Can Designer Indels Be Tailored by Gene Editing?

Author Correction: Predictable and precise template-free CRISPR editing of pathogenic variants

(2019) Max W. Shen et al.   NATURE

The Gene Sculpt Suite: a set of tools for genome editing

(2019) Carla M Mann et al.   NUCLEIC ACIDS RESEARCH

Robust activation of microhomology-mediated end joining for precision gene editing applications

(2018) Hirotaka Ata et al.   PLoS Genetics

Predictable and precise template-free CRISPR editing of pathogenic variants

(2018) Max W. Shen et al.   NATURE

Predicting the mutations generated by repair of Cas9-induced double-strand breaks

(2018) Felicity Allen et al.   NATURE BIOTECHNOLOGY

Orthogonal Cas9–Cas9 chimeras provide a versatile platform for genome editing

(2018) Mehmet Fatih Bolukbasi et al.   Nature Communications

Machine learning finds Cas9-edited genotypes

(2018) Sangsu Bae et al.   Nature Biomedical Engineering

Contribution of canonical nonhomologous end joining to chromosomal rearrangements is enhanced by ATM kinase deficiency

(2017) Ragini Bhargava et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The genome editing revolution: A CRISPR-Cas TALE off-target story

(2016) Stefano Stella et al.   BIOESSAYS

Unsolved mystery: the role of BRCA1 in DNA end-joining

(2016) Janapriya Saha et al.   JOURNAL OF RADIATION RESEARCH

Biasing genome-editing events toward precise length deletions with an RNA-guided TevCas9 dual nuclease

(2016) Jason M. Wolfs et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Non-homologous DNA increases gene disruption efficiency by altering DNA repair outcomes

(2016) C. D. Richardson et al.   Nature Communications

Systematic discovery of complex insertions and deletions in human cancers

(2015) Kai Ye et al.   NATURE MEDICINE

ATM-dependent phosphorylation of MRE11 controls extent of resection during homology directed repair by signalling through Exonuclease 1

(2015) Amanda W. Kijas et al.   NUCLEIC ACIDS RESEARCH

Damaging the Integrated HIV Proviral DNA with TALENs

(2015) Christy L. Strong et al.   PLoS One

DNA ligase III and DNA ligase IV carry out genetically distinct forms of end joining in human somatic cells

(2014) Sehyun Oh et al.   DNA REPAIR

DNA interrogation by the CRISPR RNA-guided endonuclease Cas9

(2014) Samuel H. Sternberg et al.   NATURE

Mechanisms underlying mutational signatures in human cancers

(2014) Thomas Helleday et al.   NATURE REVIEWS GENETICS

MegaTevs: single-chain dual nucleases for efficient gene disruption

(2014) Jason M. Wolfs et al.   NUCLEIC ACIDS RESEARCH

Repair of Site-Specific DNA Double-Strand Breaks in Barley Occurs via Diverse Pathways Primarily Involving the Sister Chromatid

(2014) G. T. H. Vu et al.   PLANT CELL

Is Non-Homologous End-Joining Really an Inherently Error-Prone Process?

(2014) Mireille Bétermier et al.   PLoS Genetics

SVA retrotransposon insertion-associated deletion represents a novel mutational mechanism underlying large genomic copy number changes with non-recurrent breakpoints

(2014) Julia Vogt et al.   GENOME BIOLOGY

DNA repair mechanisms in dividing and non-dividing cells

(2013) Teruaki Iyama et al.   DNA REPAIR

Gene therapy for PIDs: Progress, pitfalls and prospects

(2013) Sayandip Mukherjee et al.   GENE

The origin, evolution, and functional impact of short insertion-deletion variants identified in 179 human genomes

(2013) S. B. Montgomery et al.   GENOME RESEARCH

Cancer translocations in human cells induced by zinc finger and TALE nucleases

(2013) M. Piganeau et al.   GENOME RESEARCH

BRCA1-Ku80 Protein Interaction Enhances End-joining Fidelity of Chromosomal Double-strand Breaks in the G1Phase of the Cell Cycle

