Metabolic Flux Analysis

Part I. Models - Stoichiometry, Network Generation

1. Stoichiometric Modelling of Microbial Metabolism
Lars Kuepfer

2. Tapping the Wealth of Microbial Data in High-Throughput Metabolic Model Reconstruction

Ric Colasanti, Janaka N. Edirisinghe, Tahmineh Khazaei, José P. Faria, Sam Seaver, Fangfang Xia, and Christopher Henry

Part II. Thermodynamics - A Step Beyond MFA

3. Constraining the Flux Space using Thermodynamics and Integration of Metabolomics Data

Keng Cher Soh and Vassily Hatzimanikatis

4. NExT - Integration of Thermodynamic Constraints and Metabolomics Data into a Metabolic Network

Verónica Sofía Martínez and Lars Keld Nielsen

Part III. Experiments - Design Considerations, Fermentation, Analytics

5. Customization of 13C-MFA Strategy According to Cell Culture System

Lake-Ee Quek and Lars Keld Nielsen

6. Quantitative Metabolomics Using ID-MS

Aljoscha S. Wahl, Reza Maleki Seifar, Angela ten Pierick, Cor Ras, Jan van Dam, Joseph J. Heijnen, and Walter M. Van Gulik

7. Determining the Biomass Composition of a Sponge Holobiont for Flux Analysis

Jabin Watson, Bernard Degnan, Sandie Degnan, and Jens O. Krömer

8. Successful Down-Sizing for High-Throughput 13C-MFA Applications

Birgitta E. Ebert and Lars M. Blank

9. Labelling Analysis for 13C MFA Using NMR Spectroscopy

Paula Jouhten and Hannu Maaheimo

10. GC-MS Based 13C Metabolic Flux Analysis

Judith Becker and Christoph Wittman

11. Dynamic Cell Respiration & CO2 Labeling Analysis Using Membrane-Inlet Mass Spectrometry

Tae Hoon Yang

Part IV. 13C Fluxomics Data Processing

12. Correction of MS Data for Naturally Occurring Isotopes in Isotope Labelling Experiments

Pierre Millard, Fabien Letisse, Serguei Sokol, and Jean-Charles Portais

13. Steady-State 13C Fluxomics Using OpenFLUX

Lake-Ee Quek and Lars Keld Nielsen

14. Flux Visualization Using VANTED/FluxMap

Christian Krach, Astrid Junker, Hendrik Rohn, Falk Schreiber, and Björn