All Competitors

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

Showing 4972 of 943 models

  • Tox21mer

    National Institute of Environmental Health SciencesJune 15, 2026embeddingsfoundation_modelrepresentation_learning+2

    Toxicity screening foundation model that encodes Tox21 concentration-response curves and assay metadata into reusable 768-dimensional embeddings.

    Small moleculeBiosignals
    23Openness
  • RepGene

    11
    BGI ResearchJune 15, 2026autoencodergenomicsmultimodal+5

    Gene representation framework fusing DNA, transcript, protein, text, and single-cell embeddings into one latent space that survives missing views.

    DNA & GeneProteinSingle-cell
    22Openness
  • Omnii

    Radical NumericsJune 15, 2026convolutionaldnafoundation_model+6

    Genomic language model from Radical Numerics with a 2 Mbp context window, built for zero-shot variant effect prediction and sequence design.

    DNA & Gene
    5Openness
  • 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
  • BetaInfer

    Technion – Israel Institute of Technology +2 othersJune 14, 2026generativegenomicsmolecular_evolution+4

    Generative transformer for phylogenetic inference that transduces sets of unaligned molecular sequences directly into Newick-format trees.

    DNA & GeneProtein
    8Openness
  • 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
  • RNARL

    146
    Shanghai Jiao Tong University +2 othersJune 13, 2026codoncodon_optimizationgenerative+6

    Reinforcement-learning generative framework for multi-objective RNA codon optimization that generalizes across six species and five RNA types.

    RNA
    4Openness
  • DNAGPT2

    CEITEC Masaryk UniversityJune 12, 2026dnadna_language_modelinggenomics+5

    Family of ten compact GPT-2 decoder-only DNA language models spanning BPE vocabularies from 16 to 8192 tokens, built for lossless genome compression.

    DNA & Gene
    52Openness
  • 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
  • Kuhlman Lab +1 otherJune 11, 2026generativegraph_neural_networkhydrogen_bond_network_design+3

    Message-passing neural network that designs buried hydrogen-bond networks onto protein backbones, combining learned placement with PyRosetta scoring.

    Protein
    60Openness
  • HoloCell

    203
    Beijing Zhongguancun AcademyJune 11, 2026cross_modal_generationdiffusionepigenomics+7

    860M-parameter generative single-cell foundation model that jointly represents and generates epigenomic, transcriptomic, and proteomic modalities.

    Single-cellDNA & Gene
    21Openness
  • TifBERT

    2
    York UniversityJune 11, 2026bertfoundation_modelgene_expression+5

    Bulk RNA-seq foundation model learning normalization-robust transcriptome representations via TF-IDF gene ordering and masked gene modeling.

    RNA
    17Openness
  • Promera

    81
    MIT +1 otherJune 10, 2026antibodybinder_designdiffusion+5

    Unified all-atom generative model for biomolecular structure prediction, binder filtering, and controllable protein and nanobody design.

    Protein
    61Openness
  • Rhaister

    23
    Tahoe TherapeuticsJune 9, 2026drug_response_predictionfew_shotperturbation_prediction+1

    Perturbation-response predictor built on screen-level summary statistics, inferring unmeasured drug and genetic responses in new cellular contexts.

    Single-cellSmall molecule
    91Openness
  • BacteReason

    University of TokyoJune 7, 2026antimicrobial_resistanceantimicrobial_resistance_predictionbacteria+5

    Reasoning LLM that predicts antimicrobial susceptibility of clinical bacterial isolates and supplies mechanistic explanations for each prediction.

    DNA & GeneLanguage model
    20Openness
  • CREP

    University of OxfordJune 7, 2026cis_regulatory_element_annotationdnaregulatory_genomics+4

    Fine-tuned Enformer derivative that annotates cis-regulatory elements from DNA sequence, emitting enhancer, promoter, and insulator class labels.

    DNA & Gene
    8Openness
  • University of California, Berkeley +1 otherJune 7, 2026chromatin_accessibility_predictiondna_methylationepigenetics+6

    Gene regulation model that conditions a pretrained DNA sequence embedding on CpG methylation to capture cell-type and allele-specific regulation.

    DNA & Gene
    18Openness
  • University of WashingtonJune 7, 2026contrastive_learningfoundation_modelimage_classification+8

    Multi-sequence spine MRI foundation model with DINOv3 encoders, supporting condition classification, pathology localization, and report generation.

    Imaging
    55Openness
  • VelocityFM

    University of Colombo School of Computing +1 otherJune 7, 2026conformational_samplingflow_matchinggenerative+4

    Generative protein-dynamics model that predicts short molecular dynamics trajectories with rectified flow matching over residue frames and torsions.

    Protein
    21Openness
  • CryoDiff

    Shandong UniversityJune 6, 2026cryo_emdiffusiongenerative+2

    Uncertainty-aware diffusion model that enhances cryo-EM density maps while estimating voxel-wise confidence via Monte Carlo sampling.

    Imaging
    20Openness
  • Cellpin

    Technical University of MunichJune 5, 2026denoisinggene_imputationsingle_cell+4

    Variational autoencoder trained on scRNA-seq and applied frozen to impute unmeasured genes and denoise spatial transcriptomics profiles.

    Spatial omicsSingle-cell
    22Openness
  • DaX

    2
    DAMO AcademyJune 5, 2026biomarker_predictioncancer_subtypingdino+5

    Pathology vision foundation model adapting DINOv3 self-supervised learning to whole-slide histopathology across many magnifications and scales.

    Pathology
    11Openness
  • tf-SFM

    2
    ETH ZurichJune 4, 2026binding_predictioncontrastive_learningcross_modal_retrieval+5

    Transcription factor-DNA binding specificity prediction from sequence, with a physics-derived dual-encoder trained by symmetric contrastive learning.

    DNA & Gene
    18Openness