Data-driven sampling method for building 3D anatomical models from serial histology

Snehal Ulhas Salunke; Tova Ablove; Theresa Danforth; John Tomaszewski M.D.; Scott Doyle

doi:10.1117/12.2255800

1 March 2017 Data-driven sampling method for building 3D anatomical models from serial histology

Snehal Ulhas Salunke, Tova Ablove, Theresa Danforth, John Tomaszewski M.D., Scott Doyle

Author Affiliations +

Proceedings Volume 10140, Medical Imaging 2017: Digital Pathology; 1014005 (2017) https://doi.org/10.1117/12.2255800
Event: SPIE Medical Imaging, 2017, Orlando, Florida, United States

Abstract

In this work, we investigate the effect of slice sampling on 3D models of tissue architecture using serial histopathology. We present a method for using a single fully-sectioned tissue block as pilot data, whereby we build a fully-realized 3D model and then determine the optimal set of slices needed to reconstruct the salient features of the model objects under biological investigation. In our work, we are interested in the 3D reconstruction of microvessel architecture in the trigone region between the vagina and the bladder. This region serves as a potential avenue for drug delivery to treat bladder infection. We collect and co-register 23 serial sections of CD31-stained tissue images (6 μm thick sections), from which four microvessels are selected for analysis. To build each model, we perform semi-automatic segmentation of the microvessels. Subsampled meshes are then created by removing slices from the stack, interpolating the missing data, and re-constructing the mesh. We calculate the Hausdorff distance between the full and subsampled meshes to determine the optimal sampling rate for the modeled structures. In our application, we found that a sampling rate of 50% (corresponding to just 12 slices) was sufficient to recreate the structure of the microvessels without significant deviation from the fullyrendered mesh. This pipeline effectively minimizes the number of histopathology slides required for 3D model reconstruction, and can be utilized to either (1) reduce the overall costs of a project, or (2) enable additional analysis on the intermediate slides.

Conference Presentation

Citation Download Citation

Snehal Ulhas Salunke, Tova Ablove, Theresa Danforth, John Tomaszewski M.D., and Scott Doyle "Data-driven sampling method for building 3D anatomical models from serial histology", Proc. SPIE 10140, Medical Imaging 2017: Digital Pathology, 1014005 (1 March 2017); https://doi.org/10.1117/12.2255800

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