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Updated: Jun 12, 2025

Rare Event Detection Using Error-corrected DNA and RNA Sequencing
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PELMI: Realize robust DNA image storage under general errors via parity encoding and local mean iteration.

Ben Cao1, Kun Wang2, Lei Xie2

  • 1School of Computer Science and Technology, Dalian University of Technology, No. 2 Linggong Road, Ganjingzi District, Dalian, Liaoning 116024, China.

Briefings in Bioinformatics
|September 17, 2024
PubMed
Summary

DNA data storage offers high density and low energy use. A new parity encoding and local mean iteration (PELMI) scheme improves image reconstruction robustness against errors, enhancing DNA sequence quality and data fidelity.

Keywords:
DNA encodingDNA storagelocal mean iterationparity encoding

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Area of Science:

  • Biotechnology
  • Data Storage
  • Bioinformatics

Background:

  • DNA data storage presents high encoding density and low energy consumption.
  • Current DNA storage methods struggle with image reconstruction errors, leading to data loss.
  • Robust methods are needed to overcome biochemical constraints and sequence errors in DNA data storage.

Purpose of the Study:

  • To develop a robust DNA storage scheme for images.
  • To enhance the quality and stability of DNA sequences for data storage.
  • To improve image reconstruction accuracy under various error conditions.

Main Methods:

  • Proposed a parity encoding and local mean iteration (PELMI) scheme.
  • Ensured compliance with DNA biochemical constraints and minimized undesired motifs.
  • Optimized Reed-Solomon error correction for varying pixel weights.
  • Implemented data supplementation and local mean iteration for error correction.

Main Results:

  • Reduced undesired motif content by 23%-50%, improving sequence stability.
  • Achieved robust image reconstruction despite insertion, deletion, and substitution errors.
  • Significantly improved image quality metrics (PSNR, MS-SSIM) and reduced MSE under 1% error rates.

Conclusions:

  • PELMI ensures robust and stable image storage in DNA.
  • The scheme enhances DNA sequence quality and data integrity.
  • PELMI enables high-quality image reconstruction, even with significant data errors.