Development of the www.EcoliCommunity.org Information Resource
www.EcoliCommunity.org 信息资源的开发
基本信息
- 批准号:7680945
- 负责人:
- 金额:$ 16.24万
- 依托单位:
- 依托单位国家:美国
- 项目类别:
- 财政年份:2006
- 资助国家:美国
- 起止时间:2006-06-01 至 2010-05-31
- 项目状态:已结题
- 来源:
- 关键词:ArchitectureAwardBackBacteriophagesBiochemistryBiologicalBiological databasesBlast CellCell divisionCell modelCell physiologyCellsCollaborationsCommunitiesComputer AssistedComputer softwareConflict (Psychology)DataDatabasesDepthDevelopmentEducational workshopEscherichia coliEscherichia coli EHECEyeFeedbackGene ExpressionGenesGeneticGenetic TranscriptionGenomeGoalsHealthHousingHumanImageImageryInformaticsInformation ResourcesInformation SystemsInternetJavaKnowledgeLifeMaintenanceMicrobeMiningMolecularMolecular BiologyNumbersOklahomaOnline SystemsOntologyOrganismPathway interactionsPhasePhysiologicalPlasmidsProcessProteinsRNA ProcessingRangeRegulationRelative (related person)ResourcesSalmonellaScientistServicesShigellaSiteSourceStandards of Weights and MeasuresSystemTestingTranslationsUniversitiesVocabularyWorkbasecomputerized toolsdata miningdatabase designdesignenteropathogenic Escherichia coliexperiencegene functiongenetic elementgraspimprovedinteroperabilityintracellular protein transportmembermutantnewspathogenic bacteriapeerprotein foldingprotein localization locationprotein protein interactionprototyperepositoryresponsesmall moleculestructural biologytooluser-friendlyweb-accessible
项目摘要
DESCRIPTION (provided by applicant): Basic knowledge of the biochemistry, molecular biology, and genetics of Escherichia coli K-12 may be more advanced than for any other organism. This information ranges from environmental physiologic responses down to the atomic level and its the sheer volume makes it exceedingly difficult, even for experts, to fully grasp and utilize. While many databases, websites, and computational tools enable access to and interrogation of these biological data, none is comprehensive and many gaps exist. The quality and quantity of these resources vary; many have redundant, conflicting, and out-of-date information. Since data typically cannot be traced back to sources, reliability is constantly in question. Existing information systems are disorganized, overwhelmed by current knowledge, and not prepared for handling new information from high-throughput experimentation (genome-wide transcription, translation, and metabolite profiling, large-scale structural biology, enhanced imaging of living cells, and the like). The proposed integrated "one-stop-shopping" E. coli community information Resource, EcoliHub, will permit full use of existing knowledge and enable new discoveries for a deeper understanding of life processes. These tools and the advances they allow will greatly impact human health both through application to pathogenic bacteria, especially enteropathogenic E. coli, Shigella, and Salmonella species, and because many cellular processes are universal. This EcoliHub Resource builds on our prototype database designed for seamless and transparent bi-directional connections with cooperating interoperable resources (EcoCyc, Genobase and the OU microarray DB), and with major biological databases (e.g., ERIC, NCBI Entrez Gene, UniProt, and KEGG). EcoliHub will provide a chat room to facilitate community-driven developments that meet the needs of the users. It will offer on-the-fly computational tools for molecular and structural analysis; like 3D-PSSM, BLAST/PSI-BLAST, BLOCKS, Pfam, and PredictProtein. The Resource will maintain a depository of related E. coli informatics from specialized databases including Brenda, GeneMark, GenProtEC, GO, LipoP, MEROPS, PORES, RegulonDB, Superfamily, and TransportDB. Schemata will be designed to annotate and track changes within the information sources. A module for biosamples (strains, plasmids, etc.) will facilitate materials acquisition from national repositories (the Coli Genetic Stock Center and others). Interoperation and provision of information will be achieved with web services and a web-based architecture will provide public access to the Resource, including intuitive software for data mining and high-throughput functional studies.
