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Publications for Operon DataBase
OperomeDB: A Database of Condition Specific Transcription Units in Prokaryotic Genomes
[…] r comparison in the genome browser.User can also look for predicted operons in each bacterial organism marked as “NA.” These are the operons that are newly predicted in our study compared to the DOOR operon database  (). A user can go to the main page of our Graphical User Interface (GUI) and click on “Select Organism” and then it will provide the list of the entire bacterial organisms present i […]
The diversity of membrane transporters encoded in bacterial arsenic resistance operons
[…] searching the NCBI genome database (http://www.ncbi.nlm.nih.gov/sutils/genom_table.cgi). Putative ars operons (updated to October 2013) were then verified by cross-checking in the ProOpDB (predicted) operon database (http://operons.ibt.unam.mx/OperonPredictor/) (). Data from some literature-reported functional ars operons, whose host full-genome sequences are not available, were also used in this […]
The BioLexicon: a large scale terminological resource for biomedical text mining
[…] list of sources used is as follows: Gene Ontology , Cell Ontology , OMIM (Online Mendelian Inheritance in Man) , ChEBI [,], Enzyme Nomenclature , Sequence Ontology , RegulonDB , CORUM , Operon Database (ODB) , BioThesaurus , the NCBI taxonomy , InterPro , TRANSFAC  and the IMR - INOH Protein name/family name Ontology .By far the largest categories of terms are gene and pr […]
On the power and limits of evolutionary conservation—unraveling bacterial gene regulatory networks
[…] target gene start site. The software packages PoSSuMsearch () and Transitivity Clustering (,) were used for TFBS predictions and orthology detections, respectively. A disadvantage is the usage of the operon database VIMSS (). Since the update frequency is limited by technical restrictions, there is a delay for operon annotations of newly sequenced species. summarizes the results of the transfer e […]
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