All Competitors

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

Showing 7396 of 106 filtered models

  • EvoSynth

    8
    University of Alabama at BirminghamNovember 4, 2025autoencoderde_novo_designdiffusion+6

    Multi-target drug discovery framework pairing a diffusion-transformer generator with evolutionary latent-space search and synthesis-aware scoring.

    Small molecule
    51Openness
  • scLDM

    587
    Chan Zuckerberg InitiativeNovember 4, 2025autoencodercell_biologydata_augmentation+8

    Latent diffusion model for generating single-cell gene expression profiles, pairing a permutation-invariant autoencoder with a diffusion transformer.

    Single-cell
    75Openness
  • scLDM.CD4

    9198
    Chan Zuckerberg InitiativeNovember 4, 2025autoencodercell_biologydiffusion+7

    Single-cell latent diffusion model fine-tuned on 14.5 million CD4+ T cells to simulate transcriptomic effects of single-gene perturbations.

    Single-cell
    75Openness
  • MolChord

    2
    Beijing Zhongguancun Academy +1 otherOctober 31, 2025de_novo_designdiffusiondrug_discovery+4

    Structure-based drug design model that generates ligands for a protein pocket, pairing a diffusion structure encoder with preference optimization.

    Small moleculeProtein
    23Openness
  • Northwestern Polytechnical University +3 othersOctober 29, 2025diffusionenzyme_designenzymes+5

    Enzyme backbone design model that adds substrate and catalytic-site control to a pretrained SE(3) flow-matching generator via a lightweight adapter.

    Protein
    86Openness
  • Pearl

    6
    Genesis Molecular AIOctober 28, 2025diffusiondrug_discoveryequivariant_neural_network+3

    Protein-ligand cofolding model that predicts 3D complex structures with SO(3)-equivariant diffusion, trained on physics-based synthetic data.

    Protein
    18Openness
  • OpenFold3

    7961
    Aqlaboratory +2 othersOctober 28, 2025diffusiondrug_discoveryfoundation_model+2

    Open-source Apache-2.0 reproduction of AlphaFold3 that predicts all-atom structures of proteins, RNA, DNA, small molecules, and their complexes.

    ProteinRNASmall molecule
    92Openness
  • PepTron

    1311
    Peptone Ltd.October 18, 2025conformational_ensemble_generationdiffusionflow_matching+4

    Flow-matching model that predicts protein conformational ensembles across the order-disorder continuum, from folded domains to disordered chains.

    Protein
    91Openness
  • Odyssey

    1
    AnthrogenOctober 15, 2025de_novo_designdiffusionfoundation_model+2

    Proprietary family of multimodal protein language models (up to 102B parameters) for sequence and structure generation, editing, and design.

    Protein
    13Openness
  • RADiAnce

    Tsinghua University +1 otherOctober 12, 2025antibodybinder_designcontrastive_learning+6

    Retrieval-augmented latent diffusion model for protein binder design, retrieving interfaces in a shared latent space across peptides and antibodies.

    Protein
    26Openness
  • ProteinAE

    212
    Chinese University of Hong Kong +2 othersOctober 12, 2025autoencoderde_novo_designdiffusion+5

    Protein structure autoencoder compressing backbone coordinates into a latent space, paired with a latent diffusion model for generative design.

    Protein
    74Openness
  • FlexRibbon

    2
    Beijing Zhongguancun AcademyOctober 10, 2025diffusionfoundation_modelmultimodal+5

    Protein foundation model with 3B parameters, pretrained jointly on sequence and 3D structure via masked language modeling and diffusion denoising.

    Protein
    20Openness
  • DiffTopo

    EPFLOctober 10, 2025de_novo_designdiffusiongenerative+3

    Diffusion model over coarse-grained protein topology that samples diverse folds, handing them to RFdiffusion to build de novo protein backbones.

    Protein
    20Openness
  • University of Notre Dame +2 othersOctober 9, 2025diffusiondrug_discoveryfew_shot+5

    Graph diffusion transformer for in-context molecular design, adapting to new tasks from a few molecule-property demonstrations without fine-tuning.

    Small molecule
    74Openness
  • University of Texas at Austin +1 otherOctober 3, 2025de_novo_designdiffusionflow_matching+3

    Distilled few-step protein backbone generator that adapts Score Identity Distillation to Proteina for over 20x faster de novo structure sampling.

    Protein
    76Openness
  • Institute of Science and Technology Austria +1 otherOctober 1, 2025cell_paintingdiffusiongenerative+4

    Diffusion model for multichannel fluorescent cell microscopy, generating morphologically plausible images aligned to OpenPhenom phenotypic embeddings.

    ImagingSingle-cell
    22Openness
  • TDFold

    Beijing Normal UniversityJuly 5, 2025diffusiongenerativegraph_neural_network+2

    Single-sequence protein structure predictor that adapts image diffusion to generate 2D inter-residue templates, folding proteins without an MSA.

    Protein
    10Openness
  • Boltz-2

    4.1K495
    MIT CSAIL +1 otherJune 1, 2025binding_affinitydiffusiondrug_discovery+2

    Open model that jointly predicts biomolecular structure and small-molecule binding affinity, approaching FEP+ accuracy in seconds on a single GPU.

    Protein
    71Openness
  • University of Zurich +1 otherMarch 3, 2025conditional_generationdiffusiongenerative+3

    Patch-based 3D diffusion model that generates teravoxel-scale virtual mouse brain volumes conditioned on spatially resolved gene expression.

    Spatial omicsImaging
    78Openness
  • Tsinghua UniversityFebruary 27, 2025cross_attentiondata_generationdiffusion+4

    Latent diffusion model for single-cell multi-omics generation and modality translation, with gradient-based inference of gene regulatory networks.

    Single-cell
    85Openness
  • MINIM

    158138
    Peking University +2 othersFebruary 1, 2025data_augmentationdiffusionfoundation_model+9

    Text-to-image diffusion model that generates synthetic medical images across imaging modalities and organs to augment scarce clinical training data.

    Imaging
    41Openness
  • Protenix

    2K161
    ByteDance AI LabJanuary 11, 2025biomoleculardiffusionstructure_prediction

    Open-source PyTorch reproduction of AlphaFold 3 under Apache 2.0, matching or exceeding AF3 on protein-ligand, protein-protein, and RNA benchmarks.

    Protein
    76Openness
  • Brainfound

    4
    Tsinghua University +2 othersJanuary 10, 2025contrastive_learningcross_modality_translationdiffusion+9

    Multimodal vision-text foundation model for brain CT and MRI, pretrained on roughly 10 million image-report pairs to act as a clinical copilot.

    ImagingLanguage model
    7Openness
  • PLAID

    12714
    UC Berkeley +1 otherDecember 2, 2024de_novo_designdiffusiongenerative+4

    Latent diffusion model for controllable all-atom protein generation that co-designs sequence and structure while training on sequences alone.

    Protein
    77Openness