Design and Implementation of Effective Solutions for Archiving and Processing Systems Biology Data: Research Integrated with an Ongoing High School Education Program.

归档和处理系统生物学数据的有效解决方案的设计和实施：研究与正在进行的高中教育计划相结合。

• 批准号: 0640950
• 负责人: Nitin Baliga
• 金额: $ 184.53万
• 依托单位: Institute for Systems Biology
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2007
• 资助国家: 美国
• 起止时间: 2007-07-01 至 2012-09-30
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=0640950&HistoricalAwards=false
• 关键词: Design; Implementation; Effective; Solutions; Archiving

The Institute of Systems Biology is awarded a grant to design an informatics solution for the integration of systems biology data to expedite network inference and knowledge discovery. Specific aims include (1) definition of a flexible data standard for capturing experiment and sample information in digital form (2) development of tools to assist data curation, retrieval, and statistical analysis; and (3) creation of education -oriented database extensions that facilitate high-school training programs. As part of the project, the PI's will develop an inquiry based education program in systems biology that brings mathematics, natural science and computer science to high-school curricula.The central strategy of the project is motivated by a key observation that, although complex, each data type (for example, microarray ratios, tandem mass spectra, protein/DNA networks, sequences, annotations etc.) is usually well-defined in its 'native' context, and that complexity arises mostly when these data are combined. Tools and approaches developed in this project will, therefore, capitalize on virtues of independent small, specialized and robust databases and software, and enable downstream integration by loosely connecting these sub-systems using carefully crafted rules and technologies such as Java RMI. An important provision of this simple approach will allow researchers to dynamically relate their data to other valuable remotely managed databases through an evolving set of rules, and an inference engine that applies these rules. Furthermore, because experiment design and sample processing are indispensable while analyzing data to draw meaningful insights, data integration will be guided by a flexible experiment meta-information schema, which will be formalized in this project. To extend practicality of this data schema for day-to-day use, user-friendly software tools developed in this project will interface laboratory scientists directly with automated data processing pipelines to help capture experiment details and create this meta-information schema.

系统生物学研究所被授予赠款，以设计信息学解决方案，以集成系统生物学数据以加快网络推理和知识发现。具体目的包括（1）以数字形式捕获实验和示例信息的灵活数据标准（2）开发工具以帮助数据策展，检索和统计分析； （3）创建促进高中培训计划的面向教育的数据库扩展。作为项目的一部分，PI将制定基于询问的系统生物学教育计划，该计划将数学，自然科学和计算机科学带入高中课程。当这些数据合并时，大多会出现。因此，该项目开发的工具和方法将利用独立的小型，专业和健壮的数据库和软件的优点，并通过使用精心制作的规则和技术（例如Java RMI）松散地连接这些子系统来实现下游集成。这种简单方法的一个重要规定将使研究人员能够通过不断发展的规则集和应用这些规则的推理引擎将其数据与其他有价值的远程管理数据库联系起来。此外，由于实验设计和样本处理是必不可少的，同时分析数据以汲取有意义的见解，因此数据集成将由灵活的实验元信息架构指导，该模式将在该项目中正式化。为了扩展此数据模式的实用性以供日常使用，该项目开发的用户友好的软件工具将直接与自动数据处理管道接口，以帮助捕获实验详细信息并创建此元信息模式。