ODB - Operon database

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ODB - Operon database

metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

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ODB

metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:02.717794

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odb

metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:02.717794

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Other names: ODB, odb

ODB (Operon DataBase) is a database of known operons among the many complete genomes. Additionally, putative operons that are conserved in terms of known operons are also provided. The first release of ODB conteins about 2000 known operons and 13,000 putative operons in more than 200 genomes. ODB is accessible from http://odb.kuicr.kyoto-u.ac.jp/.

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Publications:

Publications

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ODB: a database for operon organizations, 2011 update
PMID: 21051344

metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:02.717794

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• ODB: a database for operon organizations, 2011 update PubMed citations: 21.

  21 articles citing: ODB: a database for operon organizations, 2011 update

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  Combining CRISPRi and metabolomics for functional annotation of compound libraries. PMID:35194207

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  Current and Emerging Tools of Computational Biology To Improve the Detoxification of Mycotoxins. PMID:34878810

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  PRODORIC: state-of-the-art database of prokaryotic gene regulation. PMID:34850133

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  Detecting operons in bacterial genomes via visual representation learning. PMID:33483546

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  A possible universal role for mRNA secondary structure in bacterial translation revealed using a synthetic operon. PMID:32973167

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  A computational system for identifying operons based on RNA-seq data. PMID:30953757

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  Crystal structure of lipid A disaccharide synthase LpxB from Escherichia coli. PMID:29371662

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  Parkinson's disease-related DJ-1 functions in thiol quality control against aldehyde attack in vitro. PMID:28993701

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  Comprehensive classification of the PIN domain-like superfamily. PMID:28575517

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  WikiGenomes: an open web application for community consumption and curation of gene annotation data in Wikidata. PMID:28365742

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  Search for 5'-leader regulatory RNA structures based on gene annotation aided by the RiboGap database. PMID:28279853

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  FMAP: Functional Mapping and Analysis Pipeline for metagenomics and metatranscriptomics studies. PMID:27724866

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  Investigating Evolutionary Dynamics of RHA1 Operons. PMID:27398020

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  Centralizing content and distributing labor: a community model for curating the very long tail of microbial genomes. PMID:27022157

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  Systems Biology of Microbial Exopolysaccharides Production. PMID:26734603

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  The power of operon rearrangements for predicting functional associations. PMID:26199682

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  Cautions about the reliability of pairwise gene correlations based on expression data. PMID:26167162

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  Elucidation of operon structures across closely related bacterial genomes. PMID:24959722

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  DOOR 2.0: presenting operons and their functions through dynamic and integrated views. PMID:24214966

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  KEGG OC: a large-scale automatic construction of taxonomy-based ortholog clusters. PMID:23193276

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  ProOpDB: Prokaryotic Operon DataBase. PMID:22096236

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Tags

More detailed information about this field from each metasource. ×

nucleotide sequence databases

metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

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transcriptional regulator sites and transcription factors

metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

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genomics databases (non-vertebrate)

metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

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prokaryotic genome databases

metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

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gene structure

metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:02.717794

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model organisms

metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:02.717794

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database management

metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:02.717794

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gene expression

metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:02.717794

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genomics

metasource: bio.tools
version: extracted_at: 2022-11-04T11:36:02.717794

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nucleic acid sequence transcription genomics prokaryotic genome gene structure model organisms data management gene expression genomics