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Proceedings Paper

Intensity-based segmentation and visualization of cells in 3D microscopic images using the GPU
Author(s): Mi-Sun Kang; Jeong-Eom Lee; Woong-ki Jeon; Heung-Kook Choi; Myoung-Hee Kim
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Paper Abstract

3D microscopy images contain abundant astronomical data, rendering 3D microscopy image processing time-consuming and laborious on a central processing unit (CPU). To solve these problems, many people crop a region of interest (ROI) of the input image to a small size. Although this reduces cost and time, there are drawbacks at the image processing level, e.g., the selected ROI strongly depends on the user and there is a loss in original image information. To mitigate these problems, we developed a 3D microscopy image processing tool on a graphics processing unit (GPU). Our tool provides efficient and various automatic thresholding methods to achieve intensity-based segmentation of 3D microscopy images. Users can select the algorithm to be applied. Further, the image processing tool provides visualization of segmented volume data and can set the scale, transportation, etc. using a keyboard and mouse. However, the 3D objects visualized fast still need to be analyzed to obtain information for biologists. To analyze 3D microscopic images, we need quantitative data of the images. Therefore, we label the segmented 3D objects within all 3D microscopic images and obtain quantitative information on each labeled object. This information can use the classification feature. A user can select the object to be analyzed. Our tool allows the selected object to be displayed on a new window, and hence, more details of the object can be observed. Finally, we validate the effectiveness of our tool by comparing the CPU and GPU processing times by matching the specification and configuration.

Paper Details

Date Published: 22 February 2013
PDF: 8 pages
Proc. SPIE 8589, Three-Dimensional and Multidimensional Microscopy: Image Acquisition and Processing XX, 858906 (22 February 2013); doi: 10.1117/12.2004934
Show Author Affiliations
Mi-Sun Kang, Ewha Womans Univ. (Korea, Republic of)
Jeong-Eom Lee, Ewha Womans Univ. (Korea, Republic of)
Woong-ki Jeon, Inje Univ. (Korea, Republic of)
Heung-Kook Choi, Inje Univ. (Korea, Republic of)
Myoung-Hee Kim, Ewha Womans Univ. (Korea, Republic of)

Published in SPIE Proceedings Vol. 8589:
Three-Dimensional and Multidimensional Microscopy: Image Acquisition and Processing XX
Carol J. Cogswell; Thomas G. Brown; Jose-Angel Conchello; Tony Wilson, Editor(s)

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