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BMC Syst Biol. 2011 Jan 18;5:8. doi: 10.1186/1752-0509-5-8.

A community effort towards a knowledge-base and mathematical model of the human pathogen Salmonella Typhimurium LT2.

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  • 1Center for Systems Biology, University of Iceland, Reykjavik, Iceland.

Abstract

BACKGROUND:

Metabolic reconstructions (MRs) are common denominators in systems biology and represent biochemical, genetic, and genomic (BiGG) knowledge-bases for target organisms by capturing currently available information in a consistent, structured manner. Salmonella enterica subspecies I serovar Typhimurium is a human pathogen, causes various diseases and its increasing antibiotic resistance poses a public health problem.

RESULTS:

Here, we describe a community-driven effort, in which more than 20 experts in S. Typhimurium biology and systems biology collaborated to reconcile and expand the S. Typhimurium BiGG knowledge-base. The consensus MR was obtained starting from two independently developed MRs for S. Typhimurium. Key results of this reconstruction jamboree include i) development and implementation of a community-based workflow for MR annotation and reconciliation; ii) incorporation of thermodynamic information; and iii) use of the consensus MR to identify potential multi-target drug therapy approaches.

CONCLUSION:

Taken together, with the growing number of parallel MRs a structured, community-driven approach will be necessary to maximize quality while increasing adoption of MRs in experimental design and interpretation.

PMID:
21244678
[PubMed - indexed for MEDLINE]
PMCID:
PMC3032673
Free PMC Article

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