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FLASH assembly of TALENs for high-throughput genome editing

Transcription activator–like effector nucleases (TALENs) enable genetic modification at specific sites in a genome. Reyon et al. present a method for high-throughput generation of TALENs, facilitating large-scale genome engineering.

Deepak Reyon
Shengdar Q Tsai
J Keith Joung
Research08 Apr 2012
Nature Biotechnology

Volume: 30, P: 460-465
Robust, synergistic regulation of human gene expression using TALE activators

TAL effector (TALE)–based transcription factors robustly induce transcription when targeted to DNase I hypersensitive sites in a gene promoter in human cells, even more so when several TALE transcription factors work in synergy at the same promoter. Tunable expression of endogenous genes will be of great interest in basic research and in synthetic biology.

Morgan L Maeder
Samantha J Linder
J Keith Joung
Research10 Feb 2013
Nature Methods

Volume: 10, P: 243-245
Locus-specific editing of histone modifications at endogenous enhancers

The function of specific enhancers is studied using TAL effectors fused to a histone demethylase.

Eric M Mendenhall
Kaylyn E Williamson
Bradley E Bernstein
Research01 Dec 2013
Nature Biotechnology

Volume: 31, P: 1133-1136
High-frequency off-target mutagenesis induced by CRISPR-Cas nucleases in human cells

CAS9 nucleases, a new tool for genome editing, show significant offtarget activity.

Yanfang Fu
Jennifer A Foden
Jeffry D Sander
Research23 Jun 2013
Nature Biotechnology

Volume: 31, P: 822-826
Selection-free zinc-finger-nuclease engineering by context-dependent assembly (CoDA)

Context-dependent assembly (CoDA) of zinc finger nucleases is reported. Starting from an archive of zinc finger modules known to function well together, effective multifinger arrays can be constructed using standard techniques. Also in this issue, Doyon et al. report rational design of nucleases with improved cleavage activity.

Jeffry D Sander
Elizabeth J Dahlborg
J Keith Joung
Research12 Dec 2010
Nature Methods

Volume: 8, P: 67-69
Efficient genome editing in zebrafish using a CRISPR-Cas system

A CRISPR-Cas system allows editing of the genome in zebrafish embryos.

Woong Y Hwang
Yanfang Fu
J Keith Joung
Research29 Jan 2013
Nature Biotechnology

Volume: 31, P: 227-229
Context influences on TALE–DNA binding revealed by quantitative profiling

TALE proteins are popular tools for genome engineering because they can recognize specific DNA sequences, however off-target effects are a routine problem. Here Rogers and Barrera et al. comprehensively map TALE–DNA interactions to develop a computational model to predict binding specificity.

Julia M. Rogers
Luis A. Barrera
Martha L. Bulyk
ResearchOpen Access11 Jun 2015
Nature Communications

Volume: 6, P: 1-10
Dimeric CRISPR RNA-guided FokI nucleases for highly specific genome editing

A fusion of the FokI nuclease and a catalytically inactive Cas9 is a highly specific genome editing tool.

Shengdar Q Tsai
Nicolas Wyvekens
J Keith Joung
Research25 Apr 2014
Nature Biotechnology

Volume: 32, P: 569-576
Broad specificity profiling of TALENs results in engineered nucleases with improved DNA-cleavage specificity

High-throughput in vitro analysis of TALE nuclease (TALEN) cleavage specificity gives insight into the mechanism of TALE binding and allows the design of TALENs with lower off-target activity.

John P Guilinger
Vikram Pattanayak
David R Liu
Research16 Feb 2014
Nature Methods

Volume: 11, P: 429-435
Targeted disruption of DNMT1, DNMT3A and DNMT3B in human embryonic stem cells

Alexander Meissner and colleagues use CRISPR/Cas9 genome editing to inactivate the DNA methyltransferases DNMT1, DNMT3A and DNMT3B in human embryonic stem cells (ESCs). They find an essential role for DNMT1 in human ESCs and generate genome-wide maps of the DNA methylation changes that occur following inactivation of these enzymes.

Jing Liao
Rahul Karnik
Alexander Meissner
Research30 Mar 2015
Nature Genetics

Volume: 47, P: 469-478
Response to “Unexpected mutations after CRISPR–Cas9 editing in vivo”

Christopher J Wilson
Tim Fennell
Vic E Myer
Correspondence30 Mar 2018
Nature Methods

Volume: 15, P: 236-237
Targeted gene disruption in somatic zebrafish cells using engineered TALENs

Jeffry D Sander
Lindsay Cade
Jing-Ruey J Yeh
Correspondence01 Aug 2011
Nature Biotechnology

Volume: 29, P: 697-698
Development of a gene-editing approach to restore vision loss in Leber congenital amaurosis type 10

In human cells, a humanized mouse model and non-human primates, CRISPR/Cas9 corrects the splicing defect in a gene associated with congenital blindness.

Morgan L. Maeder
Michael Stefanidakis
Haiyan Jiang
Research21 Jan 2019
Nature Medicine

Volume: 25, P: 229-233
Improving CRISPR-Cas nuclease specificity using truncated guide RNAs

Guide RNAs with shorter regions of complementarity to target sites reduce off-target effects.

Yanfang Fu
Jeffry D Sander
J Keith Joung
Research26 Jan 2014
Nature Biotechnology

Volume: 32, P: 279-284
Targeted DNA demethylation and activation of endogenous genes using programmable TALE-TET1 fusion proteins

A fusion protein comprising a TALE DNA-targeting domain and the 5-methylcytosine hydroxylase TET1 enables investigation of the function of specific DNA methylation events.

Morgan L Maeder
James F Angstman
J Keith Joung
Research01 Dec 2013
Nature Biotechnology

Volume: 31, P: 1137-1142
Disruption of the kringle 1 domain of prothrombin leads to late onset mortality in zebrafish

Steven J. Grzegorski
Zhilian Hu
Jordan A. Shavit
ResearchOpen Access04 Mar 2020
Scientific Reports

Volume: 10, P: 1-13

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FLASH assembly of TALENs for high-throughput genome editing

Robust, synergistic regulation of human gene expression using TALE activators

Locus-specific editing of histone modifications at endogenous enhancers

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

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

Efficient genome editing in zebrafish using a CRISPR-Cas system

Context influences on TALE–DNA binding revealed by quantitative profiling

Dimeric CRISPR RNA-guided FokI nucleases for highly specific genome editing

Broad specificity profiling of TALENs results in engineered nucleases with improved DNA-cleavage specificity

Targeted disruption of DNMT1, DNMT3A and DNMT3B in human embryonic stem cells

Response to “Unexpected mutations after CRISPR–Cas9 editing in vivo”

Targeted gene disruption in somatic zebrafish cells using engineered TALENs

Development of a gene-editing approach to restore vision loss in Leber congenital amaurosis type 10

Improving CRISPR-Cas nuclease specificity using truncated guide RNAs

Targeted DNA demethylation and activation of endogenous genes using programmable TALE-TET1 fusion proteins

Disruption of the kringle 1 domain of prothrombin leads to late onset mortality in zebrafish

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