All Competitors
Every biological foundation model, evaluated and ranked by the bio.rodeo team
Showing 1–24 of 27 filtered models
Cellpin
———A VAE trained on scRNA-seq reference data and applied frozen at inference to impute unmeasured genes and denoise spatial transcriptomics profiles.
Spatial omicsSingle-cell22OpennessSQUALL
———Multimodal foundation model pretrained on 1.76 billion paired histology-spatial transcriptomics spots, linking whole-slide images to spatial molecular programs.
PathologySpatial omics6OpennessSciCore-Omics
8—238A tri-modal foundation model unifying histology images, spatial transcriptomics, and biological language for zero-shot spatial biology and pathology reasoning.
PathologySpatial omics65OpennessSTMDiT
———A diffusion transformer that synthesizes H&E histopathology image patches conditioned jointly on spatial transcriptomics gene expression and morphological embeddings.
PathologySpatial omics44OpennessGEARS
———University of Central Florida +2 othersMay 27, 2026cell_localizationdiffusion_modeldomain_adaptation+8Geometry-first generative framework that reconstructs single-cell spatial coordinates by integrating scRNA-seq with spatial transcriptomics, without cell-type labels.
Single-cell22OpennessTMEformer
———A spatial-transcriptomics foundation model for the tumor microenvironment that produces TME-aware embeddings and enables in silico perturbation from a fixed pretrained checkpoint.
Spatial omics10OpennessSpaRank
———A transferable spatial-transcriptomics deconvolution model whose rank-based spot encoding lets one pretrained model generalize across tissues, disease states, and platforms without retraining.
Spatial omics8OpennessBRIDGE
———The University of Hong KongMay 8, 2026contrastive_learningfoundation_modelgene_expression_prediction+8A multi-organ foundation model aligning histology image features with spatial-transcriptomics gene expression across 13 organs for zero-shot virtual ST and survival prediction.
PathologySpatial omics31OpennessPhoenix
———Latent flow-matching foundation model that predicts pan-cancer spatially-resolved single-cell gene expression directly from routine H&E histology slides.
PathologySpatial omics8OpennessH2O
———Tencent AI for Life Science Lab +2 othersApril 24, 2026contrastive_learningfoundation_modelgene_expression+6A foundation model that predicts spatial transcriptomics and proteomics directly from routine H&E whole-slide images using a vision transformer aligned with a language model.
PathologySpatial omics7OpennessxVERSE
———A transcriptomics-native single-cell foundation model that couples batch-invariant representation learning with probabilistic virtual-cell generation.
Single-cell10OpennessHalo
———A pretrained whole-cell segmentation model for spatial transcriptomics that fuses DAPI nuclear images with RNA transcript density to recover cell boundaries.
Spatial omics63OpennessMuPD
———A generative diffusion-transformer foundation model that embeds H&E histology, RNA profiles, and clinical text in a shared latent space for zero-shot cross-modal synthesis.
PathologySpatial omics15OpennessSTORM
—1—Stanford UniversityApril 4, 2026clinical_outcome_predictionfoundation_modelgene_expression_prediction+7A hierarchical multimodal foundation model integrating spatial transcriptomics and H&E histology for biological discovery and platform-agnostic clinical prediction.
Spatial omicsPathology17OpennessSpatialFusion
38——Lightweight multimodal foundation model integrating spatial transcriptomics and H&E histopathology with pathway activity scores for biologically grounded spatial niche discovery at single-cell resolution.
Spatial omicsSingle-cell71OpennessA self-supervised, cell-centric pretraining strategy that distills morphology and microenvironment views of each cell into a unified embedding for virtual spatial omics from microscopy.
Spatial omicsImagingPathology15OpennessSTPAINTER
———University of Science and Technology of China +2 othersFebruary 13, 2026cancerdiffusionfoundation_model+4A pan-cancer pretrained latent diffusion model that enhances spatial transcriptomics, imputing genome-wide expression from sparse panels with zero-shot generalization.
Spatial omicsSingle-cell4OpennessMoLF
———A pan-cancer generative model that predicts spatial gene expression from H&E histology using conditional flow matching with a mixture-of-experts velocity field.
PathologySpatial omics9OpennessSAGE-FM
———A lightweight graph-convolutional foundation model for spatial transcriptomics that learns spatially coherent, interpretable spot embeddings via masked central-spot prediction.
Spatial omicsSingle-cell10OpennessOmniCell
———A foundation model jointly pretrained on 67M single-cell and spatial transcriptomic profiles to model intra-cellular expression and inter-cellular spatial dependencies.
Single-cellSpatial omics9OpennessA pair of spatially aware transcriptomic foundation models (50um-Local and 250um-Extended) for multi-scale analysis of spot-resolution cancer spatial transcriptomes.
Spatial omics12OpennessFOCUS
———Generative foundation model that enhances spatial transcriptomics by conditioning on H&E histology, scRNA-seq references, and spatial co-expression priors.
Spatial omicsPathologySingle-cell4OpennessscMOBA
———Chinese Academy of Sciences +1 otherDecember 2, 2025cell_biologycell_type_annotationdata_integration+6A conversational single-cell and spatial multi-omics brain agent pretrained on 130 million cells across species for zero-shot cell annotation and disease prediction.
Single-cellLanguage model5Openness