Acceleration of spleen segmentation with end-to-end deep learning method and automated pipeline

Computers in Biology and Medicine
Hyeonsoo MoonBennett A Landman


Delineation of Computed Tomography (CT) abdominal anatomical structure, specifically spleen segmentation, is useful for not only measuring tissue volume and biomarkers but also for monitoring interventions. Recently, segmentation algorithms using deep learning have been widely used to reduce time humans spend to label CT data. However, the computerized segmentation has two major difficulties: managing intermediate results (e.g., resampled scans, 2D sliced image for deep learning), and setting up the system environments and packages for autonomous execution. To overcome these issues, we propose an automated pipeline for the abdominal spleen segmentation. This pipeline provides an end-to-end synthesized process that allows users to avoid installing any packages and to deal with the intermediate results locally. The pipeline has three major stages: pre-processing of input data, segmentation of spleen using deep learning, 3D reconstruction with the generated labels by matching the segmentation results with the original image dimensions, which can then be used later and for display or demonstration. Given the same volume scan, the approach described here takes about 50 s on average whereas the manual segmentation takes about 30 min ...Continue Reading


Apr 3, 2020·Current Hematologic Malignancy Reports·Nathan RadakovichAziz Nazha

Related Concepts

Tomography, X-Ray Computerized Axial
Imaging, Three-Dimensional, Computer Assisted
Biological Markers
X-Ray Computed Tomography
CT of Abdomen

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