Zebrafish (Danio rerio) is an excellent model for biomedicine research due to its genetic accessibility and optical transparency. A large number of microarray based transcriptomes of zebrafish have been profiled in various cell types, tissues, development stages, toxicological exposures and other conditions. However, there is still no easy-to-use web tool to explore those precious data. We downloaded 1434 microarray data from National Center for Biotechnology Information Gene Expression Omnibus (NCBI GEO), constructed weighted gene co-expression network, and identified 50 modules of co-expressed genes that correspond to different cell types, tissues, development stages, and other experimental conditions. These modules were associated with experiments/traits, and may serve signature modules for phenotypes. Hub genes were screened by intra-modular connectivity. Higher-order module networks analysis suggested that nucleus and cell cycle modules are densely connected. Module-based gene function identification may help to discover novel gene function. Our web tool provides a new resource for gene function study in zebrafish (http://bioinformatics.fafu.edu.cn/zebrafish/).

斑马鱼（斑马鱼）由于具有遗传可及性和光学透明性，因此是生物医学研究的绝佳模型。斑马鱼的大量基于微阵列的转录组已经在各种细胞类型，组织，发育阶段，毒理学暴露和其他条件下进行了分析。但是，仍然没有易于使用的Web工具来浏览那些宝贵的数据。我们从美国国家生物技术信息中心基因表达综合中心（NCBI GEO）下载了1434个微阵列数据，构建了加权基因共表达网络，并鉴定了50种共表达基因的模块，分别对应于不同的细胞类型，组织，发育阶段和其他实验条件。这些模块与实验/特征相关联，并且可以充当表型的签名模块。通过模块内连通性筛选Hub基因。高阶模块网络分析表明，核和细胞周期模块紧密连接。基于模块的基因功能鉴定可能有助于发现新的基因功能。我们的网络工具为斑马鱼的基因功能研究提供了新的资源（http://bioinformatics.fafu.edu.cn/zebrafish/）。