Alibaba Cloud

Hyperbolic protein language model for alignment-free phylogenetic inference, turning ESM2-650M embeddings into distance matrices for tree placement.

Cross-domain molecular foundation model encoding small molecules, protein pockets, and their complexes in 2D and 3D on one Transformer backbone.

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

Genomic foundation model for metagenomic annotation: a 500M-parameter bidirectional encoder calling coding regions at single-nucleotide resolution.

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

Protein inverse folding as a generative Markov bridge, refining a structure-derived sequence prior with a frozen protein language model.

Unified DNA, RNA, and protein foundation model with 1.8B parameters, pretrained across 169,861 species to learn the central dogma from sequence.