ODF: Support infrastructure for NextGen sequence storage analysis and mgt
ODF:下一代序列存储分析和管理的支持基础设施
基本信息
- 批准号:8237072
- 负责人:
- 金额:$ 93.42万
- 依托单位:
- 依托单位国家:美国
- 项目类别:
- 财政年份:2012
- 资助国家:美国
- 起止时间:2012-05-15 至 2015-04-30
- 项目状态:已结题
- 来源:
- 关键词:ArchitectureArchivesBioinformaticsClientCommunitiesComplexComputer softwareComputersControlled VocabularyDDBJDataData AnalysesData DisplayData SetData Storage and RetrievalDatabasesDetectionDevelopmentDocumentationEffectivenessEnsureEnvironmentEpigenetic ProcessGenbankGene Expression ProfileGenomeGenomicsGoalsHumanHuman MicrobiomeIndividualInstitutesInternetMedical ResearchMetadataMetagenomicsOnline SystemsProceduresProcessProductionResearchResearch InfrastructureResearch PersonnelResourcesRetrievalScienceServicesSiteStrategic PlanningSystemTimeTrainingTranslational ResearchVariantWorkbasecomputerized data processingcomputing resourcescostdata exchangedata modelingdata sharingdesigndistributed datafile formatgenome sequencinglaptopmicrobiomeopen sourceprogramsrepositorysuccesstechnological innovationtooltranscriptomicsusabilityvirtualworking group
项目摘要
DESCRIPTION (provided by applicant): The Open Science Data Framework (OSDF) will provide the architecture and software necessary for conducting bioinformatics analyses in a federated cloud-enabled data and computational environment. The OSDF consists of a data store and data exchange procedures with an Application Program Interface (API) to support data submissions, retrievals and analysis for the user community. OSDF will support a diverse set of users, including (1) sequence generators that need to store and process raw data (2) tool and pipeline developers that need access to reference data sets, and (3) web-based resources that need real-time querying of reference data. The genomics community will be able to use this resource to process human genomic, transcriptomics, and metagenomic data to conduct analyses that include human variation detection, transcriptome analysis, epigenetic analysis, and microbiome analysis. To accomplish these goals we propose to: 1) establish the OSDF software stack and; 2) ensure the usability of this data by integrating OSDF with established community supported pipelines in Cloud-enabled virtual machines; 3) create two OSDF Instances where we will host publicly available genomic, transcriptomics, and metagenomic data from the 1000 Genomes Project, MG-RAST, and Human Microbiome Project and some of the intermediate and final analysis results; 4) provide adequate documentation and training to the user community to use the system.
PUBLIC HEALTH RELEVANCE: With the technological innovations and improvements in genome sequencing in the past decade sequencing is becoming cheaper and will soon become an integral part of medical research and practice. However, the computational resources needed to process this sequence data have not kept pace. With the OSDF researchers will be able to share and reuse expensive analysis results thereby reducing the overall costs of conducting translational research that utilizes genomic data.
描述(由申请人提供):开放科学数据框架(OSDF)将提供在联合云支持的数据和计算环境中进行生物信息学分析所需的架构和软件。OSDF由一个数据存储和数据交换程序组成,具有一个应用程序接口(API),以支持用户社区的数据提交、检索和分析。OSDF将支持各种用户,包括(1)需要存储和处理原始数据的序列生成器(2)需要访问参考数据集的工具和管道开发人员,以及(3)需要实时查询参考数据的基于Web的资源。基因组学社区将能够使用此资源来处理人类基因组、转录组和宏基因组数据,以进行分析,包括人类变异检测、转录组分析、表观遗传分析和微生物组分析。为了实现这些目标,我们建议:1)建立OSDF软件栈; 2)通过将OSDF与启用云的虚拟机中已建立的社区支持管道集成,确保此数据的可用性; 3)创建两个OSDF数据库,我们将在其中托管来自1000个基因组计划MG-RAST的公开可用的基因组、转录组和宏基因组数据,和人类微生物组项目以及一些中间和最终分析结果; 4)向用户社区提供使用该系统的适当文件和培训。
公共卫生关系: 随着过去十年中基因组测序的技术创新和改进,测序变得越来越便宜,很快将成为医学研究和实践的一个组成部分。然而,处理该序列数据所需的计算资源没有跟上步伐。有了OSDF,研究人员将能够共享和重复使用昂贵的分析结果,从而降低利用基因组数据进行转化研究的总体成本。
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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Owen R White其他文献
Owen R White的其他文献
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{{ truncateString('Owen R White', 18)}}的其他基金
University of Maryland NIH Data Commons Facilitation Center
马里兰大学 NIH 数据共享促进中心
- 批准号:
10436585 - 财政年份:2017
- 资助金额:
$ 93.42万 - 项目类别:
University of Maryland NIH Data Commons Facilitation Center
马里兰大学 NIH 数据共享促进中心
- 批准号:
10597416 - 财政年份:2017
- 资助金额:
$ 93.42万 - 项目类别:
University of Maryland NIH Data Commons Facilitation Center
马里兰大学 NIH 数据共享促进中心
- 批准号:
10401664 - 财政年份:2017
- 资助金额:
$ 93.42万 - 项目类别:
University of Maryland NIH Data Commons Facilitation Center
马里兰大学 NIH 数据共享促进中心
- 批准号:
9559827 - 财政年份:2017
- 资助金额:
$ 93.42万 - 项目类别:
A BRAIN Initiative Resource: The Neuroscience Multi-omic Data Archive
BRAIN Initiative 资源:神经科学多组学数据档案
- 批准号:
9413774 - 财政年份:2017
- 资助金额:
$ 93.42万 - 项目类别:
A BRAIN Initiative Resource: The Neuroscience Multi-omic Data Archive
BRAIN Initiative 资源:神经科学多组学数据档案
- 批准号:
10223132 - 财政年份:2017
- 资助金额:
$ 93.42万 - 项目类别:
University of Maryland NIH Data Commons Facilitation Center
马里兰大学 NIH 数据共享促进中心
- 批准号:
10815093 - 财政年份:2017
- 资助金额:
$ 93.42万 - 项目类别:
Data Management, Analysis and Resources Dissemination Core
数据管理、分析和资源传播核心
- 批准号:
10132958 - 财政年份:2014
- 资助金额:
$ 93.42万 - 项目类别:
Data Management, Analysis and Resources Dissemination Core
数据管理、分析和资源传播核心
- 批准号:
10597148 - 财政年份:2014
- 资助金额:
$ 93.42万 - 项目类别:
Data Management, Analysis and Resources Dissemination Core
数据管理、分析和资源传播核心
- 批准号:
10375507 - 财政年份:2014
- 资助金额:
$ 93.42万 - 项目类别:
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