Hutter Harald, Suh Jinkyo
Department of Biological Sciences, Simon Fraser University , Burnaby, Canada.
Worm. 2016 Sep 19;5(4):e1234659. doi: 10.1080/21624054.2016.1234659. eCollection 2016.
Genetic high-throughput experiments often result in hundreds or thousands of genes satisfying certain experimental conditions. Grouping and prioritizing a large number of genes for further analysis can be a time-consuming challenge. In 2009 we developed a web-based user interface, GExplore, to assist with large-scale data-mining related to gene function in . The underlying database contained information about genes and proteins including domain organization of the proteins, phenotypic descriptions, expression data and Gene Ontology Consortium annotations. These data enable users to quickly obtain an overview of biological and biochemical functions of a large number of genes at once. Since its inception the underlying database has been updated and expanded significantly. Here we describe the current version of GExplore 1.4, documenting the changes since the original release. GExplore 1.4 now contains information about the domain organization of the proteomes of 9 nematode species, can display the location of mutations with respect to the domain organization of the proteins, and includes stage-specific RNAseq gene expression data generated by the modENCODE project. The underlying database has been reorganized to facilitate independent updates of the different parts of the database and to allow the addition of novel data sets in the future. The web interface is available under http://genome.sfu.ca/gexplore.
基因高通量实验常常会产生成百上千个满足特定实验条件的基因。对大量基因进行分组并排序以进行进一步分析可能是一项耗时的挑战。2009年，我们开发了一个基于网络的用户界面GExplore，以协助进行与基因功能相关的大规模数据挖掘。其基础数据库包含有关基因和蛋白质的信息，包括蛋白质的结构域组织、表型描述、表达数据以及基因本体联合会注释。这些数据使用户能够立即快速了解大量基因的生物学和生化功能。自创建以来，基础数据库已得到显著更新和扩展。在此，我们描述GExplore 1.4的当前版本，记录自最初发布以来的变化。GExplore 1.4现在包含9种线虫物种蛋白质组的结构域组织信息，能够显示突变相对于蛋白质结构域组织的位置，并且包括由modENCODE项目生成的阶段特异性RNAseq基因表达数据。基础数据库已进行重组，以促进数据库不同部分的独立更新，并允许未来添加新的数据集。网络界面可在http://genome.sfu.ca/gexplore获取。
