A systematic benchmark and architecture comparison shows that hierarchical pooling and pooled cross-attention usually beat concatenation for PLM-based protein-protein binding affinity prediction, although statistical significance is not established.
A novel method for protein-ligand binding affinity prediction and the related descriptors exploration.Journal of computational chemistry, 30(6):900–909, 2009
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Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction
A systematic benchmark and architecture comparison shows that hierarchical pooling and pooled cross-attention usually beat concatenation for PLM-based protein-protein binding affinity prediction, although statistical significance is not established.