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

Bacteria-to-Human Protein Networks Reveal Origins of Endogenous DNA Damage

(2019) Jun Xia et al.   CELL

Interplay between DNA sequence and negative superhelicity drives R-loop structures

(2019) Robert Stolz et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

R-Loops as Cellular Regulators and Genomic Threats

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

Preserving genome integrity and function: the DNA damage response and histone modifications

(2019) Jae Jin Kim et al.   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

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

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

(2019) Andres Canela et al.   MOLECULAR CELL

BRD4 Inhibition Is Synthetic Lethal with PARP Inhibitors through the Induction of Homologous Recombination Deficiency

(2018) Chaoyang Sun et al.   CANCER CELL

BRCA1 function in the intra-S checkpoint is activated by acetylation via a pCAF/SIRT1 axis

(2018) Tyler J. Lahusen et al.   ONCOGENE

BRD4 Promotes DNA Repair and Mediates the Formation of TMPRSS2-ERG Gene Rearrangements in Prostate Cancer

(2018) Xiangyi Li et al.   Cell Reports

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

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

Comprehensive Mapping of Histone Modifications at DNA Double-Strand Breaks Deciphers Repair Pathway Chromatin Signatures

(2018) Thomas Clouaire et al.   MOLECULAR CELL

Interactome Rewiring Following Pharmacological Targeting of BET Bromodomains

(2018) Jean-Philippe Lambert et al.   MOLECULAR CELL

CORUM: the comprehensive resource of mammalian protein complexes—2019

(2018) Madalina Giurgiu et al.   NUCLEIC ACIDS RESEARCH

BET Inhibition Induces HEXIM1- and RAD51-Dependent Conflicts between Transcription and Replication

(2018) Akhil Bowry et al.   Cell Reports

Sae2/CtIP prevents R-loop accumulation in eukaryotic cells

(2018) Nodar Makharashvili et al.   eLife

ZMYM3 regulates BRCA1 localization at damaged chromatin to promote DNA repair

(2017) Justin W.C. Leung et al.   GENES & DEVELOPMENT

Discovery of a Potent, Cell Penetrant, and Selective p300/CBP-Associated Factor (PCAF)/General Control Nonderepressible 5 (GCN5) Bromodomain Chemical Probe

(2017) Philip G. Humphreys et al.   JOURNAL OF MEDICINAL CHEMISTRY

Transcription-Coupled DNA Double-Strand Break Repair: Active Genes Need Special Care

(2017) Aline Marnef et al.   JOURNAL OF MOLECULAR BIOLOGY

Systematic gene tagging using CRISPR/Cas9 in human stem cells to illuminate cell organization

(2017) Brock Roberts et al.   MOLECULAR BIOLOGY OF THE CELL

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

Regulation of DNA repair pathway choice in S and G2 phases by the NHEJ inhibitor CYREN

(2017) Nausica Arnoult et al.   NATURE

The multifaceted roles of PARP1 in DNA repair and chromatin remodelling

(2017) Arnab Ray Chaudhuri et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Functions of bromodomain-containing proteins and their roles in homeostasis and cancer

(2017) Takao Fujisawa et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Sharing the SAGA

(2017) Dominique Helmlinger et al.   TRENDS IN BIOCHEMICAL SCIENCES

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

(2017) Xiaowen Zhang et al.   Nature Communications

BET Proteins as Targets for Anticancer Treatment

(2017) Anastasios Stathis et al.   Cancer Discovery

PCAF/GCN5-Mediated Acetylation of RPA1 Promotes Nucleotide Excision Repair

(2017) Meimei Zhao et al.   Cell Reports

BET Bromodomain Inhibition Synergizes with PARP Inhibitor in Epithelial Ovarian Cancer

(2017) Sergey Karakashev et al.   Cell Reports

The BRCA1 Ubiquitin ligase function sets a new trend for remodelling in DNA repair

(2017) Ruth M. Densham et al.   Nucleus

The BRCA1 Ubiquitin ligase function sets a new trend for remodelling in DNA repair

(2017) Ruth M. Densham et al.   Nucleus

Transcription as a Threat to Genome Integrity

(2016) Hélène Gaillard et al.   Annual Review of Biochemistry

The nucleosome: orchestrating DNA damage signaling and repair within chromatin

(2016) Poonam Agarwal et al.   Biochemistry and Cell Biology

RNA Polymerase II Regulates Topoisomerase 1 Activity to Favor Efficient Transcription

