Single-Error Detection and Correction for Duplication and Substitution Channels

Yuanyuan Tang; Yonatan Yehezkeally; Moshe Schwartz; Farzad Farnoud Hassanzadeh

doi:10.1109/ISIT.2019.8849307

Single-Error Detection and Correction for Duplication and Substitution Channels

Yuanyuan Tang, Yonatan Yehezkeally, Moshe Schwartz, Farzad Farnoud Hassanzadeh

Department of Electrical & Computer Engineering

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

4 Scopus citations

Abstract

Motivated by mutation processes occurring in in-vivo DNA-storage applications, a channel that mutates stored strings by duplicating substrings as well as substituting symbols is studied. Two models of such a channel are considered: one in which the substitutions occur only within the duplicated substrings, and one in which the location of substitutions is unrestricted. Both error-detecting and error-correcting codes are constructed, which can handle correctly any number of tandem duplications of a fixed length k, and at most a single substitution occurring at any time during the mutation process.

Original language	English
Title of host publication	2019 IEEE International Symposium on Information Theory, ISIT 2019 - Proceedings
Publisher	Institute of Electrical and Electronics Engineers
Pages	300-304
Number of pages	5
ISBN (Electronic)	9781538692912
DOIs	https://doi.org/10.1109/ISIT.2019.8849307
State	Published - 1 Jul 2019
Event	2019 IEEE International Symposium on Information Theory, ISIT 2019 - Paris, France Duration: 7 Jul 2019 → 12 Jul 2019

Publication series

Name	IEEE International Symposium on Information Theory - Proceedings
Volume	2019-July
ISSN (Print)	2157-8095

Conference

Conference	2019 IEEE International Symposium on Information Theory, ISIT 2019
Country/Territory	France
City	Paris
Period	7/07/19 → 12/07/19

ASJC Scopus subject areas

Theoretical Computer Science
Information Systems
Modeling and Simulation
Applied Mathematics

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10.1109/ISIT.2019.8849307

Cite this

Tang, Y., Yehezkeally, Y., Schwartz, M., & Hassanzadeh, F. F. (2019). Single-Error Detection and Correction for Duplication and Substitution Channels. In 2019 IEEE International Symposium on Information Theory, ISIT 2019 - Proceedings (pp. 300-304). [8849307] (IEEE International Symposium on Information Theory - Proceedings; Vol. 2019-July). Institute of Electrical and Electronics Engineers. https://doi.org/10.1109/ISIT.2019.8849307

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title = "Single-Error Detection and Correction for Duplication and Substitution Channels",

abstract = "Motivated by mutation processes occurring in in-vivo DNA-storage applications, a channel that mutates stored strings by duplicating substrings as well as substituting symbols is studied. Two models of such a channel are considered: one in which the substitutions occur only within the duplicated substrings, and one in which the location of substitutions is unrestricted. Both error-detecting and error-correcting codes are constructed, which can handle correctly any number of tandem duplications of a fixed length k, and at most a single substitution occurring at any time during the mutation process.",

author = "Yuanyuan Tang and Yonatan Yehezkeally and Moshe Schwartz and Hassanzadeh, {Farzad Farnoud}",

note = "Funding Information: This work was supported in part by NSF grants under grant nos. 1816409 and 1755773, and a BSF grant under grant no. 2017652. Publisher Copyright: {\textcopyright} 2019 IEEE.; 2019 IEEE International Symposium on Information Theory, ISIT 2019 ; Conference date: 07-07-2019 Through 12-07-2019",

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doi = "10.1109/ISIT.2019.8849307",

language = "English",

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Tang, Y, Yehezkeally, Y, Schwartz, M & Hassanzadeh, FF 2019, Single-Error Detection and Correction for Duplication and Substitution Channels. in 2019 IEEE International Symposium on Information Theory, ISIT 2019 - Proceedings., 8849307, IEEE International Symposium on Information Theory - Proceedings, vol. 2019-July, Institute of Electrical and Electronics Engineers, pp. 300-304, 2019 IEEE International Symposium on Information Theory, ISIT 2019, Paris, France, 7/07/19. https://doi.org/10.1109/ISIT.2019.8849307

Single-Error Detection and Correction for Duplication and Substitution Channels. / Tang, Yuanyuan; Yehezkeally, Yonatan; Schwartz, Moshe et al.
2019 IEEE International Symposium on Information Theory, ISIT 2019 - Proceedings. Institute of Electrical and Electronics Engineers, 2019. p. 300-304 8849307 (IEEE International Symposium on Information Theory - Proceedings; Vol. 2019-July).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

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N2 - Motivated by mutation processes occurring in in-vivo DNA-storage applications, a channel that mutates stored strings by duplicating substrings as well as substituting symbols is studied. Two models of such a channel are considered: one in which the substitutions occur only within the duplicated substrings, and one in which the location of substitutions is unrestricted. Both error-detecting and error-correcting codes are constructed, which can handle correctly any number of tandem duplications of a fixed length k, and at most a single substitution occurring at any time during the mutation process.

AB - Motivated by mutation processes occurring in in-vivo DNA-storage applications, a channel that mutates stored strings by duplicating substrings as well as substituting symbols is studied. Two models of such a channel are considered: one in which the substitutions occur only within the duplicated substrings, and one in which the location of substitutions is unrestricted. Both error-detecting and error-correcting codes are constructed, which can handle correctly any number of tandem duplications of a fixed length k, and at most a single substitution occurring at any time during the mutation process.

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Tang Y, Yehezkeally Y, Schwartz M, Hassanzadeh FF. Single-Error Detection and Correction for Duplication and Substitution Channels. In 2019 IEEE International Symposium on Information Theory, ISIT 2019 - Proceedings. Institute of Electrical and Electronics Engineers. 2019. p. 300-304. 8849307. (IEEE International Symposium on Information Theory - Proceedings). doi: 10.1109/ISIT.2019.8849307

Single-Error Detection and Correction for Duplication and Substitution Channels

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