Zhejiang University of Technology

Protein model accuracy estimation returning a complex fold score and an interface score from a single structure, with no candidate pool required.

Sequence-based binding site predictor spanning protein-DNA, protein-RNA, protein-protein, and antibody-antigen interfaces via a fine-tuned ProtT5.

Protein multi-conformation predictor that scores per-residue flexibility, then masks MSA columns to steer AlphaFold 2 toward alternative states.

Antibody-antigen binding prediction from heavy chain, light chain, and antigen sequence, scoring 0.946 AUROC on a SARS-CoV-2 benchmark.

Protein model accuracy estimation for single chains and complexes, predicting per-residue lDDT, interface QS-score, and overall fold TM-score.

Cyclic peptide binder design by Monte Carlo tree search over sequence space, scored by predicted confidence of the peptide-target complex fold.

Cyclic peptide structure prediction for sequences carrying unnatural amino acids, adding atom-level features and cyclization-aware position encoding.

De novo cyclic peptide binder design against a protein target, chaining a cyclized diffusion sampler, sequence design and structure prediction.

Estimation of model accuracy for protein complexes, predicting per-residue lDDT from Voronoi contact areas and contact-surface orientation features.

Inter-residue distance prediction that returns multi-peak distributions, so flexible regions yield several plausible distances instead of one.

Nanopore basecaller for fully 5-hydroxymethylcytosine-substituted DNA, reading raw ion current from strands that standard basecallers cannot resolve.

Protein complex structure assembly guided by predicted inter-chain domain-domain distances, averaging TM-score 0.769 across 46 CASP13-15 targets.

Discrete diffusion model that generates RNA secondary structure contact maps as pixel-wise segmentation, conditioned on RNA-FM and UFold features.

Interface residue accuracy estimation for protein complexes, predicting per-residue lDDT from whole-complex, per-monomer and cross-chain features.

Protein model quality assessment predicting per-residue lDDT for monomer and multimer interface models from graph-coupled ESM embeddings.

Multi-domain protein and complex assembly from deep-learned inter-domain interactions, averaging TM-score 0.922 across 219 multi-domain targets.

Remote-homolog template recognition that threads a sequence against clustered PDB and AlphaFold DB structures to improve AlphaFold2 modelling.

Protein structure accuracy estimation predicting a global TM-score from an equivariant graph network over residue geometry and Rosetta energy terms.

Protein model accuracy estimation from MSA co-evolution and homologous templates, predicting per-residue lDDT with a triangular-attention backbone.

Protein model quality assessment predicting per-residue lDDT from a single structure, using ultrafast shape recognition to encode residue topology.