Nucleic Acids Research Advance Access originally published online on October 30, 2008
Nucleic Acids Research 2009 37(Database issue):D267-D273; doi:10.1093/nar/gkn782
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Nucleic Acids Research, 2009, Vol. 37, Database issue D267-D273
© 2008 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
This article appears in the following Nucleic Acids Research issue: Database issue [View the issue table of contents]
Articles |
SysZNF: the C2H2 zinc finger gene database
1Bioinformatics Center, Key Lab of Systems Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 320 Yueyang Road, Shanghai 200031, P. R. China, 2Institute of Immunology, Schillingallee 70, University of Rostock, D-18055 Rostock, Germany and 3Shanghai Center for Bioinformation Technology, 100 Qinzhou Road, Shanghai 200235, P. R. China
*To whom correspondence should be addressed. Tel: +49 381 494 5870; Fax: +49 381 494 5882; Email: hans-juergen.thiesen{at}med.uni-rostock.de
Correspondence may also be addressed to Yixue Li. Tel: +86 21 54920089; Fax: +86 21 54920143; Email: yxli{at}sibs.ac.cn
Received August 12, 2008. Revised September 19, 2008. Accepted October 9, 2008.
C2H2 zinc finger (C2H2-ZNF) genes are one of the largest and most complex gene super-families in metazoan genomes, with hundreds of members in the human and mouse genome. The ongoing investigation of this huge gene family requires computational support to catalog genotype phenotype comparisons of C2H2-ZNF genes between related species and finally to extend the worldwide knowledge on the evolution of C2H2-ZNF genes in general. Here, we systematically collected all the C2H2-ZNF genes in the human and mouse genome and constructed a database named SysZNF to deposit available datasets related to these genes. In the database, each C2H2-ZNF gene entry consists of physical location, gene model (including different transcript forms), Affymetrix gene expression probes, protein domain structures, homologs (and synteny between human and mouse), PubMed references as well as links to relevant public databases. The clustered organization of the C2H2-ZNF genes is highlighted. The database can be searched using text strings or sequence information. The data are also available for batch download from the web site. Moreover, the graphical gene model/protein view system, sequence retrieval system and some other tools embedded in SysZNF facilitate the research on the C2H2 type ZNF genes under an integrative view. The database can be accessed from the URL http://epgd.biosino.org/SysZNF.