ArticleGenome biology2021
Promotech: a general tool for bacterial promoter recognition.
Article in Genome biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Who cites it
33 citing papers in PubMed.
- Structural and genetic dissection of RNA-guided gene repression by TnpB-derived transcription factors.bioRxiv : the preprint server for biology · 2026Article
- Core elements play distinct roles in promoter birth and transcriptional regulation.Nature communications · 2026Article
- Specific and broad-spectrum antibacterial effectors of type VI secretion system drive competition ofMicrobiology spectrum · 2026Article
- Small regulatory RNAs modulate lactococcal susceptibility to cell wall-targeting antimicrobials.Nucleic acids research · 2026Article
- Hybrid metabolic engineering enables xylose-driven co-production of polyhydroxybutyrate and violacein in Escherichia coli.Journal of biological engineering · 2026Article
- Genome-wide association study of Mycoplasma anserisalpingitidis strains for antibiotic susceptibility.Scientific reports · 2026Article
- Article
- Identification of strong constitutive promoters in Burkholderia stagnalis TBRC 18363 for activating natural product production in Gram-negative bacteria.Applied microbiology and biotechnology · 2025Article
- Development of a semi-endogenous PRT-based expression system for Methylotuvimicrobium alcaliphilum and its application to enhance 3-hydroxybutyric acid production from methanol.Journal of biological engineering · 2025Review
- Unraveling the start element and regulatory divergence of core promoters across the domain bacteria.Nucleic acids research · 2025Article
- Dynamic regulation of iturin production via reconstructing the quorum-sensing system ComQXPA in Bacillus subtilis.World journal of microbiology & biotechnology · 2025Article
- Negative dataset selection impacts machine learning-based predictors for multiple bacterial species promoters.Bioinformatics (Oxford, England) · 2025Article
- Mutations in Gordonia amarae mycolic acid biosynthetic pathway confer resistance to Patescibacteria parasite Mycosynbacter amalyticus.Nature communications · 2025Article
- ProPr54 web server: predicting σNAR genomics and bioinformatics · 2025Article
- BacTermFinder: a comprehensive and general bacterial terminator finder using a CNN ensemble.NAR genomics and bioinformatics · 2025Article
- Article
- Article
- Identification of Small RNAs inInternational journal of molecular sciences · 2024Article
- Predicting Promoters in Multiple Prokaryotes with Prompt.Interdisciplinary sciences, computational life sciences · 2024Article
- TSS-Captur: a user-friendly pipeline for characterizing unclassified RNA transcripts.NAR genomics and bioinformatics · 2024Article
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Promoters are genomic regions where the transcription machinery binds to initiate the transcription of specific genes. Computational tools for identifying bacterial promoters have been around for decades. However, most of these tools were designed to recognize promoters in one or few bacterial species. Here, we present Promotech, a machine-learning-based method for promoter recognition in a wide range of bacterial species. We compare Promotech's performance with the performance of five other promoter prediction methods. Promotech outperforms these other programs in terms of area under the precision-recall curve (AUPRC) or precision at the same level of recall. Promotech is available at https://github.com/BioinformaticsLabAtMUN/PromoTech .
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.