Wormbase: A Core Data Resource for C. Elegans Biology

Wormbase：线虫生物学的核心数据资源

• 批准号: 6688081
• 负责人: PAUL Warren STERNBERG
• 金额: $ 310.13万
• 依托单位: CALIFORNIA INSTITUTE OF TECHNOLOGY
• 依托单位国家: 美国
• 财政年份: 2000
• 资助国家: 美国
• 起止时间: 2000-07-20 至 2008-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/6688081
• 关键词: Caenorhabditis elegans; Internet; anatomy; animal genetic material tag; archives; biomedical resource; computer human interaction; computer program /software; computer system design /evaluation; data management; ethology; functional /structural genomics; gene expression; gene interaction; genetic mapping; genetic registry /resource /referral center; genetic strain; helminth genetics; literature survey; molecular biology information system

DESCRIPTION: (provided by applicant) Caenorhabditis elegans is a major model system for basic biological and biomedical research and the first animal for which there is a complete description of its genome, anatomy and development. Five years of funding is requested to maintain and expand WormBase, a Model Organism Database (MOD), with complete coverage of core genomic, genetic, anatomical and functional information about this nematode. Such a database is necessary to allow the entire biomedical research community as well as C. elegans researchers to make full use of the 100 Mb genomic sequence, with its 19,500 genes, the 108 Mb sequence of C. briggsae, and the results of intensive molecular genetic analysis of C. elegans. The two top priorities will be intensive data curation and user interface improvement. WormBase will include up-to-date annotation of the genomic sequence, the current genetic and physical maps and many experimental data connected to the function and interactions of cells and genes, as well as development and organismal behavior. Direct access to the sources of biological material, such as the strain collection of the Caenorhabditis genetics Center and direct links to data sets maintained by others will be provided. Data will be recovered from the existing resources, from direct contribution of the individual laboratories, and from the literature. While WormBase will act as a central forum through which every laboratory will be able to contribute constructively to the global effort to fully comprehend this metazoan organism, WormBase professional curators will ensure detailed attribution of data sources and check consistency and integrity. To facilitate communication WormBase will use wherever possible terminology and style concordant with other model organism databases. WormBase will be Web based and easy to use. Multiple databases will be used for data management; the object-based Acedb database system will be used for integration, and this integrated database plus "slave" relational databases will be used to drive the website. Coordination of the project and the main curation site will be at Caltech under the supervision of a C. elegans biologist. Curation and annotation of genomic sequence will take place at the two sequencing centers, the Sanger Institute and Washington University that generated the entire genome sequence. Development of enhanced user interfaces will take place at Cold Spring Harbor. WormBase will work with other MODs to develop shared schema and software (the Generic Model Organism Database project), and shared ontologies (Gene Ontology Consortium).

描述：（由申请人提供）秀丽隐杆线虫是基础生物学和生物医学研究的主要模型系统，也是第一种对其基因组、解剖学和发育有完整描述的动物。 需要五年的资金来维护和扩展 WormBase，这是一个模式生物数据库 (MOD)，完整覆盖有关该线虫的核心基因组、遗传、解剖和功能信息。 这样的数据库对于整个生物医学研究界以及线虫研究人员来说是必要的，可以充分利用包含 19,500 个基因的 100 Mb 基因组序列、C. briggsae 的 108 Mb 序列以及密集分子研究的结果。秀丽隐杆线虫的遗传分析。 两个首要任务将是密集数据管理和用户界面改进。 WormBase 将包括基因组序列的最新注释、当前的遗传和物理图谱以及与细胞和基因的功能和相互作用以及发育和有机行为相关的许多实验数据。 将提供对生物材料来源的直接访问，例如秀丽隐杆线虫遗传学中心的菌株收集以及与其他人维护的数据集的直接链接。 数据将从现有资源、各个实验室的直接贡献以及文献中恢复。 虽然 WormBase 将充当一个中心论坛，每个实验室都可以通过该论坛为全面理解这种后生动物生物体的全球努力做出建设性贡献，但 WormBase 专业管理者将确保数据源的详细归属并检查一致性和完整性。 为了促进交流，WormBase 将尽可能使用与其他模型生物数据库一致的术语和风格。 WormBase 将基于 Web 并且易于使用。 将使用多个数据库进行数据管理；基于对象的Acedb数据库系统将用于集成，该集成数据库加上“从属”关系数据库将用于驱动网站。该项目和主要策展地点的协调将在加州理工学院进行，并由秀丽隐杆线虫生物学家监督。基因组序列的整理和注释将在生成整个基因组序列的桑格研究所和华盛顿大学这两个测序中心进行。增强型用户界面的开发将在冷泉港进行。 WormBase 将与其他 MOD 合作开发共享模式和软件（通用模型生物数据库项目）以及共享本体（基因本体联盟）。