Molecular Cell Biology

Research Output

Open Access

11-Oxygenated androgen precursors are the preferred substrates for aldo-keto reductase 1C3 (AKR1C3): Implications for castration resistant prostate cancer

Barnard, M., Quanson, J. L., Mostaghel, E., Pretorius, E., Snoep, J. L. & Storbeck, K. H., Oct 2018, In : Journal of Steroid Biochemistry and Molecular Biology. 183, p. 192-201 10 p.

Research output: Contribution to JournalArticleAcademicpeer-review

12 The family Geobacteraceae

Roling, W. F. M., 2014, The Prokaryotes - Deltaproteobacteria and Epsilonproteobacteria. Rosenberg, E., Delong, E. F., Lory, S., Stackebrand, E. & Thompson, F. (eds.). p. 157-172

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

14-3-3-adaptor proteins are intermediates in ABA signal transduction during barley seed germination.

Schoonheim, P. J., Sinnige, M. P., Casaretto, J. A., Veiga, H., Bunney, T. D., Quatrano, R. S. & de Boer, A. H., 2007, In : Plant Journal. 49, p. 289-301

Research output: Contribution to JournalArticleAcademicpeer-review

14-3-3 isoforms specificity in barley

Sinnige, M. P., 2006, Enschede: Febodruk BV. 123 p.

Research output: PhD ThesisPhD Thesis - Research VU, graduation VU

Open Access
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14-3-3 protein is a regulator of the mitochondrial and chloroplast ATP synthase

Bunney, T. D., van Walraven, H. S. & de Boer, A. H., 2001, In : Proceedings of the National Academy of Sciences of the United States of America. 98, p. 4249-4254

Research output: Contribution to JournalArticleAcademicpeer-review

14-3-3 protein regulation of proton pumps and ion channels

Bunney, T. D., van den Wijngaard, P. W. J. & de Boer, A. H., 2002, In : Plant Molecular Biology. 50, p. 1041-1051 10 p.

Research output: Contribution to JournalArticleAcademicpeer-review

14-3-3 proteins double the number of outward-rectifying K+ channels available for activation in tomato cells.

Booij, P., Roberts, M. R., Vogelzang, S. A., Kraayenhof, R. & de Boer, A. H., 1999, In : Plant Journal. 20, p. 673-685 13 p.

Research output: Contribution to JournalArticleAcademicpeer-review

16S rDNA-based characterization of the BTX-catabolizing microbial associations isolated from a South African sandy oil.

Ralebitso, T. K., Roling, W. F. M., Braster, M., Senior, E. & van Verseveld, H. W., 2001, In : Biodegradation. 11, p. 351-357

Research output: Contribution to JournalArticleAcademicpeer-review

'28 entries in an Encyclopedia'

Heringa, J., 2004, Dictionary of bioinformatics and computational biology. Hancock, J. & Zvelebil, M. (eds.). Hoboken NJ - USA: John Wiley & Sons Inc, 636 p.

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

35 years of DEB research

van der Meer, J., Klok, C., Kearney, M. R., Wijsman, J. W. M. & Kooijman, S. A. L. M., 2014, In : Journal of sea research. 94, November 2014, p. 1-4

Research output: Contribution to JournalArticleAcademicpeer-review

A benzene-degrading nitrate-reducing microbial consortium displays aerobic and anaerobic benzene degradation pathways

Atashgahi, S., Hornung, B., Van Der Waals, M. J., Da Rocha, U. N., Hugenholtz, F., Nijsse, B., Molenaar, D., Van Spanning, R., Stams, A. J. M., Gerritse, J. & Smidt, H., 14 Mar 2018, In : Scientific Reports. 8, 1, p. 1-12 12 p., 4490.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access

ABF transcription factors of Thellungiella salsuginea: structure, expression profiles and interaction with 14-3-3 regulatory proteins

Vysotskii, D. A., de Vries - van Leeuwen, I. J., Souer, E., Babakov, A. V. & de Boer, A. H., 2012, In : Plant Signaling & Behavior. 8, 1

Research output: Contribution to JournalArticleAcademicpeer-review

A biodiversity-inspired approach to aquatic ecosystem modeling.

