Systems Bioinformatics

Research output

Research output per year 2009 2021

• 73 Article
• 3 Review article
• 2 Chapter
• 2 Conference contribution
• 6 More
  • 2 PhD Thesis - Research VU Amsterdam, graduation VU Amsterdam
  • 1 Editorial
  • 1 Erratum
  • 1 Letter
  • 1 Short survey

Research output per year

Research output per year

Search results

• 2021

  Dynamic co-culture metabolic models reveal the fermentation dynamics, metabolic capacities and interplays of cheese starter cultures

  Özcan, E., Seven, M., Şirin, B., Çakır, T., Nikerel, E., Teusink, B. & Toksoy Öner, E., Jan 2021, In : Biotechnology and Bioengineering. 118, 1, p. 223-237 15 p.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Cheeses
  • Cheese
  • Starters
  • Fermentation
  • Coculture Techniques

• Metabolic cooperation and spatiotemporal niche partitioning in a kefir microbial community

  Blasche, S., Kim, Y., Mars, R. A. T., Machado, D., Maansson, M., Kafkia, E., Milanese, A., Zeller, G., Teusink, B., Nielsen, J., Benes, V., Neves, R., Sauer, U. & Patil, K. R., Feb 2021, In : NATURE MICROBIOLOGY. 6, 2, p. 196-208 13 p.

  Research output: Contribution to Journal › Article › Academic › peer-review

  • Kefir
  • Microbiota
  • Milk
  • kefir grain polysaccharide
  • Lactic Acid

• Protein cost allocation explains metabolic strategies in Escherichia coli

  Grigaitis, P., Olivier, B. G., Fiedler, T., Teusink, B., Kummer, U. & Veith, N., 10 Feb 2021, In : Journal of Biotechnology. 327, p. 54-63 10 p.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Cost Allocation
  • Escherichia coli
  • Proteins
  • Genome
  • Metabolism

• Serial propagation in water-in-oil emulsions selects for Saccharomyces cerevisiae strains with a reduced cell size or an increased biomass yield on glucose

  van Tatenhove-Pel, R. J., Zwering, E., Boreel, D. F., Falk, M., van Heerden, J. H., Kes, M. B. M. J., Kranenburg, C. I., Botman, D., Teusink, B. & Bachmann, H., 5 Jan 2021, In : Metabolic Engineering. 64, p. 1-14 14 p.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Biomass
  • Yeast
  • Glucose
  • Emulsions
  • Cell Size

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

  Clement, T. J., Baalhuis, E. B., Teusink, B., Bruggeman, F. J., Planqué, R. & de Groot, D. H., 8 Jan 2021, In : Patterns. 2, 1, 100177.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Organism
  • Computational Methods
  • Nutrients
  • Fitness
  • Pathway
• 2020

  An Improved ATP FRET Sensor for Yeast Shows Heterogeneity during Nutrient Transitions

  Botman, D., Van Heerden, J. H. & Teusink, B., 27 Mar 2020, In : ACS Sensors. 5, 3, p. 814-822 9 p.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Forster resonance energy transfer
  • adenosines
  • nutrients
  • Nutrients
  • yeast

• A proteome-integrated, carbon source dependent genetic regulatory network in Saccharomyces cerevisiae

  Garcia-Albornoz, M., Holman, S. W., Antonisse, T., Daran-Lapujade, P., Teusink, B., Beynon, R. J. & Hubbard, S. J., Feb 2020, In : Molecular Omics. 16, 1, p. 59-72 14 p.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Yeast
  • Proteome
  • Carbon
  • Saccharomyces cerevisiae
  • Proteomics

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

  de Groot, D. H., Hulshof, J., Teusink, B., Bruggeman, F. J. & Planqué, R., 1 Jan 2020, In : PLoS Computational Biology. 16, 1, e1007559.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Fabrication
  • phenotype
  • Phenotype
  • Growth
  • Metabolism

• Enhancement of amino acid production and secretion by Lactococcus lactis using a droplet-based biosensing and selection system

