Representing Information on DNA using Patterns Induced by Enzymatic Labeling
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arXiv
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| Autores principales: | , , , |
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| Formato: | Preprint |
| Publicado: |
2024
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| Acceso en línea: | |
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| _version_ | 1866913350390120448 |
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| author | Bar-Lev, Daniella Etzion, Tuvi Yaakobi, Eitan Yakhini, Zohar |
| author_facet | Bar-Lev, Daniella Etzion, Tuvi Yaakobi, Eitan Yakhini, Zohar |
| contents | Enzymatic DNA labeling is a powerful tool with applications in biochemistry, molecular biology, biotechnology, medical science, and genomic research. This paper contributes to the evolving field of DNA-based data storage by presenting a formal framework for modeling DNA labeling in strings, specifically tailored for data storage purposes. Our approach involves a known DNA molecule as a template for labeling, employing patterns induced by a set of designed labels to represent information. One hypothetical implementation can use CRISPR-Cas9 and gRNA reagents for labeling. Various aspects of the general labeling channel, including fixed-length labels, are explored, and upper bounds on the maximal size of the corresponding codes are given. The study includes the development of an efficient encoder-decoder pair that is proven optimal in terms of maximum code size under specific conditions. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2405_08475 |
| institution | arXiv |
| publishDate | 2024 |
| record_format | arxiv |
| spellingShingle | Representing Information on DNA using Patterns Induced by Enzymatic Labeling Bar-Lev, Daniella Etzion, Tuvi Yaakobi, Eitan Yakhini, Zohar Information Theory Enzymatic DNA labeling is a powerful tool with applications in biochemistry, molecular biology, biotechnology, medical science, and genomic research. This paper contributes to the evolving field of DNA-based data storage by presenting a formal framework for modeling DNA labeling in strings, specifically tailored for data storage purposes. Our approach involves a known DNA molecule as a template for labeling, employing patterns induced by a set of designed labels to represent information. One hypothetical implementation can use CRISPR-Cas9 and gRNA reagents for labeling. Various aspects of the general labeling channel, including fixed-length labels, are explored, and upper bounds on the maximal size of the corresponding codes are given. The study includes the development of an efficient encoder-decoder pair that is proven optimal in terms of maximum code size under specific conditions. |
| title | Representing Information on DNA using Patterns Induced by Enzymatic Labeling |
| topic | Information Theory |
| url | https://arxiv.org/abs/2405.08475 |