On sorting unsigned permutations by double-cut-and-joins

Xin Chen ()
Additional contact information
Xin Chen: Nanyang Technological University

Journal of Combinatorial Optimization, 2013, vol. 25, issue 3, No 1, 339-351

Abstract: Abstract The problem of sorting unsigned permutations by double-cut-and-joins (SBD) arises when we perform the double-cut-and-join (DCJ) operations on pairs of unichromosomal genomes without the gene strandedness information. In this paper we show it is a NP-hard problem by reduction to an equivalent previously-known problem, called breakpoint graph decomposition (BGD), which calls for a largest collection of edge-disjoint alternating cycles in a breakpoint graph. To obtain a better approximation algorithm for the SBD problem, we made a suitable modification to Lin and Jiang’s algorithm which was initially proposed to approximate the BGD problem, and then carried out a rigorous performance analysis via fractional linear programming. The approximation ratio thus achieved for the SBD problem is $\frac{17}{12}+\epsilon \approx 1.4167 +\epsilon$ , for any positive ε.

Keywords: Genome rearrangement; Double-cut-and-joins; Breakpoint graph decomposition; Fractional linear programming (search for similar items in EconPapers)
Date: 2013
References: View references in EconPapers View complete reference list from CitEc
Citations: View citations in EconPapers (1)

Downloads: (external link)
http://link.springer.com/10.1007/s10878-010-9369-8 Abstract (text/html)
Access to the full text of the articles in this series is restricted.

Related works:
This item may be available elsewhere in EconPapers: Search for items with the same title.

Export reference: BibTeX RIS (EndNote, ProCite, RefMan) HTML/Text

Persistent link: https://EconPapers.repec.org/RePEc:spr:jcomop:v:25:y:2013:i:3:d:10.1007_s10878-010-9369-8

Ordering information: This journal article can be ordered from
https://www.springer.com/journal/10878

DOI: 10.1007/s10878-010-9369-8

Access Statistics for this article

Journal of Combinatorial Optimization is currently edited by Thai, My T.

More articles in Journal of Combinatorial Optimization from Springer
Bibliographic data for series maintained by Sonal Shukla () and Springer Nature Abstracting and Indexing ().