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Every biological foundation model, evaluated and ranked by the bio.rodeo team
Showing 169–192 of 423 filtered models
All-atom structure prediction for arbitrary biomolecular complexes of proteins, nucleic acids, and ligands, with code and weights under a BSD license.
Cas9 PAM preference prediction from protein sequence with an ESM-2 backbone, extending PAM annotation to 50,308 metagenome-mined orthologs.
Brain MRI model for noninvasive IDH genotyping of glioma, adapting a pretrained SWIN-UNETR backbone to reach 90.6% AUC on an external cohort.
Influenza genomic language model adapting DNABERT-2 to ~900,000 viral genomes, identifying subtypes, segments, and pathogenicity from sequence.
Histopathology and multi-omics foundation model pretrained with masked omics modeling on 4,718 pan-cancer TCGA cases spanning 32 cancer types.
Bacteriophage gene function prediction from genomic synteny, pairing protein language model embeddings with circular attention. AUC above 0.84.
DNA foundation model for germline variant pathogenicity, pretrained on 27 mammalian genomes and fine-tuned on ClinVar and HGMD for SNVs and indels.
Drug perturbation model predicting post-treatment gene expression from a cell's baseline profile and compound structure, zero-shot on unseen drugs.
Long-sequence DNA foundation model with groove-aware convolutions and reverse-complement gating over 100kb contexts. Averages 0.708 MCC on GUE.
Gene expression prediction from candidate cis-regulatory elements, fusing DNA sequence, TF binding scores, and epigenomic tracks in a CNN-transformer.
Whole-genome epigenetic foundation models reading DNA methylation and sequence jointly to detect Alzheimer's and Parkinson's from plasma cfDNA.
Splicing variant effect prediction across 49 human tissues and 15 developmental stages, from four weeks post conception to adulthood.
Bacterial genomics foundation model reading whole genomes as ordered protein sequences. Predicts operons, gene essentiality, and phenotypic traits.
Controllable DNA sequence design conditioned on cell type, transcription factor, or activity signal, in GPT- and BERT-style transformer variants.
Species-conditioned codon language model that jointly reads 5'UTRs, coding sequence, and RNA secondary structure to design native-like genes.
Bacterial promoter annotation and expression prediction from a 1.8M-parameter transformer pretrained on 9M gammaproteobacterial regulatory regions.
Protein-DNA binding free energy change prediction for missense mutations, with double- and single-stranded DNA binders modeled separately.
Fungal genome mining framework that detects biosynthetic gene clusters and identifies their core enzymes from a pretrained Pfam-domain transformer.
Tissue-specific RNA splicing prediction from pre-mRNA sequence, scoring how variants shift splice-site usage across 18 human tissues.
All-atom biomolecular structure prediction with adapters for allosteric states, user-defined interface constraints, and binding affinity.
DNA foundation model that predicts thousands of functional genomic tracks, from expression and splicing to chromatin, at single base-pair resolution.
Plasmid characterization and retrieval model aligning DNA sequences with property text across ten facets, from antimicrobial resistance to host range.
Generative codon language model for mRNA design, trained on 338,417 coding sequences with inference-time masking that preserves the encoded protein.