title: SYSTOMONAS--an integrated database for systems biology analysis of Pseudomonas.
abstract: To provide an integrated bioinformatics platform for a systems biology approach to the biology of pseudomonads in infection and biotechnology the database SYSTOMONAS (SYSTems biology of pseudOMONAS) was established. Besides our own experimental metabolome, proteome and transcriptome data, various additional predictions of cellular processes, such as gene-regulatory networks were stored. Reconstruction of metabolic networks in SYSTOMONAS was achieved via comparative genomics. Broad data integration is realized using SOAP interfaces for the well established databases BRENDA, KEGG and PRODORIC. Several tools for the analysis of stored data and for the visualization of the corresponding results are provided, enabling a quick understanding of metabolic pathways, genomic arrangements or promoter structures of interest. The focus of SYSTOMONAS is on pseudomonads and in particular Pseudomonas aeruginosa, an opportunistic human pathogen. With this database we would like to encourage the Pseudomonas community to elucidate cellular processes of interest using an integrated systems biology strategy. The database is accessible at http://www.systomonas.de.
authors.affiliation: Institut für Mikrobiologie, Technische Universität Braunschweig, Spielmannstrasse 7, D-38106 Braunschweig, Germany.
authors.forename: Claudia
authors.initials: C
authors.lastname: Choi
authors.forename: Richard
authors.initials: R
authors.lastname: Münch
authors.forename: Stefan
authors.initials: S
authors.lastname: Leupold
authors.forename: Johannes
authors.initials: J
authors.lastname: Klein
authors.forename: Inga
authors.initials: I
authors.lastname: Siegel
authors.forename: Bernhard
authors.initials: B
authors.lastname: Thielen
authors.forename: Beatrice
authors.initials: B
authors.lastname: Benkert
authors.forename: Martin
authors.initials: M
authors.lastname: Kucklick
authors.forename: Max
authors.initials: M
authors.lastname: Schobert
authors.forename: Jens
authors.initials: J
authors.lastname: Barthelmes
authors.forename: Christian
authors.initials: C
authors.lastname: Ebeling
authors.forename: Isam
authors.initials: I
authors.lastname: Haddad
authors.forename: Maurice
authors.initials: M
authors.lastname: Scheer
authors.forename: Andreas
authors.initials: A
authors.lastname: Grote
authors.forename: Karsten
authors.initials: K
authors.lastname: Hiller
authors.forename: Boyke
authors.initials: B
authors.lastname: Bunk
authors.forename: Kerstin
authors.initials: K
authors.lastname: Schreiber
authors.forename: Ida
authors.initials: I
authors.lastname: Retter
authors.forename: Dietmar
authors.initials: D
authors.lastname: Schomburg
authors.forename: Dieter
authors.initials: D
authors.lastname: Jahn
mesh_terms: D001426:Bacterial Proteins / Q000145:classification / Q000235:genetics / Q000502:physiology; D003628:Database Management Systems; D030541:Databases, Genetic; D053263:Gene Regulatory Networks; D016680:Genome, Bacterial; D023281:Genomics; D020407:Internet; D053858:Metabolic Networks and Pathways; D011549:Pseudomonas / Q000235:genetics* / Q000378:metabolism; D011552:Pseudomonas Infections / Q000382:microbiology; D049490:Systems Biology; D018511:Systems Integration; D014584:User-Computer Interface
chemical_list: D001426:Bacterial Proteins