All Competitors

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

Showing 124 of 42 filtered models

  • LYNX

    9192
    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
  • HiFi-ST

    Nanjing Drum Tower HospitalJuly 2, 2026gene_expression_predictionhistologyneural_field+1

    Spatial transcriptomics prediction from histology using conditional neural fields to reconstruct continuous gene expression fields.

    PathologySpatial omics
    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
  • SQUALL

    207
    Peking UniversityJune 3, 2026biomarker_discoveryfoundation_modelgene_expression+6

    Multimodal foundation model pretrained on 1.76B histology and spatial transcriptomics spots, inferring molecular state from whole-slide images.

    PathologySpatial omics
    6Openness
  • TARIO-2

    NoetikJune 1, 2026foundation_modelgene_expressionhistology+4

    Tumor foundation model that infers whole-transcriptome and microenvironment signal from H&E slides, pretrained on paired spatial transcriptomics.

    PathologySpatial omics
    6Openness
  • Nanjing University +2 othersMay 30, 2026foundation_modelgene_expression_predictionhistology+5

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

    PathologySpatial omics
    65Openness
  • STMDiT

    3
    ETH Zurich +1 otherMay 29, 2026diffusion_transformergenerativehistology+4

    Diffusion transformer for virtual tissue synthesis, generating H&E histopathology patches conditioned on spatial gene expression and morphology.

    PathologySpatial omics
    44Openness
  • TMEformer

    Sichuan UniversityMay 20, 2026cancerfoundation_modelin_silico_perturbation+6

    Spatial transcriptomics foundation model for the tumor microenvironment, giving TME-aware embeddings and in silico perturbation from one checkpoint.

    Spatial omics
    10Openness
  • SpaRank

    Guangxi UniversityMay 13, 2026foundation_modelmultimodalspatial_transcriptomics+2

    Spatial transcriptomics deconvolution foundation model whose rank-based spot encoding transfers across tissues and platforms without retraining.

    Spatial omics
    8Openness
  • BRIDGE

    The University of Hong KongMay 8, 2026contrastive_learningfoundation_modelgene_expression_prediction+8

    Multi-organ foundation model aligning histology images with spatial-transcriptomics profiles for zero-shot expression and survival prediction.

    PathologySpatial omics
    31Openness
  • Phoenix

    20
    Helmholtz Munich +1 otherApril 29, 2026cell_type_annotationflow_matchingfoundation_model+6

    Virtual spatial transcriptomics foundation model predicting pan-cancer, spatially-resolved single-cell gene expression from H&E histology slides.

    PathologySpatial omics
    8Openness
  • H2O

    Tencent AI for Life Science Lab +2 othersApril 24, 2026contrastive_learningfoundation_modelgene_expression+6

    Pathology foundation model that infers spatial transcriptomics and proteomics directly from routine H&E whole-slide images, with no spatial assay.

    PathologySpatial omics
    7Openness
  • Halo

    Duke University School of MedicineApril 6, 2026cell_segmentationcellpose_sammultimodal+5

    Whole-cell segmentation model for spatial transcriptomics that fuses DAPI nuclear images with RNA transcript density to recover true cell boundaries.

    Spatial omics
    63Openness
  • MuPD

    280
    Stanford UniversityApril 4, 2026data_augmentationdiffusion_transformerfoundation_model+7

    Diffusion-transformer pathology model embedding H&E histology, RNA profiles, and clinical text in a latent space for zero-shot cross-modal synthesis.

    PathologySpatial omics
    15Openness
  • STORM

    2
    Stanford UniversityApril 4, 2026clinical_outcome_predictionfoundation_modelgene_expression_prediction+6

    Spatial transcriptomics foundation model pairing gene expression with H&E histology for spatial domain discovery and clinical outcome prediction.

    Spatial omicsPathology
    17Openness
  • MIT +1 otherMarch 16, 2026foundation_modelhistopathologymultimodal+3

    Multimodal foundation model integrating spatial transcriptomics, H&E histopathology, and pathway scores for single-cell niche discovery.

    Spatial omicsSingle-cellPathology
    71Openness
  • MIT +1 otherMarch 11, 2026cell_type_annotationfoundation_modelgene_expression_prediction+7

    Cell-centric microscopy foundation model that distills morphology and microenvironment views into a unified embedding for virtual spatial omics.

    Spatial omicsImagingPathology
    15Openness
  • SEAL

    48121
    Mahmood Lab +2 othersFebruary 15, 2026cancer_subtypingfoundation_modelgene_expression_prediction+5

    Vision-omics finetuning that aligns pathology foundation models with spatial transcriptomics so morphology features predict local gene expression.

    PathologySpatial omics
    32Openness
  • STPAINTER

    61
    University of Science and Technology of China +2 othersFebruary 13, 2026cancerdiffusionfoundation_model+4

    Pan-cancer pretrained diffusion model imputing genome-wide expression from sparse spatial transcriptomics panels, zero-shot and reference-free.

    Spatial omicsSingle-cell
    4Openness
  • MoLF

    National Center for Tumor Diseases DresdenFebruary 2, 2026flow_matchinggene_expressiongenerative+5

    Pan-cancer model predicting spatial gene expression from H&E histology using conditional flow matching with a mixture-of-experts velocity field.

    PathologySpatial omics
    9Openness
  • COSMIC

    EPFLJanuary 24, 2026autoencodercell_biologycell_type_annotation+7

    Bidirectional generative framework linking nuclear morphology and gene expression, built on a morphology model trained on 21 million segmented nuclei.

    ImagingSingle-cellSpatial omics
    4Openness
  • SAGE-FM

    Stanford UniversityJanuary 21, 2026cell_type_annotationfoundation_modelgene_expression+4

    Spatial transcriptomics foundation model built on a lightweight graph convolutional network and trained by masked central-spot prediction.

    Spatial omicsSingle-cell
    10Openness
  • Seoul National University HospitalJanuary 12, 2026cancercell_type_annotationdata_generation+6

    Single-cell RNA-seq language model that treats cells as gene-expression tokens, synthesizing whole transcriptomes from tissue and disease metadata.

    Single-cellSpatial omics
    2Openness
  • OmniCell

    BGI ResearchDecember 29, 2025cell_type_annotationfoundation_modelgene_expression+6

    Transcriptomic foundation model pretrained on 67M single-cell and spatial profiles, modeling gene expression and inter-cellular dependencies.

    Single-cellSpatial omics
    9Openness