TAL Effector-Nucleotide Targeter (TALE-NT) 2.0: tools for TAL effector design and target prediction

@article{Doyle2012TALET,
  title={TAL Effector-Nucleotide Targeter (TALE-NT) 2.0: tools for TAL effector design and target prediction},
  author={Erin L. Doyle and Nicholas J. Booher and Daniel S. Standage and Daniel F. Voytas and Volker P. Brendel and John K. VanDyk and Adam J. Bogdanove},
  journal={Nucleic Acids Research},
  year={2012},
  volume={40},
  pages={W117 - W122}
}
Transcription activator-like (TAL) effectors are repeat-containing proteins used by plant pathogenic bacteria to manipulate host gene expression. Repeats are polymorphic and individually specify single nucleotides in the DNA target, with some degeneracy. A TAL effector-nucleotide binding code that links repeat type to specified nucleotide enables prediction of genomic binding sites for TAL effectors and customization of TAL effectors for use in DNA targeting, in particular as custom… 

Computational and experimental analysis of TAL effector-DNA binding

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It is demonstrated that TALgetter successfully predicts known TAL effector target sites and often yields a greater number of predictions that are consistent with up-regulation in gene expression microarrays than an existing approach, Target Finder of the TALE-NT suite.

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The assembly of designer TALEs is described, their expanding range of current and potential future applications are described, and alternatives are briefly discussed, namely, zinc finger nucleases and clustered regularly interspaced short palindromic repeat/clustered regularly Interspaced long palindrome repeat associated protein 9.

Predicting promoters targeted by TAL effectors in plant genomes: from dream to reality

An overview of the current tools and strategies that may be applied for finding targets of TAL effectors is given and several perspectives offered by these new tools are highlighted.

TAL effectors: tools for DNA Targeting

Artificially designed TALE-DNA-binding domains fused to nuclease or activation and repressor domains provide an outstanding toolbox for targeted gene editing and gene regulation in research, biotechnology and gene therapy.

QueTAL: a suite of tools to classify and compare TAL effectors functionally and phylogenetically

The suite QueTAL was developed to offer tailored tools for comparison of TAL effector genes and will help users to rapidly analyse any TALEffector genes of interest and compare them to other available TAL genes and should improve the understanding of Tal effectors evolution.
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