PlasGO: enhancing GO-based function prediction for plasmid-encoded proteins based on genetic structure.

ABSTRACT:

Background

Plasmid, as a mobile genetic element, plays a pivotal role in facilitating the transfer of traits, such as antimicrobial resistance, among the bacterial community. Annotating plasmid-encoded proteins with the widely used Gene Ontology (GO) vocabulary is a fundamental step in various tasks, including plasmid mobility classification. However, GO prediction for plasmid-encoded proteins faces 2 major challenges: the high diversity of functions and the limited availability of high-quality GO annotations.

Results

In this study, we introduce PlasGO, a tool that leverages a hierarchical architecture to predict GO terms for plasmid proteins. PlasGO utilizes a powerful protein language model to learn the local context within protein sentences and a BERT model to capture the

SUBMITTER: Ji Y 

PROVIDER: S-EPMC11659980 | biostudies-literature | 2024 Jan

REPOSITORIES: biostudies-literature