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Proceedings Paper

GENVIS: a sequence visualization technique for genomic DNA
Author(s): Ashish Mamania; Georges G. Grinstein; Kenneth A. Marx
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Paper Abstract

We describe a software platform in which large DNA sequence datasets may be visualized by techniques which readily reveal patterns and insights. Initially we have focused on providing accurate statistical visualizations rather than qualitative presentations. The first application of this platform visualizes properties of DNA sequence strings of any size as a function of string position (for example, in a large chromosome). We provide an example in which we visualize the ratio of found to expected frequency of occurrence for specific sequence strings (AAAA and TTTT) and show these reveal interesting patterns in that DNA string (yeast chromosome III). For flexibility, any new function, calculated from the sequence string, may be added to the software platform.

Paper Details

Date Published: 8 March 1996
PDF: 11 pages
Proc. SPIE 2656, Visual Data Exploration and Analysis III, (8 March 1996); doi: 10.1117/12.234669
Show Author Affiliations
Ashish Mamania, Univ. of Massachusetts/Lowell (United States)
Georges G. Grinstein, Univ. of Massachusetts/Lowell (United States)
Kenneth A. Marx, Univ. of Massachusetts/Lowell (United States)


Published in SPIE Proceedings Vol. 2656:
Visual Data Exploration and Analysis III
Georges G. Grinstein; Robert F. Erbacher, Editor(s)

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