Site-Directed Deletion

Da Jung Cho, Yo Sub Han, Hwee Kim, Kai Salomaa

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

Abstract

We introduce a new bio-inspired operation called a site-directed deletion motivated from site-directed mutagenesis performed by enzymatic activity of DNA polymerase: Given two strings x and y, a site-directed deletion partially deletes a substring of x guided by the string y that specifies which part of a substring can be deleted. We study a few decision problems with respect to the new operation and examine the closure properties of the (iterated) site-directed deletion operations. We, then, define a site-directed deletion-closed (and -free) language L and investigate its decidability properties when L is regular or context-free.

Original languageEnglish
Title of host publicationDevelopments in Language Theory - 22nd International Conference, DLT 2018, Proceedings
EditorsMizuho Hoshi, Shinnosuke Seki
PublisherSpringer Verlag
Pages219-230
Number of pages12
ISBN (Print)9783319986531
DOIs
Publication statusPublished - 2018 Jan 1
Event22nd International Conference on Developments in Language Theory, DLT 2018 - Tokyo, Japan
Duration: 2018 Sep 102018 Sep 14

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume11088 LNCS
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Other

Other22nd International Conference on Developments in Language Theory, DLT 2018
CountryJapan
CityTokyo
Period18/9/1018/9/14

Fingerprint

Computability and decidability
Mutagenesis
Deletion
DNA
Strings
Site-directed mutagenesis
Closure Properties
Decidability
Decision problem
Closed

All Science Journal Classification (ASJC) codes

  • Theoretical Computer Science
  • Computer Science(all)

Cite this

Cho, D. J., Han, Y. S., Kim, H., & Salomaa, K. (2018). Site-Directed Deletion. In M. Hoshi, & S. Seki (Eds.), Developments in Language Theory - 22nd International Conference, DLT 2018, Proceedings (pp. 219-230). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 11088 LNCS). Springer Verlag. https://doi.org/10.1007/978-3-319-98654-8_18
Cho, Da Jung ; Han, Yo Sub ; Kim, Hwee ; Salomaa, Kai. / Site-Directed Deletion. Developments in Language Theory - 22nd International Conference, DLT 2018, Proceedings. editor / Mizuho Hoshi ; Shinnosuke Seki. Springer Verlag, 2018. pp. 219-230 (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 & Salomaa, K 2018, Site-Directed Deletion. in M Hoshi & S Seki (eds), Developments in Language Theory - 22nd International Conference, DLT 2018, Proceedings. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 11088 LNCS, Springer Verlag, pp. 219-230, 22nd International Conference on Developments in Language Theory, DLT 2018, Tokyo, Japan, 18/9/10. https://doi.org/10.1007/978-3-319-98654-8_18

Site-Directed Deletion. / Cho, Da Jung; Han, Yo Sub; Kim, Hwee; Salomaa, Kai.

Developments in Language Theory - 22nd International Conference, DLT 2018, Proceedings. ed. / Mizuho Hoshi; Shinnosuke Seki. Springer Verlag, 2018. p. 219-230 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 11088 LNCS).

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

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Cho DJ, Han YS, Kim H, Salomaa K. Site-Directed Deletion. In Hoshi M, Seki S, editors, Developments in Language Theory - 22nd International Conference, DLT 2018, Proceedings. Springer Verlag. 2018. p. 219-230. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)). https://doi.org/10.1007/978-3-319-98654-8_18