The role of ontologies in biological and biomedical research: a functional perspective.
The role of ontologies in biological and biomedical research: a functional perspective.
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DOI：
10.1093/bib/bbv011
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发表时间：
2015-11
影响因子：
9.5
通讯作者：
Gkoutos GV
中科院分区：
文献类型：
--
作者：
Hoehndorf R;Schofield PN;Gkoutos GV
本体论在生物学和生物医学研究中有着广泛的应用。它们的成功在于它们结合了几乎所有本体中存在的四个主要特征：为表示域中现象的类和关系提供标准标识符;为域提供词汇表;提供描述本体中类和关系的预期含义的元数据;以及提供机器可读的公理和定义，其使得能够计算访问类和关系的含义的某些方面。虽然这些功能中的每一个都使应用程序能够促进数据集成，数据访问和分析，但将这四个功能结合起来以支持多模态数据的综合分析和解释的可能性具有很大的潜力。在这里，我们提供了一个生物学和生物医学的本体论的功能的角度来看，侧重于什么本体可以做，并描述它们如何可以用于支持综合研究。我们还概述了在数据驱动的科学中使用本体的前景，特别是它们在结构化数据挖掘和机器学习应用中的应用。
Ontologies are widely used in biological and biomedical research. Their success lies in their combination of four main features present in almost all ontologies: provision of standard identifiers for classes and relations that represent the phenomena within a domain; provision of a vocabulary for a domain; provision of metadata that describes the intended meaning of the classes and relations in ontologies; and the provision of machine-readable axioms and definitions that enable computational access to some aspects of the meaning of classes and relations. While each of these features enables applications that facilitate data integration, data access and analysis, a great potential lies in the possibility of combining these four features to support integrative analysis and interpretation of multimodal data. Here, we provide a functional perspective on ontologies in biology and biomedicine, focusing on what ontologies can do and describing how they can be used in support of integrative research. We also outline perspectives for using ontologies in data-driven science, in particular their application in structured data mining and machine learning applications.