SNP-CRISPR

SNP-CRISPR designs single guide RNAs (sgRNAs) that specifically target single nucleotide polymorphisms (SNPs) for CRISPR/Cas9-mediated genome editing, optimizing guide-target complementarity in the presence of variant alleles.

Key Features:

• Targeted SNP Design: Designs sgRNAs that specifically target SNP-containing alleles, including disease-relevant mutations.
• Non-Reference Genome Compatibility: Identifies and designs sgRNAs in non-reference genomes to accommodate genetic diversity across organisms and populations.
• Efficiency and Specificity Scoring: Computes efficiency and specificity scores for each sgRNA design to assess predicted performance and minimize off-target effects.
• Multi-SNP Targeting: Supports uploading multiple SNPs and designing single sgRNAs that target single or multiple nearby base changes simultaneously.
• Public Variant Data Integration: Accepts public variant datasets or user-provided variants for incorporation into sgRNA design.

Scientific Applications:

• Model organism research: Designs sgRNAs for Fly, Human, Mouse, Zebrafish, and Rat genomic variants.
• Functional genomics: Enables targeting of specific SNPs to study the effects of genetic variants on phenotype and gene function.
• Disease-variant editing: Supports design of guides for correction of disease-associated or pathogenic variants.
• Genome engineering workflows: Facilitates applications ranging from knock-out experiments to precise gene editing tasks aimed at correcting mutations.

Methodology:

Evaluates sgRNA designs using algorithms that compare variant and reference sequences and computes efficiency and specificity scores for each guide.