Knowledge Beacons: Web services for data harvesting of distributed biomedical knowledge.
Knowledge Beacons: Web services for data harvesting of distributed biomedical knowledge.
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DOI：
10.1371/journal.pone.0231916
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发表时间：
2021
期刊：
影响因子：
3.7
通讯作者：
Bruskiewich RM
中科院分区：
文献类型：
--
作者：
Hannestad LM;Dančík V;Godden M;Suen IW;Huellas-Bruskiewicz KC;Good BM;Mungall CJ;Bruskiewich RM
生物医学知识的全球分布范围不断扩大，分布广泛，种类繁多，数量庞大，对生物医学研究人员在获取知识方面提出了严峻的挑战：获取、汇编、整合和解释数据、信息和知识。为了加速研究有效的医学治疗和优化健康，至关重要的是，有效的和自动化的工具，以确定关键的研究概念和他们的实验发现的相互关系的发展。作为由国家推进转化科学中心（NCATS）资助的开发生物医学科学知识管理平台的“翻译器”（https：//ncats.nih.gov/translator）项目可行性阶段的一项活动，我们设计了一个表述性状态转移（REST）Web服务应用程序编程接口（API）规范，我们称之为知识信标。Knowledge Bestroom提供了一个标准化的基本API，用于从分布式在线生物医学知识库中发现概念、概念之间的关系以及相关的支持证据。本规范还强制将知识概念和语句注释到NCATS认可的Biolink模型数据模型和语义编码标准（https：//biolink.github.io/biolink-model/）。在不同的知识来源之上实现此API可能使其统一集成在客户端软件之后，这将促进生物医学知识的研究访问和集成。API和相关软件是开源的，目前可在https://github.com/NCATS-Tangerine/translator-knowledge-beacon上访问。
The continually expanding distributed global compendium of biomedical knowledge is diffuse, heterogeneous and huge, posing a serious challenge for biomedical researchers in knowledge harvesting: accessing, compiling, integrating and interpreting data, information and knowledge. In order to accelerate research towards effective medical treatments and optimizing health, it is critical that efficient and automated tools for identifying key research concepts and their experimentally discovered interrelationships are developed. As an activity within the feasibility phase of a project called “Translator” (https://ncats.nih.gov/translator) funded by the National Center for Advancing Translational Sciences (NCATS) to develop a biomedical science knowledge management platform, we designed a Representational State Transfer (REST) web services Application Programming Interface (API) specification, which we call a Knowledge Beacon. Knowledge Beacons provide a standardized basic API for the discovery of concepts, their relationships and associated supporting evidence from distributed online repositories of biomedical knowledge. This specification also enforces the annotation of knowledge concepts and statements to the NCATS endorsed the Biolink Model data model and semantic encoding standards (https://biolink.github.io/biolink-model/). Implementation of this API on top of diverse knowledge sources potentially enables their uniform integration behind client software which will facilitate research access and integration of biomedical knowledge. The API and associated software is open source and currently available for access at https://github.com/NCATS-Tangerine/translator-knowledge-beacon.
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