  Hernandez-Valdes, J. A., aan de Stegge, M., Hermans, J., Teunis, J., van Tatenhove-Pel, R. J., Teusink, B., Bachmann, H. & Kuipers, O. P., Dec 2020, In : Metabolic Engineering Communications. 11, e00133.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Lactococcus lactis
  • Amino acids
  • Amino Acids
  • Biosensing Techniques
  • Peptides

• Lifestyle, metabolism and environmental adaptation in Lactococcus lactis

  Kleerebezem, M., Bachmann, H., van Pelt-KleinJan, E., Douwenga, S., Smid, E. J., Teusink, B. & van Mastrigt, O., 24 Nov 2020, In : FEMS Microbiology Reviews. 44, 6, p. 804-820 17 p.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Lactococcus lactis
  • Lactobacillales
  • Life Style
  • Bacterial Physiological Phenomena
  • Cheese

• MEMOTE for standardized genome-scale metabolic model testing

  Lieven, C., Beber, M. E., Olivier, B. G., Bergmann, F. T., Ataman, M., Babaei, P., Bartell, J. A., Blank, L. M., Chauhan, S., Correia, K., Diener, C., Dräger, A., Ebert, B. E., Edirisinghe, J. N., Faria, J. P., Feist, A. M., Fengos, G., Fleming, R. M. T., García-Jiménez, B., Hatzimanikatis, V. & 49 others, van Helvoirt, W., Henry, C. S., Hermjakob, H., Herrgård, M. J., Kaafarani, A., Kim, H. U., King, Z., Klamt, S., Klipp, E., Koehorst, J. J., König, M., Lakshmanan, M., Lee, D. Y., Lee, S. Y., Lee, S., Lewis, N. E., Liu, F., Ma, H., Machado, D., Mahadevan, R., Maia, P., Mardinoglu, A., Medlock, G. L., Monk, J. M., Nielsen, J., Nielsen, L. K., Nogales, J., Nookaew, I., Palsson, B. O., Papin, J. A., Patil, K. R., Poolman, M., Price, N. D., Resendis-Antonio, O., Richelle, A., Rocha, I., Sánchez, B. J., Schaap, P. J., Malik Sheriff, R. S., Shoaie, S., Sonnenschein, N., Teusink, B., Vilaça, P., Vik, J. O., Wodke, J. A. H., Xavier, J. C., Yuan, Q., Zakhartsev, M. & Zhang, C., 1 Mar 2020, In : Nature Biotechnology. 38, 3, p. 272-276 5 p.

  Research output: Contribution to Journal › Letter › Academic › peer-review

  Open Access

• Microbial competition reduces metabolic interaction distances to the low µm-range

  van Tatenhove-Pel, R. J., Rijavec, T., Lapanje, A., van Swam, I., Zwering, E., Hernandez-Valdes, J. A., Kuipers, O. P., Picioreanu, C., Teusink, B. & Bachmann, H., 2020, (Accepted/In press) In : ISME Journal.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • microbial competition
  • metabolite
  • cell
  • metabolites
  • Ecosystem

• Microdroplet screening and selection for improved microbial production of extracellular compounds

  van Tatenhove-Pel, R. J., Hernandez-Valdes, J. A., Teusink, B., Kuipers, O. P., Fischlechner, M. & Bachmann, H., Feb 2020, In : Current Opinion in Biotechnology. 61, p. 72-81 10 p.

  Research output: Contribution to Journal › Review article › Academic › peer-review

  Open Access

  • Fermentation
  • Screening
  • Emulsions
  • Oils
  • Industry

• Publisher Correction: MEMOTE for standardized genome-scale metabolic model testing (Nature Biotechnology, (2020), 38, 3, (272-276), 10.1038/s41587-020-0446-y)

