Unknown

Dataset Information

0

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


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.

SUBMITTER: Thiele I 

PROVIDER: S-EPMC3032673 | BioStudies | 2011-01-01

REPOSITORIES: biostudies

Similar Datasets

2015-07-30 | MODEL1507180017 | BioModels
1000-01-01 | S-EPMC2874806 | BioStudies
2013-01-01 | S-EPMC3547367 | BioStudies
2018-11-05 | GSE121717 | GEO
2018-11-05 | GSE121722 | GEO
2018-11-05 | GSE121720 | GEO
2018-01-01 | S-EPMC6237369 | BioStudies
2020-01-01 | S-EPMC7145653 | BioStudies
2018-11-05 | GSE121721 | GEO
2019-06-20 | GSE133040 | GEO