(2016) Laura Baranello et al.   CELL

BET Bromodomain Inhibition Releases the Mediator Complex from Select cis -Regulatory Elements

(2016) Anand S. Bhagwat et al.   Cell Reports

The SAGA Deubiquitination Module Promotes DNA Repair and Class Switch Recombination through ATM and DNAPK-Mediated γH2AX Formation

(2016) Shaliny Ramachandran et al.   Cell Reports

Acetylation Reader Proteins: Linking Acetylation Signaling to Genome Maintenance and Cancer

(2016) Fade Gong et al.   PLoS Genetics

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

(2016) Caroline Townsend Stork et al.   eLife

Activity-Induced DNA Breaks Govern the Expression of Neuronal Early-Response Genes

(2015) Ram Madabhushi et al.   CELL

Discovery of Chemical Inhibitors of Human Bromodomains

(2015) Guangtao Zhang et al.   CHEMICAL REVIEWS

The BET Bromodomain Inhibitor OTX015 Affects Pathogenetic Pathways in Preclinical B-cell Tumor Models and Synergizes with Targeted Drugs

(2015) M. Boi et al.   CLINICAL CANCER RESEARCH

Screen identifies bromodomain protein ZMYND8 in chromatin recognition of transcription-associated DNA damage that promotes homologous recombination

(2015) Fade Gong et al.   GENES & DEVELOPMENT

BRCA1 Recruitment to Transcriptional Pause Sites Is Required for R-Loop-Driven DNA Damage Repair

(2015) Elodie Hatchi et al.   MOLECULAR CELL

BET inhibitor resistance emerges from leukaemia stem cells

(2015) Chun Yew Fong et al.   NATURE

Nuclear domain ‘knock-in’ screen for the evaluation and identification of small molecule enhancers of CRISPR-based genome editing

(2015) Jordan Pinder et al.   NUCLEIC ACIDS RESEARCH

Breaking bad: R-loops and genome integrity

(2015) Julie Sollier et al.   TRENDS IN CELL BIOLOGY

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

(2015) Min Li et al.   Nature Communications

Transcriptional elongation requires DNA break-induced signalling

(2015) Heeyoun Bunch et al.   Nature Communications

Transcription-Coupled Nucleotide Excision Repair Factors Promote R-Loop-Induced Genome Instability

(2014) Julie Sollier et al.   MOLECULAR CELL

H2B Ubiquitylation Promotes RNA Pol II Processivity via PAF1 and pTEFb

(2014) Lipeng Wu et al.   MOLECULAR CELL

R-loops induce repressive chromatin marks over mammalian gene terminators

(2014) Konstantina Skourti-Stathaki et al.   NATURE

BRCA2 prevents R-loop accumulation and associates with TREX-2 mRNA export factor PCID2

(2014) Vaibhav Bhatia et al.   NATURE

50 years of protein acetylation: from gene regulation to epigenetics, metabolism and beyond

(2014) Eric Verdin et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Transcriptionally active chromatin recruits homologous recombination at DNA double-strand breaks

(2014) François Aymard et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The complex portal - an encyclopaedia of macromolecular complexes

(2014) Birgit H.M. Meldal et al.   NUCLEIC ACIDS RESEARCH

Erasers of Histone Acetylation: The Histone Deacetylase Enzymes

(2014) E. Seto et al.   Cold Spring Harbor Perspectives in Biology

A Macrohistone Variant Links Dynamic Chromatin Compaction to BRCA1-Dependent Genome Maintenance

(2014) Simran Khurana et al.   Cell Reports

Control of Embryonic Stem Cell Identity by BRD4-Dependent Transcriptional Elongation of Super-Enhancer-Associated Pluripotency Genes

(2014) Raffaella Di Micco et al.   Cell Reports

Bromodomains as therapeutic targets in cancer

(2013) I. Barbieri et al.   Briefings in Functional Genomics

SAINTexpress: Improvements and additional features in Significance Analysis of INTeractome software

(2013) Guoci Teo et al.   Journal of Proteomics

BRD4 Coordinates Recruitment of Pause Release Factor P-TEFb and the Pausing Complex NELF/DSIF To Regulate Transcription Elongation of Interferon-Stimulated Genes

