We investigated the interconnection on knowledge of biological molecules, biological phenomena, and diseases to efficiently collect information regarding the functions of chemical compounds and gene products, roles, applications, and involvements in diseases using knowledge graphs (KGs) developed from Resource Description Framework (RDF) data and ontologies. NikkajiRDF linked open data provide information on approximately 3.5 million chemical compounds and 694 application examples. We integrated NikkajiRDF with Interlinking Ontology for Biological Concepts (IOBC), including approximately 80,000 concepts, information on gene products, drugs, and diseases. Using IOBC’s ontological structure, we confirmed that this integration enabled us to infer new information regarding biological and chemical functions, applications, and involvements in diseases for 5038 chemical compounds. Furthermore, we developed KGs from IOBC and added protein, biological phenomena, and disease identifiers used in major biological databases: UniProt, Gene Ontology, and MeSH to the KGs. Using the extended KGs and federated search to the DisGeNET, we discovered more than 60 chemicals and 700 gene products, involved in 32 diseases.

中文翻译：

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使用 NikkajiRDF 的生物知识互连和生物概念的互连本体

我们研究了生物分子、生物现象和疾病知识的相互联系，以使用资源描述框架 (RDF) 开发的知识图 (KG) 有效收集有关化合物和基因产物的功能、作用、应用和疾病参与的信息。 ) 数据和本体。NikkajiRDF 链接的开放数据提供了大约 350 万种化合物和 694 个应用示例的信息。我们将 NikkajiRDF 与 Interlinking Ontology for Biological Concepts (IOBC) 相结合，包括大约 80,000 个概念、关于基因产品、药物和疾病的信息。使用 IOBC 的本体结构，我们确认这种集成使我们能够推断有关生物和化学功能、应用、5038 种化合物与疾病有关。此外，我们从 IOBC 开发了 KG，并在 KG 中添加了主要生物数据库中使用的蛋白质、生物现象和疾病标识符：UniProt、Gene Ontology 和 MeSH。使用扩展的 KG 和对 DisGeNET 的联合搜索，我们发现了 60 多种化学物质和 700 种基因产物，涉及 32 种疾病。