Engineering multispecific antibodies with complete killing selectivity through the closed-loop integration of machine learning and high-throughput experimentation.
Justin Grace, Pierre-Yves Colin, Dan Foxler, Winston Haynes, Catherine Howsham, Leo Kassimatis, Lida Mavrogonatou, Rebecca Mighell, James McClory, Michael Mullin, Tom Ogola, Alex Townsend, Sujata Ravi, Leo Wossnig, Gino van Heeke
Abstract
Open AccessOn-target, off-tumor toxicities remain a major barrier for T-cell engagers in solid tumors. We present EVATM, a closed-loop design platform integrating high-throughput functional assays with multi-objective Bayesian optimization to explore combinatorial T-cell engager (TCE) spaces. In a HER2×CD3 case study, iterative design-build-test-learn cycles traversed 44,160 designs defined by valency, topology, affinity and spacing. Compared with a Sobol baseline, EVA achieved 14-fold enrichment of potent, tumor-selective candidates. Multiple architectures reached sub-10 pM potency on HER2-high cells, near-complete efficacy, and ≥10,000-fold selectivity over HER2-low models, consistent with avidity gating. EVA™ recovered diverse high-performing topologies and generalized to a second target, supporting density-gated avidity as a design principle and providing an operational template for rapid, data-efficient optimization.