Space-Conserving Optimal DNA-Protein Alignment

13 years 8 months ago
Space-Conserving Optimal DNA-Protein Alignment
DNA-protein alignment algorithms can be used to discover coding sequences in a genomic sequence, if the corresponding protein derivatives are known. They can also be used to identify potential coding sequences of a newly sequenced genome, by using proteins from related species. Previously known algorithms either solve a simplified formulation, or sacrifice optimality to achieve practical implementation. In this paper, we present a comprehensive formulation of the DNA-protein alignment problem, and an algorithm to compute the optimal alignment in O(mn) time using only four tables of size (m + 1)
Pang Ko, Mahesh Narayanan, Anantharaman Kalyanaram
Added 20 Aug 2010
Updated 20 Aug 2010
Type Conference
Year 2004
Where CSB
Authors Pang Ko, Mahesh Narayanan, Anantharaman Kalyanaraman, Srinivas Aluru
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