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Makrodimitris, S. (author), Pronk, I.B. (author), Abdelaal, T.R.M. (author), Reinders, M.J.T. (author)Multi-omic analyses are necessary to understand the complex biological processes taking place at the tissue and cell level, but also to make reliable predictions about, for example, disease outcome. Several linear methods exist that create a joint embedding using paired information per sample, but recently there has been a rise in the...review 2024
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Ruiz Hadad, L. (author), Ali, Muhammad (author), Pronk, M. (author), van Loosdrecht, Mark C.M. (author), Saikaly, Pascal E. (author)Currently, the most cost-effective and efficient method for phosphorus (P) removal from wastewater is enhanced biological P removal (EPBR) via polyphosphate-accumulating organisms (PAOs). This study integrates a literature review with genomic analysis to uncover the phylogenetic and metabolic diversity of the relevant PAOs for wastewater...review 2024
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Mans, R. (author), Daran, J.G. (author), Pronk, J.T. (author)Evolutionary engineering, which uses laboratory evolution to select for industrially relevant traits, is a popular strategy in the development of high-performing yeast strains for industrial production of fuels and chemicals. By integrating whole-genome sequencing, bioinformatics, classical genetics and genome-editing techniques, evolutionary...review 2018
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- Rossum, Harmen M. (author), Kozak, B.U. (author), Pronk, J.T. (author), van Maris, A.J.A. (author) review 2016
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Broekhuis, S. (author), Koppert, C. (author), Pronk, K.M.A. (author)Document(en) uit de collectie Chemische Procestechnologiereport 1970
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Pronk, C. (author)This paper presents a study on modeling and verifying the kernel of Real-Time Operating Systems (RTOS). The study will show advances in formally verifying such an RTOS both by refinement and by model checking approaches. This work fits in the context of Hoare’s verification challenge. Several real-time operating systems will be discussed...report 2010
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Chen, J.C. (author), Pronk, T.M.C. (author), Van de Wouw, A. (author)Document(en) uit de collectie Chemische Procestechnologiereport 2011
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- Binkhorst, H. (author), van Ingen, J.L. (author), Pronk, C. (author) report 1978
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Taverne, P. (author), Pronk, C. (author)Accepted for publication in the Proceedings of the 11th International Conference on Formal Engineering Methods, ICFEM 2009. This paper presents a case study in modeling and verifying a POSIX-like file store for Flash memory. This work fits in the context of Hoare’s verification challenge and, in particular, Joshi and Holzmann’s mini-challenge to...report 2009
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- Pronk, J.T. (author) public lecture 2000
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Pronk, J.T (author)Dies Natalis 164public lecture 2006
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Van Maris, A.J.A. (author), Pronk, J.T. (author), Guadalupe Medina, V.G. (author), Wisselink, H.W. (author)The invention relates to a recombinant yeast cell, in particular a transgenic yeast cell, functionally expressing one or more recombinant, in particular heterologous, nucleic acid sequences encoding ribulose-1,5-biphosphate carboxylase oxygenase (Rubisco) and phosphoribulokinase (PRK). The invention further relates to the use of carbon dioxide...patent 2014
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Van Loosdrecht, M.C.M. (author), Lin, Y. (author), Pronk, M. (author)The present invention concerns a method of producing linear polysaccharides, bacteria capable of producing such linear polysaccharides, and uses of such linear polysaccharides, as a medicament, in agriculture, in food processing, as a coating, as a thickening agent, as a flocculating agent, and for water processing.patent 2015
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Lin, Y. (author), Al-Zuhairy, S. (author), Pronk, M. (author), Van Loosdrecht, M.C.M. (author)In a prior art reactor set up dense aggregates of microorganisms are formed, typically in or embedded in an extracellular matrix. Such may relate to granules, to sphere like entities having a higher viscosity than water, globules, a biofilm, etc. The dense aggregates comprise extracellular polymeric substances, or biopolymers, in particular...patent 2015
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Daran, J.G. (author), Pronk, J.T. (author), Romagnoli, G. (author)The invention relates to a nucleic acid molecule encoding a novel selection marker. Said marker is a guanidinobutyrase from Kluyveromyces lactis, which, when expressed in Saccharomyces, allows the growth of the yeast in the presence of guanidinobutyrate as the sole nitrogen source. Said marker can be used in a method for producing a...patent 2015
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- Pronk, J.T. (author), Van Dijken, J.P. (author), Bos, P. (author), Kuenen, J.G. (author) patent 1992
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Pronk, J.T. (author), Van Maris, A.J.A. (author), Guadalupe Medina, V.G. (author)The present invention relates to a yeast cell, in particular a recombinant yeast cell, the cell lacking enzymatic activity needed for the NADH-dependent glycerol synthesis or the cell having a reduced enzymatic activity with respect to the NADH- dependent glycerol synthesis compared to its corresponding wild-type yeast cell, the cell comprising...patent 2011
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Winkler, A.A. (author), Kuyper, S.M. (author), De Laat, W.T. (author), Van Dijken, J.P. (author), Pronk, J.T. (author)The present invention relates to further genetic modifications in eukaryotic host cells that have been transformed to express a xylose isomerase that confers the host cell the ability of isomerising xylose to xylulose. The further genetic modifications are aimed at improving the efficiency of xylose metabolism and include e.g. reduction of...patent 2006
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- Knijnenburg, T.A. (author), De Winde, J.H. (author), Daran, J.M. (author), Daran-Lapujade, P. (author), Pronk, J.T. (author), Reinders, M.J.T. (author), Wessels, L.F.A. (author) journal article 2007
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Nijkamp, J.F. (author), Van den Broek, M.A. (author), Datema, E. (author), De Kok, S. (author), Bosman, L. (author), Luttik, M.A.H. (author), Daran-Lapujade, P.A.S. (author), Vongsangnak, W. (author), Nielsen, J. (author), Heijne, W.H.M. (author), Klaassen, P. (author), Paddon, C.J. (author), Platt, D. (author), Kötter, P. (author), Van Ham, R.C. (author), Reinders, M.J.T. (author), Pronk, J.T. (author), De Ridder, D. (author), Daran, J.M. (author)Saccharomyces cerevisiae CEN.PK 113-7D is widely used for metabolic engineering and systems biology research in industry and academia. We sequenced, assembled, annotated and analyzed its genome. Single-nucleotide variations (SNV), insertions/deletions (indels) and differences in genome organization compared to the reference strain S. cerevisiae...journal article 2012