描述(由申请人提供):大肠杆菌 K-12 的生物化学、分子生物学和遗传学基础知识可能比任何其他生物体更先进。这些信息的范围从环境生理反应到原子水平,其庞大的数量使得即使对于专家来说也很难完全掌握和利用。虽然许多数据库、网站和计算工具都可以访问和询问这些生物数据,但没有一个是全面的,并且存在许多差距。这些资源的质量和数量各不相同;许多信息存在冗余、冲突和过时的信息。由于数据通常无法追溯到来源,因此可靠性始终受到质疑。现有的信息系统杂乱无章,被当前的知识淹没,并且没有准备好处理来自高通量实验(全基因组转录、翻译和代谢物分析、大规模结构生物学、活细胞增强成像等)的新信息。拟议的综合“一站式”大肠杆菌群落信息资源 EcoliHub 将允许充分利用现有知识并实现新发现,以更深入地了解生命过程。这些工具及其所带来的进步将通过应用于病原菌,特别是肠病性大肠杆菌、志贺氏菌和沙门氏菌,并且因为许多细胞过程是普遍的而极大地影响人类健康。该 EcoliHub 资源建立在我们的原型数据库基础上,该数据库旨在与协作的互操作资源(EcoCyc、Genobase 和 OU 微阵列数据库)以及主要生物数据库(例如 ERIC、NCBI Entrez Gene、UniProt 和 KEGG)进行无缝和透明的双向连接。 EcoliHub 将提供一个聊天室,以促进社区驱动的开发,满足用户的需求。它将提供用于分子和结构分析的动态计算工具;例如 3D-PSSM、BLAST/PSI-BLAST、BLOCKS、Pfam 和 PredictProtein。该资源将维护来自专业数据库的相关大肠杆菌信息库,包括 Brenda、GeneMark、GenProtEC、GO、LipoP、MEROPS、PORES、RegulonDB、Superfamily 和 TransportDB。图式将被设计为注释和跟踪信息源内的变化。生物样本(菌株、质粒等)模块将有助于从国家储存库(大肠杆菌遗传库存中心等)获取材料。互操作和信息提供将通过网络服务实现,基于网络的架构将提供对资源的公众访问,包括用于数据挖掘和高通量功能研究的直观软件。
项目成果
期刊论文数量(0)
专著数量(0)
科研奖励数量(0)
会议论文数量(0)
专利数量(0)
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BARRY L WANNER的其他文献
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{{ truncateString('BARRY L WANNER', 18)}}的其他基金
Comprehensive Mapping and Annotation of the E. coli Transcriptome
大肠杆菌转录组的综合作图和注释
- 批准号:
7838517 - 财政年份:2009
- 资助金额:
$ 16.24万 - 项目类别:
Development of the www.EcoliCommunity.org Information Resource
www.EcoliCommunity.org 信息资源的开发
- 批准号:
7886194 - 财政年份:2009
- 资助金额:
$ 16.24万 - 项目类别:
Comprehensive Mapping and Annotation of the E. coli Transcriptome
大肠杆菌转录组的综合作图和注释
- 批准号:
7945311 - 财政年份:2009
- 资助金额:
$ 16.24万 - 项目类别:
Development of the www.EcoliCommunity.org Information Resource
www.EcoliCommunity.org 信息资源的开发
- 批准号:
7843094 - 财政年份:2006
- 资助金额:
$ 16.24万 - 项目类别:
Development of the www.EcoliCommunity.org Information Resource
www.EcoliCommunity.org 信息资源的开发
- 批准号:
7434473 - 财政年份:2006
- 资助金额:
$ 16.24万 - 项目类别:
Development of the www.EcoliCommunity.org Information Resource
www.EcoliCommunity.org 信息资源的开发
- 批准号:
7116641 - 财政年份:2006
- 资助金额:
$ 16.24万 - 项目类别:
Development of the www.EcoliCommunity.org Information Resource
www.EcoliCommunity.org 信息资源的开发
- 批准号:
7237890 - 财政年份:2006
- 资助金额:
$ 16.24万 - 项目类别:
Genomic-driven Approaches in E.coli Physiology
大肠杆菌生理学中的基因组驱动方法
- 批准号:
6483925 - 财政年份:2002
- 资助金额:
$ 16.24万 - 项目类别:
Genomic-driven Approaches in E.coli Physiology
大肠杆菌生理学中的基因组驱动方法
- 批准号:
6942996 - 财政年份:2002
- 资助金额:
$ 16.24万 - 项目类别:
Genomic-driven Approaches in E.coli Physiology
大肠杆菌生理学中的基因组驱动方法
- 批准号:
6736237 - 财政年份:2002
- 资助金额:
$ 16.24万 - 项目类别:
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