Alignment with non-overlapping inversions on two strings

Da Jung Cho, Yo Sub Han, Hwee Kim

Research output: Chapter in Book/Report/Conference proceedingConference contribution

6 Citations (Scopus)

Abstract

The inversion is one of the important operations in bio sequence analysis and the sequence alignment problem is well-studied for efficient bio sequence comparisons. Based on inversion operations, we introduce the alignment with non-overlapping inversion problem: Given two strings x and y, does there exist an alignment with non-overlapping inversions for x and y. We, in particular, consider the alignment problem when non-overlapping inversions are allowed for both x and y. We design an efficient algorithm that determines the existence of non-overlapping inversions and present another efficient algorithm that retrieves such an alignment, if exists.

Original languageEnglish
Title of host publicationAlgorithms and Computation - 8th International Workshop, WALCOM 2014, Proceedings
PublisherSpringer Verlag
Pages261-272
Number of pages12
ISBN (Print)9783319046563
DOIs
Publication statusPublished - 2014 Jan 1
Event8th International Workshop on Algorithms and Computation, WALCOM 2014 - Chennai, India
Duration: 2014 Feb 132014 Feb 15

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume8344 LNCS
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Other

Other8th International Workshop on Algorithms and Computation, WALCOM 2014
CountryIndia
CityChennai
Period14/2/1314/2/15

Fingerprint

Inversion
Alignment
Strings
Efficient Algorithms
Sequence Comparison
Sequence Alignment
Sequence Analysis

All Science Journal Classification (ASJC) codes

  • Theoretical Computer Science
  • Computer Science(all)

Cite this

Cho, D. J., Han, Y. S., & Kim, H. (2014). Alignment with non-overlapping inversions on two strings. In Algorithms and Computation - 8th International Workshop, WALCOM 2014, Proceedings (pp. 261-272). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 8344 LNCS). Springer Verlag. https://doi.org/10.1007/978-3-319-04657-0_25
Cho, Da Jung ; Han, Yo Sub ; Kim, Hwee. / Alignment with non-overlapping inversions on two strings. Algorithms and Computation - 8th International Workshop, WALCOM 2014, Proceedings. Springer Verlag, 2014. pp. 261-272 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)).
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Cho, DJ, Han, YS & Kim, H 2014, Alignment with non-overlapping inversions on two strings. in Algorithms and Computation - 8th International Workshop, WALCOM 2014, Proceedings. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 8344 LNCS, Springer Verlag, pp. 261-272, 8th International Workshop on Algorithms and Computation, WALCOM 2014, Chennai, India, 14/2/13. https://doi.org/10.1007/978-3-319-04657-0_25

Alignment with non-overlapping inversions on two strings. / Cho, Da Jung; Han, Yo Sub; Kim, Hwee.

Algorithms and Computation - 8th International Workshop, WALCOM 2014, Proceedings. Springer Verlag, 2014. p. 261-272 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 8344 LNCS).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

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Cho DJ, Han YS, Kim H. Alignment with non-overlapping inversions on two strings. In Algorithms and Computation - 8th International Workshop, WALCOM 2014, Proceedings. Springer Verlag. 2014. p. 261-272. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)). https://doi.org/10.1007/978-3-319-04657-0_25