The NEW Biology Workbench

新的生物学工作台

• 批准号: 6901589
• 负责人: MARK A MILLER
• 金额: $ 55.81万
• 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/6901589
• 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.

描述（由申请人提供）：生物医学研究已越来越依赖于分析基因和蛋白质序列的软件和可视化工具。提供适当的信息技术支持环境来分析序列并存储所产生的数据是必不可少的，但通常对进行“湿实验室”调查作为其主要目标的研究人员提出了一个特别的挑战。目前，28,000名研究人员和学生依靠生物学工作台（Workbench.sdsc.edu）来满足其对序列分析软件，数据存储和数据检索的需求。 Biology Workbench为用户免费访问基于Web的环境，只有Internet浏览器只能进行分析，访问数据库并存储其结果。用户可以访问80个序列分析功能和33个具有国际意义的远程数据库，以及其个人数据的存储分配。现在，生物学工作台的用户群已经增长了，比生物学工作台的原始体系结构可以支持，并且其增长率保持恒定。该提案概述了一种避免现有生物学工作台的方法，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，数据库以及存储其工作结果的领域的需求。在其重构形式中，在此资金下创建的下一代生物学工作台将消除对用户数量的限制，创建一个易于扩展的可重复使用的结构，可以将社区代码安装到其中。它将为用户访问当前所有可用的工作台工具，以及各种新的启用技术，包括可视化工具，Web服务，用户可配置的接口，点对点数据共享功能和网格计算功能。该提案概述了一种定义明确的方法，用于创建和进化本提案中创建的软件，以确保其满足其用户群的需求。它还描述了一种将用户群扩展到新社区的方法。