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Every biological foundation model, evaluated and ranked by the bio.rodeo team
Showing 289–312 of 400 filtered models
Plant regulatory genomics model predicting RNA-seq and epigenomic coverage from 65 kbp of DNA, pretrained across 12 species with per-species heads.
Contrastive learning framework for nucleotide sequence embeddings, generalizing to taxa and genes absent from training via FAISS retrieval.
Phage lifestyle prediction from raw nucleotide fragments, separating virulent from temperate genomes without database search or curated pipelines.
Decoder-only genomic language model at single-nucleotide resolution, fine-tuned to predict which DNA contacts the nuclear lamina or nuclear speckles.
Nanopore basecaller extending Bonito to a six-letter alphabet, reading the unnatural bases Ds and Px alongside canonical A, T, C and G.
Instruction-tuned gene language model extending LLaMA-7B with merged DNA and protein BPE vocabularies to answer sequence tasks as chat prompts.
Enhancer-promoter interaction prediction from DNA sequence and ATAC-seq alone. Spearman above 0.90 on cell types unseen during training.
Genomic foundation model with 7B parameters that models prokaryotic DNA, RNA, and protein at single-nucleotide resolution over a 131k-token context.
Tissue-specific histological aging clocks that read biological age and per-organ age gaps from H&E whole-slide images and from blood gene expression.
Missense pathogenicity prediction that folds wild-type and mutant sequences with ESMFold and encodes each structure as a graph autoencoder embedding.
Histopathology model predicting extrachromosomal DNA status from routine H&E slides by first inferring the tumor transcriptome from tile features.
Cell-type-specific gene expression prediction from DNA sequence, mapping Enformer epigenomic features to pseudobulk expression for cell-resolved TWAS.
Conditional autoregressive genomic language model trained on 13.6M mammalian promoters, scoring promoter variants, including indels, zero-shot.
Transcription factor binding site prediction in regulatory DNA from accessibility, motifs and TF expression. One fixed model covers unseen factors.
CRISPR editing outcome prediction returning a probability over the near-full indel spectrum, with few-shot transfer to new cell types and to embryos.
Protein language models that split translated algal genomes into real genes and contaminants, classifying the dark proteome without homology search.
Prokaryotic promoter design and zero-shot promoter-strength ranking from a nucleotide language model pretrained on 17,806 microbial genomes.
Genomic language model on a recurrent xLSTM backbone, with reverse-complement equivariant blocks and single-nucleotide context up to 32,768 bases.
Imaging-genetics foundation model pairing SNP genotypes with brain-MRI phenotypes by contrastive learning to surface many-to-many associations.
Metagenomic read binning from tetranucleotide k-mer profiles, using a contrastive two-layer encoder trained on split halves of unlabeled reads.
RNA language model built from bidirectional Mamba2 blocks with a flash-attention head, pretrained on 100 million sequences up to 2,048 nucleotides.
Hi-C contact map super-resolution that adds interaction frequencies imputed from DNase-seq accessibility so one cell line's model transfers to others.