Bueckle Andreas, Herr Bruce W, Hardi Josef, Quardokus Ellen M, Musen Mark A, Börner Katy
Department of Intelligent Systems Engineering, Luddy School of Informatics, Computing, and Engineering, Indiana University, Bloomington, IN, USA.
Stanford Center for Biomedical Informatics Research, Stanford University, Stanford, CA, USA.
Sci Data. 2025 Jul 1;12(1):1100. doi: 10.1038/s41597-025-05183-6.
The Human Reference Atlas (HRA) for the healthy, adult body is being developed by a team of international, interdisciplinary experts across 25+ consortia. It provides standard terminologies and data structures for describing specimens, biological structures, and spatial positions of experimental datasets and ontology-linked reference anatomical structures (ASs), cell types (CTs), and biomarkers (Bs). This paper introduces the HRA Knowledge Graph (KG) as central data resource for the HRA, supporting cross-scale, biological queries to Resource Description Framework graphs using SPARQL. In May 2025, the HRA KG v2.2 covers 71 organs with 5,800 ASs, 2,268 CTs, 2,531 Bs; it has 10,064,033 nodes, 171,250,177 edges, and a size of 125.84 GB. The HRA KG comprises 13 types of Digital Objects (DOs) using the Common Coordinate Framework Ontology to standardize core concepts and relationships across DOs. This work (1) provides data and code for HRA KG construction; (2) details HRA KG deployment as Linked Open Data; and (3) illustrates HRA KG usage via application programming interfaces, user interfaces, and data products. A companion website is at cns-iu.github.io/hra-kg-supporting-information .
一个由来自25个以上联盟的国际跨学科专家团队正在开发健康成人体的人类参考图谱（HRA）。它为描述标本、生物结构以及实验数据集与本体链接的参考解剖结构（AS）、细胞类型（CT）和生物标志物（B）的空间位置提供了标准术语和数据结构。本文介绍了HRA知识图谱（KG），它作为HRA的核心数据资源，支持使用SPARQL对资源描述框架图进行跨尺度生物查询。到2025年5月，HRA KG v2.2涵盖71个器官，有5800个AS、2268个CT、2531个B；它有10064033个节点、171250177条边，大小为125.84 GB。HRA KG使用通用坐标框架本体包含13种数字对象（DO），以标准化跨DO的核心概念和关系。这项工作（1）提供了HRA KG构建的数据和代码；（2）详细介绍了HRA KG作为关联开放数据的部署；（3）通过应用程序编程接口、用户界面和数据产品说明了HRA KG的用法。配套网站为cns-iu.github.io/hra-kg-supporting-information 。
Zotero 插件
