The BioHub Knowledge Base: Ontology and Repository for Sustainable Biosourcing.
The BioHub Knowledge Base: Ontology and Repository for Sustainable Biosourcing.
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BioHub知识库：可持续生物保护的本体论和存储库。
DOI：
10.1186/s13326-016-0071-3
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发表时间：
2016-06-01
影响因子：
1.9
通讯作者：
Winter J
中科院分区：
文献类型：
--
作者：
Read WJ;Demetriou G;Nenadic G;Ruddock N;Stevens R;Winter J
BioHub项目的动机是创建一个综合知识管理系统(IKMS)，使化学家能够从生物可再生能源中获取成分，而不是从化石石油及其衍生品等不可持续的来源中获取成分。BioHubKB是IKMS的数据库；它使用语义网技术，特别是OWL，来托管关于化学转化、生物可再生原料、副产品流及其化学成分的数据。对这个知识库的访问是通过一组REST风格的Web服务向IKMS中的其他模块提供的，这些服务由对SESAME后端的SPARQL查询驱动。BioHubKB重新使用了几个生物本体和定制的扩展，主要用于化学原料和产品，以形成其知识组织模式。工厂的一部分形成了原料，而各种工艺产生的副产流含有某些化学物质。化学物质和转化都与某些品质有关，BioHubKB也试图捕捉到这一点。直接的商业和工业重要性是估计按顺序进行的特定化学转化(导致候选表面活性剂)的成本，并且这些成本也被计入。数据来自公司的内部知识和文档存储，以及公开可用的文献。文本分析和手动精选都在填充本体方面发挥了作用。描述了原型IKMS、BioHubKB及其对IKMS的支持服务。可以通过http://biohub.cs.manchester.ac.uk/ontology/biohub-kb.owl.找到BioHubKB
The motivation for the BioHub project is to create an Integrated Knowledge Management System (IKMS) that will enable chemists to source ingredients from bio-renewables, rather than from non-sustainable sources such as fossil oil and its derivatives. The BioHubKB is the data repository of the IKMS; it employs Semantic Web technologies, especially OWL, to host data about chemical transformations, bio-renewable feedstocks, co-product streams and their chemical components. Access to this knowledge base is provided to other modules within the IKMS through a set of RESTful web services, driven by SPARQL queries to a Sesame back-end. The BioHubKB re-uses several bio-ontologies and bespoke extensions, primarily for chemical feedstocks and products, to form its knowledge organisation schema. Parts of plants form feedstocks, while various processes generate co-product streams that contain certain chemicals. Both chemicals and transformations are associated with certain qualities, which the BioHubKB also attempts to capture. Of immediate commercial and industrial importance is to estimate the cost of particular sets of chemical transformations (leading to candidate surfactants) performed in sequence, and these costs too are captured. Data are sourced from companies’ internal knowledge and document stores, and from the publicly available literature. Both text analytics and manual curation play their part in populating the ontology. We describe the prototype IKMS, the BioHubKB and the services that it supports for the IKMS. The BioHubKB can be found via http://biohub.cs.manchester.ac.uk/ontology/biohub-kb.owl.