Generating, modeling and evaluating a large-scale set of CRISPR/Cas9 off-target sites with bulges.

ABSTRACT: The CRISPR/Cas9 system is a highly accurate gene-editing technique, but it can also lead to unintended off-target sites (OTS). Consequently, many high-throughput assays have been developed to measure OTS in a genome-wide manner, and their data was used to train machine-learning models to predict OTS. However, these models are inaccurate when considering OTS with bulges due to limited data compared to OTS without bulges. Recently, CHANGE-seq, a new in vitro technique to detect OTS, was used to produce a dataset of unprecedented scale and quality. In addition, the same study produced in cellula GUIDE-seq experiments, but none of these GUIDE-seq experiments included bulges. Here, we generated the most comprehensive GUIDE-seq dataset with bulges, and trained and evaluated state-of-the-art mach

SUBMITTER: Yaish O 

PROVIDER: S-EPMC11229338 | biostudies-literature | 2024 Jul

REPOSITORIES: biostudies-literature