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Nucleic Acids Research Advance Access originally published online on November 4, 2007
Nucleic Acids Research 2008 36(Database issue):D761-D767; doi:10.1093/nar/gkm826
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Nucleic Acids Research, 2008, Vol. 36, Database issue D761-D767
© 2007 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

Xenbase: a Xenopus biology and genomics resource

Jeff B. Bowes1, Kevin A. Snyder1, Erik Segerdell2, Ross Gibb1, Chris Jarabek1, Etienne Noumen1, Nicolas Pollet3 and Peter D. Vize1,2,*

1Department of Computer Science, 2Department of Biological Sciences, University of Calgary, 2500 University Drive NW, Calgary, Alberta, Canada and 3Laboratoire Developpement et Evolution, CNRS UMR 8080, Universite Paris-Sud, Orsay 91405, France

*To whom correspondence should be addressed. Tel: +403 220 8502; Fax: +403 289 9311; Email: pvize{at}ucalgary.ca

Received August 13, 2007. Revised September 18, 2007. Accepted September 20, 2007.

Xenbase (www.xenbase.org) is a model organism database integrating a diverse array of biological and genomic data on the frogs, Xenopus laevis and Xenopus (Silurana) tropicalis. Data is collected from other databases, high-throughput screens and the scientific literature and integrated into a number of database modules covering subjects such as community, literature, gene and genomic analysis. Gene pages are automatically assembled from data piped from the Entrez Gene, Gurdon Institute, JGI, Metazome, MGI, OMIM, PubMed, Unigene, Zfin, commercial suppliers and others. These data are then supplemented with in-house annotation. Xenbase has implemented the Gbrowse genome browser and also provides a BLAST service that allows users to specifically search either laevis or tropicalis DNA or protein targets. A table of Xenopus gene synonyms has been implemented and allows the genome, genes, publications and high-throughput gene expression data to be seamlessly integrated with other Xenopus data and to external database resources, making the wealth of developmental and functional data from the frog available to the broader research community.


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