Web-Based Resource for Genomic Enzymology Tools
基于网络的基因组酶学工具资源
基本信息
- 批准号:10548888
- 负责人:
- 金额:$ 56.12万
- 依托单位:
- 依托单位国家:美国
- 项目类别:
- 财政年份:2022
- 资助国家:美国
- 起止时间:2022-01-10 至 2026-12-31
- 项目状态:未结题
- 来源:
- 关键词:Amino Acid SequenceAmino Acid Sequence DatabasesArchaeaArchaeal ProteinsArchivesBacteriaBacterial ProteinsBiochemicalBioinformaticsChemicalsColorCommunitiesData SetDatabasesDemocracyDevelopmentDiseaseEnvironmentEnzymatic BiochemistryEnzymesEuropeanExpressed Sequence TagsFamilyFungal ProteinsGenesGenetic TranscriptionGenomeGenomicsGuiltHuman MicrobiomeIndividualInternationalIntestinesKnowledgeLegal patentMapsMetabolicMetabolic PathwayMetagenomicsNational Institute of General Medical SciencesNatural ProductsNeighborhoodsNon-Insulin-Dependent Diabetes MellitusNucleotidesOccupationsOntologyPharmacologic SubstancePhysiologicalPregnancyProtein FamilyProteinsPublicationsRequest for ApplicationsResourcesRunningSequence AnalysisSurveysSystems BiologyVisualizationbioinformatics toolbiophysical propertiescandidate identificationcomputer infrastructurecomputer programfungusgenome analysisgenome databasegenome resourceimprovedin vitro activityin vivointerestlink proteinmetagenomemetatranscriptomemicrobialmicrobiomenovelonline resourceprototyperesponsescreeningsmall molecule librariestool
项目摘要
PROJECT SUMMARY/ABSTRACT
This application requests support for a web-based resource that provides community access to “genomic
enzymology” tools to 1) enable identification of uncharacterized proteins for functional discovery, including those
that are present in human microbiome and other metagenomic communities; 2) facilitate assignment of function
to uncharacterized proteins by providing easy access to genome context/functional linkage; and 3) survey
sequence-function space in protein families for identification of candidates for functional screening and
improvement of desired biochemical/biophysical properties (useful for systems biology as well as the
pharmaceutical and chemical applications). The resource provides three integrated tools: 1) EFI-EST for
visualization/analysis of sequence-function space in proteins families using sequence similarity networks
(SSNs); 2) EFI-GNT for visualization/analysis of genome context for microbial and fungal proteins in SSNs using
genome neighborhood networks and genome neighborhood diagrams to identify functionally linked proteins
(e.g., enzymes, transporters, and transcriptional regulators in novel metabolic pathways); and 3) EFI-CGFP for
chemically guided functional profiling that maps metagenome and/or meta-transcriptome abundance to clusters
in SSNs for identification of important microbiome targets for functional characterization. The resource enables
access to the tools without the need for users to have computer programming expertise and/or local access to
the necessary computational infrastructure. The resource has been available since 2014; its development and
dissemination have been supported by U54GM093342 and P01GM118303. The resource has been accessed
by >5,000 domestic and international users and cited in >300 publications and patents, confirming its ease-of-
use, popularity, and impact.
项目总结/摘要
此应用程序请求支持一个基于Web的资源,该资源为社区提供对“基因组
酶学”工具,以1)能够识别未表征的蛋白质的功能发现,包括那些
存在于人类微生物组和其他宏基因组群落中; 2)促进功能分配
通过提供对基因组背景/功能连锁的简单访问,对未表征的蛋白质进行分析;以及3)调查
蛋白质家族中的序列-功能空间,用于鉴定功能筛选的候选物,
改善所需的生物化学/生物物理性质(可用于系统生物学以及
药物和化学应用)。该资源提供了三个综合工具:
使用序列相似性网络可视化/分析蛋白质家族中的序列-功能空间
2)EFI-GNT,用于SSN中微生物和真菌蛋白质的基因组背景的可视化/分析,使用
基因组邻域网络和基因组邻域图,以识别功能相关的蛋白质
(e.g.,酶、转运蛋白和转录调节因子);和3)EFI-CGFP,
将宏基因组和/或元转录组丰度映射到簇的化学引导的功能分析
在SSN中用于鉴定功能表征的重要微生物组靶标。资源使
访问工具,而无需用户具有计算机编程专业知识和/或本地访问
必要的计算基础设施。该资源自2014年以来一直可用;其开发和
U 54 GM 093342和P01 GM 118303支持了传播。资源已被访问
被超过5,000名国内外用户使用,并被超过300项出版物和专利引用,证实了其易用性。
使用、受欢迎程度和影响。
项目成果
期刊论文数量(1)
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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{{ truncateString('JOHN A GERLT', 18)}}的其他基金
Novel Strategies for the Discovery of Microbial Metabolic Pathways
发现微生物代谢途径的新策略
- 批准号:
9918932 - 财政年份:2016
- 资助金额:
$ 56.12万 - 项目类别:
Novel Strategies for the Discovery of Microbial Metabolic Pathways
发现微生物代谢途径的新策略
- 批准号:
9297333 - 财政年份:2016
- 资助金额:
$ 56.12万 - 项目类别:
Novel Strategies for the Discovery of Microbial Metabolic Pathways
发现微生物代谢途径的新策略
- 批准号:
9557783 - 财政年份:2016
- 资助金额:
$ 56.12万 - 项目类别:
GENOMIC ENZYMOLOGY: THE ENOLASE SUPERFAMILY AND OMPDC SUPRAFAMILY
基因组酶学:烯醇化酶超家族和 OMPDC 超家族
- 批准号:
8363583 - 财政年份:2011
- 资助金额:
$ 56.12万 - 项目类别:
COLLABORATIVE CENTER FOR AN ENZYME FUNCTION INITIATIVE
酶功能倡议合作中心
- 批准号:
7901811 - 财政年份:2010
- 资助金额:
$ 56.12万 - 项目类别:
GENOMIC ENZYMOLOGY: THE ENOLASE SUPERFAMILY AND OMPDC SUPRAFAMILY
基因组酶学:烯醇化酶超家族和 OMPDC 超家族
- 批准号:
8170502 - 财政年份:2010
- 资助金额:
$ 56.12万 - 项目类别: