The Comparative Toxicogenomics Database: update 2013.
The Comparative Toxicogenomics Database: update 2013.
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DOI：
10.1093/nar/gks994
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发表时间：
2013-01
影响因子：
14.9
通讯作者：
Mattingly CJ
中科院分区：
文献类型：
--
作者：
Davis AP;Murphy CG;Johnson R;Lay JM;Lennon-Hopkins K;Saraceni-Richards C;Sciaky D;King BL;Rosenstein MC;Wiegers TC;Mattingly CJ
比较毒理基因组学数据库（CTD; http：//ctdbase.org/）提供有关环境化学物质和基因产物之间相互作用及其与疾病关系的信息。从文献中手动策划的化学-基因，化学-疾病和基因-疾病相互作用被整合以生成扩展的网络并预测不同数据类型之间的许多新关联。CTD现在包含超过1500万个毒理基因组学关系。为了浏览这片数据海洋，我们添加了几个新功能，包括DiseaseComps（发现共享毒理基因组学特征的可比疾病），推断基因-疾病和途径-化学关系的统计评分，几种工具的过滤选项，以优化用户分析和我们的新基因集丰富器（提供基因集丰富的生物注释）。为了改善数据可视化，我们在ChemComps功能中添加了Cytoscape Web视图，包括颜色编码的交互，并为我们的MEDIC疾病词汇表创建了一个“瘦列表”（允许对疾病进行分组以进行荟萃分析，可视化和更好的数据管理）。贸易和技术司继续通过提供内容和与外部数据库网站的交叉链接，促进与外部数据库的互操作性。总之，这些丰富的化学基因疾病数据，结合分析和查看内容的新方法，继续帮助用户生成关于环境疾病分子机制的可测试假设。
The Comparative Toxicogenomics Database (CTD; http://ctdbase.org/) provides information about interactions between environmental chemicals and gene products and their relationships to diseases. Chemical–gene, chemical–disease and gene–disease interactions manually curated from the literature are integrated to generate expanded networks and predict many novel associations between different data types. CTD now contains over 15 million toxicogenomic relationships. To navigate this sea of data, we added several new features, including DiseaseComps (which finds comparable diseases that share toxicogenomic profiles), statistical scoring for inferred gene–disease and pathway–chemical relationships, filtering options for several tools to refine user analysis and our new Gene Set Enricher (which provides biological annotations that are enriched for gene sets). To improve data visualization, we added a Cytoscape Web view to our ChemComps feature, included color-coded interactions and created a ‘slim list’ for our MEDIC disease vocabulary (allowing diseases to be grouped for meta-analysis, visualization and better data management). CTD continues to promote interoperability with external databases by providing content and cross-links to their sites. Together, this wealth of expanded chemical–gene–disease data, combined with novel ways to analyze and view content, continues to help users generate testable hypotheses about the molecular mechanisms of environmental diseases.
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影响因子：
14.9
作者：
Davis AP;Murphy CG;Saraceni-Richards CA;Rosenstein MC;Wiegers TC;Mattingly CJ
通讯作者：
Mattingly CJ
影响因子：
14.9
作者：
Kanehisa M;Goto S;Sato Y;Furumichi M;Tanabe M
通讯作者：
Tanabe M
影响因子：
3.9
作者：
Amberger, Joanna;Bocchini, Carol;Hamosh, Ada
通讯作者：
Hamosh, Ada
影响因子：
1.9
作者：
Davis, Allan Peter;Murphy, Cynthia G.;Mattingly, Carolyn J.
通讯作者：
Mattingly, Carolyn J.
DOI：
10.1093/database/bar065
发表时间：
2012
期刊：
Database : the journal of biological databases and curation
影响因子：
--
作者：
Davis AP;Wiegers TC;Rosenstein MC;Mattingly CJ
通讯作者：
Mattingly CJ