  Lieven, C., Beber, M. E., Olivier, B. G., Bergmann, F. T., Ataman, M., Babaei, P., Bartell, J. A., Blank, L. M., Chauhan, S., Correia, K., Diener, C., Dräger, A., Ebert, B. E., Edirisinghe, J. N., Faria, J. P., Feist, A. M., Fengos, G., Fleming, R. M. T., García-Jiménez, B., Hatzimanikatis, V. & 49 others, van Helvoirt, W., Henry, C. S., Hermjakob, H., Herrgård, M. J., Kaafarani, A., Kim, H. U., King, Z., Klamt, S., Klipp, E., Koehorst, J. J., König, M., Lakshmanan, M., Lee, D. Y., Lee, S. Y., Lee, S., Lewis, N. E., Liu, F., Ma, H., Machado, D., Mahadevan, R., Maia, P., Mardinoglu, A., Medlock, G. L., Monk, J. M., Nielsen, J., Nielsen, L. K., Nogales, J., Nookaew, I., Palsson, B. O., Papin, J. A., Patil, K. R., Poolman, M., Price, N. D., Resendis-Antonio, O., Richelle, A., Rocha, I., Sánchez, B. J., Schaap, P. J., Sheriff, R. S. M., Shoaie, S., Sonnenschein, N., Teusink, B., Vilaça, P., Vik, J. O., Wodke, J. A. H., Xavier, J. C., Yuan, Q., Zakhartsev, M. & Zhang, C., 1 Apr 2020, In : Nature Biotechnology. 38, 4, p. 1-1 1 p.

  Research output: Contribution to Journal › Erratum › Academic

  Open Access

  • Biotechnology
  • Genes
  • Genome
  • Testing

• Quantitative analysis of amino acid metabolism in liver cancer links glutamate excretion to nucleotide synthesis

  Nilsson, A., Haanstra, J. R., Engqvist, M., Gerding, A., Bakker, B. M., Klingmüller, U., Teusink, B. & Nielsen, J., 12 May 2020, In : Proceedings of the National Academy of Sciences of the United States of America. 117, 19, p. 10294-10304 11 p.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Liver Neoplasms
  • Glutamic Acid
  • Glutamine
  • Nucleotides
  • Amino Acids

• SBML Level 3: an extensible format for the exchange and reuse of biological models

  Keating, S. M., Waltemath, D., König, M., Zhang, F., Dräger, A., Chaouiya, C., Bergmann, F. T., Finney, A., Gillespie, C. S., Helikar, T., Hoops, S., Malik-Sheriff, R. S., Moodie, S. L., Moraru, I. I., Myers, C. J., Naldi, A., Olivier, B. G., Sahle, S., Schaff, J. C., Smith, L. P. & 121 others, Swat, M. J., Thieffry, D., Watanabe, L., Wilkinson, D. J., Blinov, M. L., Begley, K., Faeder, J. R., Gómez, H. F., Hamm, T. M., Inagaki, Y., Liebermeister, W., Lister, A. L., Lucio, D., Mjolsness, E., Proctor, C. J., Raman, K., Rodriguez, N., Shaffer, C. A., Shapiro, B. E., Stelling, J., Swainston, N., Tanimura, N., Wagner, J., Meier-Schellersheim, M., Sauro, H. M., Palsson, B., Bolouri, H., Kitano, H., Funahashi, A., Hermjakob, H., Doyle, J. C., Hucka, M., Adams, R. R., Allen, N. A., Angermann, B. R., Antoniotti, M., Bader, G. D., Červený, J., Courtot, M., Cox, C. D., Dalle Pezze, P., Demir, E., Denney, W. S., Dharuri, H., Dorier, J., Drasdo, D., Ebrahim, A., Eichner, J., Elf, J., Endler, L., Evelo, C. T., Flamm, C., Fleming, R. M. T., Fröhlich, M., Glont, M., Gonçalves, E., Golebiewski, M., Grabski, H., Gutteridge, A., Hachmeister, D., Harris, L. A., Heavner, B. D., Henkel, R., Hlavacek, W. S., Hu, B., Hyduke, D. R., de Jong, H., Juty, N., Karp, P. D., Karr, J. R., Kell, D. B., Keller, R., Kiselev, I., Klamt, S., Klipp, E., Knüpfer, C., Kolpakov, F., Krause, F., Kutmon, M., Laibe, C., Lawless, C., Li, L., Loew, L. M., Machne, R., Matsuoka, Y., Mendes, P., Mi, H., Mittag, F., Monteiro, P. T., Natarajan, K. N., Nielsen, P. M. F., Nguyen, T., Palmisano, A., Pettit, J. B., Pfau, T., Phair, R. D., Radivoyevitch, T., Rohwer, J. M., Ruebenacker, O. A., Saez-Rodriguez, J., Scharm, M., Schmidt, H., Schreiber, F., Schubert, M., Schulte, R., Sealfon, S. C., Smallbone, K., Soliman, S., Stefan, M. I., Sullivan, D. P., Takahashi, K., Teusink, B., Tolnay, D., Vazirabad, I., von Kamp, A., Wittig, U., Wrzodek, C., Wrzodek, F., Xenarios, I., Zhukova, A. & Zucker, J., 1 Aug 2020, In : Molecular Systems Biology. 16, 8, p. 1-21 21 p., e9110.

