DGIdb 5.0: rebuilding the drug-gene interaction database for precision medicine and drug discovery platforms.
DGIdb 5.0: rebuilding the drug-gene interaction database for precision medicine and drug discovery platforms.
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DGIdb 5.0：为精准医学和药物发现平台重建药物-基因相互作用数据库。
DOI：
10.1093/nar/gkad1040
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发表时间：
2024-01-05
影响因子：
14.9
通讯作者：
Wagner, Alex H.
中科院分区：
文献类型：
--
作者：
Cannon, Matthew;Stevenson, James;Stahl, Kathryn;Basu, Rohit;Coffman, Adam;Kiwala, Susanna;McMichael, Joshua F.;Kuzma, Kori;Morrissey, Dorian;Cotto, Kelsy;Mardis, Elaine R.;Griffith, Obi L.;Griffith, Malachi;Wagner, Alex H.
药物-基因相互作用数据库（DGIdb，https://dgidb.org）是一个可公开访问的资源，它聚集了基因或基因产物、药物和药物-基因相互作用记录，以推动临床医生和研究人员的假设生成和发现。DGIdb 5.0是最新版本，包括大量的架构和功能更新，以支持集成到临床和药物发现管道中。DGIdb服务架构已被拆分为单独的客户端和服务器应用程序，从而为应用程序编程接口（API）和Web接口的用户提供一致的数据访问。新界面是在ReactJS中开发的，包括动态可视化和用户界面元素显示的一致性。添加了一个GraphQL API，以支持对所有药物、基因、注释和相关数据的可定制查询。更新的文档为用户提供了这些新功能的示例查询和详细的使用说明。此外，还增加了六个来源，并更新了许多现有来源。新增加的来源包括ChemIDplus，HemOnc，NCIt（国家癌症研究所词库），Drugs@FDA，HGNC（HUGO基因命名委员会）和RxNorm。这些新来源已被纳入DGIdb，以提供额外的记录并增强治疗药物监管批准状态的注释。用于分组药物和基因的方法已经被扩展并且在导入期间被开发为独立的模块化标准化器。这些来源和分组方法的更新改进了DGIdb中的FAIR（可查找性、可访问性、互操作性和可重用性）数据表示。
The Drug–Gene Interaction Database (DGIdb, https://dgidb.org) is a publicly accessible resource that aggregates genes or gene products, drugs and drug–gene interaction records to drive hypothesis generation and discovery for clinicians and researchers. DGIdb 5.0 is the latest release and includes substantial architectural and functional updates to support integration into clinical and drug discovery pipelines. The DGIdb service architecture has been split into separate client and server applications, enabling consistent data access for users of both the application programming interface (API) and web interface. The new interface was developed in ReactJS, and includes dynamic visualizations and consistency in the display of user interface elements. A GraphQL API has been added to support customizable queries for all drugs, genes, annotations and associated data. Updated documentation provides users with example queries and detailed usage instructions for these new features. In addition, six sources have been added and many existing sources have been updated. Newly added sources include ChemIDplus, HemOnc, NCIt (National Cancer Institute Thesaurus), Drugs@FDA, HGNC (HUGO Gene Nomenclature Committee) and RxNorm. These new sources have been incorporated into DGIdb to provide additional records and enhance annotations of regulatory approval status for therapeutics. Methods for grouping drugs and genes have been expanded upon and developed as independent modular normalizers during import. The updates to these sources and grouping methods have resulted in an improvement in FAIR (findability, accessibility, interoperability and reusability) data representation in DGIdb.
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影响因子：
14.9
作者：
Seal, Ruth L.;Braschi, Bryony;Gray, Kristian;Jones, Tamsin E. M.;Tweedie, Susan;Haim-Vilmovsky, Liora;Bruford, Elspeth A.
通讯作者：
Bruford, Elspeth A.
影响因子：
--
作者：
Tomasulo, Patricia
通讯作者：
Tomasulo, Patricia
影响因子：
4.5
作者：
Warner, Jeremy L.;Dymshyts, Dmitry;Yang, Peter C.
通讯作者：
Yang, Peter C.
影响因子：
22.7
作者：
Vrandecic, Denny;Kroetzsch, Markus
通讯作者：
Kroetzsch, Markus
影响因子：
8.6
作者：
Tang J;Tanoli ZU;Ravikumar B;Alam Z;Rebane A;Vähä-Koskela M;Peddinti G;van Adrichem AJ;Wakkinen J;Jaiswal A;Karjalainen E;Gautam P;He L;Parri E;Khan S;Gupta A;Ali M;Yetukuri L;Gustavsson AL;Seashore-Ludlow B;Hersey A;Leach AR;Overington JP;Repasky G;Wennerberg K;Aittokallio T
通讯作者：
Aittokallio T