Iterative reconstruction of a global metabolic model of Acinetobacter baylyi ADP1 using high-throughput growth phenotype and gene essentiality data

doi:10.1186/1752-0509-2-85

BMC Systems Biology

Volume 2

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Durot M
Le Fèvre F
de Berardinis V
Kreimeyer A
Vallenet D
Combe C
Smidtas S
Salanoubat M
Weissenbach J
Schachter V

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Durot M
Le Fèvre F
de Berardinis V
Kreimeyer A
Vallenet D
Combe C
Smidtas S
Salanoubat M
Weissenbach J
Schachter V
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Research article

Iterative reconstruction of a global metabolic model of Acinetobacter baylyi ADP1 using high-throughput growth phenotype and gene essentiality data

Maxime Durot , François Le Fèvre , Véronique de Berardinis , Annett Kreimeyer , David Vallenet , Cyril Combe , Serge Smidtas , Marcel Salanoubat , Jean Weissenbach and Vincent Schachter

Genoscope (Commissariat à l'Energie Atomique) and UMR 8030 CNRS-Genoscope-Université d'Evry, 2 rue Gaston Crémieux, CP5706, 91057 Evry, Cedex, France

author email corresponding author email

BMC Systems Biology 2008, 2:85doi:10.1186/1752-0509-2-85


Published:	7 October 2008

Additional files

Additional file 1:

Sensitivity on GAM and NGAM parameters of growth rate predictions. This file contains two plots showing the effect of changing growth associated (GAM) and non growth associated (NGAM) maintenance parameters on quantitative growth rate predictions with iAbaylyi^v4.

Format: PDF Size: 59KB Download file

This file can be viewed with: Adobe Acrobat Reader

Additional file 2:

Genome-scale metabolic models. This file contains the description of all model versions as well as information on reactions, species, biomass precursors, modeled environments and literature references used for the model reconstruction.

Format: XLS Size: 1.6MB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 3:

Experimental data and model refinements. This file gathers the experimental results used for model refinements, the model predictions, and the corrections/interpretations associated to the inconsistent predictions.

Format: XLS Size: 857KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 4:

Determination of biomass composition of A. baylyi. This file gathers all information used to reconstruct the biomass assembly reactions in the metabolic model.

Format: XLS Size: 109KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 5:

Genome-scale metabolic model in SBML format. This file contains the latest model iAbaylyi^v4in SBML format http://www.sbml.org webcite.

Format: XML Size: 1.6MB Download file