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The Use of Data Explorer as a 3-D Reconstruction Tool for Microscopy Data Sets

Published online by Cambridge University Press:  02 July 2020

Jansma P.L ,
M.A. Landis ,
L.C. Hansen ,
N.C. Merchant ,
N.J. Vickers  and
L.P. Tolbert
Jansma P.L
Affiliation:
Arizona Research Laboratories Division of Neurobiology, University of Arizona, Tucson, AZ85721
M.A. Landis
Affiliation:
Center for Computing and Information Technology, University of Arizona, Tucson, AZ85721
L.C. Hansen
Affiliation:
Arizona Research Laboratories Division of Neurobiology, University of Arizona, Tucson, AZ85721
N.C. Merchant
Affiliation:
Arizona Research Laboratories Division of Neurobiology, University of Arizona, Tucson, AZ85721
N.J. Vickers
Affiliation:
Arizona Research Laboratories Division of Neurobiology, University of Arizona, Tucson, AZ85721
L.P. Tolbert
Affiliation:
Arizona Research Laboratories Division of Neurobiology, University of Arizona, Tucson, AZ85721
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We are using Data Explorer (DX), a general-purpose, interactive visualization program developed by IBM, to perform three-dimensional reconstructions of neural structures from microscopic or optical sections. We use the program on a Silicon Graphics workstation; it also can run on Sun, IBM RS/6000, and Hewlett Packard workstations. DX comprises modular building blocks that the user assembles into data-flow networks for specific uses. Many modules come with the program, but others, written by users (including ourselves), are continually being added and are available at the DX ftp site, http://www.tc.cornell.edu/DXhttp://www.nice.org.uk/page.aspx?o=43210.

Initally, our efforts were aimed at developing methods for isosurface- and volume-rendering of structures visible in three-dimensional stacks of optical sections of insect brains gathered on our Bio-Rad MRC-600 laser scanning confocal microscope. We also wanted to be able to merge two 3-D data sets (collected on two different photomultiplier channels) and to display them at various angles of view.

Type
Computational Advances and Enabling Technologies for 3D Microscopies in Biology
Information
Microscopy and Microanalysis , Volume 3 , Issue S2: Proceedings: Microscopy & Microanalysis '97, Microscopy Society of America 55th Annual Meeting, Microbeam Analysis Society 31st Annual Meeting, Histochemical Society 48th Annual Meeting, Cleveland, Ohio, August 10-14, 1997 , August 1997 , pp. 1131 - 1132
Copyright
Copyright © Microscopy Society of America 1997

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References

1.Landis, M.et al.,IBM Communique 4 (1996) 9–11.Google Scholar
2.This work is partially supported by NIH NS 28495, NIH NS 20040, NSF 9507217,USDA/NRICGP 95-37302-1833 and the visualization Lab in the Center for Computing and Information Technology. We thankDr.Xue, Jun Sun for the use of his confocal data set.Google Scholar