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Lim, Kayeong
유전체 교정 연구단
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PE-Designer and PE-Analyzer: web-based design and analysis tools for CRISPR prime editing

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Title
PE-Designer and PE-Analyzer: web-based design and analysis tools for CRISPR prime editing
Author(s)
Hwang, Gue-Ho; Jeong, You Kyeong; Habib, Omer; Hong, Sung-Ah; Kayeong Lim; Jin-Soo Kim; Bae, Sangsu
Publication Date
2021-07
Journal
NUCLEIC ACIDS RESEARCH, v.49, no.W1, pp.W499 - W504
Publisher
OXFORD UNIV PRESS
Abstract
Prime editing technology is capable of generating targeted insertions, deletions, and base conversions. However, the process of designing prime editing guide RNAs (pegRNAs), which contain a primer binding site and a reverse-transcription template at the 3' end, is more complex than that for the single guide RNAs used with CRISPR nucleases or base editors. Furthermore, the assessment of high-throughput sequencing data after prime editors (PEs) have been employed should consider the unique feature of PEs; thus, pre-existing assessment tools cannot directly be adopted for PEs. Here, we present two user-friendly web-based tools for PEs, named PE-Designer and PE-Analyzer. PE-Designer, a dedicated tool for pegRNA selection, provides all possible target sequences, pegRNA extension sequences, and nicking guide RNA sequences together with useful information, and displays the results in an interactive image. PE-Analyzer, a dedicated tool for PE outcome analysis, accepts high-throughput sequencing data, summarizes mutation-related information in a table, and provides interactive graphs. PE-Analyzer was mainly written using JavaScript so that it can analyze several data sets without requiring that huge sequencing data (>100MB) be uploaded to the server, reducing analysis time and increasing personal security.
URI
https://pr.ibs.re.kr/handle/8788114/10732
DOI
10.1093/nar/gkab319
ISSN
0305-1048
Appears in Collections:
Center for Genome Engineering(유전체 교정 연구단) > 1. Journal Papers (저널논문)
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