PBIP: a deep learning framework for predicting phage-bacterium interactions at the strain level.

ABSTRACT: Phage therapy has received great attention as a promising antimicrobial treatment, and its core technique, namely predicting phage-bacterium interactions (PBIs), is crucial for understanding infection mechanisms and optimizing therapeutic strategies. However, existing computational methods mainly focus on the species or higher taxonomic levels, and usually neglect the potential of deep embedding representations, limiting their ability to capture complex biological patterns inherent in sequences. This hinders the discovery of rich sequence features, and restricts the clinical application of phage therapy. To address these limitations, we propose a novel deep learning framework (called PBIP) for strain-level PBI prediction. In PBIP, we first identify strain-level interactions through biologi

SUBMITTER: Ma L 

PROVIDER: S-EPMC12694490 | biostudies-literature | 2025 Nov

REPOSITORIES: biostudies-literature