All Competitors
Every biological foundation model, evaluated and ranked by the bio.rodeo team
Showing 73–90 of 90 filtered models
Tahoe-x1
158433Perturbation-trained single-cell foundation models (up to 3B parameters) that jointly model genes, cells, and compounds for precision oncology tasks.
Single-cellSmall molecule95OpennessKnowMol
932—Institute of Computing Technology, Chinese Academy of SciencesOctober 22, 2025cheminformaticsde_novo_designgraph_neural_network+6Multimodal molecular large language model grounding molecule understanding and generation in fine-grained, multi-level chemical knowledge.
Small moleculeLanguage model69OpennessPairMixer
33——Genesis Therapeutics +1 otherOctober 21, 2025molecular_dockingprotein_designrepresentation_learning+3Structure prediction backbone that swaps AlphaFold3-style triangle attention for triangle multiplication, cutting compute without losing accuracy.
ProteinSmall molecule77OpennessMatcha
3088—Molecular docking model that predicts protein-ligand binding poses with multi-stage Riemannian flow matching, yielding physically valid geometry.
Small moleculeProtein23OpennessMagicDock
———De novo ligand design framework that generates protein binders and small molecules by inverting gradients through a differentiable docking model.
ProteinSmall molecule33OpennessDemoDiff
17617Graph diffusion transformer for in-context molecular design, adapting to new tasks from a few molecule-property demonstrations without fine-tuning.
Small molecule74OpennessFLOWR.root
1353—SE(3)-equivariant flow-matching model for pocket-aware 3D ligand generation, predicting binding affinity and confidence in the same network.
Small moleculeProtein87OpennessGatorAffinity
351—Geometric deep learning scoring function for protein-ligand binding affinity, pretrained on synthetic complexes and fine-tuned on PDBbind structures.
ProteinSmall molecule71OpennessSciReasoner
90346Multimodal scientific foundation model unifying protein, DNA/RNA, and small-molecule structure in one token vocabulary for cross-domain reasoning.
ProteinDNA & GeneSmall molecule66OpennessDreaMS
19269—Self-supervised transformer pretrained on millions of tandem mass spectra, giving embeddings for spectral annotation and fingerprint prediction.
MetabolomicsSmall molecule98OpennessTxGemma
2361.8KOpen therapeutics foundation models from Google, built on Gemma-2, for drug-discovery property prediction and conversational reasoning.
Language modelSmall molecule58OpennessNatureLM
—3215Unified science foundation model treating molecules, proteins, RNA, DNA, and materials as one sequence language, in 1B, 8B, and 46.7B sizes.
Language modelSmall moleculeProtein27OpennessProCyon
6013—Multimodal foundation model integrating protein sequence, structure, and natural language to model and generate protein phenotypes across scales.
ProteinLanguage modelSmall molecule83OpennessMAMMAL
11881KMulti-modal, multi-task biological foundation model trained on 2 billion samples spanning proteins, small molecules, and single-cell gene expression.
ProteinSmall moleculeSingle-cell74OpennessBioMed Multi-View
467578Molecular foundation model that late-fuses graph, image, and SMILES encoders into one embedding for molecular property and drug target prediction.
Small molecule77OpennessBioT5+
127—226Text-to-text biological language model spanning molecules, proteins, and text, adding IUPAC names and multi-task instruction tuning to BioT5.
Language modelSmall moleculeProtein85OpennessBioT5
127—204Encoder-decoder framework unifying molecules, proteins, and natural language with SELFIES notation for cross-modal drug discovery tasks.
Language modelSmall moleculeProtein74OpennessMoLFormer-XL
405—141.7KLarge-scale chemical language model trained on 1.1 billion SMILES strings using linear attention transformers for molecular property prediction.
Small molecule86Openness