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. 2010 Jan;38(Database issue):D607-12.
doi: 10.1093/nar/gkp953. Epub 2009 Nov 1.

Xenbase: gene expression and improved integration

Jeff B Bowes  1 , Kevin A Snyder, Erik Segerdell, Chris J Jarabek, Kenan Azam, Aaron M Zorn, Peter D Vize
Affiliations

Xenbase: gene expression and improved integration

Jeff B Bowes et al. Nucleic Acids Res. 2010 Jan.

Abstract

Xenbase (www.xenbase.org), the model organism database for Xenopus laevis and X. (Silurana) tropicalis, is the principal centralized resource of genomic, development data and community information for Xenopus research. Recent improvements include the addition of the literature and interaction tabs to gene catalog pages. New content has been added including a section on gene expression patterns that incorporates image data from the literature, large scale screens and community submissions. Gene expression data are integrated into the gene catalog via an expression tab and is also searchable by multiple criteria using an expression search interface. The gene catalog has grown to contain over 15,000 genes. Collaboration with the European Xenopus Research Center (EXRC) has resulted in a stock center section with data on frog lines supplied by the EXRC. Numerous improvements have also been made to search and navigation. Xenbase is also the source of the Xenopus Anatomical Ontology and the clearinghouse for Xenopus gene nomenclature.

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Figures

Figure 1.
Figure 1.
Literature tab. For each gene page the literature tab stores each publication citing the genes name, symbol or synonyms. Records are counted (see tab) and parsed for various key words, such a morpholino, to aid in literature sorting.
Figure 2.
Figure 2.
Modal dialog of gene expression information. When a thumbprint image is selected by the user, a modal dialog box is launched illustrating an enlarged view and additional data.
Figure 3.
Figure 3.
Expression search interface. Over 500 000 gene expression objects can be searched using a variety of criteria.
See this image and copyright information in PMC

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