VirusLab

VirusLab analyzes SARS-CoV-2 viral sequences and correlates them with host-related metadata and clinical information to support viral surveillance and research.

Key Features:

• Integration with ViruSurf and VirusViz: Integrates the ViruSurf database for metadata-driven searches and the VirusViz visualization component for analysis of search results.
• Sequence–metadata correlation: Associates SARS-CoV-2 sequences with host-related metadata and clinical information for combined analyses.
• Preprocessing of raw sequencing data: Predigests raw sequencing data from Oxford Nanopore and Illumina platforms for downstream analysis.
• Pipeline support: Incorporates established pipelines including ARTIC and Galaxy for customizable processing workflows.
• Access to public archive datasets: Retrieves and integrates data from public archive datasets to expand available sequence collections.
• Report generation: Produces tabular, graphical, and machine-readable reports suitable for integration into analytical pipelines.

Scientific Applications:

• Viral surveillance: Enables monitoring of SARS-CoV-2 sequence variation across populations and time.
• Mutation analysis: Supports investigation of mutational processes and variant characterization in SARS-CoV-2 genomes.
• Clinical correlation: Facilitates association studies between viral genotypes and clinical or host metadata.
• Data integration for research: Combines public archive sequences with local data to support comparative and translational studies.

Methodology:

Integration of ViruSurf and VirusViz; use of ARTIC and Galaxy pipelines; predigestion/preprocessing of Oxford Nanopore and Illumina raw sequencing data; metadata-driven searches against ViruSurf; retrieval from public archive datasets; generation of tabular, graphical, and machine-readable reports.