ZiFiT (Zinc Finger Targeter): an updated zinc finger engineering tool
By Jeffry D. Sander, Morgan L. Maeder, Deepak Reyon, Daniel F. Voytas, J. Keith Joung, Drena Dobbs. Nucleic Acids Res., 2010
381 citations recorded by the source corpus.
ZiFiT (Zinc Finger Targeter) is a simple and intuitive web-based tool that provides an interface to identify potential binding sites for engineered zinc finger proteins (ZFPs) in user-supplied DNA sequences. In this updated version, ZiFiT identifies potential sites for ZFPs made by both the modular assembly and OPEN engineering methods. In addition, ZiFiT now integrates additional tools and resources including scoring schemes for modular assembly, an interface with the Zinc Finger Database (ZiFDB) of engineered ZFPs, and direct querying of NCBI BLAST servers for identifying potential off-target sites within a host genome. Taken together, these features facilitate design of ZFPs using reagents made available to the academic research community by the Zinc Finger Consortium. ZiFiT is freely available on the web without registration at http://bindr.gdcb.iastate.edu/ZiFiT/.
Subfields: Molecular Biology
View Paper: https://www.semanticscholar.org/paper/b576fa8032acd7a03db32e260407071451e7e453
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In Molecular Biology
- S. Tsai
- Deepak Reyon
- Martin J. Aryee
- Jennifer A. Foden
- Cyd Khayter
- J. Keith Joung
- Jeffry D. Sander
- Feng Zhang
Citations in the corpus
- Dimeric CRISPR RNA-guided FokI nucleases for highly specific genome editing (2014, methodology): “To aid in identification of potential full-length RFN target sites, we have added a new module to our existing ZiFiT Targeter software 26 (http://zifit.partners.org) that can search user-defined DNA sequences.”
- Target specificity of the CRISPR-Cas9 system (2014, neutral): “The type of off-targets detected by each tool also varies; most tools only search for off-targets with few (typically three or less) PAM-proximal or total mismatches to the guide [71,75,76,79,80].”
- Biology and Diseases of Mice (2015, neutral): “websites are available to assist in identifying appropriate DNA sequences to target; and multiple websites post protocols for generating the various types of engineered endonucleases (Xie et al., 2014; Sander et al., 2010; Bae et al., 2014; Reyon et al., 2011; Herscovitch et al., 2012; Wolfson, 2013”
- Cas-Designer: a web-based tool for choice of CRISPR-Cas9 target sites (2015, neutral): “…(Aach et al., 2014; Cradick et al., 2014; Doench et al., 2014; Bae et al., 2014a; Heigwer et al., 2014; Hsu et al., 2013; Lei et al., 2014; Montague et al., 2014; O'Brien and Bailey, 2014; Naito et al., 2014; Sander et al., 2010; Upadhyay and Sharma, 2014; Xie et al., 2014; Zhu et al., 2014).”