Flexible Hybrid Cloud Infrastructure for Seamless Integration and Use of Human Biomolecular Data and Reference Maps [1 of 5]

灵活的混合云基础设施，用于无缝集成和使用人类生物分子数据和参考图 [1 of 5]

• 批准号: 10886340
• 负责人: Philip D. Blood
• 金额: $ 433.56万
• 依托单位: CARNEGIE-MELLON UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2022
• 资助国家: 美国
• 起止时间: 2022-08-10 至 2024-07-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10886340
• 关键词: 3-Dimensional; Anatomy; Architecture; Area; Atlases; Automation; Biological Assay; Cells; Cloud Computing; Collaborations; Communities; Data; Data Set; Development; Disease; Documentation; Ensure; Friction; Histologic; Human; Human BioMolecular Atlas Program; Human Resources; Human body; Hybrids; Individual; Infrastructure; Ingestion; International; Intervention; Joints; Leadership; Maps; Measurement; Modeling; Molecular; Ontology; Organ; Phase; Production; Provider; Research; Resolution; Resources; Services; Supercomputing; Tissues; Translating; Universities; Variant; Vision; Visualization; collaboratory; community engagement; computerized data processing; data ingestion; data pipeline; data standards; data visualization; disorder prevention; flexibility; human tissue; interoperability; knowledge graph; member; multimodality; open data; public health relevance; tissue mapping; tool

The Human BioMolecular Atlas Program (HuBMAP) is redefining our understanding of the human body by recovering multi-scale tissue organization -- anatomical, histological, and molecular -- at unprecedented resolution, through computational integration of diverse experimental measurements. The HuBMAP Integration, Visualization & Engagement (HIVE) Collaboratory is an effort among interdisciplinary components developing pipelines for data ingestion and processing, enabling visualization of datasets spanning dozens of biomolecular assays on the HuBMAP portal, leading the development of a human common coordinate framework (CCF), constructing molecularly and spatially resolved reference maps of human tissues, developing mapping frameworks for the interpretation of new datasets, and coordinating extensive collaborative activities both within HuBMAP and with the broader community. In the production phase of HuBMAP, the HIVE will construct a Human Reference Atlas (HRA), establishing the HuBMAP Portal as the “go-to” resource for human tissue reference maps and multimodal singlecell data. The next iteration of the HIVE will coalesce the HuBMAP Consortium around a joint vision, develop cutting-edge and scalable tools to achieve it, and ensure its open dissemination to partners and users across the wider international community. As the HIVE Infrastructure Component (IC), the Pittsburgh Supercomputing Center (PSC), the University of Pittsburgh (Pitt), and Stanford University will provide infrastructure, based on our flexible hybrid cloud microservices architecture, along with community engagement, that will support delivery of this vision in the production phase. To accomplish this, we will focus our efforts in the following key areas: 1) Curation and Ingestion: Increased automation of data ingestion from HuBMAP data providers, community partners, and the general research community to maximize efficiency and usefulness for building the HRA; 2) Integration: Automated integration and mapping of ingested data to the HRA based on data standards; 3) Findability and Accessibility: Manifestation of backend resources in the modular architecture of APIs and containers, services, and documentation that minimize user friction in integrated searching, querying, analyzing/aligning and viewing of tissue maps at multiple spatial scales and among multiple layers of information; 4) Interoperability: Extension of the HuBMAP Knowledge Graph to translate HuBMAP data, HRA assets, and community data among one another via ontologies; 5) Analysis: Infrastructure support to maximally enable users with scalable analyses and workflows among both HuBMAP and user-contributed data and tools, including integration and mapping against the HRA; and 6) Sustainability: Sustainment of open tools, data, and infrastructure for reuse beyond the production phase. We will grow and harden our model for collaboration, coordination, and engagement led by the IC, with substantial leadership from all HIVE members and participation from all HuBMAP Members.

人类生物分子图谱计划（HuBMAP）正在重新定义我们对人类的理解。 通过恢复多尺度组织组织-解剖学，组织学和分子-在 前所未有的分辨率，通过计算集成不同的实验， 测量. HuBMAP集成、可视化和参与（HIVE）合作实验室 跨学科组件开发数据摄取管道的努力， 处理，使跨越数十个生物分子测定的数据集可视化， HuBMAP门户，引领人类共同坐标框架（CCF）的发展， 构建分子和空间分辨的人体组织参考图谱， 绘制解释新数据集的框架， 在HuBMAP内部以及与更广泛的社区开展协作活动。生产 在HuBMAP阶段，HIVE将构建人类参考地图集（HRA）， HuBMAP Portal作为人体组织参考图谱和多模式单通道的“首选”资源细胞数据。HIVE的下一次迭代将围绕一个联合的 愿景，开发尖端和可扩展的工具来实现它，并确保其公开传播 向广大国际社会的合作伙伴和用户提供信息。 作为HIVE基础设施组件（IC），匹兹堡超级计算中心（PSC）， 匹兹堡大学（皮特）和斯坦福大学将提供基础设施， 灵活的混合云微服务架构，沿着社区参与， 支持在生产阶段实现这一愿景。为此，我们将集中力量， 在以下关键领域：1）管理和摄取：提高数据摄取的自动化， HuBMAP数据提供商、社区合作伙伴和一般研究社区， 构建HRA的效率和有用性; 2）集成：自动集成和映射 基于数据标准，将摄取的数据发送给HRA; 3）可查找性和可访问性： 后端资源在API和容器、服务的模块化架构中的表现， 和文档，最大限度地减少用户在集成搜索，查询， 在多个空间尺度和多个层之间分析/对准和查看组织图 4）互操作性：HuBMAP知识图谱的扩展， HuBMAP数据、HRA资产和社区数据通过本体相互关联; 5）分析： 基础设施支持，最大限度地使用户能够进行可扩展的分析和工作流程， HuBMAP和用户贡献的数据和工具，包括根据 HRA; 6）可持续性：维护开放工具、数据和基础设施，以便在未来重用 生产阶段。我们将发展和强化我们的合作、协调和 由IC领导的参与，所有HIVE成员的实质性领导和参与 来自所有HUBMAP成员。