Wormbase: A Core Data Resource for C. Elegans Biology

描述：(申请人提供)秀丽线虫是基础生物和生物医学研究的主要模式系统，也是第一个对其基因组、解剖和发育有完整描述的动物。需要五年的资金来维护和扩大WormBase，这是一个模式生物数据库(MOD)，全面涵盖了这种线虫的核心基因组、遗传、解剖和功能信息。为了使整个生物医学研究界以及线虫研究人员能够充分利用100 Mb的基因组序列及其19,500个基因，以及线虫的108 Mb序列和密集的分子遗传学分析结果，这样的数据库是必要的。两个首要任务将是密集的数据精选和用户界面改进。WormBase将包括基因组序列的最新注释、当前的遗传和物理地图以及许多与细胞和基因的功能和相互作用以及发育和生物行为有关的实验数据。将提供对生物材料来源的直接访问，如线虫遗传中心的菌株收集，以及与其他机构维护的数据集的直接链接。数据将从现有资源、个别实验室的直接贡献和文献中恢复。虽然WormBase将作为一个中心论坛，通过该论坛，每个实验室将能够为全面了解这种后生生物的全球努力做出建设性贡献，但WormBase的专业馆长将确保数据源的详细归属，并检查一致性和完整性。为了便于交流，WormBase将尽可能使用与其他模式生物数据库一致的术语和风格。WormBase将是基于Web的，并且易于使用。将使用多个数据库进行数据管理；将使用基于对象的Acedb数据库系统进行整合，并使用这种整合后的数据库加上“从属”关系数据库来驱动网站。该项目和主要管理地点的协调将在加州理工大学进行，由线虫生物学家监督。基因组序列的整理和注释将在产生整个基因组序列的两个测序中心--桑格研究所和华盛顿大学进行。改进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(通用模型有机体数据库项目)，以及共享本体(基因本体联盟)。

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).