DIGGER

DIGGER maps interacting residues to exons by integrating protein–protein interactions, domain–domain interactions, and residue-level interactions into a unified graph to assess how alternative splicing alters protein interaction networks.

Key Features:

• Integration of interactions: Integrates protein–protein interactions (PPIs), domain–domain interactions, and residue-level interactions into a unified graph for exon-level analysis.
• Mapping residues to exons: Maps interacting residues directly to exons to link molecular interaction interfaces with exon structure.
• Exon and isoform querying: Allows querying of individual exons or isoforms, and sets of them, to inspect their specific interaction profiles.
• Isoform-centric and exon-centric views: Provides both isoform-centric and exon-centric perspectives of the interactome to examine alternative splicing consequences.
• Sub-network extraction: Extracts sub-networks of relevant isoforms to focus analyses on targeted interaction modules.
• Network-level exon expression mapping: Places exon expression information in the context of the broader interactome to support systems-level interpretation.

Scientific Applications:

• Alternative splicing impact analysis: Study how alternative splicing events rewire protein–protein and domain-mediated interactions.
• Functional annotation of exons and isoforms: Elucidate functional roles of individual exons and isoforms within complex biological systems.
• Disease and pathway investigation: Investigate how exon-level changes in interactions contribute to cellular mechanisms and disease pathways.

Methodology:

Integrates protein–protein, domain–domain, and residue-level interaction data into a unified graph and maps interacting residues to exons.