RAT GENOME DATABASE

大鼠基因组数据库

• 批准号: 6076040
• 负责人: HOWARD J JACOB
• 金额: $ 160.62万
• 依托单位: MEDICAL COLLEGE OF WISCONSIN
• 依托单位国家: 美国
• 财政年份: 1999
• 资助国家: 美国
• 起止时间: 1999-09-30 至 2003-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/6076040
• 关键词: Internet; computer program /software; computer system design /evaluation; genetic mapping; genetic markers; genome; information retrieval; laboratory rat; molecular biology information system; nucleic acid sequence

The rat is a widely-used and highly-valued model system for physiology, pharmacology, and toxicology. The US and International Rat Genome Projects have developed new genomic tools and resources. The information and reagents developed through these efforts has grown at an astounding pace. More than 8,000 genetic markers cover the rat genome, and hundreds of known genes are placed within this genetic framework. Multiple large- insert genomic libraries, radiation hybrid (RH) cell lines and map, normalized cDNA libraries, allele characterization for genetic markers in 48 inbred strains, a cytogenetic map, over 90,000 ESTs (2,000 of them mapped), and comparative maps have been generated. However, the support for the database infrastructure has been limited. Currently, data are distributed across many databases at scores of research labs, and many important data sets are not available on the internet. We propose the following specific aims: 1. Address the immediate community-wide need for a publicly available rat genomic database currently available (http://www.informatics.jax.org/rat),while we transition to RGD. 2. Populate the RGD with data in the following areas: ESTs, genes, markers, primer names, genetic maps and comparative maps and supporting homology information (TJL), and UniGene Clusters. 3. Implement the RGD curation system and supporting data structures to allow direct data entry and editing by project staff and downloads of bulk data from genome centers. 4. Provide a rat RH reference map that is integrated with collections of EST and genetic markers. 5. Provide on-line tools for using the resources of the rat genome. 6. Promote the use of RGD as a tool for data analysis and exploration by providing user training and on-line help, by responding to user queries, and by community outreach activities, such as a visiting scientists training program.

大鼠是生理学、药理学和毒理学领域广泛使用且具有高度价值的模型系统。 美国和国际大鼠基因组计划开发了新的基因组工具和资源。 通过这些努力开发的信息和试剂以惊人的速度增长。 超过 8,000 个遗传标记覆盖了大鼠基因组，数百个已知基因位于该遗传框架内。 已生成多个大型插入基因组文库、辐射杂交 (RH) 细胞系和图谱、归一化 cDNA 文库、48 个近交系遗传标记的等位基因特征、细胞遗传学图谱、超过 90,000 个 EST（其中 2,000 个已作图）和比较图谱。然而，对数据库基础设施的支持是有限的。 目前，数据分布在数十个研究实验室的许多数据库中，并且许多重要的数据集无法在互联网上获得。 我们提出以下具体目标： 1. 在我们过渡到 RGD 的同时，满足当前社区对公开可用的大鼠基因组数据库 (http://www.informatics.jax.org/rat) 的迫切需求。 2. 使用以下领域的数据填充 RGD：EST、基因、标记、引物名称、遗传图谱和比较图谱以及支持同源信息 (TJL) 和 UniGene Clusters。 3. 实施RGD管理系统和支持数据结构，以允许项目人员直接输入和编辑数据以及从基因组中心下载批量数据。 4. 提供与 EST 和遗传标记集合集成的大鼠 RH 参考图。 5. 提供大鼠基因组资源利用的在线工具。 6. 通过提供用户培训和在线帮助、响应用户查询以及社区外展活动（例如访问科学家培训计划），促进使用 RGD 作为数据分析和探索的工具。