The Organizational Hub and Web Portal for the 4D Nucleome Network

4D 核组网络的组织中心和门户网站

• 批准号: 9344559
• 负责人: SHU CHIEN
• 金额: $ 447.74万
• 依托单位: UNIVERSITY OF CALIFORNIA, SAN DIEGO
• 依托单位国家: 美国
• 财政年份: 2015
• 资助国家: 美国
• 起止时间: 2015-09-01 至 2020-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/9344559
• 关键词: Architecture; Area; Behavior; Cell Nucleus; Cells; Chromatin; Cognition; Communities; Community Networks; Consensus; Data; Data Analyses; Data Quality; Data Set; Data Storage and Retrieval; Databases; Development; Dimensions; Disease; E-learning; Education; Education and Outreach; Educational workshop; Evaluation; Feedback; Funding; Gene Expression; Genes; Goals; Grant; Imagery; Internet; Joints; Manuals; Measures; Methods; Modernization; Newsletter; Nuclear; Nucleic Acid Regulatory Sequences; Ontology; Play; Privacy; Process; Progress Reports; Protocols documentation; Publishing; Recommendation; Recording of previous events; Reproducibility; Research; Resources; Retrieval; Role; Side; Structure; System; Systems Analysis; Technology; Time; TimeLine; Training; Training Activity; Training Programs; United States National Institutes of Health; Update; Variant; Work; Writing; cohort; comparative; data access; data exchange; data format; data management; epigenomics; experience; interoperability; meetings; member; new technology; outreach; programs; public health relevance; repository; sample collection; spatiotemporal; statistics; student training; symposium; three dimensional structure; tool; user-friendly; virtual; web portal; web site; working group

 DESCRIPTION (provided by applicant): Recent technological developments have significantly advanced our understanding of the three-dimensional organization of the nucleus. It has also become increasingly clear that the 3D nucleome plays an important role in regulating gene expression. Large cohorts of data are being generated to investigate the impact of the temporal changes of nuclear organization (the 4D nucleome) to normal development and disease processes. The primary goal of this proposal is the creation of an effective organizational hub and web portal for the 4D nucleome. We also propose to develop an effective coordination structure for the 4D nucleome activities. First, we will develop and organize effective networking methods and consortium meetings for establishing protocols and standards. We will develop a framework for coordination of the funded 4D nucleome projects. We will organize annual consortium-wide grantees meeting. We will utilize the professional organizers who have previously worked with the PIs and the premium conference venues at Atkinson Hall in UCSD (http://www.calit2.net). Two major activities will be organized during the annual meeting. Second, we will develop an adaptable, scalable, and user-friendly 4DN web portal. We will build the 4DN Network community web portal and a Virtual Resource Repository. This portal will be an integrated, versatile, and inter-operable data management, retrieval, analysis, and visualization system. We will leverage the ENCODE Comparative Browser (http://encode.cepbrowser.org) for developing the 4D network portal. In addition, the portal will incorporate data generated from outside the consortium, publish E-manuals for the consortium-agreed protocols, and provide the most up-to-date information on the data clearance. Third, we will coordinate and manage the 4DN Network Opportunity Pool. The opportunity pool of funds will be distributed and managed with 100% transparency. Competitive distribution with the funds will be coordinated by a professional manager with extensive experience in managing Center and Training Grants. Fourth, we will develop a comprehensive strategy for training and outreach. The proposed unit will aim to regularly train and update 4DN research network members and collaborators in several key areas including: 1) new technologies; 2) data/sample collection protocols; 3) data analysis methods; 4) data submission protocols; 5) data retrieval methods; 6) data QA/QC; 7) data exchange standards and data ontologies; 8) the contents of different 4DN and public databases; 9) data privacy and 10) data dissemination.

 描述(申请人提供)：最近的技术发展极大地提高了我们对原子核的三维组织的理解。3D核组在基因表达调控中起着重要作用，这一点也越来越清楚。正在产生大量数据，以调查核组织(4D核组)的时间变化对正常发育和疾病过程的影响。这项提议的主要目标是为4D核基因组创建一个有效的组织中心和网络门户。我们还建议为4D核组活动开发一个有效的配位结构。首先，我们将制定和组织有效的联网方法和联盟会议，以建立协议和标准。我们将制定一个框架，协调已资助的4D基因组项目。我们将组织每年一次的财团范围的受赠人会议。我们将利用之前与PI合作过的专业组织者，以及加州大学圣迭戈分校(http://www.calit2.net).)艾金森大厅的高级会议场地年会期间将组织两项主要活动。其次，我们将开发一个适应性强、可伸缩和用户友好的4DN门户网站。我们将建设4DN网络社区门户网站和虚拟资源库。该门户将是一个集成的、多功能的、可互操作的数据管理、检索、分析和可视化系统。我们将利用ENCODE比较浏览器(http://encode.cepbrowser.org))来开发4D网络门户。此外，该门户将纳入从联合体外部产生的数据，出版联合体商定的协议的电子手册，并提供关于数据清除的最新信息。第三，我们将协调和管理4DN网络机遇库。机会资金池将以100%透明的方式进行分配和管理。基金的竞争性分配将由一位在管理中心和培训补助金方面具有丰富经验的专业经理来协调。第四，我们将制定全面的培训和外联战略。该股的目标是在以下几个关键领域定期培训和更新4DN研究网络成员和合作者：1)新技术；2)数据/样本收集协议；3)数据分析方法；4)数据提交协议；5)数据检索方法；6)数据质量保证/质量控制；7)数据交换标准和数据本体；8)不同4DN和公共数据库的内容；9)数据隐私和10)数据传播。