results of a Phase I Dose Escalation Study

(2019) Amit Khot et al.   Cancer Discovery

Non-canonical DNA/RNA structures during Transcription-Coupled Double-Strand Break Repair: Roadblocks or Bona fide repair intermediates?

(2019) Nadine Puget et al.   DNA REPAIR

Spatial Chromosome Folding and Active Transcription Drive DNA Fragility and Formation of Oncogenic MLL Translocations

(2019) Henrike Johanna Gothe et al.   MOLECULAR CELL

Topoisomerase II-Induced Chromosome Breakage and Translocation Is Determined by Chromosome Architecture and Transcriptional Activity

(2019) Andres Canela et al.   MOLECULAR CELL

A complex suite of loci and elements in eukaryotic type II topoisomerases determine selective sensitivity to distinct poisoning agents

(2019) Tim R Blower et al.   NUCLEIC ACIDS RESEARCH

CNBP controls transcription by unfolding DNA G-quadruplex structures

(2019) Aldana P David et al.   NUCLEIC ACIDS RESEARCH

G-quadruplex dynamics contribute to regulation of mitochondrial gene expression

(2019) M. Falabella et al.   Scientific Reports

R Loops: From Physiological to Pathological Roles

(2019) Tatiana García-Muse et al.   CELL

Systematic bromodomain protein screens identify homologous recombination and R-loop suppression pathways involved in genome integrity

(2019) Jae Jin Kim et al.   GENES & DEVELOPMENT

A nucleotide resolution map of Top2-linked DNA breaks in the yeast and human genome

(2019) William H. Gittens et al.   Nature Communications

Site-Specific Cleavage by Topoisomerase 2: A Mark of the Core Centromere

(2018) Walter Mills et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

The Roles of DNA Topoisomerase IIβ in Transcription

(2018) Ram Madabhushi   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Genome-wide mapping of endogenous G-quadruplex DNA structures by chromatin immunoprecipitation and high-throughput sequencing

(2018) Robert Hänsel-Hertsch et al.   Nature Protocols

BLM helicase suppresses recombination at G-quadruplex motifs in transcribed genes

(2018) Niek van Wietmarschen et al.   Nature Communications

BRCA2 Regulates Transcription Elongation by RNA Polymerase II to Prevent R-Loop Accumulation

(2018) Mahmud K.K. Shivji et al.   Cell Reports

TOP2B: The First Thirty Years

(2018) Caroline Austin et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

DNA damage and genome instability by G-quadruplex ligands are mediated by R loops in human cancer cells

(2018) Alessio De Magis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-wide TOP2A DNA cleavage is biased toward translocated and highly transcribed loci

(2017) Xiang Yu et al.   GENOME RESEARCH

Nonhomologous DNA end-joining for repair of DNA double-strand breaks

(2017) Nicholas R. Pannunzio et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The DNA-Binding Polyamine Moiety in the Vectorized DNA Topoisomerase II Inhibitor F14512 Alters Reparability of the Consequent Enzyme-Linked DNA Double-Strand Breaks

(2017) Oriane Bombarde et al.   MOLECULAR CANCER THERAPEUTICS

R-ChIP Using Inactive RNase H Reveals Dynamic Coupling of R-loops with Transcriptional Pausing at Gene Promoters

(2017) Liang Chen et al.   MOLECULAR CELL

DNA G-quadruplexes in the human genome: detection, functions and therapeutic potential

(2017) Robert Hänsel-Hertsch et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Dynamic nucleoplasmic and nucleolar localization of mammalian RNase H1 in response to RNAP I transcriptional R-loops

(2017) Wen Shen et al.   NUCLEIC ACIDS RESEARCH

The effects of DNA supercoiling on G-quadruplex formation

(2017) Doreen A.T. Sekibo et al.   NUCLEIC ACIDS RESEARCH

CX-5461 is a DNA G-quadruplex stabilizer with selective lethality in BRCA1/2 deficient tumours

(2017) Hong Xu et al.   Nature Communications

Attenuation of RNA polymerase II pausing mitigates BRCA1-associated R-loop accumulation and tumorigenesis

(2017) Xiaowen Zhang et al.   Nature Communications

The Interplay between G-quadruplex and Transcription

(2017) Nayun Kim   CURRENT MEDICINAL CHEMISTRY

RNA Polymerase II Regulates Topoisomerase 1 Activity to Favor Efficient Transcription

(2016) Laura Baranello et al.   CELL

A flow cytometry-based method for a high-throughput analysis of drug-stabilized topoisomerase II cleavage complexes in human cells

(2016) Marcelo de Campos-Nebel et al.   CYTOMETRY PART A

MRN, CtIP, and BRCA1 mediate repair of topoisomerase II–DNA adducts

(2016) Tomas Aparicio et al.   JOURNAL OF CELL BIOLOGY

Genome-wide genetic screening with chemically mutagenized haploid embryonic stem cells

(2016) Josep V Forment et al.   Nature Chemical Biology

G-quadruplex structures mark human regulatory chromatin

(2016) Robert Hänsel-Hertsch et al.   NATURE GENETICS

Roles of eukaryotic topoisomerases in transcription, replication and genomic stability

