PaIntDB

PaIntDB integrates omics datasets into a protein–protein interaction (PPI) and protein–metabolite network framework for systems-level analysis of Pseudomonas aeruginosa, hosting an interactome of over 150,000 PPIs and protein–metabolite interactions.

Key Features:

• Omics Integration: Maps RNA-Seq and Tn-Seq gene lists and other high-throughput omics data onto the PPI network for condition-specific analyses.
• Network Visualization: Visualizes protein–protein and protein–metabolite interactions to explore network topology and identify molecular pathways.
• Comprehensive Interactome: Hosts an interactome compiled from computational predictions and other resources, totaling over 150,000 interactions specific to Pseudomonas aeruginosa.
• Extensibility: Implementation supports adaptation of the interactome framework to other bacterial species.

Scientific Applications:

• Pathway discovery: Uncovers novel molecular pathways and interaction partners in Pseudomonas aeruginosa.
• Systems-level omics analysis: Integrates diverse omics datasets into a single network framework for systems biology studies.
• Disease and target research: Supports investigation of disease mechanisms, virulence factors, and identification of potential therapeutic targets.

Methodology:

Integration and visualization of omics data via a PPI network framework; mapping of RNA-Seq and Tn-Seq gene lists onto the PPI network; interactome assembled from computational predictions and other external resources; inclusion of protein–protein and protein–metabolite interactions.