Comprehensive reference atlas construction, geolocation and data integration for HuBMAP HIVE [5 of 5]

HuBMAP HIVE 的综合参考图集构建、地理定位和数据集成 [5 of 5]

• 批准号: 10534563
• 负责人: John Carlo Marioni
• 金额: $ 145.03万
• 依托单位: NEW YORK GENOME CENTER
• 依托单位国家: 美国
• 财政年份: 2022
• 资助国家: 美国
• 起止时间: 2022-08-01 至 2024-07-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10534563
• 关键词: Atlases; Human BioMolecular Atlas Program; Text; data integration

Abstract 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 current HuBMAP HIVE has led the development of a human common coordinate framework (CCF); constructed molecularly and spatially resolved reference maps of human tissues; developed mapping frameworks for the interpretation of new datasets; and coordinated extensive collaborative activities both within HuBMAP and with the broader community. In Y5-8, we will construct a Human Reference Atlas (HRA), establishing the HuBMAP Portal as the “go-to” resource for human tissue reference maps and multimodal single-cell data. We propose a Mapping Center to build upon our progress in Y1-4, and achieve these goals. Our center represents a synergistic collaboration between three labs, Dr. Rahul Satija (NYGC/NYU), Dr. John Marioni (EMBL/EBI), and Dr. Jean Fan (JHU). Our Mapping Center proposes to lead a series of key tasks for HuBMAP. These include the construction of single-cell reference maps for 30 human tissues, where maps will be constructed by harmonizing a wide diversity of multimodal single-cell technologies. We also propose to lead the development of mapping tools that will enable users in the community to upload their own datasets and map them to HuBMAP references. Importantly, these tools will not be limited to single-cell RNA sequencing datasets, but will be extended to process datasets that measure chromatin accessibility, chromatin modifications, DNA methylation, intracellular and surface protein levels, and metabolic profiles as well. We also propose to lead the development of statistical methods to perform comparative analysis of multiple datasets. This will enable key use-cases for users both within and outside of HuBMAP, including the ability to perform comparative analysis of healthy vs. diseased tissue. We expect our MC to work together with and lead the HubMAP community to a deeper understanding of the functional organization of human tissues and, and to explore how molecular state, environment, and anatomical location, affect cellular identity and behavior.

摘要 人类生物分子图谱计划（HuBMAP）正在重新定义我们对人体的理解， 以前所未有的分辨率恢复多尺度组织组织结构--解剖学、组织学和分子学， 通过不同实验测量的计算集成。目前的HuBMAP HIVE已经引领了 人类共同协调框架（CCF）的发展;在分子和空间上构建 解析了人体组织的参考图谱;为解释新的 数据集;并协调了HuBMAP内部以及与更广泛的 社区在Y 5 -8，我们将构建人类参考地图集（HRA），建立HuBMAP门户网站作为 人体组织参考图和多模式单细胞数据的“首选”资源。我们提出一个映射 中心建立在我们的进展在Y1-4，并实现这些目标。我们的中心代表了一个协同的 三个实验室之间的合作，Rahul Satija博士（NYGC/NYU），John Marioni博士（EMBL/EBI）和Jean博士 Fan（JHU）.我们的地图中心建议领导HuBMAP的一系列关键任务。其中包括 构建30个人体组织的单细胞参考图谱，其中图谱将通过协调 多种多样的多模式单电池技术。我们还建议领导测绘的发展 这些工具使社区中的用户能够上传自己的数据集并将其映射到HuBMAP引用。 重要的是，这些工具将不仅限于单细胞RNA测序数据集，而且将扩展到处理 这些数据集测量染色质可及性、染色质修饰、DNA甲基化、细胞内和 表面蛋白质水平以及代谢谱。我们还建议领导统计发展 对多个数据集进行比较分析的方法。这将为用户提供关键用例， HuBMAP内外，包括对健康与患病进行比较分析的能力 组织.我们希望我们的MC能够与HubMAP社区合作，并带领HubMAP社区更深入地了解 人体组织的功能组织，并探索分子状态，环境， 解剖位置，影响细胞的身份和行为。