ShewRegDB: a Visualization Environment for Integration of Experimental and In Silico Derived Regulatory Information in Shewanella oneidensis MR-1

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ShewRegDB: a Visualization Environment for Integration of Experimental and In Silico Derived Regulatory Information in Shewanella oneidensis MR-1

Syed, Mustafa H; Karpinets, Tatiana V; Leuze, Michael Rex; Kora, Guruprasad H; Romine, Margaret; Uberbacher, Edward C

Bioinformation, 01/2009, Volume: 4, Issue: 4

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Shewanella oneidensis MR-1 is an important model organism for environmental research as it has an exceptional metabolic and respiratory versatility regulated by a complex regulatory network. We have developed a database to collect experimental and computational data relating to regulation of gene and protein expression, and, a visualization environment that enables integration of these data types. The regulatory information in the database includes predictions of DNA regulator binding sites, sigma factor binding sites, transcription units, operons, promoters, and RNA regulators including non-coding RNAs, riboswitches, and different types of terminators.

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