All Competitors

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

Showing 124 of 125 filtered models

  • LEAF-1

    McGill University +1 otherJuly 10, 2026cancer_detectioncell_type_annotationcfdna+5

    Genomics foundation model that represents individual DNA fragments in a learned semantic space for cell-free DNA cancer detection and cell typing.

    DNA & GeneSingle-cell
    4Openness
  • LYNX

    9
    Columbia UniversityJuly 9, 2026cell_cell_interaction_inferencegenerativegraph_neural_network+2

    Spatial multi-omics integration model aligning RNA, protein, metabolomics, and histology to map cell-state gradients and cell-cell interactions.

    Spatial omicsSingle-cell
    28Openness
  • HASSL

    2
    TUM.ai +3 othersJuly 5, 2026cell_biologycontrastive_learningfoundation_model+4

    Hierarchy-aware self-supervised model for single-cell microscopy that preserves morphological structure suppressed by imaging-modality confounders.

    ImagingSingle-cell
    37Openness
  • U-Pert

    Center for Machine Learning Research, Peking UniversityJuly 4, 2026generativeperturbation_prediction

    Single-cell perturbation-response model predicting transcriptomic and cell-number changes for unseen perturbations plus inverse design.

    Single-cell
    10Openness
  • PertOmni

    1
    Yale University +2 othersJune 26, 2026cell_biologycontrastive_learningdrug_gene_interaction+6

    Contrastive multimodal model for perturbation screens, aligning transcriptomic signatures with text and cell-painting image embeddings.

    Single-cellSmall molecule
    18Openness
  • Navigo

    12
    Chinese University of Hong Kong +1 otherJune 24, 2026cell_fate_engineeringflow_matchinggene_regulatory_network_inference+6

    Generative framework that learns a developmental vector field from scRNA-seq snapshots, coupling flow matching with molecular RNA kinetics.

    Single-cellRNA
    44Openness
  • CellOS

    Vitaura +2 othersJune 23, 2026batch_integrationcell_type_annotationfoundation_model+6

    Multi-view single-cell foundation model at 12B parameters, aligning expression and perception views with an LLM-JEPA joint-embedding objective.

    Single-cell
    8Openness
  • Helmholtz MunichJune 22, 2026cell_biologycontrastive_learningfluorescence_microscopy+6

    Self-supervised 3D masked autoencoder for volumetric fluorescence microscopy, aligned to ESM2 embeddings to predict protein localization.

    ImagingSingle-cell
    71Openness
  • Washington University in St. LouisJune 22, 2026cell_biologycell_type_annotationgene_expression+5

    Single-cell language model that prepends biomedical knowledge-graph tokens to cell sentences, grounding cell type annotation in pathway structure.

    Single-cellLanguage model
    23Openness
  • EventHorizon

    ARUP Laboratories +1 otherJune 22, 2026cell_type_annotationdiagnostic_classificationflow_cytometry+6

    Self-supervised foundation model for clinical flow cytometry, producing panel-agnostic specimen-level representations from multi-panel data.

    BiosignalsSingle-cell
    4Openness
  • vBx-1.0

    Verge LabsJune 16, 2026contrastive_learningfoundation_modelgene_expression+5

    Multimodal foundation model for precision neurology that reconstructs a patient's molecular brain state from blood to predict disease progression.

    Single-cellDNA & Gene
    5Openness
  • RepGene

    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
  • HoloCell

    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
  • 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
  • TxFM

    2
    Recursion PharmaceuticalsMay 31, 2026autoencoderfoundation_modelgene_expression+4

    Transcriptomics foundation model from Recursion that masks and reconstructs RNA-seq gene expression counts to learn reusable sample embeddings.

    Single-cell
    12Openness
  • 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
  • Chreode

    University of North Carolina at Chapel Hill +2 othersMay 27, 2026cell_fate_predictioncrispr_perturbationdevelopmental_trajectory_modeling+8

    Cell world model pretrained on a 2.4M-cell mouse embryonic atlas, predicting one-step transcriptional state transitions and perturbation response.

    Single-cell
    26Openness
  • FlowTransOP

    MIT +2 othersMay 27, 2026autoencodercross_domain_translationcross_species+7

    Flow-matching framework that translates omics signatures across biological domains, such as mouse to human transcriptomics, without paired samples.

    Single-cell
    87Openness
  • GEARS

    University of Central Florida +2 othersMay 27, 2026cell_localizationdiffusion_modeldomain_adaptation+8

    Generative model that reconstructs single-cell spatial coordinates from scRNA-seq guided by spatial transcriptomics, without cell-type labels.

    Single-cell
    22Openness
  • ConvergeCELL

    34
    Converge BioMay 7, 2026bulk_rna_seqcontrastive_learningdrug_discovery+5

    Virtual cell foundation model pretrained on over 23 million cells from 5,000 patient samples for drug target and biomarker discovery.

    Single-cell
    67Openness
  • DoFormer

    Columbia University +2 othersMay 4, 2026causal_inferencefoundation_modelgene_expression+3

    Causal multimodal transformer that embeds the do-operator in attention to predict single-cell gene expression under unseen genetic perturbations.

    Single-cell
    8Openness
  • scPert

    Zhejiang University School of MedicineApril 28, 2026drug_discoveryfoundation_modelgene_expression+4

    Multi-modal transformer fusing LLM gene embeddings with biological knowledge graphs to predict single-cell responses to genetic perturbations.

    Single-cell
    14Openness
  • HyperMap

    1
    University of California, San Diego +1 otherApril 27, 2026crisprdrug_discoveryfew_shot+7

    Meta-learning framework that transfers perturbation responses across cell lines, donors, and drugs from a few measured seed perturbations.

    Single-cell
    11Openness
  • CellPulse

    Wuhan Institute of VirologyApril 24, 2026drug_discoveryfoundation_modelgene_expression+5

    Direction-aware foundation model trained on bulk RNA-seq differential-expression profiles to simulate coordinated gene dynamics in viral infection.

    Single-cellLanguage model
    4Openness