Bruggeman, J. & Kooijman, S. A. L. M., 2007, In : Limnology and Oceanography. 52, p. 1533-1544

Research output: Contribution to JournalArticleAcademicpeer-review

A biology-based approach for mixture toxicity of multiple endpoints over the life cycle.

Jager, T., Vandenbrouck, T., Baas, J., Coen, W. M. D. & Kooijman, S. A. L. M., 2010, In : Ecotoxicology. 19, p. 351-361

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
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A biology-based approach for quantitative structure-activity relationships (QSARs) in ecotoxicity.

Jager, T. & Kooijman, S. A. L. M., 2009, In : Ecotoxicology. 18, p. 187-196

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
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Abiotic and microbiotic factors controlling biofilm formation of thermophilic spore formers.

Zhao, Y., Caspers, M. P., Metselaar, K. I., de Boer, W. P. H., Roeselers, G., Moezelaar, R., Nierop Groot, M. N., Montijn, R., Abee, T. & Kort, R., 2013, In : Applied and Environmental Microbiology. 79, 18, p. 5652-5660

Research output: Contribution to JournalArticleAcademicpeer-review

Abscisic acid and 14-3-3 proteins control K+ channel activity in barley embryonic root

van den Wijngaard, P. W. J., Sinnige, M. P., Roobeek, I., Reumer, C. G., Mol, J. N. M., Wang, M., de Boer, A. H. & Schoonheim, P. J., 2005, In : Plant Journal. 41, 1, p. 43-55 13 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Absorption spectroscopy.

Nilapwar, S. M., Nardelli, M., Westerhoff, H. V. & Verma, M., 2011, Methods in Enzymology. Jameson, D., Verma, M. & Westerhoff, H. V. (eds.). Burlington: Academic Press, p. 59-75 (Methods in Systems Biology; no. 500).

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

Accelerating early antituberculosis drug discovery by creating mycobacterial indicator strains that predict mode of action

Boot, M., Commandeur, S., Subudhi, A. K., Bahira, M., Smith, T. C., Abdallah, A. M., van Gemert, M., Lelièvre, J., Ballell, L., Aldridge, B. B., Pain, A., Speer, A. & Bitter, W., Jul 2018, In : Antimicrobial Agents and Chemotherapy. 62, 7, e00083-18.

Research output: Contribution to JournalArticleAcademicpeer-review

Accurate confidence aware clustering of array CGH tumor profiles.

van Houte, B. P. P. & Heringa, J., 2010, In : Bioinformatics. 26, p. 6-14

Research output: Contribution to JournalArticleAcademicpeer-review

A cell-based model for the chlorophyll a to carbon ratio in phytoplankton.

Zonneveld, C., 1998, In : Ecological Modelling. 123, p. 55-70 16 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Acetaminophen reduces the protein levels of high affinity amino acid permeases and causes tryptophan depletion

Huseinovic, A., Dekker, S. J., Boogaard, B., Vermeulen, N. P. E., Kooter, J. M. & Vos, J. C., Oct 2018, In : Amino Acids. 50, 10, p. 1377-1390 14 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access

Acetate formation int he energy metabolism of parasitic helminths and protists.

Tielens, A. G. M., van Grinsven, K. W. A., Henze, K., van Hellemond, J. J. & Martin, W. ., 2010, In : International Journal for Parasitology. 40, p. 387-384

Research output: Contribution to JournalArticleAcademicpeer-review

Acetogenins: Chemoenzymatic synthesis and molecular probing of respiratory NADH-dehydrogenases

van Lint, M., 12 Sep 2019, 326 p.

Research output: PhD ThesisPhD Thesis - Research VU, graduation VU

Acidophilic microbial communities associated with a natural, biodegradated hydrocarbon seepage.

Roling, W. F. M., Ortega-Lucach, O. S., Larter, S. R. & Head, I. M., 2006, In : Journal of Applied Microbiology. 101, p. 290-299 10 p.

