LAUSR

Determinants of Base Editing Outcomes from Target Library Analysis and Machine Learning

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0 Published in 2020 at "Cell"

DOI: 10.1016/j.cell.2020.05.037

Abstract: Although base editors are widely used to install targeted point mutations, the factors that determine base editing outcomes are not well understood. We characterized sequence-activity relationships of 11 cytosine and adenine base editors (CBEs and… read more here.

Keywords: base editing; editing outcomes; machine learning; base editors ... See more keywords

Elucidating the genetic mechanisms governing cytosine base editing outcomes through CRISPRi screens

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0 Published in 2025 at "Nature Communications"

DOI: 10.1038/s41467-025-59948-z

Abstract: Cytosine base editors enable programmable and efficient genome editing using an intermediate featuring a U•G mismatch across from a DNA nick. This intermediate facilitates two major outcomes, C•G to T•A and C•G to G•C point… read more here.

Keywords: base editing; cytosine base; repair; base ... See more keywords

Maximizing CRISPR/Cas9 phenotype penetrance applying predictive modeling of editing outcomes in Xenopus and zebrafish embryos

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0 Published in 2020 at "Scientific Reports"

DOI: 10.1038/s41598-020-71412-0

Abstract: CRISPR/Cas9 genome editing has revolutionized functional genomics in vertebrates. However, CRISPR/Cas9 edited F0 animals too often demonstrate variable phenotypic penetrance due to the mosaic nature of editing outcomes after double strand break (DSB) repair. Even… read more here.

Keywords: editing outcomes; crispr cas9; outcomes xenopus; penetrance ... See more keywords

Annotation and evaluation of base editing outcomes in multiple cell types using CRISPRbase

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1 Published in 2022 at "Nucleic Acids Research"

DOI: 10.1093/nar/gkac967

Abstract: Abstract CRISPR-Cas base editing (BE) system is a powerful tool to expand the scope and efficiency of genome editing with single-nucleotide resolution. The editing efficiency, product purity, and off-target effect differ among various BE systems.… read more here.

Keywords: crisprbase; cell types; editing outcomes; base editing ... See more keywords

DeepIndel: An Interpretable Deep Learning Approach for Predicting CRISPR/Cas9-Mediated Editing Outcomes

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0 Published in 2024 at "International Journal of Molecular Sciences"

DOI: 10.3390/ijms252010928

Abstract: CRISPR/Cas9 has been applied to edit the genome of various organisms, but our understanding of editing outcomes at specific sites after Cas9-mediated DNA cleavage is still limited. Several deep learning-based methods have been proposed for… read more here.

Keywords: deep learning; editing outcomes; cas9 mediated; crispr cas9 ... See more keywords