Reducing cost in DNA-based data storage by sequence analysis-aided soft information decoding of variable-length reads

• DOI: 10.1093/bioinformatics/btad548
• Publication Date: 2023-09-05T16:22:47Z
• Authors: Seong-Joon Park; Sunghwan Kim; Jaeho Jeong; Albert No; Jong-Seon No; Hosung Park
• Keywords: Code (set theory)

DNA-based data storage is one of the most attractive research areas for future archival storage. However, it faces problems high writing and reading costs practical use. There have been many efforts to resolve this problem, but existing schemes are not fully suitable storage, more cost reduction needed.We propose whole encoding decoding procedures DNA The procedure consists a carefully designed single low-density parity-check code as an inter-oligo code, which corrects errors dropouts efficiently. We apply new clustering alignment methods that operate on variable-length reads aid performance. use edit distance quality scores during sequence analysis-aided procedure, can discard abnormal utilize high-quality soft information. store 548.83 KB image file in oligos achieve 7.46% significant 26.57% 19.41% compared with two previous works.Data codes all algorithms proposed study available at: https://github.com/sjpark0905/DNA-LDPC-codes.