Nbs1 ChIP-Seq Identifies Off-Target DNA Double-Strand Breaks Induced by AID in Activated Splenic B Cells

Ligand-Dependent Enhancer Activation Regulated by Topoisomerase-I Activity

(2015) Janusz Puc et al.   CELL

RNA Exosome-Regulated Long Non-Coding RNA Transcription Controls Super-Enhancer Activity

(2015) Evangelos Pefanis et al.   CELL

Short Inverted Repeats Are Hotspots for Genetic Instability: Relevance to Cancer Genomes

(2015) Steve Lu et al.   Cell Reports

DNA Damage Response Factors from Diverse Pathways, Including DNA Crosslink Repair, Mediate Alternative End Joining

(2015) Sean M. Howard et al.   PLoS Genetics

B Cell Super-Enhancers and Regulatory Clusters Recruit AID Tumorigenic Activity

(2014) Jason Qian et al.   CELL

Convergent Transcription at Intragenic Super-Enhancers Targets AID-Initiated Genomic Instability

(2014) Fei-Long Meng et al.   CELL

Impact of alternative DNA structures on DNA damage, DNA repair, and genetic instability

(2014) Guliang Wang et al.   DNA REPAIR

ATM Increases Activation-Induced Cytidine Deaminase Activity at Downstream S Regions during Class-Switch Recombination

(2014) L. Khair et al.   JOURNAL OF IMMUNOLOGY

Mismatch Repair Proteins and AID Activity Are Required for the Dominant Negative Function of C-Terminally Deleted AID in Class Switching

(2014) A. J. Ucher et al.   JOURNAL OF IMMUNOLOGY

IgH Chain Class Switch Recombination: Mechanism and Regulation

(2014) Janet Stavnezer et al.   JOURNAL OF IMMUNOLOGY

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

(2014) Julie Sollier et al.   MOLECULAR CELL

Sae2 promotes dsDNA endonuclease activity within Mre11–Rad50–Xrs2 to resect DNA breaks

(2014) Elda Cannavo et al.   NATURE

Noncoding RNA transcription targets AID to divergently transcribed loci in B cells

(2014) Evangelos Pefanis et al.   NATURE

Epigenetic targeting of activation-induced cytidine deaminase

(2014) Qiao Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Selective Inhibition of Tumor Oncogenes by Disruption of Super-Enhancers

(2013) Jakob Lovén et al.   CELL

Identification of Early Replicating Fragile Sites that Contribute to Genome Instability

(2013) Jacqueline H. Barlow et al.   CELL

Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes

(2013) Warren A. Whyte et al.   CELL

E3-ubiquitin ligase Nedd4 determines the fate of AID-associated RNA polymerase II in B cells

(2013) J. Sun et al.   GENES & DEVELOPMENT

Attenuating homologous recombination stimulates an AID-induced antileukemic effect

(2013) Kristin R. Lamont et al.   JOURNAL OF EXPERIMENTAL MEDICINE

DNA repair genes are selectively mutated in diffuse large B cell lymphomas

(2013) Noel FCC de Miranda et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Alternative End-Joining and Classical Nonhomologous End-Joining Pathways Repair Different Types of Double-Strand Breaks during Class-Switch Recombination

(2013) E. M. Cortizas et al.   JOURNAL OF IMMUNOLOGY

Multiple Transcription Factor Binding Sites Predict AID Targeting in Non-Ig Genes

(2013) J. L. Duke et al.   JOURNAL OF IMMUNOLOGY

DNA Double-Strand Break Repair Pathway Choice Is Directed by Distinct MRE11 Nuclease Activities

(2013) Atsushi Shibata et al.   MOLECULAR CELL

Microhomology-mediated End Joining and Homologous Recombination share the initial end resection step to repair DNA double-strand breaks in mammalian cells

(2013) L. N. Truong et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Break-Induced Replication Repair of Damaged Forks Induces Genomic Duplications in Human Cells

(2013) Lorenzo Costantino et al.   SCIENCE

The Ku Heterodimer and the Metabolism of Single-Ended DNA Double-Strand Breaks

(2013) Alessia Balestrini et al.   Cell Reports

RPA Accumulation during Class Switch Recombination Represents 5′–3′ DNA-End Resection during the S–G2/M Phase of the Cell Cycle

(2013) Arito Yamane et al.   Cell Reports

Ectopic restriction of DNA repair reveals that UNG2 excises AID-induced uracils predominantly or exclusively during G1 phase

(2012) George Sharbeen et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Activation-Induced Cytidine Deaminase-Initiated Off-Target DNA Breaks Are Detected and Resolved during S Phase

