Building biomedical web communities using a semantically aware content management system
Building biomedical web communities using a semantically aware content management system
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DOI：
10.1093/bib/bbn052
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发表时间：
2009-03-01
影响因子：
9.5
通讯作者：
Clark, Tim
中科院分区：
文献类型：
--
作者：
Das, Sudeshna;Girard, Lisa;Clark, Tim
基于网络的生物医学社区正在成为研究人员之间共享信息的越来越受欢迎的工具，并迅速获得在线存在。然而，在这样的社区中的信息组织和交换通常是非结构化的，使得社区之间的互操作性变得困难。此外，针对生物医学研究人员特定的共同信息需求，以低成本创建此类社区的专门软件在很大程度上缺乏。与此同时，越来越多的生物知识库和生物医学资源正在为语义网构建。有几个小组正在为生物医学领域创建参考本体，积极发布受控词汇表，并以资源描述框架（RDF）语言提供数据。我们已经开发了科学协作框架（SCF）作为一个可重用的平台，在生物医学研究中，利用这些本体和RDF资源的先进的结构化在线协作。SCF支持研究人员之间的结构化Web 2.0风格的社区话语，使异构数据资源提供给合作的科学家，捕捉资源之间的关系的语义和结构话语周围的资源。SCF框架的第一个实例被用于创建一个开放获取的干细胞研究在线社区StemBook（www.stembook.org>）。我们认为，这样一个框架是必要的，以实现最佳的生产力和跨学科科学研究的资源杠杆作用。我们希望它在高度跨学科的领域特别有益，例如神经退行性疾病和神经修复研究，以及在自然科学中具有广泛的实用性。
Web-based biomedical communities are becoming an increasingly popular vehicle for sharing information amongst researchers and are fast gaining an online presence. However, information organization and exchange in such communities is usually unstructured, rendering interoperability between communities difficult. Furthermore, specialized software to create such communities at low costtargeted at the specific common information requirements of biomedical researchershas been largely lacking. At the same time, a growing number of biological knowledge bases and biomedical resources are being structured for the Semantic Web. Several groups are creating reference ontologies for the biomedical domain, actively publishing controlled vocabularies and making data available in Resource Description Framework (RDF) language. We have developed the Science Collaboration Framework (SCF) as a reusable platform for advanced structured online collaboration in biomedical research that leverages these ontologies and RDF resources. SCF supports structured Web 2.0 style community discourse amongst researchers, makes heterogeneous data resources available to the collaborating scientist, captures the semantics of the relationship among the resources and structures discourse around the resources. The first instance of the SCF framework is being used to create an open-access online community for stem cell researchStemBook (http://www.stembook.org>). We believe that such a framework is required to achieve optimal productivity and leveraging of resources in interdisciplinary scientific research. We expect it to be particularly beneficial in highly interdisciplinary areas, such as neurodegenerative disease and neurorepair research, as well as having broad utility across the natural sciences.