konnect2prot

konnect2prot maps context-specific directional protein–protein interaction (PPI) networks and identifies biologically and topologically important proteins to analyze spreaders, hubs, bottlenecks, and disease-related molecular mechanisms.

Key Features:

• Context-Specific Directional PPI Network Generation: Generates directional, context-specific PPI networks from provided protein inputs.
• Biological and Topological Importance Detection: Assesses both biological roles and topological significance of proteins within the network.
• Comprehensive Protein Information: Provides local and global annotations including protein class, disease-related mutations, ligands, PDB structures, and enriched biological processes and pathways.
• Multi-Disease Interactome Analysis: Maps and analyzes proteins across multiple diseases within a multi-disease interactome framework.
• Identification of Network Hubs and Bottlenecks: Identifies critical network hubs and bottlenecks using topological analysis.
• Spreaders Identification and Disease Mapping: Detects influential spreader proteins and maps them to disease hallmarks to assess potential impact on disease states.

Scientific Applications:

• Molecular mechanism investigation: Investigates molecular mechanisms underlying disease development by analyzing protein interactions in context-specific PPI networks.
• Therapeutic target identification: Supports identification of therapeutic target candidates by highlighting spreaders, hubs, and disease-associated proteins.
• Disease progression and phenotype association: Maps protein interactions to phenotypic outcomes and disease hallmarks to study disease progression.

Methodology:

Pooled ontological knowledge was parsed into a functional directional PPI network framework and subjected to topological analyses to detect hubs, bottlenecks, and spreaders.