ProPr54 web server: predicting σ⁵⁴ promoters and regulon with a hybrid convolutional and recurrent deep neural network.

ABSTRACT: σ⁵⁴ serves as an unconventional sigma factor with a distinct mechanism of transcription initiation, which depends on the involvement of a transcription activator. This unique sigma factor σ⁵⁴ is indispensable for orchestrating the transcription of genes crucial to nitrogen regulation, flagella biosynthesis, motility, chemotaxis and various other essential cellular processes. Currently, no comprehensive tools are available to determine σ⁵⁴ promoters and regulon in bacterial genomes. Here, we report a σ⁵⁴ promoter prediction method ProPr54, based on a convolutional neural network trained on a set of 446 validated σ⁵⁴ binding sites derived from 33 bacterial species. Model performance was tested and compared with respect to bacterial inter

SUBMITTER: Achterberg T 

PROVIDER: S-EPMC11704786 | biostudies-literature | 2025 Mar

REPOSITORIES: biostudies-literature