All Competitors

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

Showing 4972 of 125 filtered models

  • Carnegie Mellon UniversityNovember 27, 2025gene_expressiongenerativelanguage_model+4

    Spatial transcriptomics language model that reads tissue as spatial sentences to simulate cell profiles and run in silico perturbations.

    Spatial omicsSingle-cell
    53Openness
  • University of Maryland, College ParkNovember 24, 2025codon_optimizationde_novo_designfoundation_model+6

    Conditional codon language model with 150M parameters that generates species-optimized coding sequences from a protein and its taxonomic lineage.

    DNA & GeneRNA
    90Openness
  • UniLingo3DMol

    StoneWiseNovember 14, 2025de_novo_designdrug_discoverygenerative+5

    Pretrained language model for 3D molecule generation in protein pockets, unifying de novo and fragment-based drug design in one multi-task framework.

    Small molecule
    8Openness
  • New York UniversityNovember 10, 2025cnndrug_discoverygraph_neural_network+8

    Multimodal conversational LLM for metabolite analysis, fusing a molecular-graph GNN and molecular-image CNN with a Vicuna-13B language backbone.

    MetabolomicsSmall molecule
    48Openness
  • H3BERTa

    1201
    University of BernNovember 3, 2025antibodyantibody_repertoire_analysisbert+8

    Antibody language model pretrained only on CDR-H3 loops, giving embeddings for immune repertoire analysis and antibody sequence classification.

    ProteinLanguage model
    83Openness
  • Boston UniversityOctober 31, 2025antibodybinding_affinity_predictionlanguage_model+4

    Paired heavy/light antibody language model fine-tuning ESM-2 and ESM-C with CDR-preferential masking for zero-shot binding affinity embeddings.

    Protein
    8Openness
  • CellTok

    Tsinghua UniversityOctober 22, 2025autoencodercell_cell_communicationcell_type_annotation+7

    Multimodal LLM that tokenizes single cells into discrete VQ-VAE codebook tokens, letting one model reason jointly over transcriptomes and text.

    Single-cellLanguage model
    20Openness
  • KnowMol

    95
    Institute of Computing Technology, Chinese Academy of SciencesOctober 22, 2025cheminformaticsde_novo_designgraph_neural_network+6

    Multimodal molecular large language model grounding molecule understanding and generation in fine-grained, multi-level chemical knowledge.

    Small moleculeLanguage model
    69Openness
  • peleke-1

    813
    Silico Biosciences +1 otherOctober 16, 2025antibodylanguage_modelprotein_design+2

    Suite of large language models fine-tuned with LoRA to generate antigen-targeted antibody Fv sequences from an antigen and its epitope.

    Protein
    74Openness
  • FcGPT

    ETH ZurichOctober 11, 2025antibodyde_novo_designgenerative+4

    Autoregressive protein language model for antibody Fc domains, reinforcement-tuned to design variants with programmable Fc-receptor binding profiles.

    Protein
    20Openness
  • DynamicsPLM

    11
    Technion – Israel Institute of Technology +1 otherOctober 6, 2025conformational_dynamicsenzyme_function_predictionlanguage_model+4

    Protein language model conditioned on ensembles of computed conformations, giving state-aware embeddings for interaction, localization, and function.

    Protein
    65Openness
  • EiRA

    2
    Hunan UniversitySeptember 2, 2025binder_designdnagenerative+6

    Protein binder design model post-trained from a multimodal protein language model to bind proteins, peptides, small molecules, and nucleic acids.

    Protein
    13Openness
  • University of Science and Technology of ChinaAugust 7, 2025bertfoundation_modellanguage_model+8

    RNA foundation model pretrained jointly on sequences and secondary structures for structure prediction, homology and splice site classification.

    RNA
    92Openness
  • PoET-2

    2710
    OpenProtein.AIAugust 5, 2025foundation_modellanguage_modelprotein_design+5

    Multimodal, retrieval-augmented protein foundation model that learns family-specific evolutionary constraints with optional structure conditioning.

    Protein
    37Openness
  • Microsoft ResearchJuly 21, 2025language_modelmixture_of_expertsprotein_design+2

    Protein language models trained on billions of natural and synthetic sequences for de novo design and zero-shot mutation-effect prediction.

    Protein
    96Openness
  • University of Oregon +1 otherJune 24, 2025ancestral_recombination_graph_inferencecoalescence_time_estimationgenomics+4

    Decoder-only transformer that recasts ancestral recombination graph inference as next-token prediction, estimating coalescence times from variation.

    DNA & Gene
    83Openness
  • Chiron-o1

    601421
    Shanghai AI Laboratory +2 othersJune 20, 2025chain_of_thoughtclinical_reasoninghistology+6

    Medical multimodal LLM (2B and 8B) trained for generalizable, step-by-step clinical reasoning via Mentor-Intern Collaborative Search.

    PathologyImaging
    67Openness
  • CodonFM

    8747
    NVIDIA +1 otherApril 25, 2025bertde_novo_designfoundation_model+7

    Codon-resolution language models trained on 130 million coding sequences from 20,000 species, learning codon rules for translation and mRNA stability.

    RNA
    72Openness
  • mLLMCelltype

    65310
    Texas A&M UniversityApril 17, 2025cell_type_annotationlanguage_model

    Multi-LLM consensus framework for automated cell type annotation in scRNA-seq data, outperforming prior methods by ~15% in mean accuracy.

    Single-cell
    37Openness
  • ProGen3

    11454217
    ProfluentApril 16, 2025de_novo_designfoundation_modelgenerative+6

    Sparse mixture-of-experts autoregressive protein language model family pretrained on 1.5 trillion amino acid tokens with compute-optimal scaling.

    Protein
    33Openness
  • Pinal

    942914
    Westlake UniversityApril 2, 2025foundation_modellanguage_modelprotein_design+1

    De novo protein design from natural language: a 16B-parameter framework turning text descriptions into sequences via structure-conditioned generation.

    Protein
    42Openness
  • GMAI-VL-R1

    1929
    Shanghai AI Laboratory +6 othersApril 2, 2025histologylanguage_modelmedical_image_diagnosis+7

    General medical vision-language model trained with reinforcement learning to reason step by step over medical images for diagnosis and visual QA.

    ImagingLanguage model
    17Openness
  • seqLens

    7
    George Washington UniversityMarch 12, 2025bertfoundation_modelgenomics+7

    Genomic language models with disentangled attention, pretrained on prokaryotic and eukaryotic genomes for sequence classification and variant effects.

    DNA & Gene
    18Openness
  • Brain2Qwerty

    867
    Meta AI +1 otherFebruary 24, 2025brain_to_text_decodingcnneeg+3

    Brain-to-text decoder that reconstructs typed sentences from non-invasive MEG and EEG brain recordings using a CNN, transformer, and language model.

    Biosignals
    11Openness