All Competitors
Every biological foundation model, evaluated and ranked by the bio.rodeo team
Showing 289–312 of 518 filtered models
Tahoe-x1
1591536Perturbation-trained single-cell foundation models (up to 3B parameters) that jointly model genes, cells, and compounds for precision oncology tasks.
Single-cellSmall molecule95OpennessSequence-based binding site predictor spanning protein-DNA, protein-RNA, protein-protein, and antibody-antigen interfaces via a fine-tuned ProtT5.
Protein23OpennessCellTok
———Multimodal LLM that tokenizes single cells into discrete VQ-VAE codebook tokens, letting one model reason jointly over transcriptomes and text.
Single-cellLanguage model20OpennessKnowMol
95—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 model69OpennessNyxBind
1—2Hong Kong University of Science and TechnologyOctober 21, 2025bertbinding_site_predictioncontrastive_learning+5Transcription factor binding site prediction model that refines a DNABERT-2 backbone with contrastive learning across diverse TFBS types.
DNA & Gene40Openness- University of North Carolina at Chapel HillOctober 21, 2025behavior_predictionbrain_connectomedisease_diagnosis+6
fMRI foundation model of the human brain connectome: 1.2B parameters and brain-environment interaction tokens for behavior and disease prediction.
Biosignals26Openness PairMixer
334—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 molecule77OpennessNeurIPT
1111—EEG foundation model for brain-computer interfaces, pairing masked pretraining with a mixture-of-experts transformer across electrode montages.
Biosignals11Opennesspeleke-1
8—13Suite of large language models fine-tuned with LoRA to generate antigen-targeted antibody Fv sequences from an antigen and its epitope.
Protein74OpennessFlashRNA
182—Efficient sequence-to-function transformer for regulatory genomics, matching Borzoi-class models while training in about a day on a single GPU.
DNA & GeneRNA59OpennessConforFold
———Washington University in St. LouisOctober 14, 2025conformational_samplingprotein_structurestructure_prediction+2Protein conformational sampling framework that steers a retrained OpenFold with diverse secondary-structure predictions to recover alternative states.
Protein45OpennessGeneJEPA
355—Self-supervised single-cell foundation model that predicts masked gene embeddings in latent space using a joint-embedding predictive architecture.
Single-cell44OpennessPRISM
—6—Carnegie Mellon University +2 othersOctober 13, 2025graph_neural_networkinverse_foldingprotein_design+3Retrieval-augmented inverse folding model that fuses structural motif retrieval with a hybrid attention decoder to design sequences for a backbone.
Protein20OpennessProteinAE
212—Protein structure autoencoder compressing backbone coordinates into a latent space, paired with a latent diffusion model for generative design.
Protein74OpennessFcGPT
———Autoregressive protein language model for antibody Fc domains, reinforcement-tuned to design variants with programmable Fc-receptor binding profiles.
Protein20OpennessMIMO
1227—Medical vision-language model that takes visual prompts on an image and returns answers grounded in pixel-level segmentation masks.
ImagingLanguage model11OpennessFlexRibbon
—2—Protein foundation model with 3B parameters, pretrained jointly on sequence and 3D structure via masked language modeling and diffusion denoising.
Protein20OpennessDemoDiff
17623Graph diffusion transformer for in-context molecular design, adapting to new tasks from a few molecule-property demonstrations without fine-tuning.
Small molecule74OpennessEvoIF
———Zhejiang University +1 otherOctober 8, 2025graph_neural_networkprotein_evolutionprotein_fitness_prediction+4Compact protein fitness predictor that fuses within-family evolutionary profiles with inverse-folding logits for zero-shot variant effect prediction.
Protein26OpennessTabPFN-Wide
—7—Tabular foundation model adapted for extreme feature counts, enabling in-context prediction on wide omics tables with tens of thousands of features.
DNA & GeneSingle-cell32OpennessDynamicsPLM
11——Technion – Israel Institute of Technology +1 otherOctober 6, 2025conformational_dynamicsenzyme_function_predictionlanguage_model+4Protein language model conditioned on ensembles of computed conformations, giving state-aware embeddings for interaction, localization, and function.
Protein65Openness- Chinese University of Hong Kong +1 otherOctober 3, 2025multimodalmutation_effect_predictionproteomics+3
Structure-conditioned fine-tune of ESM2 for protein mutation-effect prediction, matching ESM3-level accuracy after roughly an hour of fine-tuning.
Protein25Openness RareFoldGPCR
142—GPCR structure prediction and peptide design model that generates linear and cyclic peptide agonists carrying noncanonical amino acids, zero-shot.
Protein58Openness