CoV-GLUE

CoV-GLUE analyzes SARS-CoV-2 genome sequences to catalog amino acid replacements and coding-region indels and to support interpretation of sequence variation.

Key Features:

• Browsable database: A curated repository of amino acid replacements and coding region indels identified in SARS-CoV-2 sequences.
• Sequence submission and reporting: Submitted SARS-CoV-2 genome sequences produce interactive reports summarizing detected variations.
• Phylogenetic classification and visualization: Reports include visualizations of phylogenetic classification derived from submitted sequences.
• High-impact variation identification: The system highlights genomic variations potentially linked to primer mismatches and other high-impact changes.
• GLUE data-centric environment: Functionality is implemented within the GLUE open-source framework for virus sequence data resources.

Scientific Applications:

• Virus evolution: Cataloging amino acid changes and indels to support analyses of SARS-CoV-2 evolutionary dynamics.
• Transmission dynamics: Phylogenetic classification to inform studies of viral transmission patterns.
• Diagnostic assay evaluation: Identification of mutations linked to primer mismatches to assess and maintain RT-PCR assay accuracy.
• Vaccine and therapeutic research: Tracking genomic variations relevant to vaccine and therapeutic target assessment.

Methodology:

Implemented on the GLUE open-source, data-centric framework for virus sequence data resources; generates interactive reports that include phylogenetic classification visualizations and highlights of genomic variations such as primer mismatches.