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Every biological foundation model, evaluated and ranked by the bio.rodeo team
Showing 721–744 of 1102 filtered models
Protein language model that jointly embeds a set of sequences and reconstructs phylogenetic trees without alignments or guide trees.
Peptide-MHC binding affinity and all-atom 3D structure in one attention network pass, reaching 1.19 Å median C-RMSD at 0.009 s per affinity call.
Cyclic peptide structure prediction for sequences carrying unnatural amino acids, adding atom-level features and cyclization-aware position encoding.
Peptide binder design by mimicking the binding interface of a known receptor or antibody, generating all-atom peptides through latent diffusion.
Antibody CDR sequence-structure co-design by flow matching, starting from an informative structural prior rather than from Gaussian noise.
Adenylation domain substrate specificity prediction from frozen ESM-2 embeddings, with zero-shot calls on substrates absent from training.
Protein backbone generation with a diffusion model whose noise schedule is derived from the renormalization group rather than heuristically tuned.
Binder motif prediction from receptor structure alone, mapping 14 functional-group types across a protein surface as reusable interaction profiles.
Cryo-EM reconstruction with neural radiance fields in Euclidean 3D space, separating conformational motion from compositional assembly states.
Generative transformer that writes candidate cognate epitope sequences from a TCR CDR3-beta input, annotating repertoires without functional assays.
Drug-target interaction model that compresses any compound into a 15-bit hierarchical code, so billion-compound libraries can be screened in seconds.
Antimicrobial peptide discovery from metagenome-assembled genomes, labelling AMP residues with a LoRA-adapted ESM-2 token classifier.
Open-source PyTorch reproduction of AlphaFold 3 under Apache 2.0, matching or exceeding AF3 on protein-ligand, protein-protein, and RNA benchmarks.
Antimicrobial peptide generator fine-tuned from ProGen2, trained against a frozen ESM-2 encoder's latent space as an approximate function checker.
Genomic language model reading bacterial gene neighborhoods as sentences of protein-family tokens to predict anti-phage defense function.
Anti-phage defense gene classifier pairing protein language model embeddings with genomic features to find immune systems outside defense islands.
Malate dehydrogenase sequence generator fine-tuned from ProGen2, with a latent-space distance term that lifted functional generations to 96.8%.
Protein language model fine-tuned to score any bacterial protein for anti-phage defense function, detecting homology too remote for HMM profiles.
Protein expression prediction that pinpoints expression-governing residues by matching a language model landscape against measured fitness data.
Multimodal 80B-parameter protein-language model that answers natural language questions about protein function from sequence and structure.
CRISPR-Cas PAM specificity prediction directly from Cas protein sequence, plus computational evolution of Cas9 variants toward a chosen PAM.
TCR-epitope binding prediction with a dual-branch transformer-CNN, inside a pipeline that ranks cancer neoepitopes from patient sequencing data.
Text-guided protein design framework aligning language with sequences for text-conditioned generation, zero-shot editing, and property prediction.