title: SubtiWiki--a comprehensive community resource for the model organism Bacillus subtilis.
abstract: In the post-genomic era, most components of a cell are known and they can be quantified by large-scale functional genomics approaches. However, genome annotation is the bottleneck that hampers our understanding of living cells and organisms. Up-to-date functional annotation is of special importance for model organisms that provide a frame of reference for studies with other relevant organisms. We have generated a Wiki-type database for the Gram-positive model bacterium Bacillus subtilis, SubtiWiki (http://subtiwiki.uni-goettingen.de/). This Wiki is centered around the individual genes and gene products of B. subtilis and provides information on each aspect of gene function and expression as well as protein activity and its control. SubtiWiki is accompanied by two companion databases SubtiPathways and SubtInteract that provide graphical representations of B. subtilis metabolism and its regulation and of protein-protein interactions, respectively. The diagrams of both databases are easily navigatable using the popular Google maps API, and they are extensively linked with the SubtiWiki gene pages. Moreover, each gene/gene product was assigned to one or more functional categories and transcription factor regulons. Pages for the specific categories and regulons provide a rapid overview of functionally related genes/proteins. Today, SubtiWiki can be regarded as one of the most complete inventories of knowledge on a living organism in one single resource.
authors.affiliation: Interfaculty Institute for Genetics and Functional Genomics, Ernst-Moritz-Arndt-University Greifswald, Jahnstr 15, D-17487 Greifswald, Germany.
authors.forename: Ulrike
authors.initials: U
authors.lastname: Mäder
authors.forename: Arne G
authors.initials: AG
authors.lastname: Schmeisky
authors.forename: Lope A
authors.initials: LA
authors.lastname: Flórez
authors.forename: Jörg
authors.initials: J
authors.lastname: Stülke
mesh_terms: D001412:Bacillus subtilis / Q000235:genetics* / Q000378:metabolism; D001426:Bacterial Proteins / Q000235:genetics; D030541:Databases, Genetic; D005798:Genes, Bacterial; D020407:Internet; D008954:Models, Biological; D058977:Molecular Sequence Annotation; D025941:Protein Interaction Mapping; D018085:Regulon; D014157:Transcription Factors / Q000378:metabolism
chemical_list: D001426:Bacterial Proteins; D014157:Transcription Factors
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