dr. B.M. Bakker

dr.

19982017
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Research Output 1998 2017

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2016

Attacking Blood-Borne Parasites with Mathematics

van Niekerk, D. D., Penkler, G. P., du Toit, F., Snoep, J. L., Bakker, B. M. & Haanstra, J. R., 2016, Comprehensive Analysis of Parasite Biology: From Metabolism to Drug Discovery. Muller, S., Cerdan, R., Radulescu, O. & Selzer, P. (eds.). 1 ed. Wiley-VCH Verlag GmbH & Co. KGaA, Vol. 7. p. 513 541 p.

Research output: Chapter in Book / Report / Conference proceedingChapterAcademic

2014

The silicon trypanosome: a test case of iterative model extension in systems biology.

Achcar, F., Fadda, A., Haanstra, J. R., Kerkhoven, E. J., Kim, D. H., Leroux, A. E., Papmarkou, T., Rojas, F., Bakker, B. M., Barrett, M. P., Clayton, C., Girolami, M., Krauth-Siegel, R. L., Matthews, K. R. & Breitling, R., 2014, Advance in microbial physiology. Poole, R. K. (ed.). Elsevier Ltd, p. 115-143

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

2011

Enzyme kinetics for systems biology when, why and how

Adamczyk, M., van Eunen, K., Bakker, B. M. & Westerhoff, H. V., 2011, Methods in Enzymology. Jameson, D., Verma, M. & Westerhoff, H. V. (eds.). Burlington: Academic Press, p. 233-257 (Methods in Systems Biology; no. 500).

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

From silicon cell to silicon human.

Westerhoff, H. V., Verma, M., Bruggeman, F. J., Kolodkin, A. N., Swat, M., Hayes, N., Nardelli, M., Bakker, B. M. & Snoep, J. L., 2011, BetaSys, Stystems Biology 2. Booss-Bavrbek, B., Klosgen, B., Larsen, J., Pociot, F. & Renstrom, E. (eds.). Springer Science + Business Media., p. 439-460

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

Quantitative analysis of flux regulation through hierarchical regulation analysis.

van Eunen, K., Rossell, S., Bouwman, J., Westerhoff, H. V. & Bakker, B. M., 2011, Methods in Enzymology. Jameson, D., Verma, M. & Westerhoff, H. V. (eds.). Burlington: Academic Press, p. 571-595 (Methods in Systems Biology; no. 500).

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

2010

The use of in vivo-like enzyme kinetics in a computational model of yeast glycolysis.

van Eunen, K., Kiewiet, J. A. L., Westerhoff, H. V. & Bakker, B. M., 2010, Experimental standard conditions of enzyme characterizations.. Kettner, C. & Hicks, M. G. (eds.). Rudesheim/Rhein, Germany: Beilstein Institut, p. 165-180 (September 13-16, 2009).

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

2007

A kinetic model as a tool to understand the response of Saccharomyces cerevisiae to heat exposure.

Mensonides, F. I. C., Bakker, B. M., Brul, S., Hellingwerf, K. J. & Teixeira de Mattos, M. J., 2007, Modelling microorganisms in food.. Brul, S., van Gerwen, S. & Zwietering, M. (eds.). Cambridge UK: Woodhead Publishing Limited, p. 228-245

Research output: Chapter in Book / Report / Conference proceedingChapterAcademic

Standardization and 'In-Vivo'-like enzyme activity measurements in Yeast.

Bouwman, J., van Eunen, K., Tuzun, I., Postmus, J., Canelas, A., van der Brink, J., Lindenbergh, P. A., Teixeira de Mattos, M. J., Smits, G. J., Daran-Lapujade, P. A. L., van Gulik, W. M., van Spanning, R. J. M., Heijnen, J. J., de Winde, J. H., Brul, S., Westerhoff, H. V. & Bakker, B. M., 2007, Experimental standard conditions of enzyme characterization.. Hicks, M. G. & Kettner, C. (eds.). Frankfurt Germany: Beilstein-Institut, p. 11-20 (vol 2).

Research output: Chapter in Book / Report / Conference proceedingChapterAcademic

Systems Biology and the reconstruction of the Cell: from molecular components to integral function.

Bruggeman, F. J., Rossell Aragort, S. L., van Eunen, K., Bouwman, J., Westerhoff, H. V. & Bakker, B. M., 2007, Subcellular fractionation and proteomics.. Bertrand, E. & Faupel, M. (eds.). Dordrecht The Netherlands: Springer, p. 239-262

Research output: Chapter in Book / Report / Conference proceedingChapterAcademic

2005

Introduction to computational models of biochemical reaction networks.

Bruggeman, F. J., Bakker, B. M., Hornberg, J. J. & Westerhoff, H. V., 2005, Computational Systems Biology. Kriete, A. & Eils, R. (eds.). London: Elsevier Academic Press, p. 127-148

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

2003

On the mathematical modelling of metabolic pathways and its use in the identification of the most suitable drug target.

Michels, P. A. M., Bakker, B. M., Opperdoes, F. R. & Westerhoff, H. V., 2003, Tropical disease guidelines and issues: discoveries and drug development.. Fairlamb, A. H., Ridley, R. G. & Vial, H. J. (eds.). Geneva: World Health Organization, p. 135-144

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

2000

Using metabolic control analysis to improve the selectivity and effectiviness of drugs against parasitic diseases.

Bakker, B. M., Michels, P. A. M., Walsh, M. C., Opperdoes, F. R. & Westerhoff, H. V., 2000, Technological and medical implications of metabolic control analysis.. Cornish-Bowden, A. C. & Cardenas, M. L. (eds.). Dordrecht - The Netherlands: Kluwer Academic Publishers, p. 157-164

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

1998

Metabolic control analysis reveals that glucose transport incompletely controls the glycolytic flux in Trypanosoma brucei.

Bakker, B. M., Mensonides, F. I. C., ter Kuile, B., Michels, P. A. M., Opperdoes, F. R., Westerhoff, H. V. & Walsh, M. C., 1998, BioThermoKinetics in the post Genomic Era. Larsson, C., Pahlmann, I-L. & Gustafsson, L. (eds.). Goteborg, Sweden: Chalmers, p. 66-70 402 p.

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

Regulation through moiety conservation: the role of product sensitivity in glycolysis of yeast and trypanosomes.

Teusink, B., Mensonides, F. I. C., Bakker, B. M., Walsh, M. C., Snoep, J. L., van Dam, K. & Westerhoff, H. V., 1998, BioThermoKinetics in the post Genomic Era. Larsson, C., Pahlman, I-L. & Gustafsson, L. (eds.). Goteborg - Sweden: Chalmers, p. 240-245 402 p.

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review