ViralVar

ViralVar enables analysis and visualization of SARS-CoV-2 genome sequences to monitor lineage spatiotemporal dynamics and perform structural and functional mutation analysis for genomic epidemiology.

Key Features:

• GISAID data integration: Analyzes SARS-CoV-2 genome datasets sourced from the GISAID database with capability to select and analyze genome subsets.
• Spatiotemporal lineage visualization: Visualizes spatiotemporal dynamics of SARS-CoV-2 lineages across geographic regions and time.
• Structural and functional mutation analysis: Performs structural and functional analyses of genomic mutations to assess potential impacts on viral properties such as transmissibility and immune escape.
• Large-scale surveillance: Demonstrates scalability for large-scale analyses, including application to over 1.7 million SARS-CoV-2 genomes.
• Demographic comparative analysis: Enables comparative analysis across demographic groups (pediatric, adult, elderly) to identify demographic-specific variant patterns and sublineages.

Scientific Applications:

• Age-stratified viral evolution: Exploring SARS-CoV-2 evolution across pediatric, adult, and elderly populations in the United States using over 1.7 million genomes, revealing consistent spatiotemporal dynamics and emergence of USA-specific sublineages.
• Genomic surveillance: Large-scale surveillance to monitor variant spread and inform public health strategies.
• Lineage tracking: Tracking geographic and temporal patterns of lineage emergence and spread to understand variant dynamics.

Methodology:

Processes SARS-CoV-2 genome data retrieved from the GISAID database to visualize lineage spatiotemporal dynamics and perform structural and functional mutation analyses.