GOPhage: protein function annotation for bacteriophages by integrating the genomic context.

ABSTRACT: Bacteriophages are viruses that target bacteria, playing a crucial role in microbial ecology. Phage proteins are important in understanding phage biology, such as virus infection, replication, and evolution. Although a large number of new phages have been identified via metagenomic sequencing, many of them have limited protein function annotation. Accurate function annotation of phage proteins presents several challenges, including their inherent diversity and the scarcity of annotated ones. Existing tools have yet to fully leverage the unique properties of phages in annotating protein functions. In this work, we propose a new protein function annotation tool for phages by leveraging the modular genomic structure of phage genomes. By employing embeddings from the latest protein foundation

SUBMITTER: Guan J 

PROVIDER: S-EPMC11751364 | biostudies-literature | 2024 Nov

REPOSITORIES: biostudies-literature