PAGER-CoV

PAGER-CoV integrates curated coronavirus-related pathway and gene-signature data to support interpretation of functional genomic studies by linking host–virus interactions, inflammatory responses, organ damage, and tissue repair processes in COVID-19 research.

Key Features:

• Extensive Repository: Houses 11,835 Pathways, Annotated gene-lists, or Gene signatures (PAGs) aggregated from 33 public databases.
• Curated biological coverage: Integrates curated knowledge on host–virus interactions, inflammatory responses, organ damage, and tissue repair processes relevant to coronavirus infection.
• PAG network relationships: Encodes co-membership and regulatory relationships among PAGs, comprising over 19 million connections.
• Analytical support for GSEA and gene-list matching: Matches input gene lists to PAGs to identify enriched PAGs and supports gene set enrichment analysis (GSEA), with a reported case study showing superior sensitivity for immune-related gene signatures versus standard databases.

Scientific Applications:

• Gene set enrichment analysis (GSEA): Analyzing COVID-19-related datasets, including RNA-seq from the Gene Expression Omnibus (GEO), to identify enriched PAGs and immune-related signatures.
• Pathway and mechanism discovery: Pinpointing key biological pathways, regulatory networks, and candidate therapeutic strategies involved in coronavirus pathogenesis, inflammatory responses, and tissue repair.

Methodology:

Integrates curated PAGs from 33 public databases, matches input gene lists to identify enriched PAGs, and represents co-membership and regulatory relationships among PAGs (>19 million connections).