(2013) Guochun Jiang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

TALEN or Cas9 – Rapid, Efficient and Specific Choices for Genome Modifications

(2013) Chuanxian Wei et al.   Journal of Genetics and Genomics

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

Structures of Intermediates along the Catalytic Cycle of Terminal Deoxynucleotidyltransferase: Dynamical Aspects of the Two-Metal Ion Mechanism

(2013) Jérôme Gouge et al.   JOURNAL OF MOLECULAR BIOLOGY

Inactivation of Hepatitis B Virus Replication in Cultured Cells and In Vivo with Engineered Transcription Activator-Like Effector Nucleases

(2013) Kristie Bloom et al.   MOLECULAR THERAPY

High-frequency off-target mutagenesis induced by CRISPR-Cas nucleases in human cells

(2013) Yanfang Fu et al.   NATURE BIOTECHNOLOGY

TALENs and ZFNs are associated with different mutation signatures

(2013) Yongsub Kim et al.   NATURE METHODS

A specific N-terminal extension of the 8 kDa domain is required for DNA end-bridging by human Polµ and Polλ

(2013) Maria Jose Martin et al.   NUCLEIC ACIDS RESEARCH

Zinc-finger-nucleases mediate specific and efficient excision of HIV-1 proviral DNA from infected and latently infected human T cells

(2013) Xiying Qu et al.   NUCLEIC ACIDS RESEARCH

Targeted Gene Therapy of Xeroderma Pigmentosum Cells Using Meganuclease and TALEN™

(2013) Aurélie Dupuy et al.   PLoS One

The CRISPR Craze

(2013) E. Pennisi   SCIENCE

ZFN, TALEN, and CRISPR/Cas-based methods for genome engineering

(2013) Thomas Gaj et al.   TRENDS IN BIOTECHNOLOGY

Efficient gene targeting by TAL effector nucleases coinjected with exonucleases in zygotes

(2013) Tomoji Mashimo et al.   Scientific Reports

Harnessing the CRISPR/Cas9 system to disrupt latent HIV-1 provirus

(2013) Hirotaka Ebina et al.   Scientific Reports

Comparing Zinc Finger Nucleases and Transcription Activator-Like Effector Nucleases for Gene Targeting in Drosophila

(2013) Kelly J. Beumer et al.   G3-Genes Genomes Genetics

Type I-E CRISPR-Cas Systems Discriminate Target from Non-Target DNA through Base Pairing-Independent PAM Recognition

(2013) Edze R. Westra et al.   PLoS Genetics

Essential Features and Rational Design of CRISPR RNAs that Function with the Cas RAMP Module Complex to Cleave RNAs

(2012) Caryn R. Hale et al.   MOLECULAR CELL

Mre11 regulates CtIP-dependent double-strand break repair by interaction with CDK2

(2012) Jeffrey Buis et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The zinc-finger domains of PARP1 cooperate to recognize DNA strand breaks

(2012) Ammar A E Ali et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

DNA expansions generated by human Polµ on iterative sequences

(2012) Ana Aza et al.   NUCLEIC ACIDS RESEARCH

Terminal deoxynucleotidyl transferase requires KU80 and XRCC4 to promote N-addition at non-V(D)J chromosomal breaks in non-lymphoid cells

(2012) Imenne Boubakour-Azzouz et al.   NUCLEIC ACIDS RESEARCH

Targeting G with TAL Effectors: A Comparison of Activities of TALENs Constructed with NN and NK Repeat Variable Di-Residues

(2012) Michelle L. Christian et al.   PLoS One

Cas9-crRNA ribonucleoprotein complex mediates specific DNA cleavage for adaptive immunity in bacteria

(2012) G. Gasiunas et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structures of Human Exonuclease 1 DNA Complexes Suggest a Unified Mechanism for Nuclease Family

