Please use this identifier to cite or link to this item: https://hdl.handle.net/10356/83513
Title: Optimized code design for constrained DNA data storage with asymmetric errors
Authors: Md. Noor-A-Rahim
Guan, Yong Liang
Shi, Zhiping
Gunawan, Erry
Poh, Chueh Loo
Deng, Li
Wang, Yixin
Keywords: Engineering::Electrical and electronic engineering
DNA Data Storage
Protograph LDPC Codes
Issue Date: 2019
Source: Deng, L., Wang, Y., Md. Noor-A-Rahim, Guan, Y. L., Shi, Z., Gunawan, E., & Poh, C. L. (2019). Optimized code design for constrained DNA data storage with asymmetric errors. IEEE Access, 7, 84107-84121. doi:10.1109/ACCESS.2019.2924827
Series/Report no.: IEEE Access
Abstract: With ultra-high density and preservation longevity, deoxyribonucleic acid (DNA)-based data storage is becoming an emerging storage technology. Limited by the current biochemical techniques, data might be corrupted during the processes of DNA data storage. A hybrid coding architecture consisting of modified variable-length run-length limited (VL-RLL) codes and optimized protograph low-density parity-check (LDPC) codes is proposed in order to suppress error occurrence and correct asymmetric substitution errors. Based on the analyses of the different asymmetric DNA sequencer channel models, a series of the protograph LDPC codes are optimized using a modified extrinsic information transfer algorithm (EXIT). The simulation results show the better error performance of the proposed protograph LDPC codes over the conventional good codes and the codes used in the existing DNA data storage system. In addition, the theoretical analysis shows that the proposed hybrid coding scheme stores ~1.98 bits per nucleotide (bits/nt) with only 1% gap from the upper boundary (2 bits/nt).
URI: https://hdl.handle.net/10356/83513
http://hdl.handle.net/10220/49766
DOI: 10.1109/ACCESS.2019.2924827
Rights: © 2019 IEEE. This journal is 100% open access, which means that all content is freely available without charge to users or their institutions. All articles accepted after 12 June 2019 are published under a CC BY 4.0 license*, and the author retains copyright. Users are allowed to read, download, copy, distribute, print, search, or link to the full texts of the articles, or use them for any other lawful purpose, as long as proper attribution is given.
Fulltext Permission: open
Fulltext Availability: With Fulltext
Appears in Collections:EEE Journal Articles

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