E-TALEN: a web tool to design TALENs for genome engineering

@article{Heigwer2013ETALENAW,
  title={E-TALEN: a web tool to design TALENs for genome engineering},
  author={Florian Heigwer and Grainne Kerr and Nike Walther and Kathrin Glaeser and Oliver Pelz and Marco Breinig and Michael Boutros},
  journal={Nucleic Acids Research},
  year={2013},
  volume={41},
  pages={e190 - e190}
}
Use of transcription activator-like effector nucleases (TALENs) is a promising new technique in the field of targeted genome engineering, editing and reverse genetics. Its applications span from introducing knockout mutations to endogenous tagging of proteins and targeted excision repair. Owing to this wide range of possible applications, there is a need for fast and user-friendly TALEN design tools. We developed E-TALEN (http://www.e-talen.org), a web-based tool to design TALENs for… 
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References

SHOWING 1-10 OF 29 REFERENCES
Mojo Hand, a TALEN design tool for genome editing applications
TLDR
The web-based program Mojo Hand enables the rapid identification of TAL binding sites for use in TALEN design and enables scientists to more rapidly deploy TALens for genome editing applications.
Efficient design and assembly of custom TALEN and other TAL effector-based constructs for DNA targeting
TLDR
A method and reagents for efficiently assembling TALEN constructs with custom repeat arrays are presented and design guidelines based on naturally occurring TAL effectors and their binding sites are described.
TAL Effector-Nucleotide Targeter (TALE-NT) 2.0: tools for TAL effector design and target prediction
TLDR
A suite of web-based tools called TAL Effector-Nucleotide Targeter 2.0 that enables design of custom TAL effector repeat arrays for desired targets and prediction of Tal effector binding sites, ranked by likelihood, in a genome, promoterome or other sequence of interest.
A library of TAL effector nucleases spanning the human genome
TLDR
A genome-scale collection of TALENs for efficient and scalable gene targeting in human cells is presented and single- and double-gene-knockout cells in which NF-κB signaling pathways were disrupted showed unambiguous suppression of signal transduction.
In vivo Genome Editing Using High Efficiency TALENs
TLDR
Improvements in artificial transcription activator-like effector nucleases (TALENs) provide a powerful new approach for targeted zebrafish genome editing and functional genomic applications and offer the potential to model genetic variation as well as to generate targeted conditional alleles.
A TALE of two nucleases: gene targeting for the masses?
TLDR
TALENs promise to bring gene targeting to the majority of zebrafish laboratories, and is simpler, potentially more reliable, and in the few cases examined, shows fewer off-target effects than corresponding ZFNs.
TALENs: a widely applicable technology for targeted genome editing
TLDR
The newly-developed transcription activator-like effector nucleases (TALENs) comprise a nonspecific DNA-cleaving nuclease fused to a DNA-binding domain that can be easily engineered so that TALens can target essentially any sequence.
GenomeRNAi: a database for cell-based and in vivo RNAi phenotypes, 2013 update
TLDR
The new version of the GenomeRNAi database has undergone a complete re-design of the user interface, providing an intuitive, flexible framework for additional functionalities, and structured annotation guidelines have been established to facilitate consistent curation.
Compact designer TALENs for efficient genome engineering
TLDR
A significant improvement to the standard transcription activator-like effector nuclease architecture is reported by leveraging the partially specific I-TevI catalytic domain to create a new class of monomeric, DNA-cleaving enzymes.
A large-scale in vivo analysis reveals that TALENs are significantly more mutagenic than ZFNs generated using context-dependent assembly
TLDR
It is found that TALENs are significantly more likely to be mutagenic and induce an average of 10-fold more mutations than ZFNs, making them the superior technology for targeted mutagenesis in zebrafish, and likely other animal models.
...
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