Ciccarese Paolo, Ocana Marco, Clark Tim
Harvard Medical School and Massachusetts General Hospital, Boston MA, USA.
J Biomed Semantics. 2012 Apr 24;3 Suppl 1(Suppl 1):S1. doi: 10.1186/2041-1480-3-S1-S1.
Our group has developed a useful shared software framework for performing, versioning, sharing and viewing Web annotations of a number of kinds, using an open representation model.
The Domeo Annotation Tool was developed in tandem with this open model, the Annotation Ontology (AO). Development of both the Annotation Framework and the open model was driven by requirements of several different types of alpha users, including bench scientists and biomedical curators from university research labs, online scientific communities, publishing and pharmaceutical companies.Several use cases were incrementally implemented by the toolkit. These use cases in biomedical communications include personal note-taking, group document annotation, semantic tagging, claim-evidence-context extraction, reagent tagging, and curation of textmining results from entity extraction algorithms.
We report on the Domeo user interface here. Domeo has been deployed in beta release as part of the NIH Neuroscience Information Framework (NIF, http://www.neuinfo.org) and is scheduled for production deployment in the NIF's next full release.Future papers will describe other aspects of this work in detail, including Annotation Framework Services and components for integrating with external textmining services, such as the NCBO Annotator web service, and with other textmining applications using the Apache UIMA framework.
我们的团队开发了一个实用的共享软件框架，用于使用开放表示模型执行、版本控制、共享和查看多种类型的网络注释。
Domeo注释工具是与这个开放模型——注释本体（AO）同步开发的。注释框架和开放模型的开发是由几种不同类型的阿尔法用户的需求驱动的，包括大学研究实验室的实验科学家和生物医学编目员、在线科学社区、出版和制药公司。该工具包逐步实现了几个用例。生物医学通信中的这些用例包括个人笔记记录、团队文档注释、语义标记、声明-证据-上下文提取、试剂标记以及实体提取算法的文本挖掘结果编目。
我们在此报告Domeo用户界面。Domeo已作为美国国立卫生研究院神经科学信息框架（NIF，http://www.neuinfo.org）的一部分进行了测试版发布，并计划在NIF的下一个完整版本中进行生产部署。未来的论文将详细描述这项工作的其他方面，包括注释框架服务以及与外部文本挖掘服务（如NCBO注释器网络服务）集成的组件，以及使用Apache UIMA框架与其他文本挖掘应用程序集成的组件。
