The Fundamental Equations of Change in Statistical Ensembles and Biological Populations

by Steven A. Frank, Frank J. Bruggeman
Published 2020-12-01

Optimality Principles in the Regulation of Metabolic Networks

by Jan Berkhout, Frank J. Bruggeman, Bas Teusink
Published 2012-08-01

Noise management by molecular networks.

by Frank J Bruggeman, Nils Blüthgen, Hans V Westerhoff
Published 2009-09-01

StochPy: a comprehensive, user-friendly tool for simulating stochastic biological processes.

by Timo R Maarleveld, Brett G Olivier, Frank J Bruggeman
Published 2013-01-01

Effects of growth rate and promoter activity on single-cell protein expression

by Niclas Nordholt, Johan van Heerden, Remco Kort, Frank J. Bruggeman
Published 2017-07-01

Metabolic enzyme cost explains variable trade-offs between microbial growth rate and yield.

by Meike T Wortel, Elad Noor, Michael Ferris, Frank J Bruggeman, Wolfram Liebermeister
Published 2018-02-01

How molecular competition influences fluxes in gene expression networks.

by Dirk De Vos, Frank J Bruggeman, Hans V Westerhoff, Barbara M Bakker
Published 2011-01-01

Maintaining maximal metabolic flux by gene expression control.

by Robert Planqué, Josephus Hulshof, Bas Teusink, Johannes C Hendriks, Frank J Bruggeman
Published 2018-09-01

Interplay between constraints, objectives, and optimality for genome-scale stoichiometric models.

by Timo R Maarleveld, Meike T Wortel, Brett G Olivier, Bas Teusink, Frank J Bruggeman
Published 2015-04-01

Elementary Growth Modes provide a molecular description of cellular self-fabrication.

by Daan H de Groot, Josephus Hulshof, Bas Teusink, Frank J Bruggeman, Robert Planqué
Published 2020-01-01

The number of active metabolic pathways is bounded by the number of cellular constraints at maximal metabolic rates.

by Daan H de Groot, Coco van Boxtel, Robert Planqué, Frank J Bruggeman, Bas Teusink
Published 2019-03-01

Model-based quantification of metabolic interactions from dynamic microbial-community data.

by Mark Hanemaaijer, Brett G Olivier, Wilfred F M Röling, Frank J Bruggeman, Bas Teusink
Published 2017-01-01

Community flux balance analysis for microbial consortia at balanced growth.

by Ruchir A Khandelwal, Brett G Olivier, Wilfred F M Röling, Bas Teusink, Frank J Bruggeman
Published 2013-01-01

Metabolism at Evolutionary Optimal States

by Iraes Rabbers, Johan H. van Heerden, Niclas Nordholt, Herwig Bachmann, Bas Teusink, Frank J. Bruggeman
Published 2015-06-01

Multiplex Eukaryotic Transcription (In)activation: Timing, Bursting and Cycling of a Ratchet Clock Mechanism.

by Katja N Rybakova, Frank J Bruggeman, Aleksandra Tomaszewska, Martijn J Moné, Carsten Carlberg, Hans V Westerhoff
Published 2015-04-01

Unlocking Elementary Conversion Modes: ecmtool Unveils All Capabilities of Metabolic Networks

by Tom J. Clement, Erik B. Baalhuis, Bas Teusink, Frank J. Bruggeman, Robert Planqué, Daan H. de Groot
Published 2021-01-01

Systems modeling approaches for microbial community studies: From metagenomics to inference of the community structure

by Mark eHanemaaijer, Mark eHanemaaijer, Wilfred F.M. Roling, Brett G. Olivier, Ruchir A. Khandelwal, Ruchir A. Khandelwal, Bas eTeusink, Frank J Bruggeman
Published 2015-03-01

Fatal attraction in glycolysis: how Saccharomyces cerevisiae manages sudden transitions to high glucose

by Johan H. van Heerden, Meike T. Wortel, Frank J. Bruggeman, Joseph J. Heijnen, Yves J.M. Bollen, Robert Planqué, Josephus Hulshof, Tom G. O’Toole, S. Aljoscha Wahl, Bas Teusink
Published 2015-02-01

Adaption to glucose limitation is modulated by the pleotropic regulator CcpA, independent of selection pressure strength

by Claire E. Price, Filipe Branco dos Santos, Anne Hesseling, Jaakko J. Uusitalo, Herwig Bachmann, Vera Benavente, Anisha Goel, Jan Berkhout, Frank J. Bruggeman, Siewert-Jan Marrink, Manolo Montalban-Lopez, Anne de Jong, Jan Kok, Douwe Molenaar, Bert Poolman, Bas Teusink, Oscar P. Kuipers
Published 2019-01-01