ArticleNucleic acids research2022
PRODORIC: state-of-the-art database of prokaryotic gene regulation.
Article in Nucleic acids research, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
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Who cites it
54 citing papers in PubMed.
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- A transcriptional biosensor reveals mechanisms of α-ketoglutarate signaling to chromatin.Science (New York, N.Y.) · 2026Article
- COMMBAT: a web platform for exploring expression control of biosynthetic gene clusters.Nucleic acids research · 2026Article
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- groovDB in 2026: a community-editable database of small molecule biosensors.Nucleic acids research · 2026Article
- Characterization of YhcN in stress adaptation and its complex transcriptional regulation by SlyA inFrontiers in cellular and infection microbiology · 2026Article
- Manganese homeostasis supportsCurrent research in microbial sciences · 2026Article
- Carbon source-driven downregulation of the sRNA AmiL enhancesVirulence · 2025Article
- Two-Component Systems inVeterinary sciences · 2025Review
- Predicting input signals of transcription factors in Escherichia coli.Molecular systems biology · 2025Article
- Phylogenetic Studies on Taurine Dioxygenase (TauD).Current microbiology · 2025Article
- Genome-resolved transcriptomics reveals novel PCE-dehalogenating bacteria from Aarhus Bay sediments.mSystems · 2025Article
- Discovery of Diverse CRISPR Leader Motifs, Putative Functions, and Applications for Enhanced CRISPR Detection and Subtype Annotation.The CRISPR journal · 2025Article
- ProPr54 web server: predicting σNAR genomics and bioinformatics · 2025Article
- Computational inference of Rhizobium phaseoli transcriptional regulatory network predicts Transcription Factors involved in nodulation.Briefings in functional genomics · 2025Article
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
PRODORIC is worldwide one of the largest collections of prokaryotic transcription factor binding sites from multiple bacterial sources with corresponding interpretation and visualization tools. With the introduction of PRODORIC2 in 2017, the transition to a modern web interface and maintainable backend was started. With this latest PRODORIC release the database backend is now fully API-based and provides programmatical access to the complete PRODORIC data. The visualization tools Genome Browser and ProdoNet from the original PRODORIC have been reintroduced and were integrated into the PRODORIC website. Missing input and output options from the original Virtual Footprint were added again for position weight matrix pattern-based searches. The whole PRODORIC dataset was reannotated. Every transcription factor binding site was re-evaluated to increase the overall database quality. During this process, additional parameters, like bound effectors, regulation type and different types of experimental evidence have been added for every transcription factor. Additionally, 109 new transcription factors and 6 new organisms have been added. PRODORIC is publicly available at https://www.prodoric.de.
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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.