Modeling Neisseria meningitidis metabolism: from genome to metabolic fluxes

doi:10.1186/gb-2007-8-7-r136

Genome Biology

Volume 8
Issue 7

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Baart GJ
Zomer B
de Haan A
van der Pol LA
Beuvery EC
Tramper J
Martens DE

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Zomer B
de Haan A
van der Pol LA
Beuvery EC
Tramper J
Martens DE
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Modeling Neisseria meningitidis metabolism: from genome to metabolic fluxes

Gino JE Baart¹^,3 , Bert Zomer¹ , Alex de Haan¹ , Leo A van der Pol¹ , E Coen Beuvery² , Johannes Tramper³ and Dirk E Martens³

¹Unit Research & Development, Netherlands Vaccine Institute (NVI), PO Box 457, 3720 AL Bilthoven, The Netherlands

²PAT Consultancy, Kerkstraat 66, 4132 BG Vianen, The Netherlands

³Food and Bioprocess Engineering Group, Wageningen University, PO Box 8129, 6700 EV Wageningen, The Netherlands

author email corresponding author email

Genome Biology 2007, 8:R136doi:10.1186/gb-2007-8-7-r136


Published:	6 July 2007

Subject areas: Microbiology and parasitology, Bioinformatics

Additional files

Additional data file 1:

The first worksheet named 'genome-scale model' includes the complete reaction database along with involved genes, enzyme numbers and metabolites. The second worksheet named 'simplified model' contains the simplified metabolic model. The third worksheet named 'abbreviations' contains a list of abbreviations of the metabolites. The fourth worksheet named 'redundancy matrix' contains the redundancy matrices of the experimental data sets. The fifth worksheet named 'measured rates, balanced rates' contains a table in which the experimental set of measured rates and balanced rates is given. In addition, the results of the statistical acceptance test are given in this table. The sixth worksheet named 'calculated fluxes' contains the calculated flux distributions of both experimental data sets using the mimimum norm constraint. The seventh worksheet named 'in silico' contains the flux distributions of the in silico experiments.

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Additional data file 2:

A detailed description of the biomass composition and and overview of the metabolites measure in the culture supernatant and off-gas.

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This file can be viewed with: Microsoft Word Viewer