RiboReport - benchmarking tools for ribosome profiling-based identification of open reading frames in bacteria.

ABSTRACT: Small proteins encoded by short open reading frames (ORFs) with 50 codons or fewer are emerging as an important class of cellular macromolecules in diverse organisms. However, they often evade detection by proteomics or in silico methods. Ribosome profiling (Ribo-seq) has revealed widespread translation in genomic regions previously thought to be non-coding, driving the development of ORF detection tools using Ribo-seq data. However, only a handful of tools have been designed for bacteria, and these have not yet been systematically compared. Here, we aimed to identify tools that use Ribo-seq data to correctly determine the translational status of annotated bacterial ORFs and also discover novel translated regions with high sensitivity. To this end, we generated a large set of annotated ORF

SUBMITTER: Gelhausen R 

PROVIDER: S-EPMC8921622 | biostudies-literature | 2022 Mar

REPOSITORIES: biostudies-literature