All Competitors
Every biological foundation model, evaluated and ranked by the bio.rodeo team
Showing 385–408 of 943 models
TissueNarrator
5213—Spatial transcriptomics language model that reads tissue as spatial sentences to simulate cell profiles and run in silico perturbations.
Spatial omicsSingle-cell53OpennessPULSAR
363211Hierarchical single-cell foundation model that turns scRNA-seq profiles into zero-shot donor-level embeddings for disease and biomarker prediction.
Single-cellProtein58OpennessFusionProt
183—Technion – Israel Institute of Technology +1 otherNovember 26, 2025function_predictiongraph_neural_networkmultimodal+4Multimodal protein representation model that iteratively fuses a sequence language model with a 3D structure encoder through a shared learnable token.
Protein68OpennessRNA-X
4——RNA interaction foundation model for conditional, zero-shot design of RNA sequences that bind protein, DNA, or RNA targets without retraining.
RNAProtein6OpennesseccDNAMamba
5——Bidirectional state-space (Mamba-2) genomic model for ultra-long extrachromosomal circular DNA, scaling linearly with sequence length.
DNA & Gene54Openness- University of Maryland, College ParkNovember 24, 2025codon_optimizationde_novo_designfoundation_model+6
Conditional codon language model with 150M parameters that generates species-optimized coding sequences from a protein and its taxonomic lineage.
DNA & GeneRNA90Openness Micellangelo
—2—Eindhoven University of TechnologyNovember 24, 2025cell_biologycell_morphology_simulationconditional_generation+5Flow-matching generative model that synthesizes fluorescence images of human fibroblasts conditioned on surface micro-topographies.
Imaging5OpennessMIMYR
—138—Generative framework that reconstructs missing spatial transcriptomics regions by jointly predicting cell locations, cell types, and gene expression.
Spatial omicsSingle-cell16OpennessMelody
—18—Deep learning framework that predicts DNA methylation from genomic sequence across 39 human tissues, with an scRNA-seq variant for unseen cell types.
DNA & Gene8OpennessNeuroVFM
52—466University of Michigan +1 otherNovember 23, 2025ctfoundation_modeljoint_embedding_predictive_architecture+8Generalist neuroimaging vision foundation model pretrained on 5.24M clinical MRI and CT volumes for radiologic diagnosis and report generation.
Imaging57OpennessFlexiFlow
———Flow-matching model that jointly samples 3D de novo molecules and several low-energy conformers, extending to pocket-conditioned ligand design.
Small moleculeProtein19OpennessPuget
———Gene expression prediction model combining DNA sequence with Hi-C contact maps to capture 3D chromatin looping behind cell-type-specific expression.
DNA & Gene8OpennessMethylAI
7——Cross-species-pretrained CNN that predicts single-CpG DNA methylation from genomic sequence and interprets the cis-regulatory motifs that govern it.
DNA & Gene64OpennessEvo2HiC
92—University of WashingtonNovember 19, 2025chromatinchromatin_contact_predictionepigenomic_profiling+9Multimodal foundation model that distills Evo 2 into a compact encoder guided by Hi-C data, predicting cell-type-specific 3D genome architecture.
DNA & GeneSpatial omics57OpennessSIGMMA
—1—Helmholtz Munich +1 otherNovember 19, 2025contrastive_learningcross_modal_retrievalgene_expression_prediction+7Multi-modal contrastive model that aligns H&E histopathology with spatial transcriptomics across tissue scales to predict gene expression from images.
PathologySpatial omics20OpennessSHEST
129—Samsung Advanced Institute for Health Sciences and Technology +2 othersNovember 19, 2025cell_type_annotationgene_expressionhistology+5Histopathology model that predicts single-cell type composition and reconstructs spatial gene expression from H&E slides, with no molecular assay.
PathologySpatial omics16OpennessUni-Hema
—1—Information Technology University of the Punjab +1 otherNovember 18, 2025classificationcnnfoundation_model+8Digital hematopathology foundation model unifying blood-cell detection, classification, segmentation, and visual question answering.
Pathology8OpennessApo2Mol
37——Diffusion model for structure-based drug design that jointly generates 3D ligands and holo pocket conformations from an apo protein structure.
Small moleculeProtein65OpennessMergeDNA
—5—Hierarchical DNA foundation model that co-trains a dynamic token-merging tokenizer with latent Transformers to match genomic information density.
DNA & Gene5OpennessUniLingo3DMol
—183—Pretrained language model for 3D molecule generation in protein pockets, unifying de novo and fragment-based drug design in one multi-task framework.
Small molecule8OpennessCryoSiam
201—European Molecular Biology LaboratoryNovember 12, 2025convolutional_neural_networkcryo_etdenoising+8Self-supervised Siamese network for cryo-electron tomography, enabling zero-shot denoising, segmentation, and macromolecule detection in tomograms.
Imaging64Openness