University of Florida

Biomolecular sequence-structure co-design that plans over frozen folding and inverse-folding models with Monte Carlo tree search, training nothing.

Diffusion model for 3D small-molecule design against protein-protein interaction sites, guided by the natural binding peptide or protein partner.

Multimodal framework that detects and localizes DNA lesions from native nanopore signal, built on the damage-aware LesionBERT foundation model.

Conditional discrete diffusion model for protein variant generation, with a calibrated identity dial controlling drift from a wild-type sequence.

Bacterial proteome foundation model that learns contextualized gene and whole-genome representations from tens of thousands of complete genomes.

Pan-viral genomic language model producing fixed genome-level embeddings of viral DNA and RNA, reused across classification tasks without retraining.

Diffusion model for structure-based drug design that jointly generates 3D ligands and holo pocket conformations from an apo protein structure.

Geometric deep learning scoring function for protein-ligand binding affinity, pretrained on synthetic complexes and fine-tuned on PDBbind structures.

Structure-free RNA-small molecule binder discovery model that predicts ligands and their binding sites from RNA sequence using an RNA language model.

Conditional diffusion model for 7T brain MRI denoising that turns a single 5-minute gradient-echo scan into a four-repetition-quality image.

Histopathology image synthesis from a latent diffusion model conditioned jointly on unpaired diagnostic text reports and cell-type masks.

Machine-learned interatomic potential supplying quantum-quality geometric restraints for refining cryo-EM and X-ray protein structures in Phenix.

Cell Painting image encoder that turns whole-slide multi-channel microscopy into morphological profiles in one pass, with no cell segmentation step.

3D vision-transformer foundation model for multimodal neuroimage segmentation, pretrained self-supervised on brain MRI from 41,400 participants.