(2012) M. G. Hasham et al.   JOURNAL OF IMMUNOLOGY

Close Proximity to Igh Is a Contributing Factor to AID-Mediated Translocations

(2012) Pedro P. Rocha et al.   MOLECULAR CELL

Noncanonical Mismatch Repair as a Source of Genomic Instability in Human Cells

(2012) Javier Peña-Diaz et al.   MOLECULAR CELL

Reassessing genomic targeting of AID

(2012) Marc A Hogenbirk et al.   NATURE IMMUNOLOGY

The E3 ligase RNF8 regulates KU80 removal and NHEJ repair

(2012) Lin Feng et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Translocation-Capture Sequencing Reveals the Extent and Nature of Chromosomal Rearrangements in B Lymphocytes

(2011) Isaac A. Klein et al.   CELL

Genome-wide Translocation Sequencing Reveals Mechanisms of Chromosome Breaks and Rearrangements in B Cells

(2011) Roberto Chiarle et al.   CELL

The RNA Exosome Targets the AID Cytidine Deaminase to Both Strands of Transcribed Duplex DNA Substrates

(2011) Uttiya Basu et al.   CELL

Factors determining DNA double-strand break repair pathway choice in G2 phase

(2011) Atsushi Shibata et al.   EMBO JOURNAL

AID Binds Cooperatively with UNG and Msh2-Msh6 to Ig Switch Regions Dependent upon the AID C Terminus

(2011) S. Ranjit et al.   JOURNAL OF IMMUNOLOGY

Activation-Induced Cytidine Deaminase Induces Reproducible DNA Breaks at Many Non-Ig Loci in Activated B Cells

(2011) Ori Staszewski et al.   MOLECULAR CELL

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

(2011) Lamia Wahba et al.   MOLECULAR CELL

Human Senataxin Resolves RNA/DNA Hybrids Formed at Transcriptional Pause Sites to Promote Xrn2-Dependent Termination

(2011) Konstantina Skourti-Stathaki et al.   MOLECULAR CELL

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

Activation-Induced Cytidine Deaminase Targets DNA at Sites of RNA Polymerase II Stalling by Interaction with Spt5

(2010) Rushad Pavri et al.   CELL

p53 Represses Class Switch Recombination to IgG2a through Its Antioxidant Function

(2010) J. E. J. Guikema et al.   JOURNAL OF IMMUNOLOGY

Pathways for Double-strand Break Repair in Genetically Unstable Z-DNA-forming Sequences

(2010) Diem T. Kha et al.   JOURNAL OF MOLECULAR BIOLOGY

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

Deep-sequencing identification of the genomic targets of the cytidine deaminase AID and its cofactor RPA in B lymphocytes

(2010) Arito Yamane et al.   NATURE IMMUNOLOGY

Widespread genomic breaks generated by activation-induced cytidine deaminase are prevented by homologous recombination

(2010) Muneer G Hasham et al.   NATURE IMMUNOLOGY

CtIP promotes microhomology-mediated alternative end joining during class-switch recombination

(2010) Mieun Lee-Theilen et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

An essential role for CtIP in chromosomal translocation formation through an alternative end-joining pathway

(2010) Yu Zhang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Alternative end-joining catalyzes robust IgH locus deletions and translocations in the combined absence of ligase 4 and Ku70

(2010) C. Boboila et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A clustering approach for identification of enriched domains from histone modification ChIP-Seq data

(2009) Chongzhi Zang et al.   BIOINFORMATICS

Nuclear Receptor-Induced Chromosomal Proximity and DNA Breaks Underlie Specific Translocations in Cancer

(2009) Chunru Lin et al.   CELL

Immunoglobulin switch μ sequence causes RNA polymerase II accumulation and reduces dA hypermutation

(2009) Deepa Rajagopal et al.   JOURNAL OF EXPERIMENTAL MEDICINE

S region sequence, RNA polymerase II, and histone modifications create chromatin accessibility during class switch recombination

(2009) Lili Wang et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Multiple functions of MRN in end-joining pathways during isotype class switching

(2009) Maria Dinkelmann et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Mechanism and Regulation of Class Switch Recombination

(2008) Janet Stavnezer et al.   Annual Review of Immunology

Empirical methods for controlling false positives and estimating confidence in ChIP-Seq peaks

(2008) David A Nix et al.   BMC BIOINFORMATICS

AID Is Required for the Chromosomal Breaks in c-myc that Lead to c-myc/IgH Translocations

(2008) Davide F. Robbiani et al.   CELL

Two levels of protection for the B cell genome during somatic hypermutation

(2008) Man Liu et al.   NATURE

Molecular subtypes of diffuse large B-cell lymphoma arise by distinct genetic pathways

(2008) G. Lenz et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MMEJ repair of double-strand breaks (director’s cut): deleted sequences and alternative endings

(2008) Mitch McVey et al.   TRENDS IN GENETICS