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通过 base128 编码将图像存储在 DNA 中。

Storing Images in DNA via base128 Encoding.

机构信息

The Key Laboratory of Advanced Design and Intelligent Computing, Ministry of Education, School of Software Engineering, Dalian University, Dalian 116622, China.

School of Computer Science and Technology, Dalian University of Technology, Dalian 116024, China.

出版信息

J Chem Inf Model. 2024 Mar 11;64(5):1719-1729. doi: 10.1021/acs.jcim.3c01592. Epub 2024 Feb 22.

Abstract

Current DNA storage schemes lack flexibility and consistency in processing highly redundant and correlated image data, resulting in low sequence stability and image reconstruction rates. Therefore, according to the characteristics of image storage, this paper proposes storing images in DNA via base128 encoding (DNA-base128). In the data writing stage, data segmentation and probability statistics are carried out, and then, the data block frequency and constraint encoding set are associated with achieving encoding. When the image needs to be recovered, DNA-base128 completes internal error correction by threshold setting and drift comparison. Compared with representative work, the DNA-base128 encoding results show that the undesired motifs were reduced by 71.2-90.7% and that the local guanine-cytosine content variance was reduced by 3 times, indicating that DNA-base128 can store images more stably. In addition, the structural similarity index (SSIM) and multiscale structural similarity (MS-SSIM) of image reconstruction using DNA-base128 were improved by 19-102 and 6.6-20.3%, respectively. In summary, DNA-base128 provides image encoding with internal error correction and provides a potential solution for DNA image storage. The data and code are available at the GitHub repository: https://github.com/123456wk/DNA_base128.

摘要

当前的 DNA 存储方案在处理高度冗余和相关的图像数据时缺乏灵活性和一致性,导致序列稳定性和图像重建率较低。因此,根据图像存储的特点,本文提出通过碱基 128 编码(DNA-base128)将图像存储在 DNA 中。在数据写入阶段,进行数据分段和概率统计,然后将数据块频率和约束编码集与编码相关联。当需要恢复图像时,DNA-base128 通过阈值设置和漂移比较完成内部纠错。与代表性工作相比,DNA-base128 编码结果表明,不需要的基序减少了 71.2-90.7%,局部鸟嘌呤-胞嘧啶含量方差减少了 3 倍,表明 DNA-base128 可以更稳定地存储图像。此外,使用 DNA-base128 进行图像重建的结构相似性指数(SSIM)和多尺度结构相似性(MS-SSIM)分别提高了 19-102%和 6.6-20.3%。总之,DNA-base128 为图像编码提供了内部纠错,并为 DNA 图像存储提供了一种潜在的解决方案。数据和代码可在 GitHub 存储库中获得:https://github.com/123456wk/DNA_base128。

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