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  4. Approximating the edit distance for genomes with duplicate genes under DCJ, insertion and deletion
 
conference paper

Approximating the edit distance for genomes with duplicate genes under DCJ, insertion and deletion

Shao, Mingfu  
•
Lin, Yu  
2012
BMC Bioinformatics
10th Workshop on Comparative Genomics RECOMB-CG'12

Computing the edit distance between two genomes under certain operations is a basic problem in the study of genome evolution. The double-cut-and-join (DCJ) model has formed the basis for most algorithmic research on rearrangements over the last few years. The edit distance under the DCJ model can be easily computed for genomes without duplicate genes. In this paper, we study the edit distance for genomes with duplicate genes under a model that includes DCJ operations, insertions and deletions. We prove that computing the edit distance is equivalent to finding the optimal cycle decomposition of the corresponding adjacency graph, and give an approximation algorithm with an approximation ratio of 1.5 + L.

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Type
conference paper
DOI
10.1186/1471-2105-13-S19-S13
Web of Science ID

WOS:000312986200013

Author(s)
Shao, Mingfu  
•
Lin, Yu  
Date Issued

2012

Publisher

Biomed Central Ltd

Publisher place

London

Published in
BMC Bioinformatics
Total of pages

9

Volume

13

Issue

S19

Editorial or Peer reviewed

REVIEWED

Written at

EPFL

EPFL units
LCBB  
Event nameEvent date
10th Workshop on Comparative Genomics RECOMB-CG'12

2012

Available on Infoscience
March 28, 2013
Use this identifier to reference this record
https://infoscience.epfl.ch/handle/20.500.14299/91110
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