All Competitors

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

Showing 124 of 32 filtered models

  • U-Pert

    Center for Machine Learning Research, Peking UniversityJuly 4, 2026generativeperturbation_prediction

    Single-cell perturbation-response model predicting transcriptomic and cell-number changes for unseen perturbations plus inverse design.

    Single-cell
    10Openness
  • PertOmni

    1
    Yale University +2 othersJune 26, 2026cell_biologycontrastive_learningdrug_gene_interaction+6

    Contrastive multimodal model for perturbation screens, aligning transcriptomic signatures with text and cell-painting image embeddings.

    Single-cellSmall molecule
    18Openness
  • V3Cell

    Xinjiang Technical Institute of Physics and Chemistry +2 othersJune 24, 2026cell_biologydrug_discoverygenerative+4

    Vision-guided model that builds virtual 3D organoid surrogates from brightfield microscopy to predict chemical perturbation responses without omics.

    ImagingPathology
    4Openness
  • Navigo

    12
    Chinese University of Hong Kong +1 otherJune 24, 2026cell_fate_engineeringflow_matchinggene_regulatory_network_inference+6

    Generative framework that learns a developmental vector field from scRNA-seq snapshots, coupling flow matching with molecular RNA kinetics.

    Single-cellRNA
    44Openness
  • Chreode

    University of North Carolina at Chapel Hill +2 othersMay 27, 2026cell_fate_predictioncrispr_perturbationdevelopmental_trajectory_modeling+8

    Cell world model pretrained on a 2.4M-cell mouse embryonic atlas, predicting one-step transcriptional state transitions and perturbation response.

    Single-cell
    26Openness
  • DoFormer

    Columbia University +2 othersMay 4, 2026causal_inferencefoundation_modelgene_expression+3

    Causal multimodal transformer that embeds the do-operator in attention to predict single-cell gene expression under unseen genetic perturbations.

    Single-cell
    8Openness
  • scPert

    Zhejiang University School of MedicineApril 28, 2026drug_discoveryfoundation_modelgene_expression+4

    Multi-modal transformer fusing LLM gene embeddings with biological knowledge graphs to predict single-cell responses to genetic perturbations.

    Single-cell
    14Openness
  • HyperMap

    1
    University of California, San Diego +1 otherApril 27, 2026crisprdrug_discoveryfew_shot+7

    Meta-learning framework that transfers perturbation responses across cell lines, donors, and drugs from a few measured seed perturbations.

    Single-cell
    11Openness
  • RVQ-Alpha

    Guangzhou National LaboratoryApril 23, 2026cell_type_annotationlanguage_modelmultimodal+3

    Single-cell foundation model that tokenizes scRNA-seq into 10 tokens in a Qwen3-4B vocabulary for cell type annotation and perturbation prediction.

    Single-cell
    4Openness
  • scLong

    2210
    Chinese Academy of SciencesApril 1, 2026batch_integrationcell_type_annotationfoundation_model+5

    Billion-parameter single-cell foundation model with self-attention over 28,000 human genes, adding Gene Ontology priors via a graph neural network.

    Single-cell
    29Openness
  • X-Cell

    1068
    Xaira TherapeuticsMarch 17, 2026crispr_perturbationdiffusionfoundation_model+4

    Diffusion language model with 4.9 billion parameters that predicts genome-wide CRISPRi perturbation responses in single-cell transcriptomes.

    Single-cell
    20Openness
  • PerturbGen

    25
    Wellcome Sanger InstituteMarch 5, 2026cell_biologyfoundation_modelgene_expression+6

    Generative single-cell foundation model trained on 100M+ transcriptomes that predicts how genetic perturbations reshape cell trajectories over time.

    Single-cell
    72Openness
  • MilaFebruary 23, 2026diffusiongene_expressiongenerative+3

    Diffusion model predicting single-cell responses to genetic or drug perturbations, generating over distributions to capture population variability.

    Single-cell
    51Openness
  • University of BristolFebruary 19, 2026data_generationdiffusionfoundation_model+4

    Single-cell foundation model applying discrete diffusion directly to scRNA-seq counts, generating unconditional and perturbation-conditioned profiles.

    Single-cell
    10Openness
  • CLM-X

    Hangzhou Institute of Medicine, CASFebruary 18, 2026batch_correctioncell_biologycell_type_annotation+6

    Multimodal single-cell foundation model whose multiway Transformer jointly models scRNA-seq and scATAC-seq from RNA-only, ATAC-only, or paired inputs.

    Single-cell
    4Openness
  • scDFM

    447
    Westlake UniversityFebruary 6, 2026flow_matchinggene_expressiongenerative+4

    Single-cell perturbation prediction model using conditional flow matching to map control cells to perturbed expression distributions.

    Single-cell
    54Openness
  • scDiVa

    1
    Renmin University of ChinaFebruary 3, 2026batch_integrationcell_type_annotationdiffusion+6

    Single-cell foundation model built on masked discrete diffusion, jointly generating gene identities and expression values from 59 million cells.

    Single-cell
    6Openness
  • TwinCell

    2
    DeepLifeJanuary 29, 2026cancerfoundation_modelgene_regulation+4

    Large causal cell model trained on cancer perturbation data that generalizes zero-shot to patient-derived cells for therapeutic target prioritization.

    Single-cell
    19Openness
  • STACK

    14211
    Arc Institute +1 otherJanuary 9, 2026foundation_modelin_context_learningperturbation_prediction+4

    Single-cell foundation model using tabular attention over context cells to predict responses to arbitrary perturbations without fine-tuning.

    Single-cell
    33Openness
  • Baylor College of MedicineDecember 25, 2025cancerfoundation_modelligand_target_inference+7

    Spatially aware transcriptomic foundation models for cancer, pairing 50um-Local and 250um-Extended views of spot-resolution spatial transcriptomes.

    Spatial omics
    12Openness
  • Tongji University +1 otherNovember 28, 2025cell_type_annotationfoundation_modelgene_expression+6

    Single-cell foundation model adapting LLaMA-3.1-8B with LoRA, recasting transcriptomes and protein interaction networks as natural-language Q&A pairs.

    Single-cellRNA
    55Openness
  • 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
  • scLDM

    587
    Chan Zuckerberg InitiativeNovember 4, 2025autoencodercell_biologydata_augmentation+8

    Latent diffusion model for generating single-cell gene expression profiles, pairing a permutation-invariant autoencoder with a diffusion transformer.

    Single-cell
    75Openness
  • scLDM.CD4

    9198
    Chan Zuckerberg InitiativeNovember 4, 2025autoencodercell_biologydiffusion+7

    Single-cell latent diffusion model fine-tuned on 14.5 million CD4+ T cells to simulate transcriptomic effects of single-gene perturbations.

    Single-cell
    75Openness