ARES-GT

ARES-GT identifies candidate single-guide RNAs (sgRNAs) for CRISPR genome editing that can target multiple gene family members while incorporating custom and variant-containing genomes for accurate target selection and off-target assessment.

Key Features:

• Multi-Target Identification: Identifies candidate sgRNAs capable of simultaneously targeting multiple query sequences to facilitate editing of gene families.
• Custom Genome Support: Uses user-provided genomes, including unpublished assemblies and allelic variants, for target selection and off-target evaluation.
• Intraspecies Variability Handling: Incorporates unmapped contigs alongside complete genomes to account for allelic variability and individual polymorphisms.
• FASTA Input Processing: Analyzes input sequences provided in FASTA format to detect sgRNA candidates that match individual and multiple targets.
• Python Implementation: Implemented in Python.

Scientific Applications:

• Gene family editing: Designing sgRNAs that target multiple paralogous genes within a gene family for simultaneous modification.
• Population- or species-specific CRISPR design: Adapting sgRNA selection to genomes or assemblies containing allelic variants and unmapped contigs from specific populations or species.

Methodology:

Analyzes input sequences in FASTA format to identify candidate sgRNAs that match individual query sequences and multiple targets, leveraging user-provided genomes and unmapped contigs to evaluate target coverage and potential off-targets.