ArticleScientific data2020
CoryneRegNet 7, the reference database and analysis platform for corynebacterial gene regulatory networks.
Article in Scientific data, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 49 citations in OpenAlex.
- Time-resolved transcriptomics reveals mechanisms of acute and sustained low-pH adaptation inSynthetic and systems biotechnology · 2026Article
- DDTRN: predicting bacterial transcriptional regulatory networks based on gene sequences using dual descriptor.Briefings in bioinformatics · 2026Article
- Ligify 2.0: a web server for predicted small molecule biosensors.Nucleic acids research · 2026Article
- groovDB in 2026: a community-editable database of small molecule biosensors.Nucleic acids research · 2026Article
- Elucidating the Mechanism of Temporal Adaptation to Hydrogen Peroxide-Induced Oxidative Stress in Corynebacterium glutamicum.Microbial biotechnology · 2025Article
- Biological Switches: Past and Future Milestones of Transcription Factor-Based Biosensors.ACS synthetic biology · 2025Review
- A genome-reduced Corynebacterium glutamicum derivative discloses a hidden pathway relevant for 1,2-propanediol production.Microbial cell factories · 2024Article
- RegulonDB v12.0: a comprehensive resource of transcriptional regulation in E. coli K-12.Nucleic acids research · 2024Article
- Competition and evolutionary selection among core regulatory motifs in gene expression control.Nature communications · 2023Article
- GroovDB: A Database of Ligand-Inducible Transcription Factors.ACS synthetic biology · 2022Article
- A manually curated compendium of expression profiles for the microbial cell factory Corynebacterium glutamicum.Scientific data · 2022Article
- Bacterial Transcriptional Regulators: A Road Map for Functional, Structural, and Biophysical Characterization.International journal of molecular sciences · 2022Review
- PRODORIC: state-of-the-art database of prokaryotic gene regulation.Nucleic acids research · 2022Article
- Transcriptional Regulation of the Creatine Utilization Genes ofFrontiers in bioengineering and biotechnology · 2022Article
- System Principles Governing the Organization, Architecture, Dynamics, and Evolution of Gene Regulatory Networks.Frontiers in bioengineering and biotechnology · 2022Article
- Article
- The Transcriptional Regulatory Network ofMicroorganisms · 2021Review
- An Integrated Database of Small RNAs and Their Interplay With Transcriptional Gene Regulatory Networks in Corynebacteria.Frontiers in microbiology · 2021Article
- On the Consistency between Gene Expression and the Gene Regulatory Network ofNetwork and systems medicine · 2021Article
- CoryneRegNet 7, the reference database and analysis platform for corynebacterial gene regulatory networks.Scientific data · 2020Article
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Authors and funding
7 authors at 3 institutions in 2 countries.
Funding
Abstract
We present the newest version of CoryneRegNet, the reference database for corynebacterial regulatory interactions, available at www.exbio.wzw.tum.de/coryneregnet/. The exponential growth of next-generation sequencing data in recent years has allowed a better understanding of bacterial molecular mechanisms. Transcriptional regulation is one of the most important mechanisms for bacterial adaptation and survival. These mechanisms may be understood via an organism's network of regulatory interactions. Although the Corynebacterium genus is important in medical, veterinary and biotechnological research, little is known concerning the transcriptional regulation of these bacteria. Here, we unravel transcriptional regulatory networks (TRNs) for 224 corynebacterial strains by utilizing genome-scale transfer of TRNs from four model organisms and assigning statistical significance values to all predicted regulations. As a result, the number of corynebacterial strains with TRNs increased twenty times and the back-end and front-end were reimplemented to support new features as well as future database growth. CoryneRegNet 7 is the largest TRN database for the Corynebacterium genus and aids in elucidating transcriptional mechanisms enabling adaptation, survival and infection.
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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.