Bibliography

[1]

Bernhard Palsson. Systems biology. Cambridge university press, 2015.

[2]

Gregory Stephanopoulos. Metabolic fluxes and metabolic engineering. Metabolic engineering, 1(1):1–11, 1999.

[3]

Ruchir A Khandelwal, Brett G Olivier, Wilfred FM Röling, Bas Teusink, and Frank J Bruggeman. Community flux balance analysis for microbial consortia at balanced growth. PloS one, 8(5):e64567, 2013.

[4]

Ali R Zomorrodi and Costas D Maranas. Optcom: a multi-level optimization framework for the metabolic modeling and analysis of microbial communities. PLoS computational biology, 8(2):e1002363, 2012.

[5]

Bernhard Ø Palsson. Systems biology: properties of reconstructed networks. Cambridge university press, 2006.

[6]

Bernhard Ø Palsson. Systems biology: simulation of dynamic network states. Cambridge University Press, 2011.

[7]

Neema Jamshidi and Bernhard Ø Palsson. Mass action stoichiometric simulation models: incorporating kinetics and regulation into stoichiometric models. Biophysical journal, 98(2):175–185, 2010.

[8]

Mohammad Mazharul Islam, Samodha C Fernando, and Rajib Saha. Metabolic modeling elucidates the transactions in the rumen microbiome and the shifts upon virome interactions. Frontiers in microbiology, 10:2412, 2019.

[9]

Jan Schellenberger, Nathan E Lewis, and Bernhard Ø Palsson. Elimination of thermodynamically infeasible loops in steady-state metabolic models. Biophysical journal, 100(3):544–553, 2011.

[10]

Hiroyuki Okano, Rutger Hermsen, and Terence Hwa. Hierarchical and simultaneous utilization of carbon substrates: mechanistic insights, physiological roles, and ecological consequences. Current opinion in microbiology, 63:172–178, 2021.