A large-scale in vivo analysis reveals that TALENs are significantly more mutagenic than ZFNs generated using context-dependent assembly

An Integrated Chip for the High-Throughput Synthesis of Transcription Activator-like Effectors

(2012) Zhao Wang et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Overcoming Transcription Activator-like Effector (TALE) DNA Binding Domain Sensitivity to Cytosine Methylation

(2012) Julien Valton et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

In vivo genome editing using a high-efficiency TALEN system

(2012) Victoria M. Bedell et al.   NATURE

FLASH assembly of TALENs for high-throughput genome editing

(2012) Deepak Reyon et al.   NATURE BIOTECHNOLOGY

TAL effector RVD specificities and efficiencies

(2012) Jana Streubel et al.   NATURE BIOTECHNOLOGY

An optimized two-finger archive for ZFN-mediated gene targeting

(2012) Ankit Gupta et al.   NATURE METHODS

Targeted transcriptional activation of silent oct4 pluripotency gene by combining designer TALEs and inhibition of epigenetic modifiers

(2012) Sebastian Bultmann et al.   NUCLEIC ACIDS RESEARCH

Highly efficient generation of heritable zebrafish gene mutations using homo- and heterodimeric TALENs

(2012) Lindsay Cade et al.   NUCLEIC ACIDS RESEARCH

Iterative capped assembly: rapid and scalable synthesis of repeat-module DNA such as TAL effectors from individual monomers

(2012) Adrian W. Briggs et al.   NUCLEIC ACIDS RESEARCH

Improved Somatic Mutagenesis in Zebrafish Using Transcription Activator-Like Effector Nucleases (TALENs)

(2012) Finola E. Moore et al.   PLoS One

Simple Methods for Generating and Detecting Locus-Specific Mutations Induced with TALENs in the Zebrafish Genome

(2012) Timothy J. Dahlem et al.   PLoS Genetics

SHRiMP2: Sensitive yet Practical Short Read Mapping

(2011) Matei David et al.   BIOINFORMATICS

Evaluation and application of modularly assembled zinc-finger nucleases in zebrafish

(2011) C. Zhu et al.   DEVELOPMENT

Heritable gene targeting in zebrafish using customized TALENs

(2011) Peng Huang et al.   NATURE BIOTECHNOLOGY

Targeted gene disruption in somatic zebrafish cells using engineered TALENs

(2011) Jeffry D Sander et al.   NATURE BIOTECHNOLOGY

Efficient design and assembly of custom TALEN and other TAL effector-based constructs for DNA targeting

(2011) Tomas Cermak et al.   NUCLEIC ACIDS RESEARCH

Predicting success of oligomerized pool engineering (OPEN) for zinc finger target site sequences

(2010) Jeffry D Sander et al.   BMC BIOINFORMATICS

Selection-free zinc-finger-nuclease engineering by context-dependent assembly (CoDA)

(2010) Jeffry D Sander et al.   NATURE METHODS

Enhancing zinc-finger-nuclease activity with improved obligate heterodimeric architectures

(2010) Yannick Doyon et al.   NATURE METHODS

Genome editing with engineered zinc finger nucleases

(2010) Fyodor D. Urnov et al.   NATURE REVIEWS GENETICS

ZiFiT (Zinc Finger Targeter): an updated zinc finger engineering tool

(2010) J. D. Sander et al.   NUCLEIC ACIDS RESEARCH

High frequency targeted mutagenesis in Arabidopsis thaliana using zinc finger nucleases

(2010) F. Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Restricted spacer tolerance of a zinc finger nuclease with a six amino acid linker

(2009) Yuka Shimizu et al.   BIOORGANIC & MEDICINAL CHEMISTRY LETTERS

Gene Targeting of a Disease-Related Gene in Human Induced Pluripotent Stem and Embryonic Stem Cells

(2009) Jizhong Zou et al.   Cell Stem Cell

Targeted genome editing in human cells with zinc finger nucleases constructed via modular assembly

(2009) H. J. Kim et al.   GENOME RESEARCH

High-frequency modification of plant genes using engineered zinc-finger nucleases

(2009) Jeffrey A. Townsend et al.   NATURE

Targeted mutagenesis in zebrafish using customized zinc-finger nucleases

(2009) Jonathan E Foley et al.   Nature Protocols

Rapid Mutation of Endogenous Zebrafish Genes Using Zinc Finger Nucleases Made by Oligomerized Pool ENgineering (OPEN)

(2009) Jonathan E. Foley et al.   PLoS One

Breaking the Code of DNA Binding Specificity of TAL-Type III Effectors

(2009) J. Boch et al.   SCIENCE

A Simple Cipher Governs DNA Recognition by TAL Effectors

(2009) M. J. Moscou et al.   SCIENCE

SHRiMP: Accurate Mapping of Short Color-space Reads

(2009) Stephen M. Rumble et al.   PLoS Computational Biology

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Context-dependent DNA recognition code for C2H2 zinc-finger transcription factors

(2008) J. Liu et al.   BIOINFORMATICS

Rapid “Open-Source” Engineering of Customized Zinc-Finger Nucleases for Highly Efficient Gene Modification

(2008) Morgan L. Maeder et al.   MOLECULAR CELL

Expanding or Restricting the Target Site Repertoire of Zinc-finger Nucleases: The Inter-domain Linker as a Major Determinant of Target Site Selectivity

(2008) Eva-Maria Händel et al.   MOLECULAR THERAPY

Heritable targeted gene disruption in zebrafish using designed zinc-finger nucleases

(2008) Yannick Doyon et al.   NATURE BIOTECHNOLOGY

Targeted gene inactivation in zebrafish using engineered zinc-finger nucleases

(2008) Xiangdong Meng et al.   NATURE BIOTECHNOLOGY

Unexpected failure rates for modular assembly of engineered zinc fingers

(2008) Cherie L Ramirez et al.   NATURE METHODS

An affinity-based scoring scheme for predicting DNA-binding activities of modularly assembled zinc-finger proteins

(2008) Jeffry D. Sander et al.   NUCLEIC ACIDS RESEARCH