ArticleDatabase : the journal of biological databases and curation2020
RegulomePA: a database of transcriptional regulatory interactions in Pseudomonas aeruginosa PAO1.
Article in Database : the journal of biological databases and curation, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed, 18 citations in OpenAlex.
- Article
- Fine-tuned GPT-based foundation models effectively reconstruct bacterial transcriptional regulatory networks from literature.Frontiers in artificial intelligence · 2026Article
- ENcyclopedia of TRAnscription Factors in Bacteria and Archaea genomes (ENTRAF) version 2.0.Database : the journal of biological databases and curation · 2025Article
- Revealing gene regulation-based neural network computing in bacteria.Biophysical reports · 2023Article
- The transcriptional regulators of virulence forGenes & diseases · 2023Review
- Realizing Molecular Machine Learning through Communications for Biological AI: Future Directions and Challenges.IEEE nanotechnology magazine · 2023Article
- Machine learning from Pseudomonas aeruginosa transcriptomes identifies independently modulated sets of genes associated with known transcriptional regulators.Nucleic acids research · 2022Article
- An updated gene regulatory network reconstruction of multidrug-resistant Pseudomonas aeruginosa CCBH4851.Memorias do Instituto Oswaldo Cruz · 2022Article
- System Principles Governing the Organization, Architecture, Dynamics, and Evolution of Gene Regulatory Networks.Frontiers in bioengineering and biotechnology · 2022Article
- MvaT negatively regulates pyocin S5 expression inBiotechnology notes (Amsterdam, Netherlands) · 2022Article
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We present RegulomePA, a database that contains biological information on regulatory interactions between transcription factors (TFs), sigma factor (SFs) and target genes in Pseudomonas aeruginosa PAO1. RegulomePA consists of 4827 regulatory interactions between 2831 nodes, which represent the interactions of TFs and SFs with their target genes, from the total of predicted RegulomePA including 27.27% of the TFs, 54.16% of SFs and 50.8% of the total genes. Each entry in the database corresponds to one node in the network and provides comprehensive details about the gene and its regulatory interactions such as gene description, nucleotide sequence, genome-strand position and links to other databases as well as the type of regulation it exerts or to which it is being subject (repression or activation), the associated experimental evidence and references, and topological information. Additionally, RegulomePA provides a way to recover information on the regulatory circuits of the network to which a gene pertains and also makes available the source codes to analyze the topology of any other regulatory network. The database will be updated yearly, by our team, with the contributions from ourselves and users, since the users are provided with an interactive platform where they can add interactions to the regulatory network feeding it with their respective references. Database URL: www.regulome.pcyt.unam.mx.
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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.