ArticleBMC bioinformatics2006
MycoperonDB: a database of computationally identified operons and transcriptional units in Mycobacteria.
Article in BMC bioinformatics, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed, 22 citations in OpenAlex.
- Mycobacteriaceae Phenome Atlas (MPA): A Standardized Atlas for the Mycobacteriaceae Phenome Based on Heterogeneous Sources.Phenomics (Cham, Switzerland) · 2023Article
- REMap: Operon map of M. tuberculosis based on RNA sequence data.Tuberculosis (Edinburgh, Scotland) · 2016Article
- MycoRRdb: a database of computationally identified regulatory regions within intergenic sequences in mycobacterial genomes.PloS one · 2012Article
- MyBASE: a database for genome polymorphism and gene function studies of Mycobacterium.BMC microbiology · 2009Article
- MGDD: Mycobacterium tuberculosis genome divergence database.BMC genomics · 2008Article
- GntR family of regulators in Mycobacterium smegmatis: a sequence and structure based characterization.BMC genomics · 2007Article
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundA key post genomics challenge is to identify how genes in an organism come together and perform physiological functions. An important first step in this direction is to identify transcriptional units, operons and regulons in a genome. Here we implement and report a strategy to computationally identify transcriptional units and operons of mycobacteria and construct a database-MycoperonDB. DESCRIPTION: We have predicted transcriptional units and operons in mycobacteria and organized these predictions in the form of relational database called MycoperonDB. MycoperonDB database at present consists of 18,053 genes organized as 8256 predicted operons and transcriptional units from five closely related species of mycobacteria. The database further provides literature links for experimentally characterized operons. All known promoters and related information is collected, analysed and stored. It provides a user friendly interface to allow a web based navigation of transcription units and operons. The web interface provides search tools to locate transcription factor binding DNA motif upstream to various genes. The reliability of operon prediction has been assessed by comparing the predicted operons with a set of known operons.
conclusionMycoperonDB is a publicly available structured relational database which has information about mycobacterial genes, transcriptional units and operons. We expect this database to assist molecular biologists/microbiologists in general, to hypothesize functional linkages between operonic genes of mycobacteria, their experimental characterization and validation. The database is freely available from our website http://www.cdfd.org.in/mycoperondb/index.html.
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