PhaVIP: Phage VIrion Protein classification based on chaos game representation and Vision Transformer.

ABSTRACT:

Motivation

As viruses that mainly infect bacteria, phages are key players across a wide range of ecosystems. Analyzing phage proteins is indispensable for understanding phages' functions and roles in microbiomes. High-throughput sequencing enables us to obtain phages in different microbiomes with low cost. However, compared to the fast accumulation of newly identified phages, phage protein classification remains difficult. In particular, a fundamental need is to annotate virion proteins, the structural proteins, such as major tail, baseplate, etc. Although there are experimental methods for virion protein identification, they are too expensive or time-consuming, leaving a large number of proteins unclassified. Thus, there is a great demand to develop a computational method for fast

SUBMITTER: Shang J 

PROVIDER: S-EPMC10311294 | biostudies-literature | 2023 Jun

REPOSITORIES: biostudies-literature