Variant Impact Predictor database (VIPdb)

VIPdb summarizes Variant Impact Predictors (VIPs) and their characteristics to facilitate exploration for variant interpretation applications.

Key Features:

• VIP Collection: VIPdb version 2 contains 407 VIPs, including 217 VIPs from the 2019 release and 190 additional VIPs.
• Variant Type Coverage: The majority of VIPs predict impacts of single nucleotide variants and nonsynonymous variants, with increasing numbers for insertions and deletions since the 2010s, and relatively few for splicing, structural, synonymous, and regulatory variants.
• Performance Metrics: VIPdb includes ClinGen calibrated scores and CAGI assessment results for VIPs.
• Publication Metadata: VIPdb summarizes publication details, access information, and citation patterns for each VIP.

Scientific Applications:

• Variant Interpretation: VIPdb facilitates exploration of VIP options for identifying disease-causing genetic variants amongst millions detected in patient genomes.
• Method Selection: Researchers can compare VIP characteristics and performance to select appropriate predictors for specific variant types and research questions.
• Field Trend Analysis: Citation patterns in VIPdb reveal evolving trends in method development and usage in the variant prediction field.

Methodology:

VIPdb identifies and categorizes VIPs, then summarizes their characteristics, ClinGen calibrated scores, CAGI assessment results, publication details, access information, and citation patterns.