The NEW Biology Workbench

新的生物学工作台

• 批准号: 7037447
• 负责人: MARK A MILLER
• 金额: $ 51.84万
• 依托单位: UNIVERSITY OF CALIFORNIA, SAN DIEGO
• 依托单位国家: 美国
• 财政年份: 2005
• 资助国家: 美国
• 起止时间: 2005-04-01 至 2009-03-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7037447
• 关键词: Internet; computer assisted sequence analysis; computer human interaction; computer program /software; computer system design /evaluation; data management; information retrieval; molecular biology information system

DESCRIPTION (provided by applicant): Biomedical research has become increasingly dependent upon software and visualization tools to analyze gene and protein sequences. Providing a proper information technology support environment to analyze sequences and store the data produced is essential, but often presents a particular challenge to researchers who have conducting "wet lab" investigations as their main goal. At present, 28,000 researchers and students depend on the Biology Workbench (workbench.sdsc.edu) to meet their needs for sequence analysis software, data storage, and data retrieval. The Biology Workbench provides users free access to web-based environment where users with only an internet browser can conduct analyses, access databases, and store their results. Users have access to 80 sequence analysis functions and 33 remote databases of international significance, and a storage allocation for their personal data. The user base of the Biology Workbench has now grown larger than the original architecture of the Biology Workbench can support, and its rate of growth remains constant. This proposal outlines a methodology to refractor the existing Biology Workbench to create a more modular, more stable platform to meet the needs of Molecular Biologists for analytical tools, databases, and an area to store the results of their work. In its refactored form, the Next Generation Biology Workbench created under this funding will remove the limitation on number of users, create an easily expansible, reusable structure into which community codes can be mounted. It will provide users access to all currently available Workbench tools, and a variety of new enabling technologies, including visualization tools, Web Services, a user configurable interface, peer-to-peer data sharing capabilities, and grid computing capabilities. The proposal outlines a well defined methodology for creating and evolving the software created under this proposal to ensure that it meets the needs of its user base. It also describes a methodology for expanding the user base into new communities.

生物医学研究越来越依赖于软件和可视化工具来分析基因和蛋白质序列。提供一个适当的信息技术支持环境来分析序列和存储产生的数据是必不可少的，但往往提出了一个特殊的挑战，研究人员进行“湿实验室”的调查，他们的主要目标。目前，28，000名研究人员和学生依赖于生物学数据库（workbench.sdsc.edu）来满足他们对序列分析软件，数据存储和数据检索的需求。生物学实验室为用户提供免费访问基于网络的环境，用户只需一个互联网浏览器就可以进行分析，访问数据库并存储结果。用户可以使用80个序列分析功能和33个具有国际意义的远程数据库，并为他们的个人数据分配存储空间。现在，生物学平台的用户群已经超过了生物学平台最初的架构所能支持的范围，并且其增长率保持不变。该提案概述了折射现有生物学平台的方法，以创建一个更模块化，更稳定的平台，以满足分子生物学家对分析工具，数据库和存储其工作结果的区域的需求。在其重构形式下，在此资金下创建的下一代生物学平台将消除对用户数量的限制，创建一个易于扩展，可重用的结构，其中可以安装社区代码。它将为用户提供对所有当前可用的可扩展数据库工具的访问，以及各种新的支持技术，包括可视化工具、Web服务、用户可配置界面、对等数据共享功能和网格计算功能。该提案概述了一个明确界定的方法，用于创建和发展根据该提案创建的软件，以确保其满足用户群的需要。它还描述了一种将用户群扩大到新社区的方法。