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bioRxiv · 10.1101/2022.09.27.509335

Real-Time Spatial Registration for 3D Human Atlas

Chen, L.·Teng, D.·Zhu, T.·Kong, J.·Herr, B.·Bueckle, A.·Borner, K.·Wang, F.
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Abstract

AO_SCPLOWBSTRACTC_SCPLOWThe human body is made up of about 37 trillion cells (adults). Each cell has its own unique role and is affected by its neighboring cells and environment. The NIH Human BioMolecular Atlas Program (HuBMAP) aims at developing a 3D atlas of human body consisting of organs, vessels, tissues to singe cells with all 3D spatially registered in a single 3D human atlas using tissues obtained from normal individuals across a wide range of ages. A critical step of building the atlas is to register 3D tissue blocks in real-time to the right location of a human organ, which itself consists of complex 3D substructures. The complexity of the 3D organ model, e.g., 35 meshes for a typical kidney, poses a significant computational challenge for the registration. In this paper, we propose a comprehensive framework TICKET (TIssue bloCK rEgisTration) for tissue block registration for 3D human atlas, including (1) 3D mesh pre-processing, (2) spatial queries on intersection relationship and (3) intersection volume computation between organs and tissue blocks. To minimize search space and computation cost, we develop multi-level indexing on both the anatomical structure level and mesh level, and utilize OpenMP for parallel computing. Considering cuboid based shape of the tissue block, we propose an efficient voxelization-based method to estimate the intersection volume. Our experiments demonstrate that the proposed framework is practical and efficient. TICKET is now integrated into the HuBMAP CCF registration portal [1].

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Chen, L., Teng, D., Zhu, T., Kong, J., Herr, B., Bueckle, A., Borner, K., Wang, F.. 2022-09-28. Real-Time Spatial Registration for 3D Human Atlas. https://doi.org/10.1101/2022.09.27.509335

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