Zinc Finger Database (ZiFDB) v2.0: A comprehensive database of C 2H2 zinc fingers and engineered zinc finger arrays

Fengli Fu; Daniel F. Voytas

doi:10.1093/nar/gks1167

Zinc Finger Database (ZiFDB) v2.0: A comprehensive database of C ₂H₂ zinc fingers and engineered zinc finger arrays

Fengli Fu, Daniel F. Voytas

Research output: Contribution to journal › Article › peer-review

23 Scopus citations

Abstract

ZiFDB (Zinc Finger Database, http://zifdb.msi.umn. edu) is a web-accessible database that houses information on individual C₂H₂ zinc fingers (ZFs) and engineered zinc finger arrays (ZFAs). ZiFDB serves as a resource for biologists interested in engineering ZFAs for use as sequence-specific DNA-binding reagents. Here, we describe four new features of ZiFDB: (i) the database allows users to input new ZFs and ZFAs; (ii) a shadow database temporarily stores user-submitted data, pending approval by the database curator and subsequent loading into the persistent database; (iii) ZiFDB contains 181 Context-Dependent Assembly (CoDA) ZFAs, which were generated by this newly described ZFA engineering platform; and (iv) the database also now contains 319 F1F2 CoDA units and 334 F2F3 CoDA units that can be used to construct CoDA arrays. In total, the new release of ZiFDB contains 1226 ZFs and 1123 ZFAs.

Original language	English (US)
Pages (from-to)	D452-D455
Journal	Nucleic acids research
Volume	41
Issue number	D1
DOIs	https://doi.org/10.1093/nar/gks1167
State	Published - Jan 1 2013

Bibliographical note

Funding Information:
Funding for open access charge: National Science Foundation [DBI-0923827 to D.F.V.].

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title = "Zinc Finger Database (ZiFDB) v2.0: A comprehensive database of C 2H2 zinc fingers and engineered zinc finger arrays",

abstract = "ZiFDB (Zinc Finger Database, http://zifdb.msi.umn. edu) is a web-accessible database that houses information on individual C2H2 zinc fingers (ZFs) and engineered zinc finger arrays (ZFAs). ZiFDB serves as a resource for biologists interested in engineering ZFAs for use as sequence-specific DNA-binding reagents. Here, we describe four new features of ZiFDB: (i) the database allows users to input new ZFs and ZFAs; (ii) a shadow database temporarily stores user-submitted data, pending approval by the database curator and subsequent loading into the persistent database; (iii) ZiFDB contains 181 Context-Dependent Assembly (CoDA) ZFAs, which were generated by this newly described ZFA engineering platform; and (iv) the database also now contains 319 F1F2 CoDA units and 334 F2F3 CoDA units that can be used to construct CoDA arrays. In total, the new release of ZiFDB contains 1226 ZFs and 1123 ZFAs.",

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