NETWORK SERVER FOR ELECTRONIC GENETIC ANALYSIS

用于电子遗传分析的网络服务器

• 批准号: 2238164
• 负责人: ROSS C HARDISON
• 金额: $ 21.73万
• 依托单位: PENNSYLVANIA STATE UNIVERSITY, THE
• 依托单位国家: 美国
• 财政年份: 1995
• 资助国家: 美国
• 起止时间: 1995-08-01 至 1998-07-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/2238164
• 关键词: Mammalia; computer assisted sequence analysis; computer data analysis; computer human interaction; computer network; computer program /software; computer system design /evaluation; genetic library; globin; information systems; online computer

For many genetic loci, the rapid accumulation of sequence data from several species, along with detailed functional analyses, has produced a ponderous data set that is challenging, if not impossible, for individual investigators to fully assimilate. We propose to develop a prototype database of sequence alignments and experimental results for the beta-like globin gene cluster of mammals. This data repository is intended to help the international community of scientists studying globin genes to plan experiments, to design models and, ultimately, to understand regulation of those genes. The resource will be developed for mammalian beta-like globin gene clusters because they have been thoroughly sequenced for several species and extensive functional data are available. Moreover, the approaches and software developed for this project will be applicable to other sequence-analysis problems, and the prototype developed here will be applicable to any locus for which extensive sequence and functional data are available from several species. We recently developed a program that can simultaneously align a few very long sequences. An e-mail server was then established to deliver any requested portion of the alignment, annotated to indicate highly-conserved regions and known sequence features. This proposal seeks support to develop an interactive Globin Gene Server on the Internet to provide access to and analysis of both the alignments and experimental data. We are currently refining a data model and a collection of tools to capture and display the wealth of pertinent experimental data. Implementation of these tools will allow the user to view the results of the simultaneous alignment of sequences (conserved sequence blocks) in register with the experimental data, thus providing an integrated view of the gene cluster in a flexible, interactive format. This integrated view of both alignments and experimental data in register, which we call electronic genetic analysis, is a unique feature of this database. Future developments will include tools to search the Transcription Factor Database for matches to the consensus for conserved blocks, provide alternative alignments, produce summary views of the database in an interactive manner, support batch queries in classic database query languages, and automatically detect database inconsistencies. To best serve the needs of our potential user community, this information is being made available via World-Wide Web, which is an interactive, graphically oriented environment available over the Internet.

对于许多遗传基因座来说，来自基因组的序列数据的快速积累， 几个物种，沿着详细的功能分析，产生了一个 对个人来说，这是一个具有挑战性的，如果不是不可能的， 调查人员充分吸收。 我们建议开发一个原型 序列比对和实验结果的数据库， 哺乳动物珠蛋白基因簇。 此数据存储库旨在帮助 研究珠蛋白基因的国际科学家团体 实验，设计模型，并最终了解 这些基因。 该资源将开发用于哺乳动物β-样 珠蛋白基因簇，因为它们已经被彻底测序， 有几个物种和广泛的功能数据。 此外，委员会认为， 为该项目开发的方法和软件将适用于 其他序列分析问题，这里开发的原型将 适用于任何基因座，对于该基因座， 数据可从几个物种获得。 我们最近开发了一个程序，可以同时对齐几个非常 长序列 然后建立了一个电子邮件服务器， 比对的请求部分，注释以指示高度保守的 区域和已知序列特征。 这项建议寻求支持， 在互联网上开发交互式珠蛋白基因服务器， 访问和分析比对和实验数据。 我们 目前正在完善一个数据模型和一系列工具， 并展示了丰富的相关实验数据。 执行 这些工具将允许用户查看同时 序列（保守序列块）与 实验数据，从而提供了基因簇的综合视图 以灵活、互动的形式。 这两种观点的综合 我们称之为电子数据库， 基因分析是该数据库的一个独特功能。 未来 发展将包括搜索转录因子的工具， 数据库，用于与保守区块的一致性匹配，提供 替代对齐，在 交互方式，支持经典数据库查询中的批查询 语言，并自动检测数据库不一致。 最好地 为了满足我们潜在用户社区的需求，这些信息正在 通过万维网提供，万维网是一个互动的、图形化的 在互联网上提供的面向环境。