Curated loci prime editing (cliPE) for accessible multiplexed assays of variant effect (MAVEs)

2025/01/08 by Carina G Biar, Biar, Carina G, Nicholas Bodkin +7 · 1 voice
Biochemistry, Genetics and Molecular Biology · #Advanced biosensing and bioanalysis techniques #Biology #CRISPR #CRISPR and Genetic Engineering #Computational biology #Computer science #FOS: Biological sciences #Gene #Genetics #Genome editing #Genomics (q-bio.GN) #Multiplexing #Pipeline (software) #Prime (order theory) #Programming language #Single-cell and spatial transcriptomics #q-bio.GN

paper · pdf · doi:10.48550/arxiv.2501.04822

published in PubMed (National Institutes of Health)

openalex publication_date 2025/01/08 · arxiv published 2025/01/08 · arxiv updated 2025/01/08 · openalex created_date 2025/01/11 · openalex updated_date 2026/08/06

Abstract

Multiplexed assays of variant effect (MAVEs) perform simultaneous characterization of many variants. Prime editing has been recently adopted for introducing many variants in their native genomic contexts. However, robust protocols and standards are limited, preventing widespread uptake. Herein, we describe curated loci prime editing (cliPE) which is an accessible, low-cost experimental pipeline to perform MAVEs using prime editing of a target gene, as well as a companion Shiny app (pegRNA Designer) to rapidly and easily design user-specific MAVE libraries.

Discussions

• Proud to introduce curated loci prime editing (cliPE)! It is a generalizable and accessible platform to characterize many genetic variants in a gene of interest 1/11 arxiv.org/abs/2501.04822 [bsky, 3 points, 1 comments]

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