Abstract
Tandem repeated regions are closely related to some genetic diseases in human beings. Once a region containing pseudo-periodic repeats is found, it is interesting to study the history of creating the repeats. It is important to reveal the relationship between repeats and genetic diseases. The duplication model has been proposed to describe the history [3,10,11]. We design a polynomial time approximation scheme (PTAS) for the case where the size of the duplication box is 1. Our PTAS is faster than the best known algorithm in [11]. For example, to reach ratio-1.5, our algorithm takes O(n 5) time while the algorithm in [11] takes O(n 11) time. We also design a ratio-2 approximation algorithm for the case where the size of the duplication box is at most 2. This is the first approximation algorithm with guaranteed ratio for this case.
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Wang, L., Wang, Z., Chen, Z. (2007). Approximation Algorithms for Reconstructing the Duplication History of Tandem Repeats. In: Lin, G. (eds) Computing and Combinatorics. COCOON 2007. Lecture Notes in Computer Science, vol 4598. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-540-73545-8_48
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DOI: https://doi.org/10.1007/978-3-540-73545-8_48
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-540-73544-1
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