Taking the biology seriously makes models better

Key Points

• The aim is to enhance protein language models by integrating biological insights for predicting antibody behaviors.
• Developed a training paradigm rooted in biological principles.
• Applied the paradigm to protein language models to assess prediction capabilities.
• Evaluated affinity maturation trajectories for antibodies.
• The biologically-informed models significantly improved prediction accuracy for affinity maturation.
• Enhanced understanding of antibody development through successful trajectory modeling.