CellVisualizer : exploring hierarchical, multi-dimensional data with applications to high-throughput microscopy
Name
214339717-MIT.pdf
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8.93 MB
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Author(s)
Kang, InHan
Advisor(s)
Polina Golland.
Alternative Title
Cell Visualizer : exploring hierarchical, multi-dimensional data with applications to high-throughput microscopy
Date Issued
2006
Publisher
Massachusetts Institute of Technology
Abstract
In this thesis, we present a system for visualizing hierarchical, multi-dimensional, memory-intensive datasets. Specifically, we designed an interactive system to visualize data collected by high-throughput microscopy and processed by CellProfiler, an open-source system jointly developed by researchers at MIT CSAIL and the White-head Institute. A typical high-throughput microscopy experiment produces thousands of images, with thousands of objects in each image. CellProfiler then measures hundreds of features for each cell, nuclei, and cytoplasm. In contrast to previously demonstrated visualization software, our system visualizes datasets that are on the order of hundreds of gigabytes, datasets too large to store in physical memory. We also implement tools to link the dataset to available resources such as online genetic databases and the actual images acquired by the microscope. Finally, we demonstrate how the system was used to highlight interesting genes for more detailed analysis in real biological studies.
Description
Thesis (M. Eng.)--Massachusetts Institute of Technology, Dept. of Electrical Engineering and Computer Science, 2006.
Includes bibliographical references (p. 65-66).
Subjects
Electrical Engineering and Computer Science.
MIT Department
Massachusetts Institute of Technology. Department of Electrical Engineering and Computer Science
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