Dissertation/Thesis Abstract

Fluorender, an interactive tool for confocal microscopy data visualization and analysis
by Wan, Yong, Ph.D., The University of Utah, 2013, 143; 3592436
Abstract (Summary)

Confocal microscopy has become a popular imaging technique in biology research in recent years. It is often used to study three-dimensional (3D) structures of biological samples. Confocal data are commonly multichannel, with each channel resulting from a different fluorescent staining. This technique also results in finely detailed structures in 3D, such as neuron fibers. Despite the plethora of volume rendering techniques that have been available for many years, there is a demand from biologists for a flexible tool that allows interactive visualization and analysis of multichannel confocal data. Together with biologists, we have designed and developed FluoRender. It incorporates volume rendering techniques such as a two-dimensional (2D) transfer function and multichannel intermixing. Rendering results can be enhanced through tone-mappings and overlays. To facilitate analyses of confocal data, FluoRender provides interactive operations for extracting complex structures. Furthermore, we developed the Synthetic Brainbow technique, which takes advantage of the asynchronous behavior in Graphics Processing Unit (GPU) framebuffer loops and generates random colorizations for different structures in single-channel confocal data. The results from our Synthetic Brainbows, when applied to a sequence of developing cells, can then be used for tracking the movements of these cells. Finally, we present an application of FluoRender in the workflow of constructing anatomical atlases.

Indexing (document details)
Advisor: Hansen, Charles
Commitee: Johnson, Christopher, Kardon, Gabrielle, Pascucci, Valerio, Whitaker, Ross
School: The University of Utah
Department: Computing
School Location: United States -- Utah
Source: DAI-B 74/12(E), Dissertation Abstracts International
Subjects: Computer science
Keywords: Anatomical atlas, Biology application, Confocal microscopy, Visualization, Volume rendering
Publication Number: 3592436
ISBN: 978-1-303-33480-1
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