4D Nucleome Network Data Coordination and Integration Center

4D核组网络数据协调整合中心

• 批准号: 9139427
• 负责人: Peter J Park
• 金额: $ 246.15万
• 依托单位: HARVARD MEDICAL SCHOOL
• 依托单位国家: 美国
• 财政年份: 2015
• 资助国家: 美国
• 起止时间: 2015-09-07 至 2020-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/9139427
• 关键词: Accountability; Algorithms; Architecture; Area; Automation; Biological Assay; Cell Nucleus; Cells; Chromatin; Chromosomes; Communities; Complex; Consultations; Data; Data Analyses; Data Collection; Data Coordinating Center; Data Quality; Data Set; Deposition; Development; Disease; Educational workshop; Ensure; Epigenetic Process; Gene Expression Regulation; Genomics; Goals; Health; Image; Imagery; Lead; Measurement; Metadata; Methods; Nuclear; Performance; Process; Production; Quality Control; Reproducibility; Research Personnel; Resolution; Resource Development; Resources; Role; Secure; Software Engineering; Speed; Structure; Technology; Testing; The Cancer Genome Atlas; United States National Institutes of Health; Validation; Work; biological research; cloud based; computerized data processing; cost effective; cost effectiveness; data integration; data portal; data sharing; data visualization; design; epigenomics; flexibility; genomic data; image processing; improved; innovation; insight; meetings; member; new technology; novel; open source; operation; outreach program; petabyte; software development; symposium; task analysis; technology development; tool; uptake; user-friendly; whole genome; working group

 DESCRIPTION (provided by applicant): The goals of the 4D Nucleome (4DN) Data Coordination and Integration Center (DCIC) are to collect, store, curate, display, and analyze data generated in the 4DN Network. We have assembled a team of investigators with a strong track record in analysis of chromatin interaction data, image processing and three-dimensional data visualization, integrative analysis of genomic and epigenomic data, data portal development, large-scale computing, and development of secure and flexible cloud technologies. In Aim 1, we will develop efficient submission pipelines for data and metadata from 4DN data production groups. We will define data/metadata requirements and quality metrics in conjunction with the production groups and ensure that high-quality, well- annotated data become available to the wider scientific community in a timely manner. In Aim 2, we will develop a user-friendly data portal for the broad scientific community. This portal will provide an easy-to-navigate interface for accessing raw and intermediate data ¿les, allow for programmatic access via APIs, and will incorporate novel analysis and visualization tools developed by DCIC as well as other Network members. For computing and storage scalability and cost-effectiveness, significant efforts will be devoted to development and deployment of cloud-based technology. We will conduct tutorials and workshops to facilitate the use of 4DN data and tools by external investigators. In Aim 3, we will coordinate and assist in conducting integrative analysis of the multiple data types. These efforts will examine key questions in higher-order chromatin organization using both sequence and image data, and the tools and algorithms developed here will be incorporated into the data portal for use by other investigators. These three aims will ensure that the data generated in 4DN will have maximal impact for the scientific community.

 描述（由应用程序提供）：4D核心（4DN）数据协调和集成中心（DCIC）的目标是收集，存储，策划，显示和分析4DN网络中生成的数据。我们在分析染色质相互作用数据，图像处理和三维数据可视化，基因组和表观基因组数据，数据门户网站开发，大规模计算以及安全且灵活的云技术的开发方面，组装了一个研究人员团队具有很强的记录。在AIM 1中，我们将为4DN数据生产组的数据和元数据开发有效的提交管道。我们将与生产小组结合定义数据/元数据要求和质量指标，并确保及时及时地向更广泛的科学界使用高质量的良好注释数据。在AIM 2中，我们将为广泛的科学界开发一个用户友好的数据门户。该门户将提供一个 用于访问原始数据和中间数据�LE的易于启动的接口，允许通过API进行程序化访问，并将结合DCIC以及其他网络成员开发的新颖分析和可视化工具。为了计算和存储可扩展性以及成本效益，将为基于云的技术的开发和部署而部署大量努力。我们将举办教程和研讨会，以促进外部研究人员使用4DN数据和工具。在AIM 3中，我们将协调和协助对多种数据类型进行综合分析。这些努力将使用序列和图像数据同时检查高阶染色质组织中的关键问题，此处开发的工具和算法将被整合到数据门户中，以供其他研究者使用。这三个目标将确保4DN中产生的数据对科学界产生最大影响。