HuBMAP Integration, Visualization & Engagement
The Human Body Atlas: High-Resolution, Functional Mapping of Voxel, Vector, and Meta Datasets
The ultimate goal of the MC-IU effort is to develop a common coordinate framework (CCF) for a reference atlas of the healthy human body. The framework will support cataloging different types of individual cells; understanding the functions of and spatial relationships between cell types; and supporting spatial and semantic search, filtering, and browsing. During the initial years of HuBMAP, the MC-IU team built many elements of the CCF in support of Human Reference Atlas (HRA) construction and usage. We co-organized the design of ASCT+B Tables and implemented a CCF ontology. We collaborated with NIAID at NIH on the design of a 3D Reference Object Library. Lastly, we developed three interactive user interfaces: (1) The CCF ASCT+B Tables and Reporter User Interface supports authoring and review of tables that capture proper names of major anatomical structures, cell types, and biomarkers; and capture the nested part_of structure of anatomical human body parts, the typology of cells, and biomarkers used to identify cell types (e.g., gene, protein, lipid or metabolic markers). (2) The CCF Registration User Interface (RUI) supports tissue data registration. (3) The CCF Exploration User Interface (EUI) supports exploration of semantically and spatially explicit data—from the whole body to the single cell level. All HRA data is available via the CCF API. For an introduction to HuBMAP goals, data, and code visit the Visible Human MOOC (VHMOOC).