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A Robust and Efficient DNA Storage Architecture Based on Modulation Encoding and Decoding
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DOI：10.1021/acs.jcim.3c00629.png)
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Abstract
En 中文
Synthetic DNA has been widely considered an attractivemedium fordigital data storage. However, the random insertion-deletion-substitution(IDS) errors in the sequenced reads still remain a critical challengeto reliable data recovery. Motivated by the modulation technique inthe communication field, we propose a new DNA storage architectureto solve this problem. The main idea is that all binary data are modulatedinto DNA sequences with the same AT/GC patterns, which facilitatethe detection of indels in noisy reads. The modulation signal couldnot only satisfy the encoding constraints but also serve as priorinformation to detect the potential positions of errors. Experimentson simulation and real data sets demonstrate that modulation encodingprovides a simple way to comply with biological constraints for sequenceencoding (i.e., balanced GC content and avoiding homopolymers). Furthermore,modulation decoding is highly efficient and extremely robust, whichcan correct up to & SIM;40% of errors. In addition, it is robustto imperfect clustering reconstruction, which is very common in practice.Although our method has a relatively low logical density of 1.0 bits/nt,its high robustness may provide a wide space for developing low-costsynthetic technologies. We believe this new architecture may boostthe early coming of large-scale DNA storage applications in the future.
Keywords:
MULTIPLE SEQUENCE ALIGNMENT
INFORMATION-STORAGE
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