Deep Learning Transforms Phage-Host Interaction Discovery from Metagenomic Data.

ABSTRACT: Microbial communities are essential for sustaining ecosystem functions in diverse environments, including the human gut. Phages interact dynamically with their prokaryotic hosts and play a crucial role in shaping the structure and function of microbial communities. Previous approaches for inferring phage-host interactions (PHIs) from metagenomic data are constrained by low sensitivity and the inability to accurately capture ecological relationships. To overcome these limitations, we developed PHILM (Phage-Host Interaction Learning from Metagenomic profiles), a deep learning framework that predicts PHIs directly from the taxonomic profiles of metagenomic data. We validated PHILM on both synthetic datasets generated by ecological models and real-world data, finding that it consistently outpe

SUBMITTER: Yang Y 

PROVIDER: S-EPMC12262735 | biostudies-literature | 2025 Jun

REPOSITORIES: biostudies-literature