(2011) Jillian Orans et al.   CELL

Kinetic analysis of DNA double-strand break repair pathways in Arabidopsis

(2011) Cyril Charbonnel et al.   DNA REPAIR

DNA polymerase μ is a global player in the repair of non-homologous end-joining substrates

(2011) Romain Chayot et al.   DNA REPAIR

Ataxia telangiectasia mutated (ATM) modulates long interspersed element-1 (L1) retrotransposition in human neural stem cells

(2011) N. G. Coufal et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Mechanism of Double-Strand DNA Break Repair by the Nonhomologous DNA End-Joining Pathway

(2010) Michael R. Lieber   Annual Review of Biochemistry

Human DNA Ligase III Recognizes DNA Ends by Dynamic Switching between Two DNA-Bound States

(2010) Elizabeth Cotner-Gohara et al.   BIOCHEMISTRY

Probing the DNA-Binding Affinity and Specificity of Designed Zinc Finger Proteins

(2010) Derek Jantz et al.   BIOPHYSICAL JOURNAL

Targeting DNA Double-Strand Breaks with TAL Effector Nucleases

(2010) M. Christian et al.   GENETICS

Small insertions and deletions (INDELs) in human genomes

(2010) J. M. Mullaney et al.   HUMAN MOLECULAR GENETICS

Directed Evolution of an Enhanced and Highly Efficient FokI Cleavage Domain for Zinc Finger Nucleases

(2010) Jing Guo et al.   JOURNAL OF MOLECULAR BIOLOGY

A Simple Method to Confirm and Size Deletion, Duplication, and Insertion Mutations Detected by Sequence Analysis

(2010) Lawrence N. Hjelm et al.   JOURNAL OF MOLECULAR DIAGNOSTICS

A TALE nuclease architecture for efficient genome editing

(2010) Jeffrey C Miller et al.   NATURE BIOTECHNOLOGY

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

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

DNA resection in eukaryotes: deciding how to fix the break

(2010) Pablo Huertas   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The I-CreI meganuclease and its engineered derivatives: applications from cell modification to gene therapy

(2010) S. Arnould et al.   PROTEIN ENGINEERING DESIGN & SELECTION

Structural Basis for DNA Strand Separation by the Unconventional Winged-Helix Domain of RecQ Helicase WRN

(2010) Ken Kitano et al.   STRUCTURE

Ku Regulates the Non-Homologous End Joining Pathway Choice of DNA Double-Strand Break Repair in Human Somatic Cells

(2010) Farjana Fattah et al.   PLoS Genetics

Meta-analysis: Its strengths and limitations

(2009) E. WALKER et al.   CLEVELAND CLINIC JOURNAL OF MEDICINE

Role of mammalian Mre11 in classical and alternative nonhomologous end joining

(2009) Anyong Xie et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Role of Mre11 in chromosomal nonhomologous end joining in mammalian cells

(2009) Emilie Rass et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

A Simple Cipher Governs DNA Recognition by TAL Effectors

(2009) M. J. Moscou et al.   SCIENCE

Genetic Evidence That the Non-Homologous End-Joining Repair Pathway Is Involved in LINE Retrotransposition

(2009) Jun Suzuki et al.   PLoS Genetics

Werner Protein Cooperates with the XRCC4-DNA Ligase IV Complex in End-Processing†

(2008) Rika Kusumoto et al.   BIOCHEMISTRY

ERCC1/XPF limits L1 retrotransposition

(2008) Stephen L. Gasior et al.   DNA REPAIR

Crystal structure of I-DmoI in complex with its target DNA provides new insights into meganuclease engineering

(2008) M. J. Marcaida et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Absence ofKu70Gene Obliterates X-Ray-InducedlacZMutagenesis of Small Deletions in Mouse Tissues

(2008) Yoshihiko Uehara et al.   RADIATION RESEARCH