The Zebrafish Information Network: The zebrafish model organism database provides expanded support for genotypes and phenotypes

Judy Sprague, Leyla Bayraktaroglu, Yvonne Bradford, Tom Conlin, Nathan Dunn, David Fashena, Ken Frazer, Melissa Haendel, Douglas G. Howe, Jonathan Knight, Prita Mani, Sierra A.T. Moxon, Christian Pich, Sridhar Ramachandran, Kevin Schaper, Erik Segerdell, Xiang Shao, Amy Singer, Peiran Song, Brock SprungerCeri E. Van slyke, Monte Westerfield

Research output: Contribution to journalArticle

122 Scopus citations

Abstract

The Zebrafish Information Network (ZFIN, http://www.w3.org/1999/xlink), the model organism database for zebrafish, provides the central location for curated zebrafish genetic, genomic and developmental data. Extensive data integration of mutant phenotypes, genes, expression patterns, sequences, genetic markers, morpholinos, map positions, publications and community resources facilitates the use of the zebrafish as a model for studying gene function, development, behavior and disease. Access to ZFIN data is provided via web-based query forms and through bulk data files. ZFIN is the definitive source for zebrafish gene and allele nomenclature, the zebrafish anatomical ontology (AO) and for zebrafish gene ontology (GO) annotations. ZFIN plays an active role in the development of cross-species ontologies such as the phenotypic quality ontology (PATO) and the gene ontology (GO). Recent enhancements to ZFIN include (i) a new home page and navigation bar, (ii) expanded support for genotypes and phenotypes, (iii) comprehensive phenotype annotations based on anatomical, phenotypic quality and gene ontologies, (iv) a BLAST server tightly integrated with the ZFIN database via ZFIN-specific datasets, (v) a global site search and (vi) help with hands-on resources.

Original languageEnglish (US)
Pages (from-to)D768-D772
JournalNucleic acids research
Volume36
Issue numberSUPPL. 1
DOIs
StatePublished - Jan 1 2008

ASJC Scopus subject areas

  • Genetics

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    Sprague, J., Bayraktaroglu, L., Bradford, Y., Conlin, T., Dunn, N., Fashena, D., Frazer, K., Haendel, M., Howe, D. G., Knight, J., Mani, P., Moxon, S. A. T., Pich, C., Ramachandran, S., Schaper, K., Segerdell, E., Shao, X., Singer, A., Song, P., ... Westerfield, M. (2008). The Zebrafish Information Network: The zebrafish model organism database provides expanded support for genotypes and phenotypes. Nucleic acids research, 36(SUPPL. 1), D768-D772. https://doi.org/10.1093/nar/gkm956