ArticleComputational and structural biotechnology journal2022
SAPPHIRE.CNN: Implementation of dRNA-seq-driven, species-specific promoter prediction using convolutional neural networks.
Article in Computational and structural biotechnology journal, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
What it found
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Who cites it
19 citing papers in PubMed, 28 citations in OpenAlex.
- PromoterAtlas: decoding regulatory sequences across Gammaproteobacteria using a transformer model.Nature communications · 2026Article
- AnMicrobiology spectrum · 2026Article
- Screening of quorum Sensing-Dependent strong promoters in Pseudomonas bijieensis 2P24 for metabolic optimization and Recombinant protein production.World journal of microbiology & biotechnology · 2026Article
- PBP_ICBA: a prediction of bacterial promoters in specific organisms using an improved convolutional block attention module.Journal of computer-aided molecular design · 2026Article
- A fully synthetic Golden Gate assembly system for engineering aProceedings of the National Academy of Sciences of the United States of America · 2026Article
- Characterisation of the NovelInternational journal of molecular sciences · 2025Article
- Development of a markerless tool for targeted chromosome modification in the thermophilic and methylotrophic bacterium Bacillus methanolicus.Microbial cell factories · 2025Article
- Article
- The ISPpu9 insertion sequence of Pseudomonas putida KT2440 generates various circular intermediates enabling modular transposition.Nucleic acids research · 2025Article
- tRNA modification profiling reveals epitranscriptome regulatory networks in Pseudomonas aeruginosa.Nucleic acids research · 2025Article
- Deciphering the Causes of IbfA-Mediated Abortive Infection in the P22-like Phage UAB_Phi20.International journal of molecular sciences · 2025Article
- Combining diffusion and transformer models for enhanced promoter synthesis and strength prediction in deep learning.mSystems · 2025Article
- iPro-CSAF: identification of promoters based on convolutional spiking neural networks and spiking attention mechanism.PeerJ. Computer science · 2025Article
- PlzR regulates type IV pili assembly in Pseudomonas aeruginosa via PilZ binding.Nature communications · 2024Article
- The TolC and Lipopolysaccharide-SpecificPHAGE (New Rochelle, N.Y.) · 2024Article
- Article
- CDBProm: the Comprehensive Directory of Bacterial Promoters.NAR genomics and bioinformatics · 2024Article
- Exploring the transcriptional landscape of phage-host interactions using novel high-throughput approaches.Current opinion in microbiology · 2024Review
- Refining the transcriptional landscapes for distinct clades of virulent phages infectingmicroLife · 2024Article
Corrections and comments
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Authors and funding
3 authors at 3 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Data availability is a consistent bottleneck for the development of bacterial species-specific promoter prediction software. In this work we leverage genome-wide promoter datasets generated with dRNA-seq in the Gram-negative bacteria
Identifiers
What OpenQuestion holds
Registered trials
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.