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Tripal EUtils: a Tripal module to increase exchange and reuse of genome assembly metadata.
Database: The Journal of Biological Databases and Curation ( IF 5.8 ) Pub Date : 2020-01-21 , DOI: 10.1093/database/baz143
B Conford 1 , A Almsaeed 1 , S Buehler 1 , C P Childers 1 , S P Ficklin 1 , M E Staton 1 , M F Poelchau 1
Affiliation  

Data and metadata interoperability between data storage systems is a critical component of the FAIR data principles. Programmatic and consistent means of reconciling metadata models between databases promote data exchange and thus increases its access to the scientific community. This process requires (i) metadata mapping between the models and (ii) software to perform the mapping. Here, we describe our efforts to map metadata associated with genome assemblies between the National Center for Biotechnology Information (NCBI) data resources and the Chado biological database schema. We present mappings for multiple NCBI data structures and introduce a Tripal software module, Tripal EUtils, to pull metadata from NCBI into a Tripal/Chado database. We discuss potential mapping challenges and solutions and provide suggestions for future development to further increase interoperability between these platforms. Database URL: https://github.com/NAL-i5K/tripal_eutils.

中文翻译:

Tripal EUtils:Tribal模块,用于增加基因组组装元数据的交换和重用。

数据存储系统之间的数据和元数据互操作性是FAIR数据原理的关键组成部分。协调数据库之间元数据模型的程序化和一致方式可促进数据交换,从而增加其对科学界的访问。此过程需要(i)模型之间的元数据映射,以及(ii)执行映射的软件。在这里,我们描述了我们在国家生物技术信息中心(NCBI)数据资源与Chado生物数据库架构之间映射与基因组程序关联的元数据的工作。我们提供了多个NCBI数据结构的映射,并引入了Tripal软件模块Tripal EUtils,以将元数据从NCBI提取到Tripal / Chado数据库中。我们讨论了潜在的制图挑战和解决方案,并为未来的发展提供了建议,以进一步提高这些平台之间的互操作性。数据库URL:https://github.com/NAL-i5K/tripal_eutils
更新日期:2020-04-17
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