  Research output: Contribution to Journal › Review article › Academic › peer-review

  Open Access

  • Reuse
  • Biological Models
  • biological models
  • Markup languages
  • Systems Biology

• Searching for principles of microbial physiology

  Bruggeman, F. J., Planqué, R., Molenaar, D. & Teusink, B., 24 Nov 2020, In : FEMS Microbiology Reviews. 44, 6, p. 821-844 24 p.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Growth
  • Adenosine Triphosphate
  • Biochemistry
  • Cost-Benefit Analysis
  • Proteins

• The common message of constraint-based optimization approaches: overflow metabolism is caused by two growth-limiting constraints

  de Groot, D. H., Lischke, J., Muolo, R., Planqué, R., Bruggeman, F. J. & Teusink, B., 1 Feb 2020, In : Cellular and Molecular Life Sciences. 77, 3, p. 441-453 13 p.

  Research output: Contribution to Journal › Review article › Academic › peer-review

  Open Access

  • Growth
  • Metabolic Networks and Pathways
  • Saccharomyces cerevisiae
  • Theoretical Models
  • Adenosine Triphosphate
• 2019

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

  Price, C. E., Branco Dos Santos, F., Hesseling, A., Uusitalo, J. J., Bachmann, H., Benavente, V., Goel, A., Berkhout, J., Bruggeman, F. J., Marrink, S. J., Montalban-Lopez, M., De Jong, A., Kok, J., Molenaar, D., Poolman, B., Teusink, B. & Kuipers, O. P., 10 Jan 2019, In : BMC Evolutionary Biology. 19, 1, p. 1-15 15 p., 15.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • selection pressure
  • strength (mechanics)
  • glucose
  • mutation
  • fitness

• A genome-scale metabolic network of the aroma bacterium Leuconostoc mesenteroides subsp. cremoris

  Özcan, E., Selvi, S. S., Nikerel, E., Teusink, B., Toksoy Öner, E. & Çakır, T., 1 Apr 2019, In : Applied Microbiology and Biotechnology. 103, p. 3153-3165 13 p.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  File

  • Leuconostoc mesenteroides
  • Citric Acid
  • Odorants
  • Metabolic Networks and Pathways
  • Genome
  43 Downloads (Pure)

• A systematic assessment of current genome-scale metabolic reconstruction tools

  Mendoza, S. N., Olivier, B. G., Molenaar, D. & Teusink, B., 7 Aug 2019, In : Genome Biology. 20, 1, 158.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • genome
  • Software
  • Genome
  • software
  • Pseudomonas putida

• Finding functional differences between species in a microbial community: Case studies in wine fermentation and Kefir culture

  Melkonian, C., Gottstein, W., Blasche, S., Kim, Y., Abel-Kistrup, M., Swiegers, H., Saerens, S., Edwards, N., Patil, K. R., Teusink, B. & Molenaar, D., 25 Jun 2019, In : Frontiers in Microbiology. 10, JUNE, p. 1-14 14 p., 01347.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Kefir
  • Wine
  • Fermentation
  • Microbiota
  • Metagenomics

• Genome-Scale Metabolic Reconstruction of Acetobacter pasteurianus 386B, a Candidate Functional Starter Culture for Cocoa Bean Fermentation

  Pelicaen, R., Gonze, D., Teusink, B., De Vuyst, L. & Weckx, S., 5 Dec 2019, In : Frontiers in Microbiology. 10, 2801.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Acetobacter
  • Fermentation
  • Genome
  • Genomics
  • Metabolic Networks and Pathways

• Metabolomics: From Method Development to System Biology

  Krumpochova, P., 2019, 215 p.

