Research article
Genome-scale reconstruction of the metabolic network in Staphylococcus aureus N315: an initial draft to the two-dimensional annotation
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* Corresponding author: Bernhard Ø Palsson bpalsson@be-research.ucsd.edu
Department of Bioengineering, University of California, San Diego, La Jolla, USA
BMC Microbiology 2005, 5:8 doi:10.1186/1471-2180-5-8
Published: 7 March 2005Additional files
Additional File 1:
Cellular biomass demand table This is a detailed, quantitative listing of the macromolecules required for cellular growth.
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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.
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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.
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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.
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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.
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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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