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A Bioinformatics-Inspired Adaptation to Ukkonen's Edit Distance Calculating Algorithm and Its Applicability towards Distributed Data Mining

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1 Author(s)
Johnson, B. ; Dept. of Electr. Eng. & Comput. Sci., Univ. of Tennessee, Knoxville, TN

Edit distance measures the similarity between two strings (as the minimum number of change, insert or delete operations that transform one string to the other). An edit sequence s is a sequence of such operations and can be used to represent the string resulting from applying s to a reference string. We present a modification to Ukkonenpsilas edit distance calculating algorithm based upon representing strings by edit sequences. We conclude with a demonstration of how using this representation can improve mitochondrial DNA query throughput performance in a distributed computing environment.

Published in:

Computer Science and Software Engineering, 2008 International Conference on  (Volume:4 )

Date of Conference:

12-14 Dec. 2008

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