- Invariance and optimality in the regulation of an enzyme
Department of Biomedical Engineering, Boston University, 44 Cummington Mall, Boston, MA 02215, USA
Biol Direct 8:7. 2013
..However, even for a single reaction, there remains a fundamental disconnect between our understanding of the reaction kinetics, and the regulation of that reaction through changes in the abundance of active enzyme...
- The stubborn roots of metabolic cycles
Department of Biomedical Engineering, Boston University, Boston, MA 02215, USA
J R Soc Interface 10:20130087. 2013
..Our study illustrates how complementary feedback, from classical fields such as dynamical systems to biology and vice versa, can expose fundamental and potentially overlooked questions...
- On the stability of metabolic cycles
Bioinformatics Program, 24 Cummington st, Boston, MA, United States addresses
J Theor Biol 266:536-49. 2010
..Furthermore, our conclusions support the hypothesis that certain types of metabolic cycles may have played a role in the development of primitive metabolism despite the absence of regulatory mechanisms...
- Flux imbalance analysis and the sensitivity of cellular growth to changes in metabolite pools
Department of Biomedical Engineering, Boston University, Boston, Massachusetts, United States of America
PLoS Comput Biol 9:e1003195. 2013
..In general, these results suggest that the sensitivity of metabolic optima to violations of the steady state constraints carries biologically significant information on the processes that control intracellular metabolites in the cell. ..
- The dynamics of hybrid metabolic-genetic oscillators
Department of Biomedical Engineering, Boston University, Boston, Massachusetts 02215, USA
Chaos 23:013132. 2013
..Our results illustrate a generic pipeline for vetting the potential success of a circuit design, simply by studying the dynamics of the corresponding generalized model...
- Temporal expression-based analysis of metabolism
Sara B Collins
Program in Bioinformatics, Boston University, Boston, Massachusetts, United States of America
PLoS Comput Biol 8:e1002781. 2012
..We expect that handling such "history-dependent" sensitivities will be a major challenge in the future development of dynamic metabolic-modeling techniques...
- The average enzyme principle
Computational Biology Center, Sloan Kettering Institute for Cancer Research, New York, NY, USA
FEBS Lett 587:2891-4. 2013
..g. they belong to the same regulon. This "average enzyme principle" provides a natural methodology for jointly studying metabolism and its regulation. ..