  Research output: PhD Thesis › PhD Thesis - Research VU Amsterdam, graduation VU Amsterdam

  Open Access

  File
  213 Downloads (Pure)

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

  de Groot, D. H., van Boxtel, C., Planque, R., Bruggeman, F. J. & Teusink, B., 11 Mar 2019, In : PLoS Computational Biology. 15, 3, p. 1-24 24 p., e1006858.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Metabolic Networks and Pathways
  • Pathway
  • Enzymes
  • biochemical pathways
  • Fluxes
• 2018

  An integrated model quantitatively describing metabolism, growth and cell cycle in budding yeast

  Palumbo, P., Vanoni, M., Papa, F., Busti, S., Wortel, M., Teusink, B. & Alberghina, L., 2018, Artificial Life and Evolutionary Computation - 12th Italian Workshop, WIVACE 2017, Revised Selected Papers. Springer/Verlag, p. 165-180 16 p. (Communications in Computer and Information Science; vol. 830).

  Research output: Chapter in Book / Report / Conference proceeding › Conference contribution › Academic › peer-review

  • Integrated Model
  • Yeast
  • Metabolism
  • Cell Cycle
  • Cells

• Constraint-based models of microbial physiology: Surprisingly versatile

  Teusink, B., Planqué, B., Molenaar, D. & Bruggeman, F., 1 Jan 2018, 10th International Conference on Simulation and Modelling in the Food and Bio-Industry 2018, FOODSIM 2018. Eurosis, p. 5-10 6 p.

  Research output: Chapter in Book / Report / Conference proceeding › Conference contribution › Academic › peer-review

  • microbial physiology
  • Physiology
  • Fluxes
  • Microbiological Phenomena
  • Growth

• Dynamic elementary mode modelling of non-steady state flux data

  Folch-Fortuny, A., Teusink, B., Hoefsloot, H. C. J., Smilde, A. K. & Ferrer, A., 18 Jun 2018, In : BMC Systems Biology. 12, p. 1-15 15 p., 71.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Metabolic Flux Analysis
  • Fluxes
  • Modeling
  • Discriminant Analysis
  • Drive

• Further elucidation of galactose utilization in Lactococcus lactis MG1363

  Solopova, A., Bachmann, H., Teusink, B., Kok, J. & Kuipers, O. P., 3 Aug 2018, In : Frontiers in Microbiology. 9, AUGUST, p. 1-9 9 p., 1803.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Lactococcus lactis
  • Galactose
  • Lactose
  • Lactococcus
  • Membrane Transport Proteins

• Low affinity uniporter carrier proteins can increase net substrate uptake rate by reducing efflux

  Bosdriesz, E., Wortel, M. T., Haanstra, J. R., Wagner, M. J., De La Torre Cortés, P. & Teusink, B., 3 Apr 2018, In : Scientific Reports. 8, 1, p. 1-9 9 p., 5576.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Facilitated Diffusion
  • Facilitative Glucose Transport Proteins
  • Glycolysis
  • Saccharomyces cerevisiae
  • Nutrients

• Maintaining maximal metabolic flux by gene expression control

  Planqué, R., Hulshof, J., Teusink, B., Hendriks, J. C. & Bruggeman, F. J., 20 Sep 2018, In : PLoS Computational Biology. 14, 9, p. 1-20 20 p., e1006412.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Metabolites
  • Gene Expression
  • gene expression
  • Gene expression
  • Transcription Factor

• Metabolite Depletion Affects Flux Profiling of Cell Lines

  Nilsson, A., Haanstra, J. R., Teusink, B. & Nielsen, J., Jun 2018, In : Trends in Biochemical Sciences. 43, 6, p. 395-397 3 p.

