Overture: A Multi-Scale Data Platform for Cancer Genomics Research

Overture：癌症基因组学研究的多尺度数据平台

• 批准号: 10305416
• 负责人: LINCOLN D. STEIN
• 金额: $ 53.46万
• 依托单位: ONTARIO INSTITUTE FOR CANCER RESEARCH
• 依托单位国家: 美国
• 财政年份: 2021
• 资助国家: 美国
• 起止时间: 2021-09-09 至 2026-08-31
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10305416
• 关键词: Adoption; Authorization documentation; Biological Markers; Canada; Cancer Model; Clinical; Collection; Communities; Computer software; Consent; Data; Data Discovery; Data Management Resources; Data Scientist; Data Set; Dependence; Development; Documentation; Educational workshop; European; Event; FAIR principles; Feedback; Focus Groups; Generations; Genomic Data Commons; Genomics; Goals; Grant; Health; Human; Individual; Informatics; International; Internet; Laboratories; Life Cycle Stages; Malignant Neoplasms; Medical Imaging; Metadata; NCI Center for Cancer Research; Oncology; Ontology; Pathway interactions; Patients; Plug-in; Protocols documentation; Research; Research Personnel; Resources; Sample Size; Software Engineering; Software Framework; Standardization; System; Testing; Time; Training; Validation; Visualization; Visualization software; big data management; cancer genome; cancer genomics; cloud based; cohort; community engagement; cost effective; data access; data exchange; data integration; data management; data portal; data resource; data sharing; design; genome-wide; genomic data; health data; improved; informatics tool; innovation; interest; large datasets; large scale data; multiscale data; novel; open source; outreach; rare cancer; symposium; tool; transmission process; user-friendly; web portal; webinar

Project Summary/Abstract Overture is a collection of modular, open-source software components designed to make the management of big-data genomic projects both easy and more cost effective. The Overture system promotes FAIR data sharing of cancer genomic datasets by overcoming the major obstacles in storing, managing, exploring, and distributing massive genome-scale datasets. In this proposed project, we will implement a turnkey Overture Data Management System (DMS) to provide a complete solution to manage cancer genomic data throughout the data life cycle, and to continue lowering the technical barriers faced by researchers in the cancer informatics community. To extend the capabilities and potential of the Overture DMS, we will establish a new software framework for integration with third-party visualization applications, and for data exchange with analysis platforms. This framework will empower the community to continue developing extremely valuable visualization applications for specific research interests and datatypes, and to contribute them as “apps” to be integrated with the Overture DMS. Over the next five years, we will: (1) combine the core set of Overture components into a scalable DMS installation bundle to promote both local and cloud deployment for a range of small to consortia-scale datasets; (2) extend the DMS with third-party visualization and analysis tools through a novel software data integration framework; (3) enhance data access controls by implementing Global Alliance for Genomics and Health (GA4GH) Passport and Data Use Ontology standards; (3) enable federated searching within cancer datasets across different Overture platforms; and (4) improve outreach and community resources to meet the needs of bioinformaticians, data producers and managers, data scientists, and clinical researchers. The Overture DMS will be a valuable resource for removing complications of large-scale data management from researchers, allowing the advancement of scientific research by increasing data sharing and discovery.

项目概要/摘要 Overture 是一组模块化的开源软件组件，旨在管理 大数据基因组项目既简单又更具成本效益。 Overture系统促进FAIR数据 通过克服存储、管理、探索和使用方面的主要障碍来共享癌症基因组数据集 分发大量基因组规模的数据集。 在这个拟议的项目中，我们将实施交钥匙序曲数据管理系统（DMS），以提供 完整的解决方案，可在整个数据生命周期中管理癌症基因组数据，并持续降低 癌症信息学界的研究人员面临的技术障碍。扩展能力和 为了发挥 Overture DMS 的潜力，我们将建立一个新的软件框架来与第三方集成 可视化应用程序，以及与分析平台进行数据交换。该框架将赋能 社区继续为特定研究兴趣开发极其有价值的可视化应用程序 和数据类型，并将它们作为与 Overture DMS 集成的“应用程序”提供。 在接下来的五年中，我们将：(1) 将 Overture 组件的核心集整合到可扩展的 DMS 中 安装捆绑包，用于促进一系列小型到联盟规模数据集的本地和云部署； (2) 通过新颖的软件数据集成，使用第三方可视化和分析工具扩展 DMS 框架; (3) 通过实施全球基因组学与健康联盟加强数据访问控制 (GA4GH) 护照和数据使用本体标准； (3) 在癌症数据集中启用联合搜索 跨不同的 Overture 平台； (4) 改善外展和社区资源，以满足 生物信息学家、数据生产者和管理者、数据科学家和临床研究人员。序曲 DMS 将成为消除研究人员大规模数据管理复杂性的宝贵资源， 通过增加数据共享和发现来促进科学研究的进步。