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易剪(Easy-Prime):一款基于机器学习的碱基编辑器设计工具。

Easy-Prime: a machine learning-based prime editor design tool.

机构信息

Department of Hematology, St. Jude Children's Research Hospital, Memphis, TN, USA.

Integrated Biomedical Sciences Program, University of Tennessee Health Science Center, Memphis, TN, USA.

出版信息

Genome Biol. 2021 Aug 19;22(1):235. doi: 10.1186/s13059-021-02458-0.

Abstract

Prime editing is a revolutionary genome-editing technology that can make a wide range of precise edits in DNA. However, designing highly efficient prime editors (PEs) remains challenging. We develop Easy-Prime, a machine learning-based program trained with multiple published data sources. Easy-Prime captures both known and novel features, such as RNA folding structure, and optimizes feature combinations to improve editing efficiency. We provide optimized PE design for installation of 89.5% of 152,351 GWAS variants. Easy-Prime is available both as a command line tool and an interactive PE design server at: http://easy-prime.cc/ .

摘要

碱基编辑是一种革命性的基因组编辑技术,可以在 DNA 中实现广泛的精确编辑。然而,设计高效的碱基编辑器(PEs)仍然具有挑战性。我们开发了基于机器学习的程序 Easy-Prime,该程序经过多个已发表数据来源的训练。Easy-Prime 捕获了已知和新颖的特征,如 RNA 折叠结构,并优化了特征组合以提高编辑效率。我们为安装 152351 个 GWAS 变体中的 89.5%提供了优化的 PE 设计。Easy-Prime 既可以作为命令行工具使用,也可以在交互式 PE 设计服务器上使用,网址为:http://easy-prime.cc/

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/2ad3/8377858/9e6f67a1b4ca/13059_2021_2458_Fig1_HTML.jpg

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