Research output: Contribution to JournalArticleAcademicpeer-review

A combined experimental and modelling approach for the Weimberg pathway optimisation

Shen, L., Kohlhaas, M., Enoki, J., Meier, R., Schönenberger, B., Wohlgemuth, R., Kourist, R., Niemeyer, F., van Niekerk, D., Bräsen, C., Niemeyer, J., Snoep, J. & Siebers, B., 27 Feb 2020, In : Nature Communications. 11, 1, p. 1-13 13 p., 1098.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access

A community-driven global reconstruction of human metabolism

Thiele, I., Swainston, N., Fleming, R. M., Hoppe, A., Sahoo, S., Aurich, M. K., Haraldsdottir, H., Mo, M. L., Rolfsson, O., Stobbe, M. D., Thorleifsson, S. G., Agren, R., Bölling, C., Bordel, S., Chavali, A. K., Dobson, P., Dunn, W. B., Endler, L., Hala, D., Hucka, M. & 26 others, Hull, D., Jameson, D., Jamshidi, N., Jonsson, J. J., Juty, N., Keating, S., Nokaew, I., Le Novère, N., Malys, N., Mazein, A., Papin, J. A., Price, N. D., Selkov, E., Sigurdsson, M. I., Simeonidis, E., Sonnenschein, N., Smallbone, K., Sorokin, A., van Beek, J. H. G. M., Weichart, D., Goryanin, I., Nielsen, J., Westerhoff, H. V., Kell, D. B., Mendes, P. & Palsson, B. O., 2013, In : Nature Biotechnology. 31, 5, p. 419-425

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access

A community of researchers

van Rens, L., Harms, N., van Muijlwijk-Koezen, J. E. & Beishuizen, J. J., 2008, Paper presented at ESERA. Malmö

Research output: Chapter in Book / Report / Conference proceedingConference contributionAcademic

A comparative analysis of kinetic models of erythrocyte glycolysis.

du Preez, F. B., Conradie, R., Penkler, G. P., Holm, K., van dooren, F. L. J. & Snoep, J. L., 2008, In : Journal of Theoretical Biology. 252, p. 488-496

Research output: Contribution to JournalArticleAcademicpeer-review

A comparative study of antimony accumulation in plants growing in two mining areas in Iran, Moghanlo, and Patyar

Hajiani, N. J., Ghaderian, S. M., Karimi, N. & Schat, H., 2015, In : Environmental Science and Pollution Research International. 22, 21, p. 16452-16553

Research output: Contribution to JournalArticleAcademicpeer-review

A comparison of lead accumulation and tolerance among heavy metal hyperaccumulating and non-hyperaccumulating metallophytes

Mohtadi, A., Ghaderian, S. M. & Schat, H., 2013, In : Plant and Soil. 352, p. 267-276

Research output: Contribution to JournalArticleAcademicpeer-review

A comparison of respiratory pathways in fully habituated and a normal non-organogenic sugerbeet callus.

Bisbis, B., Wagner, A. M., Kevers, C. & Gaspar, T., 2000, In : Journal of Plant Physiology. 156, p. 312-318 7 p.

Research output: Contribution to JournalArticleAcademicpeer-review

A comprehensive analysis of the 14-3-3 interactome in Barley leaves using a complementary proteomics and two-hybrid approach.

Schoonheim, P. J., Veiga, H., da Costa Pereira, D., Friso, G., van Wijk, K. J. & de Boer, A. H., 2006, In : Plant Physiology.

Research output: Contribution to JournalArticleAcademicpeer-review

A conformation-equilibrium model captures ligand-ligand interactions and ligand-baised signaling by G-protein coupled receptors.

Roth, S. & Bruggeman, F. J., 2014, In : The FEBS Journal. 281, 20, p. 4659-4671

Research output: Contribution to JournalArticleAcademicpeer-review

A consensus yeast metabolic network obtained from a community approach to systems biology.

Herrgard, M. J., Swainston, N., Dobson, P., Dunn, W. B., Arga, K. Y., Arvas, M., Bluthgen, N., Borger, S., Costenoble, E. R., Heinemann, M., Hucka, M., Li, P., Liebermeister, W., Mo, M. L., Oliveira, A. P., Petranovic, D., Pettifer, S., Simeonides, E., Smallbone, K., Spasi, I. & 14 others, Weichart, D., Brent, R., Broomhead, D. S., Westerhoff, H. V., Kirdar, B., Penttila, M., Klipp, E., Paton, N., Palsson, B. O., Sauer, U., Oliver, S. G., Mendes, P., Nielsen, J. & Kell, D. B., 2008, In : Nature Biotechnology. 26, p. 1155-1160

