CRISPRnano

CRISPRnano analyzes deep sequencing data to genotype nuclease-edited cell clones and quantify targeted mutagenesis at genomic loci for characterization of NHEJ- or HDR-mediated genome edits.

Key Features:

• Genotyping of nuclease-edited clones: Performs genotyping of cell clones using deep sequencing reads to determine edited alleles.
• Detection and quantification of targeted mutagenesis: Detects and quantifies insertions, deletions, and other mutations at specified genomic loci.
• Support for sequencing technologies: Accepts and analyzes data from Next Generation Sequencing (NGS) platforms and Oxford Nanopore Technologies (ONT).
• Processing of low-quality reads: Processes low-quality sequencing reads to enable analysis of lower-quality or long-read datasets.
• Resolution of cleavage sites: Resolves genome engineering–induced cleavage sites to characterize edit positions.
• Visualization and quantification: Provides computational outputs for visualization and quantification of edited alleles and clone frequencies.

Scientific Applications:

• Genome editing outcome characterization: Quantifies NHEJ and HDR repair outcomes at targeted loci following nuclease editing.
• Clone validation and selection: Genotypes and characterizes edited cell clones to support selection of desired genotypes.
• Target locus analysis: Identifies genetically modified clones and characterizes mutational spectra at specific target loci.
• Cross-platform sequencing analysis: Analyzes deep sequencing datasets from both NGS and ONT for genome engineering projects.

Methodology:

Analyzes deep sequencing reads, including low-quality ONT and NGS data, to detect and quantify targeted mutagenesis at specific genomic loci and to resolve genome engineering–induced cleavage sites for genotyping nuclease-edited cell clones.