All Competitors

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

Showing 124 of 440 filtered models

  • MethylSeqNet

    University of California, Berkeley +1 otherJune 7, 2026chromatin_accessibility_predictiondna_methylationepigenetics+6

    Conditions a pretrained DNA sequence embedding on CpG methylation to predict gene regulation across cell types and alleles, generalizing zero-shot to imprinting, X-inactivation, and accessibility.

    DNA & Gene
    18Openness
  • DaX

    1
    DAMO AcademyJune 5, 2026biomarker_predictioncancer_subtypingdino+5

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

    Pathology
    11Openness
  • drug-SFM

    ETH ZurichJune 4, 2026contrastive_learningcross_modal_retrievaldrug_target_interaction+6

    Specificity Foundation Model that predicts small-molecule drug-target protein specificity from sequence using a physics-derived dual-encoder with symmetric contrastive learning.

    Small molecule
    16Openness
  • mir-SFM

    ETH ZurichJune 4, 2026contrastive_learningcross_modal_retrievaldual_encoder+6

    Specificity Foundation Model that predicts microRNA-mRNA target specificity from sequence using a physics-derived dual-encoder with symmetric contrastive learning.

    RNA
    25Openness
  • tf-SFM

    ETH ZurichJune 4, 2026binding_predictioncontrastive_learningcross_modal_retrieval+6

    Specificity Foundation Model that predicts transcription factor-DNA binding specificity from sequence using a physics-derived dual-encoder with symmetric contrastive learning.

    DNA & Gene
    18Openness
  • enzyme-SFM

    ETH ZurichJune 4, 2026binding_predictioncontrastive_learningcross_modal_retrieval+6

    Specificity Foundation Model that predicts enzyme-substrate specificity from sequence using a physics-derived dual-encoder with symmetric contrastive learning.

    Protein
    23Openness
  • FlashABB

    8
    Oxford Protein Informatics Group (OPIG)June 4, 2026antibodydevelopability_predictionfoundation_model+4

    Pretrained antibody structure predictor that outputs full paired heavy/light 3D structures faster than protein language models generate embeddings.

    Protein
    54Openness
  • crisprSFM

    ETH ZurichJune 4, 2026contrastive_learningcrisprcross_modal_retrieval+6

    Specificity Foundation Model that predicts CRISPR gRNA off-target DNA specificity from sequence using a physics-derived dual-encoder with symmetric contrastive learning.

    DNA & Gene
    19Openness
  • mhcSFM

    ETH ZurichJune 4, 2026binding_predictioncontrastive_learningcross_modal_retrieval+6

    Specificity Foundation Model that predicts peptide-MHC binding specificity from sequence using a physics-derived dual-encoder with symmetric contrastive learning.

    Protein
    23Openness
  • LDARNet

    1
    Independent ResearcherJune 3, 2026dnafoundation_modelgene_expression+6

    A 120M-parameter genomic foundation model that learns adaptive DNA token boundaries via H-Net-style dynamic chunking instead of fixed k-mer or byte-pair tokenization.

    DNA & Gene
    26Openness
  • SQUALL

    Peking UniversityJune 3, 2026biomarker_discoveryfoundation_modelgene_expression+6

    Multimodal foundation model pretrained on 1.76 billion paired histology-spatial transcriptomics spots, linking whole-slide images to spatial molecular programs.

    PathologySpatial omics
    6Openness
  • BrainGFM

    173
    Lehigh University +1 otherJune 2, 2026brain_connectomedisorder_classificationfmri+7

    A graph foundation model for fMRI brain networks, pretrained across 27 datasets with graph and language prompts for zero/few-shot generalization to unseen disorders.

    Biosignals
    16Openness
  • CryoProt

    Hunan University +1 otherJune 1, 2026active_site_identificationbinding_affinitycryo_em+7

    Protein pretraining framework that learns representations directly from cryo-EM density maps, transferring to flexibility, active-site, binding-affinity, and stability tasks.

    ImagingProtein
    11Openness
  • TARIO-2

    NoetikJune 1, 2026foundation_modelgene_expressionhistology+4

    Multimodal tumor foundation model trained on paired H&E histology and spatial transcriptomics to infer whole-transcriptome and tumor-microenvironment signal from routine H&E alone.

    PathologySpatial omics
    6Openness
  • TESSERA

    5
    Weill Cornell MedicineJune 1, 2026cancer_genomicscell_type_annotationcontrastive_learning+6

    Self-supervised foundation model that learns reusable representations of cancer genomes from somatic SNVs and copy-number alterations across 33 tumor types.

    DNA & Gene
    28Openness
  • Vermeer

    1
    Microsoft Research +2 othersJune 1, 2026autoregressivecell_biologyfluorescence_microscopy+7

    Channel-adaptive autoregressive generative model that synthesizes in-silico fluorescence microscopy of protein subcellular localization from amino-acid sequence and cellular landmark stains.

    ImagingProtein
    17Openness
  • mRNAutilus

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

    A masked discrete-diffusion model over millions of full-length mRNAs, guided by Monte Carlo Tree Search for joint codon optimization and de novo UTR design.

    RNA
    7Openness
  • TxFM

    2
    Recursion PharmaceuticalsMay 31, 2026autoencoderfoundation_modelgene_expression+4

    A self-supervised masked autoencoder for RNA-seq count data, pretrained on 1.4M public samples to learn transferable transcriptomic representations without per-dataset re-training.

    Single-cell
    12Openness
  • AMix-2

    Shanghai AI Laboratory +4 othersMay 30, 2026diffusionfold_classificationfoundation_model+6

    A protein-text foundation model embedding sequences and natural language in a shared token space, enabling protein understanding and de novo design from one checkpoint.

    ProteinLanguage model
    10Openness
  • Nanjing University +2 othersMay 30, 2026foundation_modelgene_expression_predictionhistology+7

    A tri-modal foundation model unifying histology images, spatial transcriptomics, and biological language for zero-shot spatial biology and pathology reasoning.

    PathologySpatial omics
    65Openness
  • PIGMENT

    Tsinghua UniversityMay 29, 2026diffusion_mrifoundation_modelgenerative+6

    A physics-informed generative foundation model for quantitative diffusion MRI that maps brain microstructure (tensor, kurtosis, NODDI) and adapts zero-shot to each participant's data.

    Imaging
    11Openness
  • GlucoFM

    Google Research +1 otherMay 29, 2026continuous_glucose_monitoringfoundation_modelglucose_forecasting+4

    A dual-stream self-supervised foundation model for continuous glucose monitoring data, separating slow physiological state from transient glucose events.

    Biosignals
    11Openness
  • DanioDecima

    Chan Zuckerberg BiohubMay 29, 2026cnnde_novo_designdna+7

    A zebrafish DNA sequence-to-function model predicting cell-type-specific single-cell expression across 85 cell-type x developmental-timepoint combinations during embryogenesis.

    DNA & GeneSingle-cell
    22Openness
  • GenBloom

    3
    Helmholtz Munich +1 otherMay 28, 2026cell_type_annotationcontrastive_learningcytology+6

    Genetically aligned foundation model for blood smear cytology that links single white-blood-cell morphology to chromosomal aberrations and mutations for AML/APL diagnosis.

    Pathology
    65Openness
...