All Competitors

Every biological foundation model, evaluated and ranked by the bio.rodeo team

Showing 124 of 83 filtered models

  • tf-SFM

    ETH ZurichJune 4, 2026binding_predictioncontrastive_learningcross_modal_retrieval+6

    Specificity Foundation Model that predicts transcription factor-DNA binding specificity from sequence using a physics-derived dual-encoder with symmetric contrastive learning.

    DNA & Gene
    18Openness
  • crisprSFM

    ETH ZurichJune 4, 2026contrastive_learningcrisprcross_modal_retrieval+6

    Specificity Foundation Model that predicts CRISPR gRNA off-target DNA specificity from sequence using a physics-derived dual-encoder with symmetric contrastive learning.

    DNA & Gene
    19Openness
  • drug-SFM

    ETH ZurichJune 4, 2026contrastive_learningcross_modal_retrievaldrug_target_interaction+6

    Specificity Foundation Model that predicts small-molecule drug-target protein specificity from sequence using a physics-derived dual-encoder with symmetric contrastive learning.

    Small molecule
    16Openness
  • enzyme-SFM

    ETH ZurichJune 4, 2026binding_predictioncontrastive_learningcross_modal_retrieval+6

    Specificity Foundation Model that predicts enzyme-substrate specificity from sequence using a physics-derived dual-encoder with symmetric contrastive learning.

    Protein
    23Openness
  • mhcSFM

    ETH ZurichJune 4, 2026binding_predictioncontrastive_learningcross_modal_retrieval+6

    Specificity Foundation Model that predicts peptide-MHC binding specificity from sequence using a physics-derived dual-encoder with symmetric contrastive learning.

    Protein
    23Openness
  • mir-SFM

    ETH ZurichJune 4, 2026contrastive_learningcross_modal_retrievaldual_encoder+6

    Specificity Foundation Model that predicts microRNA-mRNA target specificity from sequence using a physics-derived dual-encoder with symmetric contrastive learning.

    RNA
    25Openness
  • TESSERA

    5
    Weill Cornell MedicineJune 1, 2026cancer_genomicscell_type_annotationcontrastive_learning+6

    Self-supervised foundation model that learns reusable representations of cancer genomes from somatic SNVs and copy-number alterations across 33 tumor types.

    DNA & Gene
    28Openness
  • GenBloom

    3
    Helmholtz Munich +1 otherMay 28, 2026cell_type_annotationcontrastive_learningcytology+6

    Genetically aligned foundation model for blood smear cytology that links single white-blood-cell morphology to chromosomal aberrations and mutations for AML/APL diagnosis.

    Pathology
    65Openness
  • C3P

    University of TorontoMay 24, 2026bacterial_genomeco_regulated_gene_retrievalcontrastive_learning+8

    Contrastive promoter-protein pretraining that aligns bacterial promoters with their encoded proteins to learn regulatory genomics representations.

    DNA & Gene
    77Openness
  • MetFoundation

    Hong Kong Baptist UniversityMay 20, 2026aging_clockcontrastive_learningdisease_risk_prediction+6

    A self-supervised metabolomic foundation model pretrained on NMR metabolite profiles from 430,000+ UK Biobank participants, applied without backbone retraining to aging, subtyping, and risk tasks.

    Metabolomics
    7Openness
  • BRIDGE

    The University of Hong KongMay 8, 2026contrastive_learningfoundation_modelgene_expression_prediction+8

    A multi-organ foundation model aligning histology image features with spatial-transcriptomics gene expression across 13 organs for zero-shot virtual ST and survival prediction.

    PathologySpatial omics
    31Openness
  • ConvergeCELL

    59
    Converge BioMay 7, 2026bulk_rna_seqcontrastive_learningdrug_discovery+5

    A virtual cell foundation model pretrained on 23M+ cells from 5,000 patient samples for drug target and biomarker discovery.

    Single-cell
    67Openness
  • ProtSent

    6
    Hebrew University of Jerusalem +1 otherMay 7, 2026contrastive_learningembeddingsproteomics+5

    Contrastively fine-tuned ESM-2 (35M and 150M) protein language models that produce general-purpose sequence embeddings where biological similarity maps to embedding proximity.

    Protein
    87Openness
  • University of KentuckyMay 4, 2026contrastive_learningintrinsic_disorder_predictionmolecular_dynamics+6

    A protein language model that aligns ESM sequence embeddings with molecular-dynamics trajectory embeddings via contrastive learning for zero-shot mutation-effect prediction.

    Protein
    10Openness
  • H2O

    Tencent AI for Life Science Lab +2 othersApril 24, 2026contrastive_learningfoundation_modelgene_expression+6

    A foundation model that predicts spatial transcriptomics and proteomics directly from routine H&E whole-slide images using a vision transformer aligned with a language model.

    PathologySpatial omics
    7Openness
  • DIA-CLIP

    AI for Science Institute +1 otherApril 16, 2026contrastive_learningencoder_decoderfoundation_model+6

    A CLIP-style dual-encoder model that learns a shared peptide-spectrum representation for zero-shot peptide-spectrum-match inference in DIA proteomics.

    Protein
    11Openness
  • CLOP-DiT

    Third Military Medical UniversityMarch 30, 2026contrastive_learningdata_augmentationdiffusion+7

    Generates single-cell transcriptomic profiles from structured biological metadata via contrastive language-omics pretraining and a diffusion transformer.

    Single-cell
    10Openness
  • CLIPepPI

    1
    Hebrew University of JerusalemMarch 20, 2026contrastive_learningpeptide_binding_predictionprotein_protein_interaction+5

    Dual-encoder contrastive model that embeds protein domains and peptides into a shared space to predict domain-peptide binding specificity at proteome scale.

    Protein
    50Openness
  • Hacettepe UniversityMarch 19, 2026cheminformaticscontrastive_learningdrug_discovery+5

    Multimodal molecular foundation model fusing SELFIES sequences, 2D graphs, text descriptions, and knowledge-graph embeddings via contrastive pretraining for property prediction.

    Small molecule
    55Openness
  • Horizyn-1

    111
    Dayhoff LabsMarch 17, 2026contrastive_learningenzyme_reaction_matchingenzymology+5

    Dual-encoder contrastive model that retrieves enzymes for query reactions by matching reaction fingerprints to protein sequence embeddings.

    ProteinSmall molecule
    21Openness
  • NeuroNarrator

    Stevens Institute of TechnologyMarch 7, 2026clinical_narrative_generationcontrastive_learningeeg+6

    Generalist EEG-to-text foundation model that translates EEG segments into clinically grounded natural-language descriptions via spectro-spatial grounding and state-space reasoning.

    Biosignals
    18Openness
  • ProtAlign

    Lawrence Livermore National LaboratoryMarch 6, 2026contrastive_learningcross_modal_retrievalembeddings+4

    A contrastive cross-modal encoder that aligns protein sequence (ESM-2) and structure (ProteinMPNN) representations into a shared embedding space for cross-modal retrieval.

    Protein
    35Openness
  • FlashPPI

    31166.9K
    Tatta BioMarch 1, 2026contrastive_learninginteraction_network_inferencemetagenomics+4

    Contrastive model built on a genomic language model that predicts physical protein-protein interactions across a microbial proteome in linear time.

    Protein
    14Openness
  • CALM-1.0

    1
    ETH ZurichFebruary 26, 2026antibodyantibody_designantigen+6

    Contrastive antibody language model that predicts antibody-antigen binding specificity directly from amino acid sequence using a dual-encoder, cross-attentive architecture.

    Protein
    10Openness