Bradford Yvonne M, Van Slyke Ceri E, Muyskens Jonathan B, Tseng Wei-Chia, Howe Douglas G, Fashena David, Martin Ryan, Paddock Holly, Pich Christian, Ramachandran Sridhar, Ruzicka Leyla, Singer Amy, Taylor Ryan, Westerfield Monte
The Institute of Neuroscience, University of Oregon, 5291 University of Oregon, Eugene, OR 97403-5291, USA.
Genetics. 2025 Mar 17;229(3). doi: 10.1093/genetics/iyaf021.
The Zebrafish Information Network (ZFIN, zfin.org) is the database resource for genetic, genomic, and phenotypic data from research using zebrafish, Danio rerio. ZFIN curates information about genetic perturbations, gene expression, phenotype, gene function, and human disease models from zebrafish research publications and makes these data available to researchers worldwide. Over the past 20 years, zebrafish have increasingly been used to investigate the effects of environmental exposures, becoming an ideal model to study toxicity, phenotypic outcomes, and gene-chemical interactions. Despite this, database resources supporting zebrafish toxicology and environmental exposure research are limited. To fill this gap, ZFIN has expanded functionality to incorporate and convey toxicology data better. ZFIN annotations for gene expression, phenotype, and human disease models include information about genotypes and experimental conditions used. One type of experimental condition the database captures is the application of chemicals to zebrafish. ZFIN annotates chemicals using the Chemical Entities of Biological Interest Ontology (ChEBI) along with the Zebrafish Experimental Conditions Ontology (ZECO) to denote route of exposure and other experimental conditions. These features allow researchers to search phenotypes and human disease models linked to chemicals more efficiently. Here, we discuss how experimental conditions are displayed on ZFIN web pages, the data displayed on chemical term pages, and how to search and download data associated with chemical exposure experiments.
斑马鱼信息网络（ZFIN，zfin.org）是一个数据库资源库，用于存储来自斑马鱼（Danio rerio）研究的遗传、基因组和表型数据。ZFIN整理来自斑马鱼研究出版物的有关基因扰动、基因表达、表型、基因功能和人类疾病模型的信息，并将这些数据提供给全球的研究人员。在过去20年中，斑马鱼越来越多地被用于研究环境暴露的影响，成为研究毒性、表型结果和基因-化学相互作用的理想模型。尽管如此，支持斑马鱼毒理学和环境暴露研究的数据库资源仍然有限。为了填补这一空白，ZFIN扩展了功能，以更好地整合和传达毒理学数据。ZFIN对基因表达、表型和人类疾病模型的注释包括所使用的基因型和实验条件的信息。该数据库捕获的一种实验条件是将化学物质应用于斑马鱼。ZFIN使用生物兴趣化学实体本体（ChEBI）以及斑马鱼实验条件本体（ZECO）对化学物质进行注释，以表示暴露途径和其他实验条件。这些功能使研究人员能够更有效地搜索与化学物质相关的表型和人类疾病模型。在这里，我们将讨论实验条件在ZFIN网页上的显示方式、化学术语页面上显示的数据，以及如何搜索和下载与化学暴露实验相关的数据。
