PUBLICATION

The Zebrafish Model Organism Database: new support for human disease models, mutation details, gene expression phenotypes and searching

Authors
Howe, D.G., Bradford, Y.M., Eagle, A., Fashena, D., Frazer, K., Kalita, P., Mani, P., Martin, R., Moxon, S.T., Paddock, H., Pich, C., Ramachandran, S., Ruzicka, L., Schaper, K., Shao, X., Singer, A., Toro, S., Van Slyke, C., Westerfield, M.
ID
ZDB-PUB-161203-17
Date
2017
Source
Nucleic acids research   45(D1): D758-D768 (Journal)
Registered Authors
Bradford, Yvonne, Eagle, Anne, Fashena, David, Frazer, K., Howe, Doug, Kalita, Patrick, Mani, Prita, Martin, Ryan, Moxon, Sierra (fka Taylor), Paddock, Holly, Pich, Christian, Ramachandran, Sridhar, Ruzicka, Leyla, Schaper, Kevin, Shao, Xiang, Singer, Amy, Toro, Sabrina, Van Slyke, Ceri E., Westerfield, Monte
Keywords
phenotype, gene expression, mutation, genes, zebrafish, disease model
MeSH Terms
  • Animals
  • Computational Biology/methods
  • Data Curation
  • Databases, Genetic*
  • Disease Models, Animal
  • Gene Expression
  • Genetic Association Studies/methods*
  • Genetic Predisposition to Disease
  • Genomics/methods*
  • Genotype
  • Humans
  • Mutation
  • Phenotype
  • Search Engine*
  • Zebrafish/genetics*
PubMed
27899582 Full text @ Nucleic Acids Res.
Abstract
The Zebrafish Model Organism Database (ZFIN; http://zfin.org) is the central resource for zebrafish (Danio rerio) genetic, genomic, phenotypic and developmental data. ZFIN curators provide expert manual curation and integration of comprehensive data involving zebrafish genes, mutants, transgenic constructs and lines, phenotypes, genotypes, gene expressions, morpholinos, TALENs, CRISPRs, antibodies, anatomical structures, models of human disease and publications. We integrate curated, directly submitted, and collaboratively generated data, making these available to zebrafish research community. Among the vertebrate model organisms, zebrafish are superbly suited for rapid generation of sequence-targeted mutant lines, characterization of phenotypes including gene expression patterns, and generation of human disease models. The recent rapid adoption of zebrafish as human disease models is making management of these data particularly important to both the research and clinical communities. Here, we describe recent enhancements to ZFIN including use of the zebrafish experimental conditions ontology, 'Fish' records in the ZFIN database, support for gene expression phenotypes, models of human disease, mutation details at the DNA, RNA and protein levels, and updates to the ZFIN single box search.
Genes / Markers
Figures
Expression
Phenotype
Mutation and Transgenics
Human Disease / Model Data
Sequence Targeting Reagents
Fish
Antibodies
Orthology
Engineered Foreign Genes
Mapping
Errata and Notes