  Research output: Contribution to Journal › Short survey › Academic › peer-review

  Open Access

  File

  • Metabolites
  • Cells
  • Fluxes
  • Cell Line
  • Growth
  17 Downloads (Pure)

• Regulatory and metabolic networks

  Sauer, U. & Teusink, B., Apr 2018, In : Current Opinion in Systems Biology. 8, p. iv-v 2 p.

  Research output: Contribution to Journal › Editorial › Academic › peer-review

  Open Access

  File
  47 Downloads (Pure)

• Training for translation between disciplines: A philosophy for life and data sciences curricula

  Anton Feenstra, K., Abeln, S., Westerhuis, J. A., Brancos Dos Santos, F., Molenaar, D., Teusink, B., Hoefsloot, H. C. J. & Heringa, J., 1 Jul 2018, In : Bioinformatics. 34, 13, p. i4-i12 9 p.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

• Understanding start-up problems in yeast glycolysis

  Overal, G. B., Teusink, B., Bruggeman, F. J., Hulshof, J. & Planqué, R., May 2018, In : Mathematical Biosciences. 299, p. 117-126 10 p.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  File

  • Glycolysis
  • Start-ups
  • Yeast
  • glycolysis
  • Yeasts
  38 Downloads (Pure)
• 2017

  Low affinity membrane transporters can increase net substrate uptake rate by reducing efflux

  Bosdriesz, E., Wortel, M. T., Haanstra, J. R., Wagner, M., de la Torre Cortés, P. & Teusink, B., 2 Nov 2017, In : bioRxiv.

  Research output: Contribution to Journal › Article › Academic

• Maintaining maximal metabolic rates by gene expression control

  Planque, R., Hulshof, J., Teusink, B., Hendriks, J. C. & Bruggeman, F. J., 9 Mar 2017, In : bioRxiv.

  Research output: Contribution to Journal › Article › Academic › peer-review

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

  Hanemaaijer, M., Olivier, B. G., Röling, W. F. M., Bruggeman, F. J. & Teusink, B., 1 Mar 2017, In : PLoS ONE. 12, 3, e0173183.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Hydrogen
  • Microbiota
  • Coculture Techniques
  • microbial communities
  • Wolinella

• Probing the genome-scale metabolic landscape of Bordetella pertussis, the causative agent of whooping cough

  dos Santos, F. B., Olivier, B. G., Boele, J., Krumpochova, P., Klau, G. W., Giera, M. & Teusink, B., 1 Nov 2017, In : Applied and Environmental Microbiology. 83, 21

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • whooping cough
  • Bordetella pertussis
  • thiosulfate
  • Whooping Cough
  • physiology

• Systems biology of lactic acid bacteria: For food and thought

  Teusink, B. & Molenaar, D., 1 Dec 2017, In : Current Opinion in Systems Biology. 6, p. 7-13 7 p.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Lactic acid
  • Systems Biology
  • Lactobacillales
  • Bacteria
  • Lactic Acid
• 2015

  Darwin s invisible hand

  Bosdriesz, E., 2015

  Research output: PhD Thesis › PhD Thesis - Research VU Amsterdam, graduation VU Amsterdam

  Open Access

  File
  1143 Downloads (Pure)

• MetDFBA: incorporating time-resolved metabolomics measurements into dynamic flux balance analysis.

  Willemsen, A. M., Hedrickx, D. M., Hoefsloot, H. C., Hendriks, M. M. W. B., Wahl, S. A., Teusink, B., Smilde, A. K. & van Kampen, A. H. C., 2015, In : Molecular BioSystems. 11, 11, p. 137-145 1.

  Research output: Contribution to Journal › Article › Academic › peer-review

  • Metabolomics
  • Kinetics
  • Systems Biology
• 2014

  A data integration and visualization resource for the metabolic network of synechocystis sp. PCC6803.

