Hong Kong University of Science and Technology (Guangzhou)

Infrared spectroscopy foundation model pretrained on 60 million simulated spectra, then adapted to real FTIR measurements of molecules and mixtures.

Breast-specialized multimodal pathology foundation model for core needle biopsy diagnosis, with conformal risk control gating report release.

Protein function annotation model predicting Gene Ontology terms with direct preference optimization layered on a frozen ESM-C sequence encoder.

Multimodal 3D genome foundation model pairing Hi-C contact maps with epigenomic tracks, pretrained on over one million paired samples.

Generative foundation model that co-generates sequence and 3D coordinates for proteins, small molecules, and crystals under functional objectives.

Structure-based 3D molecule generation that denoises a ligand at atom level and motif level at once, conditioned on the target protein's pocket.

Long-context generative genomic foundation model with a 98k-nucleotide window, trained on 386 billion bases of eukaryotic DNA for sequence design.

Protein cleavage site prediction that generalizes to proteolytic enzymes unseen in training by encoding active-site chemistry alongside sequence.

DNA foundation model encoding the genome as probabilistic allele frequencies from the 1000 Genomes Project. 86M parameters, single-nucleotide tokens.

Protein-text foundation model aligning sequences with function descriptions through segment-wise objectives for static and dynamic functional sites.

Chromatin loop caller for Hi-C, Micro-C, DNA SPRITE, and single-cell contact maps, pairing axial attention with a U-Net to work at very low coverage.

Chemical language model for molecular property prediction, pretrained on PubChem SMILES by masking whole functional groups rather than random tokens.

Multimodal protein model pairing a sequence encoder with a Gene Ontology branch, trained in recursive cycles that clean their own noisy labels.