All Competitors
Every biological foundation model, evaluated and ranked by the bio.rodeo team
Showing 49–72 of 209 filtered models
MultiPUFFIN
———Multimodal foundation model pretrained on ~500K unlabeled PubChem molecules that jointly predicts nine thermophysical properties of small molecules.
Small molecule10OpennessCellPace
———Temporal diffusion framework for single-cell developmental dynamics, interpolating and forecasting cell states from irregularly sampled time series.
Single-cell9OpennessChIANet
———Multimodal deep learning model that predicts protein-mediated chromatin contact maps and loops de novo from protein-binding profiles and sequence.
DNA & Gene10OpennessMAP
———Shanghai Jiao Tong UniversityFebruary 25, 2026contrastive_learningdrug_response_predictiongraph_neural_network+6Knowledge-graph-grounded model that predicts single-cell transcriptomic responses to small molecules, with zero-shot prediction for unprofiled drugs.
Single-cellSmall molecule12OpennessCLM-X
———Hangzhou Institute of Medicine, CASFebruary 18, 2026batch_correctioncell_biologycell_type_annotation+6Multimodal single-cell foundation model whose multiway Transformer jointly models scRNA-seq and scATAC-seq from RNA-only, ATAC-only, or paired inputs.
Single-cell4OpennessSEAL
484—Vision-omics finetuning that aligns pathology foundation models with spatial transcriptomics so morphology features predict local gene expression.
PathologySpatial omics32OpennessDERIVE
———Multimodal generative model predicting viral antigenic change zero-shot from disentangled evolutionary, physicochemical, and structural signals.
Protein16OpennessTerraBind
———Protein-ligand foundation model that maps coarse-grained structural representations directly to binding affinity, running ~26x faster than Boltz-2.
ProteinSmall molecule24OpennessBioCLIP 2.5
77435.3KVision foundation model for the tree of life, scaling BioCLIP 2 to a ViT-H/14 backbone and more organism images for zero-shot species classification.
Imaging93OpennessEVA
——89Cross-species multimodal foundation model of immunology and inflammation, harmonizing transcriptomics and histology into patient-level embeddings.
Single-cellRNAPathology27OpennessBioLM-Score
———Shenzhen UniversityFebruary 9, 2026binding_affinity_predictiondrug_discoverymixture_density_network+4Protein-ligand scoring function that conditions probabilistic geometric potentials on language model priors to rank docked poses and binding affinity.
ProteinSmall molecule11OpennessBioBridge
—2—Connects a frozen protein language model to a general LLM via a cross-modal projector, adding protein reasoning without catastrophic forgetting.
Language modelProtein13OpennessPert2Mol
———Multimodal model that designs small molecules from transcriptomic and cell-imaging perturbation phenotypes with a rectified flow transformer.
Small moleculeSingle-cell22OpennessOpticalDNA
———Vision-language DNA model that renders genomic sequence as visual layouts, reading regions up to 450,000 bases with about 20x better token efficiency.
DNA & Gene16OpennessEnzyPGM
—2—University of Science and Technology of China +1 otherJanuary 27, 2026de_novo_designenzyme_designgenerative+5Enzyme design model that jointly generates enzyme sequences and substrate-binding pockets, conditioned on functional priors and substrate structure.
ProteinSmall molecule23OpennessOKR-CELL
———Cross-modal single-cell foundation model that aligns gene-expression profiles with LLM-enriched cell descriptions in a shared embedding space.
Single-cellLanguage model23OpennessSurfFlow
—6—Flow-matching model for therapeutic peptide design that co-designs sequence, structure, and molecular surface to disrupt protein-protein interactions.
ProteinSmall molecule18OpennessCMAP
———Antibody developability predictor pairing text and protein language models, using in-context learning to fit new assays without retraining.
ProteinLanguage model4OpennessMultimodal architecture coupling pretrained DNA, RNA, and protein language models with directional cross-attention into one Virtual Cell Embedding.
DNA & GeneRNAProtein22OpennessMerlin
4531366.9K3D vision-language foundation model for abdominal CT, pretrained on scans, radiology reports, and EHR codes for zero-shot interpretation.
ImagingLanguage model54OpennessGenoME
—1—Mixture-of-Experts generative model turning DNA sequence plus cell-type ATAC-seq into unified epigenomic, transcriptomic, and 3D chromatin profiles.
DNA & GeneSingle-cell8OpennessFOCUS
———Generative foundation model that imputes genes and denoises spatial transcriptomics, conditioned on H&E histology, scRNA-seq, and spatial priors.
Spatial omicsPathologySingle-cell4Openness