Marko Ludaic

Validation and analysis of 12,000 AI-driven CAR-T designs in the Bits to Binders competition

Abstract Artificial intelligence (AI) methods for proteins have advanced rapidly, improving structure prediction and design, particularly for de novo binders. However, most evaluations emphasize binding affinity rather than higher-order biological function. We present Bits to Bin...

ABAG-Rank: Improving Model Selection of AlphaFold Antibody–Antigen Complexes by Learning to Rank

MOTIVATION: AlphaFold has transformed structural biology with an unprecedented accuracy in modelling protein structures and their interactions with biomolecules, with AlphaFold3 (AF3) achieving state-of-the-art performance. However, AF3 and other methods often struggle to accurat...