PrimeDesign software for rapid and simplified design of prime editing guide RNAs
| Autor: | Luca Pinello, Max W. Shen, Regan Szalay, Julian Grünewald, Jonathan Y. Hsu, J. Keith Joung, Andrew V. Anzalone, Justine Shih, David R. Liu, Kin Chung Lam, Karl Petri |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2021 |
| Předmět: |
CRISPR-Cas9 genome editing
0301 basic medicine Computer science Recombinant Fusion Proteins Science Green Fluorescent Proteins General Physics and Astronomy Computational biology Hemophilia A Models Biological Genome Article General Biochemistry Genetics and Molecular Biology Prime (order theory) 03 medical and health sciences 0302 clinical medicine Genome editing CRISPR-Associated Protein 9 Databases Genetic Humans CRISPR Web application Clustered Regularly Interspaced Short Palindromic Repeats Guide RNA Base Pairing Gene Editing Multidisciplinary Base Sequence Genome Human business.industry RNA General Chemistry Construct (python library) Muscular Dystrophy Duchenne HEK293 Cells 030104 developmental biology Mutation Fabry Disease Nucleic Acid Conformation CRISPR-Cas Systems business Software 030217 neurology & neurosurgery Plasmids RNA Guide Kinetoplastida |
| Zdroj: | Nature Communications, Vol 12, Iss 1, Pp 1-6 (2021) Nature Communications |
| ISSN: | 2041-1723 |
| Popis: | Prime editing (PE) is a versatile genome editing technology, but design of the required guide RNAs is more complex than for standard CRISPR-based nucleases or base editors. Here we describe PrimeDesign, a user-friendly, end-to-end web application and command-line tool for the design of PE experiments. PrimeDesign can be used for single and combination editing applications, as well as genome-wide and saturation mutagenesis screens. Using PrimeDesign, we construct PrimeVar, a comprehensive and searchable database that includes candidate prime editing guide RNA (pegRNA) and nicking sgRNA (ngRNA) combinations for installing or correcting >68,500 pathogenic human genetic variants from the ClinVar database. Finally, we use PrimeDesign to design pegRNAs/ngRNAs to install a variety of human pathogenic variants in human cells. Prime editing guide RNA design is more complex than for standard CRISPR-based nucleases or base editors. Here the authors present PrimeDesign and PrimeVar for the rapid and simplified design of pegRNA and ngRNA combinations. |
| Databáze: | OpenAIRE |
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