(2013) M. C. Patel et al.   MOLECULAR AND CELLULAR BIOLOGY

Regulation of DNA Damage Responses by Ubiquitin and SUMO

(2013) Stephen P. Jackson et al.   MOLECULAR CELL

Double strand break repair functions of histone H2AX

(2013) Ralph Scully et al.   MUTATION RESEARCH-FUNDAMENTAL AND MOLECULAR MECHANISMS OF MUTAGENESIS

Mammalian DNA repair: HATs and HDACs make their mark through histone acetylation

(2013) Fade Gong et al.   MUTATION RESEARCH-FUNDAMENTAL AND MOLECULAR MECHANISMS OF MUTAGENESIS

53BP1 is a reader of the DNA-damage-induced H2A Lys 15 ubiquitin mark

(2013) Amélie Fradet-Turcotte et al.   NATURE

The bromodomain protein Brd4 insulates chromatin from DNA damage signalling

(2013) Scott R. Floyd et al.   NATURE

Double-strand break repair: 53BP1 comes into focus

(2013) Stephanie Panier et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Acetylation limits 53BP1 association with damaged chromatin to promote homologous recombination

(2013) Jiangbo Tang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Histone marks: repairing DNA breaks within the context of chromatin

(2012) Kyle M. Miller et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Histone Recognition and Large-Scale Structural Analysis of the Human Bromodomain Family

(2012) Panagis Filippakopoulos et al.   CELL

The bromodomain interaction module

(2012) Panagis Filippakopoulos et al.   FEBS LETTERS

Perceiving the epigenetic landscape through histone readers

(2012) Catherine A Musselman et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

BRD4 is an atypical kinase that phosphorylates Serine2 of the RNA Polymerase II carboxy-terminal domain

(2012) B. N. Devaiah et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bromodomains as therapeutic targets

(2011) Susanne Muller et al.   EXPERT REVIEWS IN MOLECULAR MEDICINE

Dynamics of DNA damage response proteins at DNA breaks: a focus on protein modifications

(2011) S. E. Polo et al.   GENES & DEVELOPMENT

Inhibition of BET recruitment to chromatin as an effective treatment for MLL-fusion leukaemia

(2011) Mark A. Dawson et al.   NATURE

More than just a focus: The chromatin response to DNA damage and its role in genome integrity maintenance

(2011) Jiri Lukas et al.   NATURE CELL BIOLOGY

Histone H2B ubiquitylation disrupts local and higher-order chromatin compaction

(2011) Beat Fierz et al.   Nature Chemical Biology

ATM-Dependent Chromatin Changes Silence Transcription In cis to DNA Double-Strand Breaks

(2010) Niraj M. Shanbhag et al.   CELL

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

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

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

(2010) Jaakko L.O. Pohjoismäki et al.   JOURNAL OF MOLECULAR BIOLOGY

The DNA Damage Response: Making It Safe to Play with Knives

(2010) Alberto Ciccia et al.   MOLECULAR CELL

Molecular mechanisms of micronucleus, nucleoplasmic bridge and nuclear bud formation in mammalian and human cells

(2010) M. Fenech et al.   MUTAGENESIS

Selective inhibition of BET bromodomains

(2010) Panagis Filippakopoulos et al.   NATURE

Androgen-induced TOP2B-mediated double-strand breaks and prostate cancer gene rearrangements

(2010) Michael C Haffner et al.   NATURE GENETICS

Genomic instability — an evolving hallmark of cancer

(2010) Simona Negrini et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Human HDAC1 and HDAC2 function in the DNA-damage response to promote DNA nonhomologous end-joining

(2010) Kyle M Miller et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The DNA-damage response in human biology and disease

(2009) Stephen P. Jackson et al.   NATURE

A human 5′-tyrosyl DNA phosphodiesterase that repairs topoisomerase-mediated DNA damage

(2009) Felipe Cortes Ledesma et al.   NATURE

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

(2009) Sandie Tuduri et al.   NATURE CELL BIOLOGY

A TFTC/STAGA Module Mediates Histone H2A and H2B Deubiquitination, Coactivates Nuclear Receptors, and Counteracts Heterochromatin Silencing

(2008) Yue Zhao et al.   MOLECULAR CELL

Alternative-NHEJ Is a Mechanistically Distinct Pathway of Mammalian Chromosome Break Repair

(2008) Nicole Bennardo et al.   PLoS Genetics