Protein embeddings filter ESM-C, ESM-2, ProtTrans, Ankh, SaProt, AMPLIFYProtein variant effect / fitness filter ESM-1v, Tranception, EVE, PoET, ProteinNPT, ProtrieverProtein structure from sequence filter ESMFold, AlphaFold2, OpenFold, OmegaFoldProtein / binder design filter ProteinMPNN, LigandMPNN, RFdiffusion, RFdiffusion2, Chai-2De novo protein generation filter ESM3, ProGen2, Chroma, DPLM, EvoDiff, Genie 2Antibody modeling filter IgLM, AntiBERTy, AbLang, BALM, p-IgGen, IgFold, AntiFoldLong genomic DNA modeling filter HyenaDNA, Caduceus, Nucleotide Transformer, Evo 2Regulatory genomics / variant effect filter Enformer, Borzoi, AlphaGenome, Sei, Evo 2, GPN-MSARNA sequence / function filter RNA-FM, RiNALMo, ERNIE-RNA, Orthrus, UTR-LMRNA structure (3D) filter RhoFold+, trRosettaRNA, DRfold, RoseTTAFoldNASingle-cell embeddings filter Geneformer, scGPT, scFoundation, UCE, scPRINT, SCimilarityPerturbation / virtual cell filter scGPT, STATE, Tahoe-x1, scFoundationPathology / histology (WSI) filter UNI, Virchow, CONCH, H-optimus, Prov-GigaPath, TITANSpatial transcriptomics filter Nicheformer, scGPT-spatialCell imaging / morphology filter OpenPhenom, SubCell, Cell-DINOMolecular property / embeddings filter MoLFormer, Uni-Mol, ChemBERTa, MolCLR, Uni-Mol2Molecular generation filter GenMol, SAFE-GPT, MolGPT, MegaMolBART, MegalodonBiomolecular complexes filter AlphaFold 3, Chai-1, Boltz, Protenix, RoseTTAFold-AA, HelixFold3Protein-ligand docking filter DiffDock, DiffDock-L, Uni-Mol Docking V2, Umol, FlowDockUnified access layer filter Helical, CZI Virtual Cells, NVIDIA BioNeMo, AIDOBenchmarks to evaluate on filter ProteinGym, BEND, scEval, TDC, Open Problems