MPI für molekulare Pflanzenphysiologie / Publikationen Pflanzenphysiologie |
|CSB.DB: a comprehensive systems-biology database|
|Authors:||Steinhauser, D.; Usadel, B.; Luedemann, A.; Thimm, O.; Kopka, J.|
|Date of Publication (YYYY-MM-DD):||2004|
|Title of Journal:||Bioinformatics|
|Issue / Number:||18|
|Review Status:||not specified|
|Abstract / Description:||The open access comprehensive systems-biology database (CSB.DB) presents the results of bio-statistical analyses on gene expression data in association with additional biochemical and physiological knowledge. The main aim of this database platform is to provide tools that support insight into life's complexity pyramid with a special focus on the integration of data from transcript and metabolite profiling experiments. The central part of CSB.DB, which we describe in this applications note, is a set of co-response databases that currently focus on the three key model organisms, Escherichia coli, Saccharomyces cerevisiae and Arabidopsis thaliana. CSB.DB gives easy access to the results of large-scale co-response analyses, which are currently based exclusively on the publicly available compendia of transcript profiles. By scanning for the best co-responses among changing transcript levels, CSB.DB allows to infer hypotheses on the functional interaction of genes. These hypotheses are novel and not accessible through analysis of sequence homology. The database enables the search for pairs of genes and larger units of genes, which are under common transcriptional control. In addition, statistical tools are offered to the user, which allow validation and comparison of those co-responses that were discovered by gene queries performed on the currently available set of pre-selectable datasets. [References: 24] 24|
|Free Keywords:||Escherichia-coli. Saccharomyces-cerevisiae. Gene-expression. Genome.
; Annotation. Resource. Tool.
; Multidisciplinary in Current Contents(R)/Life Sciences.
; 2005 week 05
; Reprint available from: Steinhauser D. Max Planck Inst Mol Plant Physiol,
; Muhlenberg 1, D-14476 Golm, Germany.
|External Publication Status:||published|
|Communicated by:||N. N.|
|Affiliations:||MPI für molekulare Pflanzenphysiologie/Molekulare Physiologie/AG Kopka|
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