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An Optimization Approach to Multiple Sequence Alignment

Published

Author(s)

Fern Y. Hunt, Anthony J. Kearsley, H H Wan

Abstract

The problem of multiple sequence alignment is recast as an optimization problem using Markov decision theory. One seeks to minimize the expected or average cost of alignment subject to data-derived constraints. In this setting the problem is equivalent to a linear program which can be solved efficiently using modern interior-point methods.
Citation
Applied Mathematics Letters
Volume
16
Issue
5

Keywords

alignment, linear programming, sequencing

Citation

Hunt, F. , Kearsley, A. and , H. (2003), An Optimization Approach to Multiple Sequence Alignment, Applied Mathematics Letters, [online], https://tsapps.nist.gov/publication/get_pdf.cfm?pub_id=150843 (Accessed April 13, 2024)
Created July 1, 2003, Updated February 19, 2017