(2016) Yves Pommier et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

G4-associated human diseases

(2015) N. Maizels   EMBO REPORTS

High-throughput sequencing of DNA G-quadruplex structures in the human genome

(2015) Vicki S Chambers et al.   NATURE BIOTECHNOLOGY

Cell cycle staging of individual cells by fluorescence microscopy

(2015) Vassilis Roukos et al.   Nature Protocols

The role of topoisomerase I in suppressing genome instability associated with a highly transcribed guanine-rich sequence is not restricted to preventing RNA:DNA hybrid accumulation

(2015) Puja Yadav et al.   NUCLEIC ACIDS RESEARCH

RECQ5-dependent SUMOylation of DNA topoisomerase I prevents transcription-associated genome instability

(2015) Min Li et al.   Nature Communications

Transient rRNA synthesis inhibition with CX-5461 is sufficient to elicit growth arrest and cell death in acute lymphoblastic leukemia cells

(2015) Sandeep S. Negi et al.   Oncotarget

Existence and consequences of G-quadruplex structures in DNA

(2014) Pierre Murat et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Small Molecule BMH-Compounds That Inhibit RNA Polymerase I and Cause Nucleolar Stress

(2014) K. Peltonen et al.   MOLECULAR CANCER THERAPEUTICS

DrugTargetSeqR: a genomics- and CRISPR-Cas9–based method to analyze drug targets

(2014) Corynn Kasap et al.   Nature Chemical Biology

DNA damage triggers SAF-A and RNA biogenesis factors exclusion from chromatin coupled to R-loops removal

(2014) Sébastien Britton et al.   NUCLEIC ACIDS RESEARCH

Topoisomerase I Plays a Critical Role in Suppressing Genome Instability at a Highly Transcribed G-Quadruplex-Forming Sequence

(2014) Puja Yadav et al.   PLoS Genetics

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

Transcription-Associated Genome Instability

(2013) Hélène Gaillard et al.   CHEMICAL REVIEWS

G-Quadruplex DNA as a Molecular Target for Induced Synthetic Lethality in Cancer Cells

(2013) Keith I. E. McLuckie et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Quantitative visualization of DNA G-quadruplex structures in human cells

(2013) Giulia Biffi et al.   Nature Chemistry

Replication-Dependent and Transcription-Dependent Mechanisms of DNA Double-Strand Break Induction by the Topoisomerase 2-Targeting Drug Etoposide

(2013) Margaret Tammaro et al.   PLoS One

Topoisomerase IIα promotes activation of RNA polymerase I transcription by facilitating pre-initiation complex formation

(2013) Swagat Ray et al.   Nature Communications

TDP2–Dependent Non-Homologous End-Joining Protects against Topoisomerase II–Induced DNA Breaks and Genome Instability in Cells and In Vivo

(2013) Fernando Gómez-Herreros et al.   PLoS Genetics

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

NG6: Integrated next generation sequencing storage and processing environment

(2012) Jérôme Mariette et al.   BMC GENOMICS

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

R Loops: From Transcription Byproducts to Threats to Genome Stability

(2012) Andrés Aguilera et al.   MOLECULAR CELL

Using transcriptome sequencing to identify mechanisms of drug action and resistance

(2012) Sarah A Wacker et al.   Nature Chemical Biology

Small-molecule–induced DNA damage identifies alternative DNA structures in human genes

(2012) Raphaël Rodriguez et al.   Nature Chemical Biology

Discovery of CX-5461, the First Direct and Selective Inhibitor of RNA Polymerase I, for Cancer Therapeutics

(2012) Mustapha Haddach et al.   ACS Medicinal Chemistry Letters

Identification of a Small-Molecule Inhibitor of DNA Topoisomerase II by Proteomic Profiling

(2011) Makoto Kawatani et al.   CHEMISTRY & BIOLOGY

G4 motifs correlate with promoter-proximal transcriptional pausing in human genes

(2011) J. Eddy et al.   NUCLEIC ACIDS RESEARCH

DNA Topoisomerases and Their Poisoning by Anticancer and Antibacterial Drugs

(2010) Yves Pommier et al.   CHEMISTRY & BIOLOGY

Loss of Topoisomerase I leads to R-loop-mediated transcriptional blocks during ribosomal RNA synthesis

(2010) A. El Hage et al.   GENES & DEVELOPMENT

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Collaborative Action of Brca1 and CtIP in Elimination of Covalent Modifications from Double-Strand Breaks to Facilitate Subsequent Break Repair

(2010) Kyoko Nakamura et al.   PLoS Genetics

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

The Importance of Negative Superhelicity in Inducing the Formation of G-Quadruplex and i-Motif Structures in the c-Myc Promoter: Implications for Drug Targeting and Control of Gene Expression

(2009) Daekyu Sun et al.   JOURNAL OF MEDICINAL CHEMISTRY

Topoisomerase I suppresses genomic instability by preventing interference between replication and transcription

(2009) Sandie Tuduri et al.   NATURE CELL BIOLOGY

Cellular processing pathways contribute to the activation of etoposide-induced DNA damage responses

(2008) Jia-Rong Fan et al.   DNA REPAIR

A Novel Small Molecule That Alters Shelterin Integrity and Triggers a DNA-Damage Response at Telomeres

(2008) Raphaël Rodriguez et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Hairpin structures formed by alpha satellite DNA of human centromeres are cleaved by human topoisomerase II 

(2008) A. T. Jonstrup et al.   NUCLEIC ACIDS RESEARCH

The DNA cleavage reaction of topoisomerase II: wolf in sheep's clothing

(2008) J. E. Deweese et al.   NUCLEIC ACIDS RESEARCH