10 papers
mRNAutilus: Multi-Objective-Guided Discrete Generation of mRNA with Optimized Therapeutic Properties
Sawan Patel, Sophia Tang, Yesol Kim +8
Therapeutic mRNA design requires coordinating multiple interacting sequence features across the full transcript, where codon usage, untranslated regions (UTRs), and their coupling…
CKT-WAM: Parameter-Efficient Context Knowledge Transfer Between World Action Models
Yuhua Jiang, Yijun Guo, Hongbing Yang +7
World action models (WAMs) provide a powerful generative framework for embodied control, yet transferring knowledge across heterogeneous WAMs remains challenging due to mismatched…
Branched Schrödinger Bridge Matching
Sophia Tang, Yinuo Zhang, Alexander Tong +1
Predicting the intermediate trajectories between an initial and target distribution is a central problem in generative modeling. Existing approaches, such as flow matching and Schr…
Entangled Schrödinger Bridge Matching
Sophia Tang, Yinuo Zhang, Pranam Chatterjee
Simulating trajectories of multi-particle systems on complex energy landscapes is a central task in molecular dynamics (MD) and drug discovery, but remains challenging at scale due…
AReUReDi: Annealed Rectified Updates for Refining Discrete Flows with Multi-Objective Guidance
Tong Chen, Yinuo Zhang, Pranam Chatterjee
Designing sequences that satisfy multiple, often conflicting, objectives is a central challenge in therapeutic and biomolecular engineering. Existing generative frameworks largely…
Token-Level Guided Discrete Diffusion for Membrane Protein Design
Shrey Goel, Peregrine M. Schray, Yinuo Zhang +3
Reparameterized diffusion models (RDMs) have recently matched autoregressive methods in protein generation, motivating their use for challenging tasks such as designing membrane pr…