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Cpf1-Database: web-based genome-wide guide RNA library design for gene knockout screens using CRISPR-Cpf1
Jeongbin Park1, Sangsu Bae1,2
1Department of Chemistry, Hanyang University, Seoul 04763, South Korea.
Bioinformatics (Oxford, England)
|November 30, 2017
Summary
Cpf1-Database is a new tool for designing guide RNAs (gRNAs) for CRISPR genome editing. It helps researchers efficiently select optimal gRNAs for LbCpf1 and AsCpf1 nucleases across entire genomes.
Area of Science:
- Molecular Biology
- Genomics
- Biotechnology
Background:
- CRISPR-Cas9 systems are widely used for genome editing.
- Type V CRISPR-Cpf1 endonucleases offer alternative genome editing capabilities.
- A need exists for optimized genome-wide guide RNA (gRNA) selection tools for Cpf1 systems.
Purpose of the Study:
- To develop a web-based tool for designing genome-wide gRNA libraries for CRISPR-Cpf1.
- To provide an efficient method for selecting optimal gRNAs for LbCpf1 and AsCpf1 nucleases.
Main Methods:
- Development of a web-based platform, Cpf1-Database.
- Implementation of algorithms for selecting target sites based on Cpf1 recognition sequences (5'-TTTN-3').
- Integration of a collections feature for designing gRNAs for multiple genes.
Main Results:
- Cpf1-Database enables genome-wide gRNA library design for LbCpf1 and AsCpf1.
- The tool offers a user-friendly interface for efficient gRNA selection.
- Users can design gRNAs for thousands of genes rapidly.
Conclusions:
- Cpf1-Database addresses the lack of specialized tools for Cpf1-mediated genome editing.
- The tool facilitates large-scale gRNA design, accelerating CRISPR research.
- Accessible online, Cpf1-Database supports broader adoption of Cpf1 systems.