Research output: Contribution to JournalArticleAcademic

Open Access

A conserved aromatic residue in the autochaperone domain of the autotransporter Hbp is critical for initiation of outer membrane translocation

Soprova, Z., Sauri, A., van Ulsen, J. P., Tame, J. R. H., den Blaauwen, T., Jong, W. S. P. & Luirink, S., 2010, In : Journal of Biological Chemistry. 285, 49, p. 38224-38233 10 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
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A conserved function of YidC in the biogenesis of respiratory chain complexes.

van der Laan, M., Urbanus, M. L., ten Hagen-Jongman ten, C. M., Nouwen, N., Oudega, B., Harms, N., Driessen, A. J. M. & Luirink, S., 2003, In : Proceedings of the National Academy of Sciences of the United States of America. 100, p. 5801-5806 6 p.

Research output: Contribution to JournalArticleAcademic

A contamination assessment of the CI carbonaceous meteorite Orgueil using a DNA-directed approach

Aerts, J. W., Elsaesser, A., Röling, W. F. M. & Ehrenfreund, P., 1 May 2016, In : Meteoritics and Planetary Science. p. 920-931 12 p.

Research output: Contribution to JournalArticleAcademicpeer-review

A cosegregation analysis of zinc (Zn) accumulation and Zn tolerance in the Zn hyperaccumulator Thlaspi caerulescens.

Assunção, A. G. L., ten Bookum, W. M., Nelissen, H. J. M., Vooijs, H., Schat, H. & Ernst, W. H. O., 2003, In : New Phytologist. 159, p. 383-390

Research output: Contribution to JournalArticleAcademicpeer-review

A critical view of metabolic network adaptations.

Papp, B., Teusink, B. & Notebaart, R. A., 2009, In : HFSP journal. 3, p. 24-35

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
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Open Access
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Activation kinetics of the K+ outward rectifying conductance (KORC) in xylem parenchyma cells from barely roots.

Wegner, L. H. & de Boer, A. H., 1999, In : The Journal of Membrane Biology. 170, p. 103-119 117 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Activators of the glutamate-dependent acid resistance system alleviate deleterious effects of YidC depletion in Escherichia coli

Yu, Z., Bekker, M., Tramonti, A., Cook, G. M., van Ulsen, P., Scheffers, D. J., De Mattos, J. T., De Biase, D. & Luirink, J., 2011, In : Journal of Bacteriology. 193, p. 1308-16

Research output: Contribution to JournalArticleAcademicpeer-review

Acute exposure of water soluble fractions of marine diesel on arctic Calanus glacialis and boreal Calanus finmarchicus: Effects on survival and biomarker response.

Hansen, B. H., Altin, D., Overjordet, I. B., Jager, T. & Nordtug, T., 2013, In : Science of the Total Environment. 449, p. 276-284

Research output: Contribution to JournalArticleAcademicpeer-review

A cytochrome b5 is required for cytochrome P450 activity and blue flower colours

de Vetten, N., ter Horst, J., van Schaik, H-P., de Boer, A. H., Mol, J. N. M. & Koes, R. E., 1998, In : Proceedings of the National Academy of Sciences of the United States of America. 2, p. 778-783 5 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Adaptation of microbial communities to emerging pollutants in chemostat systems

Poursat, B., Braster, M., Helmus, R., van Spanning, R., de Voogt, P. & Parsons, J., 18 Mar 2018, In : Abstracts of Papers - American Chemical Society. 255

Research output: Contribution to JournalMeeting AbstractAcademic

Adaptations in the glucose metabolism of procyclic Trypanosoma brucei isolates from Tsetse flies and during differentiation of bloodstream forms.

van Grinsven, K. W. A., van den Abbeele, J., van den Bossche, P., van Hellemond, J. J. & Tielens, A. G. M., 2009, In : Eukaryotic Cell. 8, p. 1307-1311

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
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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 JournalArticleAcademicpeer-review

Open Access

Adaptogenic effect of the vitamin D3 containing supplement "videchol" on the activity of glucose-6-phosphate dehydrogenase in irradiated rats erithrone.

Becerill Aragon, G. A., Starikovich, L. S., Kolodkin, A. N., Gorot, I. V. & Veliky, M. M., 2007, In : Ukrainian Biochemical Journal. 79, p. 70-78 9 p.

Research output: Contribution to JournalArticleAcademicpeer-review