Browse > Article

Effective Volume Rendering and Virtual Staining Framework for Visualizing 3D Cell Image Data  

Kim, Taeho (School of Computing, Korea Advanced Institution of Science and Technology)
Park, Jinah (School of Computing, Korea Advanced Institution of Science and Technology)
Publication Information
Journal of the Korea Computer Graphics Society / v.24, no.1, 2018 , pp. 9-16 More about this Journal
Abstract
In this paper, we introduce a visualization framework for cell image data obtained from optical diffraction tomography (ODT), including a method for representing cell morphology in 3D virtual environment and a color mapping protocol. Unlike commonly known volume data sets, such as CT images of human organ or industrial machinery, that have solid structural information, the cell image data have rather vague information with much morphological variations on the boundaries. Therefore, it is difficult to come up with consistent representation of cell structure for visualization results. To obtain desired visual representation of cellular structures, we propose an interactive visualization technique for the ODT data. In visualization of 3D shape of the cell, we adopt a volume rendering technique which is generally applied to volume data visualization and improve the quality of volume rendering result by using empty space jittering method. Furthermore, we provide a layer-based independent rendering method for multiple transfer functions to represent two or more cellular structures in unified render window. In the experiment, we examined effectiveness of proposed method by visualizing various type of the cell obtained from the microscope which can capture ODT image and fluorescence image together.
Keywords
Direct Volume Rendering; Optical Diffraction Tomography; Cell Imaging;
Citations & Related Records
연도 인용수 순위
  • Reference
1 Popescu, G., "Quantitative phase imaging of cells and tissues", McGraw-Hill, New York, (2011)
2 Lee, S. H., Moon, J. J., and West, J. L. "Three-dimensional micropatterning of bioactive hydrogels via two-photon laser scanning photolithography for guided 3D cell migration." Biomaterials, 29(20), 2962-2968. (2008)   DOI
3 Peng, H., Ruan, Z., Long, F., Simpson, J. H., and Myers, E. W. "V3D enables real-time 3D visualization and quantitative analysis of large-scale biological image data sets." Nature biotechnology, 28(4), 348-353, (2010)   DOI
4 Shin, S., Kim, K., Kim, T., Yoon, J., Hong, K., Park, J. and Park, Y. "Optical diffraction tomography using a digital micromirror device for stable measurements of 4D refractive index tomography of cells." Proc. SPIE 9718, Quantitative Phase Imaging II, 971814, (2016)
5 Wolf, I., Vetter, M., Wegner, I., Bottger, T., Nolden, M., Schobinger, M., and Meinzer, H. P. "The medical imaging interaction toolkit." Medical image analysis, 9(6), 594-604, (2005)   DOI
6 Kniss, J., Kindlmann, G., and Hansen, C. "Multidimensional transfer functions for interactive volume rendering." IEEE Transactions on visualization and computer graphics, 8(3), 270-285. (2002)   DOI