title: ZiFiT (Zinc Finger Targeter): an updated zinc finger engineering tool.
abstract: 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/.
authors.affiliation: Molecular Pathology Unit, Center for Cancer Research, and Center for Computational and Integrative Biology, Massachusetts General Hospital, Charlestown, MA 02129, USA. jsander@partners.org
authors.forename: Jeffry D
authors.initials: JD
authors.lastname: Sander
authors.forename: Morgan L
authors.initials: ML
authors.lastname: Maeder
authors.forename: Deepak
authors.initials: D
authors.lastname: Reyon
authors.forename: Daniel F
authors.initials: DF
authors.lastname: Voytas
authors.forename: J Keith
authors.initials: JK
authors.lastname: Joung
authors.forename: Drena
authors.initials: D
authors.lastname: Dobbs
mesh_terms: D001665:Binding Sites; D004268:DNA-Binding Proteins / Q000737:chemistry* / Q000378:metabolism; D020407:Internet; D015202:Protein Engineering; D017422:Sequence Analysis, DNA; D012984:Software; D014584:User-Computer Interface; D016335:Zinc Fingers
chemical_list: D004268:DNA-Binding Proteins