OpDetect: A convolutional and recurrent neural network classifier for precise and sensitive operon detection from RNA-seq data.

ABSTRACT: An operon refers to a group of neighbouring genes belonging to one or more overlapping transcription units that are transcribed in the same direction and have at least one gene in common. Operons are a characteristic of prokaryotic genomes. Identifying which genes belong to the same operon facilitates understanding of gene function and regulation. There are several computational approaches for operon detection; however, many of these computational approaches have been developed for a specific target bacterium or require information only available for a restricted number of bacterial species. Here, we introduce a general method, OpDetect, that directly utilizes RNA-sequencing (RNA-seq) reads as a signal over nucleotide bases in the genome. This representation enabled us to employ a convolut

SUBMITTER: Karaji R 

PROVIDER: S-EPMC12316264 | biostudies-literature | 2025

REPOSITORIES: biostudies-literature