All Competitors

Every biological foundation model, evaluated and ranked by the bio.rodeo team

Showing 124 of 97 filtered models

  • Vilya-1

    VilyaJuly 10, 2026de_novo_designfoundation_modelmacrocyclic_peptides+1

    All-atom foundation model for macrocyclic peptide structure prediction, permeability estimation, and de novo design across non-canonical chemistries.

    ProteinSmall molecule
    5Openness
  • DrugGen 2

    6834
    Isfahan University of Medical SciencesJuly 9, 2026de_novo_designdrug_discoverylanguage_model+4

    Generative language model that designs drug-like SMILES conditioned on disease ontology and a target protein sequence for de novo drug discovery.

    Small moleculeProtein
    51Openness
  • Pep2Mol

    University of FloridaJune 29, 2026de_novo_designdiffusiondrug_discovery+3

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

    Small moleculeProtein
    10Openness
  • Molexar

    717
    Peking UniversityJune 24, 2026de_novo_designdrug_designdrug_discovery+5

    Multimodal molecular generation model for drug design, conditioned on properties, pharmacophores, protein sequences, or protein binding pockets.

    Small moleculeProtein
    82Openness
  • Sesame

    Tessel BiosciencesJune 22, 2026de_novo_designdiffusiondrug_discovery+3

    Diffusion model that generates 3D small molecules conditioned on protein pockets and partial fragments encoded as continuous spatial density maps.

    Small moleculeProtein
    15Openness
  • JEDEL

    University of Southampton +1 otherJune 21, 2026de_novo_designdna_encoded_librariesdrug_discovery+6

    Zero-shot generative framework that turns 3D pharmacophores into synthesis-ready DNA-encoded libraries of purchasable building blocks.

    Small molecule
    23Openness
  • TCRDiff

    7
    Monash UniversityJune 14, 2026antibodyde_novo_designdiffusion+5

    Conditional denoising diffusion model that designs antigen-specific TCR CDR3β sequences conditioned on peptide-MHC targets and germline V-genes.

    Protein
    75Openness
  • MoE-Bind

    2
    University of North BengalJune 13, 2026autoregressivede_novo_designgenerative+6

    Protein binder generator producing receptor-conditioned binders from sequence alone, using a sparse Mixture-of-Experts transformer with no 3D input.

    Protein
    54Openness
  • RDiffusion

    Zhejiang University +6 othersJune 13, 2026de_novo_designdiffusionfoundation_model+5

    Diffusion-based generative RNA model for de novo sequence design, conditioned on function, RNA family, structure, or binding proteins.

    RNA
    5Openness
  • GermRL

    14
    Johns Hopkins UniversityJune 11, 2026antibodyantibody_designde_novo_design+6

    Reinforcement learning framework that fine-tunes the ProGen2-OAS antibody language model with GRPO to cut germline bias in generated sequences.

    Protein
    65Openness
  • Institute for Protein Design +1 otherJune 4, 2026de_novo_designdiffusiongenerative+3

    Diffusion-based backbone generation and sequence design method for programmable asymmetric transmembrane beta-barrel nanopores.

    Protein
    17Openness
  • PepForge

    4
    Technical University of BerlinJune 2, 2026antimicrobial_peptidesbertde_novo_design+7

    Generative model for chemically modified and macrocyclic peptides that builds molecules in HELM notation, supporting de novo design and infilling.

    ProteinSmall molecule
    94Openness
  • mRNAutilus

    1
    Atom Bioworks +3 othersMay 31, 2026de_novo_designdiffusionfoundation_model+5

    Masked discrete-diffusion model over millions of full-length mRNAs, steered by Monte Carlo tree search for joint codon optimization and UTR design.

    RNA
    7Openness
  • DanioDecima

    Biohub +1 otherMay 29, 2026cnnde_novo_designdna+7

    Zebrafish sequence-to-function model predicting cell-type-specific gene expression from DNA sequence across embryonic development.

    DNA & GeneSingle-cell
    22Openness
  • TD3B

    2
    Duke UniversityMay 15, 2026de_novo_designdiffusionfine_tuning+4

    Sequence-based discrete-diffusion framework that designs peptide binders with specified agonist or antagonist behavior against GPCR targets.

    Protein
    10Openness
  • ProtLiD

    6
    National University of SingaporeMay 15, 2026de_novo_designdiffusiongenerative+6

    370M-parameter ligand-conditioned discrete diffusion model that co-designs protein sequence and structure under explicit small-molecule constraints.

    Protein
    5Openness
  • MuseDrift

    University of Florida +1 otherMay 12, 2026de_novo_designdiffusiongenerative+3

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

    Protein
    12Openness
  • PTM-dCN

    Shanghai Jiao Tong UniversityMay 11, 2026de_novo_designdiffusiongenerative+3

    Latent diffusion model for PTM-aware protein sequence design, using ControlNet-style conditioning to steer generation toward chosen PTM sites.

    Protein
    10Openness
  • MochiDiff

    University of Washington +1 otherMay 7, 2026antibodyantibody_designde_novo_design+6

    Discrete diffusion model for conditional antibody sequence design with germline-absorbing noising that focuses learning on somatic variation.

    Protein
    8Openness
  • A-CODE

    University of Illinois Urbana-Champaign +1 otherMay 5, 2026binder_designde_novo_designdiffusion+4

    All-atom protein co-design model that generates sequence and structure together in one unified diffusion process, aimed at hard binder design.

    Protein
    8Openness
  • University of Naples Federico II +1 otherMay 5, 2026de_novo_designgenerativeprotein_design+2

    Three fixed ProtGPT2 fine-tunes specialized for metalloprotein generation, trained on ProteinMPNN-derived synthetic sequences.

    Protein
    38Openness
  • Proteo-R1

    6453.2K
    Stanford University +3 othersMay 1, 2026antibodyde_novo_designdiffusion+5

    Reasoning-guided foundation model for de novo antibody CDR design, pairing a multimodal LLM understanding expert with a Boltz-1 diffusion expert.

    Protein
    53Openness
  • CodeFP

    PharMolix Inc. +1 otherMay 1, 2026de_novo_designgenerativelanguage_model+2

    Co-generative protein language model decoding sequence and structure tokens together from GO functional annotations for de novo protein design.

    Protein
    17Openness
  • CoMole

    University of Notre DameMay 1, 2026de_novo_designdiffusiondrug_discovery+7

    Motif-aware graph diffusion model for controllable molecular generation that adapts to unseen properties by learning a lightweight task embedding.

    Small molecule
    23Openness