The Human Body Atlas: High-Resolution, Functional Mapping of
Vector, and Meta Datasets
MC-IU team within the HuBMAP
The ultimate goal of the HIVE Mapping effort is to develop a common coordinate framework (CCF) for the healthy human body. This framework will support cataloging different types of individual cells, understanding the functions of and relationships between those cell types, and modeling their individual and collective function. During the initial two years of HuBMAP, the MC-IU team has built many elements of the CCF. 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 two interactive user interfaces. The CCF Registration User Interface (RUI) supports tissue data registration. The CCF Exploration User Interface (EUI) supports exploration of semantically and spatially explicit data—from the whole body to the single cell level. For an introduction to HuBMAP goals, data, and code visit the Visible Human MOOC (VHMOOC).
Data and Code Published with 1st HuBMAP Portal Release in August 2020
- Weber, Griffin M, Yingnan Ju, and Katy Börner. 2020. "Considerations for Using the Vasculature as a Coordinate System to Map All the Cells in the Human Body". Frontiers in Cardiovascular Medicine 7 (29): doi: 10.3389/fcvm.2020.00029.
- Börner K, Quardokus EM, Herr II, BW, Cross LE, Record EG, Ju Y, Bueckle A, Sluka JP, Silverstein J, Browne K, Jain S, Wasserfall CH, Jorgensen ML, Spraggins JM, Patterson NH, Weber GM. 2020. Construction and Usage of a Human Body Common Coordinate Framework Comprising Clinical, Semantic, and Spatial Ontologies. https://arxiv.org/abs/2007.14474.
- Ginda, Michael, Michael C. Richey, Mark Cousino, and Katy Börner. 2019. "Visualizing learner engagement, performance, and trajectories to evaluate and optimize online course design". PLOS One e0215964. doi: 10.1371/journal.pone.0215964.
- Snyder, Michael P., Shin Lin, Amanda Posgai, Mark Atkinson, Aviv Regev, Jennifer Rood, Orit Rozenblatt-Rosen, Leslie Gaffney, Anna Hupalowska, Rahul Satija, Nils Gehlenborg, Jay Shendure, Julia Laskin, Pehr Harbury, Nicholas A. Nystrom, Jonathan C. Silverstein, Ziv Bar-Joseph, Kun Zhang, Katy Börner, Yiing Lin, Richard Conroy, Dena Procaccini, Ananda L. Roy, Ajay Pillai, Marishka Brown, and Zorina S. Galis. 2019. "The human body at cellular resolution: the NIH Human Biomolecular Atlas Program". Nature 574: 187-192. doi: 10.1038/s41586-019-1629-x.
- Börner, Katy, Andreas Bueckle, and Michael Ginda. 2019. "Data visualization literacy: Definitions, conceptual frameworks, exercises, and assessments". PNAS 116 (6): 1857-1864. doi: 10.1073/pnas.1807180116.
- Börner, Katy, William Rouse, Paul Trunfio, and H. Eugene Stanley. 2018. "Forecasting Innovations in Science, Technology, and Education". PNAS 115 (50): 12573-12581. doi: 10.1073/pnas.1818750115.
- May 19, 2020: The Human Body Atlas: High-Resolution, Functional Mapping of Voxel, Vector, and Meta Datasets at HuBMAP Virtual Annual Meeting, Washington, DC.
- March 17, 2020: Harmonizing KPMP/HuBMAP Data: Developing Novel Common Coordinate Framework User Interfaces at KPMP Virtual Meeting, Washington, DC.
We deeply value close collaborations with the HuBMAP TMCs and other HIVE teams. This research has been funded in part by the NIH Common Fund through the Office of Strategic Coordination/Office of the NIH Director under award OT2OD026671, by the NIDDK Kidney Precision Medicine Project grant U2CDK114886, and the NIH NIAID, Department of Health and Human Services under BCBB Support Services Contract HHSN316201300006W/HHSN27200002.