Genome-scale reconstruction of the metabolic network in Staphylococcus aureus N315: an initial draft to the two-dimensional annotation

doi:10.1186/1471-2180-5-8

BMC Microbiology

Volume 5

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Research article

Genome-scale reconstruction of the metabolic network in Staphylococcus aureus N315: an initial draft to the two-dimensional annotation

Scott A Becker and Bernhard Ø Palsson

Department of Bioengineering, University of California, San Diego, La Jolla, USA

author email corresponding author email

BMC Microbiology 2005, 5:8doi:10.1186/1471-2180-5-8


Published:	7 March 2005

Additional files

Additional File 1:

Cellular biomass demand table This is a detailed, quantitative listing of the macromolecules required for cellular growth.

Format: PDF Size: 11KB Download file

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Additional File 2:

Compound abbreviations This is a listing of the compound abbreviations used in the reconstruction and the corresponding formal compound names.

Format: PDF Size: 58KB Download file

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Additional File 3:

Dead-end reactions This is a listing of the reactions that the current version of the model will never use because they involve a dead-end metabolite.

Format: PDF Size: 47KB Download file

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Additional File 4:

Lethal reaction deletions on minimal media This is a listing of all of the reactions that are predicted to be essential for growth on minimal media and their corresponding gene associations.

Format: PDF Size: 46KB Download file

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Additional File 5:

Network reaction list This is a comprehensive list of all of the reactions that are in the model.

Format: XLS Size: 114KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional File 6:

Reactions without any gene association This is a list of the reactions that are included in the model without any gene association and rationale for their inclusion.

Format: XLS Size: 26KB Download file

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Additional File 7:

Lethal reaction deletions on rich media This is a listing of all of the reactions that are predicted to be essential for growth on rich media and their corresponding gene associations.

Format: PDF Size: 43KB Download file

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Additional File 8:

Boolean gene-reaction associations This is a listing of reaction abbreviations along with the genes that are required for those reactions, in a Boolean form.

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Additional File 9:

Reactions that were added based on systemic evidence This is a list of the reactions that were added to the reconstruction based on systemic analysis (they do not appear in an obvious fashion in the genome annotation), and the gene(s) with which they are associated in cases where a gene could be located based on homology searches.

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