随机访问和语义搜索在DNA数据存储中,由Cas9和机器引导设计实现
Carina Imburgia1, Lee Organick1, Karen Zhang1
1University of Washington, Paul G. Allen School of Computer Science and Engineering, Seattle, USA.
Nature communications
|July 10, 2025
概括
克里斯普尔-Cas9能够快速,选择性地检索DNA数据以进行数字存储. 这种方法简化了数据访问并降低了成本,为高效的分子数据提取铺平了道路.
科学领域:
- 生物技术是生物技术.
- 生物信息学是一种生物信息学.
- 分子生物学分子生物学
背景情况:
- 对于数字存储,DNA提供了高数据密度和长寿命.
- 有效的数据检索对于实际的DNA存储系统至关重要.
- 目前用于分子数据提取的方法可能是复杂和耗时的.
研究的目的:
- 引入CRISPR-Cas9作为一种用于多重,低延迟分子数据提取的工具.
- 开发一个用户友好的系统,从DNA中选择性地检索数据.
- 为了能够有效地搜索和检索存储在DNA中的数据.
主要方法:
- 开发了一种使用CRISPR-Cas9进行向DNA裂变的单,复合随机访问方法.
- 在CRISPR-Cas9裂变后使用纳米孔测序来检索数据.
- 结合机器学习 (深度神经网络) 与基于Cas9的检索来进行分子相似性搜索.
主要成果:
- 在160万个DNA序列 (25个唯一的数据文件) 上验证了CRISPR-Cas9方法.
- 成功地将174万张图像映射到编码为Cas9目标序列的缩小尺寸嵌入式中.
- 使用Cas9的目标外活动,证明了对语义相关图像集群的分子地址的高保真检索.
结论:
- CRISPR-Cas9提供了一种简化和快速的DNA数据检索方法.
- 开发的方法提高了分子数据访问能力.
- 这些进展解决了基于DNA的数据存储和检索的关键挑战.
相关概念视频
CRISPR
53.0K
Genome editing technologies allow scientists to modify an organism’s DNA via the addition, removal, or rearrangement of genetic material at specific genomic locations. These types of techniques could potentially be used to cure genetic disorders such as hemophilia and sickle cell anemia. One popular and widely used DNA-editing research tool that could lead to safe and effective cures for genetic disorders is the CRISPR-Cas9 system. CRISPR-Cas9 stands for Clustered Regularly Interspaced...
53.0K
CRISPR/Cas9 Genome Editing
299
The CRISPR-Cas system serves as a bacterial defense mechanism against invading genetic elements such as viruses and plasmids, forming the foundation for its adaptation as a powerful genome-editing tool. Originally discovered in prokaryotes, this system has been repurposed to revolutionize genetic engineering across a wide range of organisms, including plants, animals, and humans. The core component, Cas9, is an endonuclease derived from Streptococcus pyogenes, capable of introducing...
299
Homologous Recombination
52.4K
The basic reaction of homologous recombination (HR) involves two chromatids that contain DNA sequences sharing a significant stretch of identity. One of these sequences uses a strand from another as a template to synthesize DNA in an enzyme-catalyzed reaction. The final product is a novel amalgamation of the two substrates. To ensure an accurate recombination of sequences, HR is restricted to the S and G2 phases of the cell cycle. At these stages, the DNA has been replicated already and the...
52.4K
Conservative Site-specific Recombination and Phase Variation
6.1K
Because the DNA segments are cut and reorganized in a direction-specific manner, site-specific recombination has emerged as an efficient genetic engineering technique. Flippase and Cyclization recombinases or Flp and Cre, respectively, are two members of the tyrosine recombinase family derived from bacteriophages, that are used to mediate site-specific DNA insertions, deletions, and targeted expression of proteins in mammalian cell lines.
The recognition sites for Cre recombinase called LoxP...
The recognition sites for Cre recombinase called LoxP...
6.1K
CRISPR and crRNAs
17.4K
Bacteria and archaea are susceptible to viral infections just like eukaryotes; therefore, they have developed a unique adaptive immune system to protect themselves. Clustered regularly interspaced short palindromic repeats and CRISPR-associated proteins (CRISPR-Cas) are present in more than 45% of known bacteria and 90% of known archaea.
The CRISPR-Cas system stores a copy of foreign DNA in the host genome and uses it to identify the foreign DNA upon reinfection. CRISPR-Cas has three different...
The CRISPR-Cas system stores a copy of foreign DNA in the host genome and uses it to identify the foreign DNA upon reinfection. CRISPR-Cas has three different...
17.4K
Maxam-Gilbert Sequencing
11.5K
In the same year as the discovery of the Sanger sequencing method, another group of scientists, Allan Maxam and Walter Gilbert, demonstrated their chemical-cleavage method for DNA sequencing. The Maxam-Gilbert method relies on using different chemicals that can cleave the DNA sequence at specific sites, the separation of resulting DNA fragments of variable size using electrophoresis, and deciphering the DNA sequence from the resulting gel bands.
Challenges of the Maxam-Gilbert Method
The...
Challenges of the Maxam-Gilbert Method
The...
11.5K