  Maarleveld, T. R., Boele, J., Bruggeman, F. J. & Teusink, B., 2014, In : Plant Physiology. 164, p. 1111-1121

  Research output: Contribution to Journal › Article › Academic › peer-review

  • Synechocystis
  • Data Visualization
  • Synechocystis sp. PCC 6803
  • Metabolic Networks and Pathways
  • Systems Biology

• Bethedging during bacterial diauxic shift.

  Solopova, A., van Gestel, J., Weissing, F. J., Bachmann, H., Teusink, B., Kok, J. & Kuipers, O. P., 2014, In : Proceedings of the National Academy of Sciences of the United States of America. p. 7427-7432

  Research output: Contribution to Journal › Article › Academic › peer-review

  • sugars
  • phenotype
  • catabolite repression
  • Lactococcus lactis
  • bacterial culture

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

  van Heerden, J. H., Wortel, M. T., Bruggeman, F. J., Heijnen, J. J., Bollen, Y. J. M., Planque, R., Hulshof, J., O'Toole, T. G., Wahl, A. & Teusink, B., 2014, In : Microbial Cell. 1, 3, p. 103-106

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

• Lactic Acid Bacteria: embarking on 30 more years of research.

  Kok, J., Johansen, E., Kleerebezem, M. & Teusink, B., 2014, In : Microbial Cell Factories. 13, Suppl 1: I1

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

• Lost in transition: start-up of glycolysis yields subpopulations of nongrowing cells.

  van Heerden, J. H., Wortel, M. T., Bruggeman, F. J., Heijnen, J. J., Bollen, Y. J. M., Planque, R., Hulshof, J., O'Toole, T. G., Wahl, S. A. & Teusink, B., 2014, In : Science. 343, 6174, 1245114.

  Research output: Contribution to Journal › Article › Academic › peer-review

  • Start-ups
  • Hydrolysis
  • Glucose
  • Dynamic Environment
  • Metabolism

• Metabolic states with maximal specific rate carry flux through an elementary flux mode.

  Wortel, M. T., Peters, H., Hulshof, J., Teusink, B. & Bruggeman, F. J., 2014, In : The FEBS Journal. 28, p. 1547-1555

  Research output: Contribution to Journal › Article › Academic › peer-review

  • Metabolic Networks and Pathways
  • Genes
  • Fluxes
  • Kinetics
  • Enzyme kinetics

• Monte-Carlo modeling of the central carbon metabolism of Lactococcus lactis: Insigths into metabolic regulation.

  Murabito, E., Verma, M., Bekker, M., Bellomo, D., Westerhoff, H. V., Teusink, B. & Steuer, R., 2014, In : PLoS ONE. 9, 9, e106453.

  Research output: Contribution to Journal › Article › Academic › peer-review

  Open Access

  • Metabolism
  • Metabolic Networks and Pathways
  • Carbon
  • Fructose
  • Lactic acid

• PAPD5-mediated 3'adenylation and subsequent degradation of miR-21 is disrupted in proliferative disease.

  Boele, J., Persson, H., Shin, J. W., Ishizu, Y., Newie, I. S., Sokilde, R., Hawkins, S. M., Coarfa, C., Ikeda, K., Takayama, K-I., Hori-Inoue, K., Ando, Y., Maxwell Burroughs, A., Sasaki, C., Suzuki, C., Sakai, M., Aoki, S., Ogawa, A., Hasegawa, A., Lizio, M. & 9 others, Kaida, K., Teusink, B., Caminic, P., Suzuki, H., Inoue, S., Gunaratne, P. H., Rovira, C., Hayashizaki, Y. & de Hoon, M. J. L., 2014, (Accepted/In press) In : Proceedings of the National Academy of Sciences of the United States of America. 111, 31, p. 11467-11472

  Research output: Contribution to Journal › Article › Academic › peer-review

  • MicroRNAs
  • Exoribonucleases
  • Polynucleotide Adenylyltransferase
  • RNA Sequence Analysis
  • Atlases