SYSTOMONAS--an integrated database for systems biology analysis of Pseudomonas.
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.
Choi
Claudia
C
Institut für Mikrobiologie, Technische Universität Braunschweig, Spielmannstrasse 7, D-38106 Braunschweig, Germany.
Münch
Richard
R
Leupold
Stefan
S
Klein
Johannes
J
Siegel
Inga
I
Thielen
Bernhard
B
Benkert
Beatrice
B
Kucklick
Martin
M
Schobert
Max
M
Barthelmes
Jens
J
Ebeling
Christian
C
Haddad
Isam
I
Scheer
Maurice
M
Grote
Andreas
A
Hiller
Karsten
K
Bunk
Boyke
B
Schreiber
Kerstin
K
Retter
Ida
I
Schomburg
Dietmar
D
Jahn
Dieter
D
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
D001426:Bacterial Proteins