All Competitors
Every biological foundation model, evaluated and ranked by the bio.rodeo team
Showing 49–72 of 118 filtered models
FlashRNA
182—Efficient sequence-to-function transformer for regulatory genomics, matching Borzoi-class models while training in about a day on a single GPU.
DNA & GeneRNA59OpennessSLAE
———All-atom protein representation model that learns from each residue's strictly local atomic neighborhood, capturing side-chain geometry and chemistry.
Protein20Openness- 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.
Protein58OpennessPLMNovo
—1—De novo peptide sequencing model that aligns tandem mass spectra with protein language model embeddings through constrained optimization.
Protein19OpennessGatorAffinity
351—Geometric deep learning scoring function for protein-ligand binding affinity, pretrained on synthetic complexes and fine-tuned on PDBbind structures.
ProteinSmall molecule71OpennessPathQC
1——Pan-tissue quality-control model that predicts RNA integrity and autolysis from H&E whole-slide images using frozen UNI foundation model embeddings.
Pathology25OpennessScooby
6912463Technical University of Munich +4 othersOctober 1, 2025chromatinchromatin_accessibility_predictionconvolutional_neural_network+5Predicts single-cell scRNA-seq coverage and scATAC-seq insertion profiles from DNA sequence, adapting the Borzoi trunk with a cell-specific decoder.
Single-cell70OpennessDeepSpot2Cell
152—Predicts virtual single-cell spatial transcriptomics from H&E histology using frozen pathology foundation models and spot-level supervision.
PathologySpatial omics58OpennessOpenMed NER
4.7K2—Biomedical named entity recognition transformers, with task-specialized checkpoints for chemicals, diseases, genes, proteins, species, and anatomy.
Language model71OpennessABMIL
1522.7K42Attention-based multiple instance learning heads for whole-slide pathology, pretrained on a 108-way pan-cancer slide classification task.
Pathology26OpennessMORPH
156—Single-cell perturbation-response model that predicts transcriptomic and imaging outcomes of unseen genetic perturbations via a VAE with attention.
Single-cellImaging7OpennessRadiologyNET
58—Family of CNN foundation models pretrained on multimodal radiology images, a domain-specific alternative to ImageNet transfer learning weights.
Imaging53OpennessRocketSHP
123—Proteome-scale protein dynamics prediction from sequence or structure, predicting residue flexibility, correlations, and conformational states.
Protein79OpennessSAM-Brain3D
59—Brain MRI segmentation foundation model trained on 66,000+ image-label pairs across 14 MRI sub-modalities, with a hypergraph dynamic adapter.
Imaging26OpennessDyna-1
801314Protein dynamics model predicting per-residue probability of microsecond-millisecond conformational exchange from sequence or structure.
Protein79OpennessBEPH
7797—Histopathology foundation model pretrained with BEiT masked image modeling on 11M+ tissue image tiles for cancer diagnosis and survival prediction.
Pathology73OpennessSAM-MedUS
27—Universal ultrasound segmentation foundation model adapting the Segment Anything Model to eight anatomical regions in a single promptable network.
Imaging14OpennessD-LMBmapX
41——MRC Laboratory of Molecular BiologyFebruary 25, 2025connectomicsfoundation_modelimage_registration+3Whole-brain axon and soma segmentation foundation model and registration pipeline for developmental connectomics, with no per-stage retraining.
Imaging23OpennessSpatialEx
38——Jilin University +1 otherFebruary 23, 2025contrastive_learningfoundation_modelgene_expression_prediction+6Histology-anchored framework pairing an H&E foundation model with a cellular hypergraph to predict single-cell multi-omics from tissue images.
Spatial omicsPathology57OpennessRIME
———RNA-RNA interaction prediction framework that scores pairing between long transcripts directly from sequence using Nucleotide Transformer embeddings.
RNA14OpennessCryo-ET particle picking model that averages tiny, medium, and large 3D U-Nets pretrained on simulated tomograms and fine-tuned on experimental data.
Imaging86OpennessMonjuDetectHM
211—Cryo-ET particle picking ensemble of three 3D segmentation models predicting particle-center heatmaps with ResNet50d and EfficientNetV2-M backbones.
Imaging95Openness