Fido-SNP

Fido-SNP assesses the functional impact of single nucleotide variants (SNVs) in the dog genome to predict pathogenic versus benign variants for veterinary and canine genetics research.

Key Features:

• Species-Specific Design: Tailored to canine genomic data to account for species-specific patterns in SNV impact prediction.
• Binary Classification System: Implements a Gradient Boosting binary classifier that distinguishes pathogenic from benign SNVs.
• Comprehensive Variant Analysis: Analyzes both coding and non-coding regions using sequence-derived features and provides rapid assessments.
• High Predictive Accuracy: Validated on annotated variants from the OMIA database with accuracy 88%, Matthews correlation coefficient 0.77, and AUC 0.91.

Scientific Applications:

• Canine genetics research: Predicting SNV pathogenicity to investigate genetic influences on health and disease in dogs.
• Veterinary medicine and breeding: Informing studies of genetic predisposition, disease-associated variants, and breeding-related genetic decisions.

Methodology:

Applies a Gradient Boosting binary classifier trained on sequence-derived features from coding and non-coding regions and validated against OMIA-annotated variants.