Dapeng Xiong

Integrating structural homology with deep learning to achieve highly accurate protein-protein interface prediction for the human interactome

The paper introduces PIONEER2, a method that improves protein-protein interface prediction by integrating structural homology and deep learning, outperforming AlphaFold3 in certain scenarios.

Comprehensive Atomic-Scale 3D Viral-Host Protein Interactomes Enable Dissection of Key Mechanisms and Evolutionary Processes Underlying Viral Pathogenesis

The paper predicts 3D structures of viral-host protein interactions and identifies evolutionary patterns and functional mechanisms underlying viral pathogenesis.

Structurally-informed human interactome reveals proteome-wide perturbations by disease mutations

The paper introduces PIONEER, a deep learning framework for predicting protein-protein interfaces, and shows disease mutations are enriched in these interfaces, identifying oncoPPIs linked to cancer survival and drug responses.