protein-embedding 8 machine-learning 4 representation-learning 4 language-model 3 protein-language-model 3 deep-learning 3 protein-representation-learning 3 protein 2 phage-host-prediction 2 genomics 2 bioinformatics 2 protein-structure 2 proteomics 2 protein-sequences 2 protein-modeling 2 transfer-learning 2 transformer 2 artificial-intelligence 1 sequence-embedding 1 recurrent-neural-networks 1 pytorch 1 protein-sequence 1 vocabulary 1 co-expression-network-graphs 1 embedding-models 1 gene-embedding 1 graph-attention-network 1 graph-neural-networks 1 protein-protein-interaction 1 ppi-networks 1 microenvironment 1 masked-modeling 1 codebook 1 alphafold2 1 alphafold 1 python 1 proteins 1 generative-ai 1