RCN: RNA Ontology Consortium (ROC)

RCN：RNA本体联盟（ROC）

• 批准号: 0443508
• 负责人: Craig Zirbel
• 金额: $ 50万
• 依托单位: Bowling Green State University
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2005
• 资助国家: 美国
• 起止时间: 2005-03-15 至 2012-02-29
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=0443508&HistoricalAwards=false
• 关键词: RCN; RNA; Ontology; Consortium; ROC

This Research Coordination Network (RCN) project supports the establishment of the RNA Ontology Consortium (ROC), which aims to create an integrating conceptual framework--an RNA Ontology (RO)--with which to understand RNA function in biological systems and to advance research in RNA biology, chemistry and genomics. This will require the integration of the research paradigms of chemists, molecular biologists, genomicists, information scientists and structural biologists, and will in turn require the creation of a common, dynamic, controlled vocabulary (the RO), pertaining to RNA function and based on RNA sequences, secondary and three-dimensional structures. Thus, the central objective of the ROC is to identify all RNA motifs mentioned in the literature or appearing in databases, to agree upon a definition for each motif and to write that definition down in a structured manner. This is very timely as knowledge about RNA accumulates and progresses rapidly. The purposes for creating the RO are therefore (1) to integrate sequence and structural databases and (2) to create powerful software tools that bring advanced computational methods to the bench scientist. In short, this will advance RNA science by turning diverse information and data accumulation into knowledge. To achieve these aims, ROC will foster communication and promote collaboration among RNA scientists by coordinating frequent face-to-face workshops to discuss, debate, and resolve difficult conceptual issues. These meeting opportunities will create new research directions at various levels of RNA research. At the RNA Society meeting each year, ROC working groups will report progress and obtain feedback from the wider community of RNA scientists. The broader impacts of the project will flow from the tangible products of the networking activities: (1) the RNA Ontology itself, (2) usefully linked databases, and (3) powerfully integrated software. The creation of the RO will facilitate communication and collaboration among the overlapping communities of scientists involved in various aspects of RNA science. Moreover, the RO will provide students and teachers of science at all levels with clear concepts for understanding the molecular basis of life, and the important roles played by RNA. The integration of disparate sources of information and the creation of integrated software and collaboration tools will expand and enhance the ability of bench scientists to interpret their experimental data and of computational biologists and genomicists to mine genomic data. The project will build on the experience of the core group in constructing the RNA mark-up language, RNAML, the structural mark-up language PDBML, a comprehensive classification of basepairing in RNA, as well as SCOR (Structural Classification of RNA) and the Riboweb project. The ROC will work closely with the Gene Ontology and Sequence Ontology communities to create a comprehensive integrated ontology pertaining to RNA and will make its work accessible on the World-Wide Web using servers hosted by Bowling Green State University. The Consortium has the support of the RNA Society to actively foster participation in its activities and to seek broad input for its work. The mechanism for actively promoting diverse participation will include active recruitment by the Coordinator and Steering Committee and dissemination of information regarding the ROC through the WWW and the email lists of the RNA Society and related professional societies. The ROC encourages the participation of all interested scientists.

该研究协调网络（RCN）项目支持建立RNA本体论联盟（ROC），其目的是创建一个整合的概念框架-RNA本体论（RO）-了解RNA在生物系统中的功能，并推进RNA生物学，化学和基因组学的研究。这将需要整合化学家，分子生物学家，基因组学家，信息科学家和结构生物学家的研究范式，并反过来需要创建一个共同的，动态的，受控的词汇（RO），有关RNA功能和基于RNA序列，二级和三维结构。因此，ROC的中心目标是识别文献中提到的或数据库中出现的所有RNA基序，对每个基序的定义达成一致，并以结构化的方式写下该定义。这是非常及时的，因为有关RNA的知识积累和进展迅速。因此，创建RO的目的是（1）整合序列和结构数据库，以及（2）创建强大的软件工具，为实验室科学家带来先进的计算方法。 简而言之，这将通过将多样化的信息和数据积累转化为知识来推进RNA科学。为了实现这些目标，ROC将通过协调频繁的面对面研讨会来促进RNA科学家之间的沟通和合作，以讨论，辩论和解决困难的概念问题。这些会议机会将在RNA研究的各个层面上创造新的研究方向。在每年的RNA学会会议上，ROC工作组将报告进展情况，并从更广泛的RNA科学家社区获得反馈。 该项目更广泛的影响将来自网络活动的有形产品：（1）RNA本体论本身，（2）有用的链接数据库，以及（3）强大的集成软件。RO的创建将促进参与RNA科学各个方面的重叠科学家社区之间的沟通和合作。 此外，RO将为各级科学学生和教师提供清晰的概念，以了解生命的分子基础，以及RNA所扮演的重要角色。整合不同的信息来源和创建集成的软件和协作工具将扩大和提高实验室科学家解释其实验数据的能力以及计算生物学家和基因组学家挖掘基因组数据的能力。该项目将建立在核心小组在构建RNA标记语言RNAML、结构标记语言PDBML、RNA碱基配对综合分类以及SCOR（RNA结构分类）和Riboweb项目方面的经验基础上。中华民国将与基因本体论和序列本体论社区密切合作，建立一个全面的综合本体论有关的RNA，并将使其工作在万维网上访问使用服务器托管的鲍林绿色州立大学。联合会得到RNA协会的支持，积极促进参与其活动，并为其工作寻求广泛的投入。积极推动多元参与的机制，将包括协调人及指导委员会积极招募，并透过网络、RNA学会及相关专业学会的电子邮件名单，传播中华民国的相关信息。中华民国鼓励所有有兴趣的科学家参与。