Abstract
Given two genomic maps G 1 and G 2 each represented as a sequence of n gene markers, the maximal strip recovery (MSR) problem is to retain the maximum number of markers in both G 1 and G 2 such that the resultant subsequences, denoted as G 1 * and G 2 *, can be partitioned into the same set of maximal strips, which are common substrings of length greater than or equal to two. The complementary maximal strip recovery (CMSR) problem has the complementary goal to delete the minimum number of markers. Both MSR and CMSR have been shown NP-hard and APX-complete, and they admit a 4-approximation and a 3-approximation respectively. In this paper, we present an improved \(\frac 73\)-approximation algorithm for the CMSR problem, with its worst-case performance analysis done through a sequential amortization.
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Li, Z., Goebel, R., Wang, L., Lin, G. (2011). An Improved Approximation Algorithm for the Complementary Maximal Strip Recovery Problem. In: Atallah, M., Li, XY., Zhu, B. (eds) Frontiers in Algorithmics and Algorithmic Aspects in Information and Management. Lecture Notes in Computer Science, vol 6681. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-21204-8_9
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DOI: https://doi.org/10.1007/978-3-642-21204-8_9
Publisher Name: Springer, Berlin, Heidelberg
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