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Every biological foundation model, evaluated and ranked by the bio.rodeo team
Showing 985–1008 of 2336 models
DNA foundation model that predicts thousands of functional genomic tracks, from expression and splicing to chromatin, at single base-pair resolution.
Allele-free HLA class I epitope classification from peptide sequence alone, via LoRA-adapted ESM-2 with parallel CNN and Transformer branches.
Hierarchical immune cell type annotation for scRNA-seq, rendering expression as images for a CNN. 93.2% mean subtype accuracy over seven datasets.
Plasmid characterization and retrieval model aligning DNA sequences with property text across ten facets, from antimicrobial resistance to host range.
Conditional GAN generating HLA class I pseudo-sequences from a peptide, then resolving them to candidate alleles by nearest-neighbor lookup.
Generative codon language model for mRNA design, trained on 338,417 coding sequences with inference-time masking that preserves the encoded protein.
Spatial transcriptomics resolution enhancement from expression alone, using a tri-oriented Mamba encoder to predict expression between capture spots.
T-cell receptor specificity prediction that separates general antigens from autoimmune-related ones using ESM-2 embeddings and a topology-aware graph.
Virtual cell transformer that predicts how cells respond to genetic, chemical, or signaling perturbations, generalizing to unseen cellular contexts.
Multi-scale ECG-language model that aligns 12-lead ECG signals with clinical text at token, beat, and rhythm levels for zero-shot cardiac diagnosis.
Protein complex model quality assessment via DockQ-guided graph contrastive learning. CASP16 TMscore ranking loss of 0.123 versus 0.138 runner-up.
CATH superfamily classifier over ProstT5 amino-acid and 3Di structural-alphabet embeddings, reaching 92.2% accuracy on roughly 1,700 superfamilies.
Text-prompted pathology image segmentation across 160 tissue, cell, and nuclei categories, replacing point and box inputs with natural language.
Antibody sequence-structure co-design diffusion model adding atom-level equivariant geometry to residue embeddings, raising CDR-H3 recovery to 38.9%.
Multimodal transformer predicting alternative splicing outcomes across C. elegans neuron subtypes, reaching Spearman ρ = 0.88 on held-out exons.
Single-cell perturbation response prediction using dual conditional diffusion bridges that link unpaired control and perturbed populations.
De novo peptide sequencing from tandem mass spectra with a non-autoregressive Transformer trained on 100 million peptide-spectrum matches.
Alignment-free taxonomic classification of eukaryotic DNA in metagenomes. Reaches an F1 of 0.871 on 500 bp contigs, where k-mer tools falter.
Decoder-only transformer that recasts ancestral recombination graph inference as next-token prediction, estimating coalescence times from variation.
Molecular conformer generation from 2D graphs with a diffusion transformer that replaces equivariant layers with graph shortest-path attention biases.
Single-cell diaPASEF proteomics search that scores coelution with a pretrained CNN and returns a protein matrix with no missing values.
Genome-anchored histopathology embeddings that predict molecular biomarkers, subtypes, and survival from whole-slide images alone at inference.