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|Title:||Approximating the double-cut-and-join distance between unsigned genomes||Authors:||Chen, Xin
|Keywords:||Mathematical Sciences||Issue Date:||2011||Source:||Chen, X., Sun, R., & Yu, J. (2011). Approximating the double-cut-and-join distance between unsigned genomes. BMC Bioinformatics, 12(Suppl 9):S17.||Series/Report no.:||BMC bioinformatics||Abstract:||In this paper we study the problem of sorting unsigned genomes by double-cut-and-join operations, where genomes allow a mix of linear and circular chromosomes to be present. First, we formulate an equivalent optimization problem, called maximum cycle/path decomposition, which is aimed at finding a largest collection of edge-disjoint cycles/AA-paths/AB-paths in a breakpoint graph. Then, we show that the problem of finding a largest collection of edge-disjoint cycles/AA-paths/AB-paths of length no more than l can be reduced to the well-known degree-bounded k-set packing problem with k = 2l. Finally, a polynomial-time approximation algorithm for the problem of sorting unsigned genomes by double-cut-and-join operations is devised, which achieves the approximation ratio 13/9 + e ≈ 1.4444 + e, for any positive ε. For the restricted variation where each genome contains only one linear chromosome, the approximation ratio can be further improved to 69/49 + e ≈ 1.4082 + e.||URI:||https://hdl.handle.net/10356/100350
|ISSN:||1471-2105||DOI:||10.1186/1471-2105-12-S9-S17||Rights:||© 2011 Chen et al; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License(http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.||Fulltext Permission:||open||Fulltext Availability:||With Fulltext|
|Appears in Collections:||SPMS Journal Articles|
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