KG-Hub-构建和交换生物知识图表
J Harry Caufield1, Tim Putman2, Kevin Schaper2
1Division of Environmental Genomics and Systems Biology, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, United States.
Bioinformatics (Oxford, England)
|June 30, 2023
概括
KG-Hub提供了一个标准化的平台,用于构建和共享生物知识图 (KG). 这有助于数据集成和在各种研究领域的重复使用,包括疾病研究和药物发现.
科学领域:
- 生物信息学是一种生物信息学.
- 计算生物学 计算生物学
- 数据科学数据科学数据科学
背景情况:
- 知识图 (KG) 对于整合多样化的生物数据和使得推断成为可能至关重要.
- 缺乏标准化解决方案阻碍了生物基因组的构建,交换和下游应用.
研究的目的:
- 推出KG-Hub,这是一个用于标准化生物KG的创建,共享和利用的新平台.
- 解决当前KG开发的局限性,并促进更广泛的数据集成和重用.
主要方法:
- 开发了KG-Hub,具有模块化提取-转换-负载 (ETL) 模式,用于符合Biolink模型的要求.
- 综合开放的生物和生物医学本体 (OBO) 和KG文物的云存储.
- 实现了版本管理,自动更新和KG构建的稳定URL.
主要成果:
- KG-Hub支持标准化的KG构建,交换和重复使用.
- 该平台促进与图形机器学习 (ML) 工具的集成,用于自动化分析.
- 目前的项目展示了KG-Hub在COVID-19研究,药物重新利用和罕见疾病研究中的实用性.
结论:
- KG-Hub为管理生物知识图提供了一个全面的解决方案.
- 该平台提高了数据的可访问性,并促进了先进的分析,包括ML应用程序.
- KG-Hub可以在https://kghub.org.org上使用.
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