GeneComps and ChemComps: a new CTD metric to identify genes and chemicals with shared toxicogenomic profiles
GeneComps and ChemComps: a new CTD metric to identify genes and chemicals with shared toxicogenomic profiles
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DOI：
10.6026/97320630004173
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发表时间：
2009-01-01
期刊：
影响因子：
1.9
通讯作者：
Mattingly, Carolyn J.
中科院分区：
文献类型：
--
作者：
Davis, Allan Peter;Murphy, Cynthia G.;Mattingly, Carolyn J.
比较毒理基因组学数据库是一个公共资源，旨在促进对环境化学品对人类健康影响的了解。目前，CTD描述了超过5100种化学物质和16,300个基因/蛋白质的超过184,000个分子相互作用。我们利用这个化学-基因关系的数据集来计算相似性指数，遵循Jaccard指数的统计方法。这些分数被用来根据共享的毒物基因组图谱产生可比基因(“GeneComps”)或化学物质(“ChemComps”)的列表。GeneComps和ChemComps现在为CTD中的每一个经过管理的基因和化学物质提供。化学组合物特别重要，因为它们提供了一种根据化学物质的生物效应而不是其物理或结构性质对化学物质进行分组的方法。这些衡量标准提供了一种查看和分类基因和化学物质的新方法，并将有助于推进关于环境化学-遗传病网络的可测试假说。
The Comparative Toxicogenomics Database is a public resource that promotes understanding about the effects of environmental chemicals on human health. Currently, CTD describes over 184,000 molecular interactions for more than 5,100 chemicals and 16,300 genes/proteins. We have leveraged this dataset of chemical-gene relationships to compute similarity indices following the statistical method of the Jaccard index. These scores are used to produce lists of comparable genes ("GeneComps") or chemicals ("ChemComps") based on shared toxicogenomic profiles. GeneComps and ChemComps are now provided for every curated gene and chemical in CTD. ChemComps are particularly significant because they provide a way to group chemicals based upon their biological effects, instead of their physical or structural properties. These metrics provide a novel way to view and classify genes and chemicals and will help advance testable hypotheses about environmental chemical-genedisease networks.