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Wang, Gangqi (author), Heijs, Bram (author), Kostidis, Sarantos (author), Mahfouz, A.M.E.T.A. (author), Rietjens, Rosalie G.J. (author), Bijkerk, Roel (author), Koudijs, Angela (author), van der Pluijm, Loïs A.K. (author), van den Berg, Cathelijne W. (author)A common drawback of metabolic analyses of complex biological samples is the inability to consider cell-to-cell heterogeneity in the context of an organ or tissue. To overcome this limitation, we present an advanced high-spatial-resolution metabolomics approach using matrix-assisted laser desorption/ionization mass spectrometry imaging (MALDI...journal article 2022
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Dekker, W.J.C. (author), Jürgens, H. (author), Ortiz Merino, R.A. (author), Mooiman, C. (author), van den Berg, Remon (author), Kaljouw, Astrid (author), Mans, R. (author), Pronk, J.T. (author)While thermotolerance is an attractive trait for yeasts used in industrial ethanol production, oxygen requirements of known thermotolerant species are incompatible with process requirements. Analysis of oxygen-sufficient and oxygen-limited chemostat cultures of the facultatively fermentative, thermotolerant species Ogataea parapolymorpha...journal article 2022
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van Beljouw, S.P.B. (author), van Eijkeren-Haagsma, A.C. (author), Rodriguez Molina, A. (author), van den Berg, D.F. (author), Vink, J.N.A. (author), Brouns, S.J.J. (author)Type III CRISPR-Cas immunity is widespread in prokaryotes and is generally mediated by multisubunit effector complexes. These complexes recognize complementary viral transcripts and can activate ancillary immune proteins. Here, we describe a type III-E effector from Candidatus “Scalindua brodae” (Sb-gRAMP), which is natively encoded by a...journal article 2021
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Herrera-Semenets, Vitali (author), Bustio-Martínez, Lázaro (author), Hernández-León, Raudel (author), van den Berg, Jan (author)Every day the number of devices interacting through telecommunications networks grows resulting into an increase in the volume of data and information generated. At the same time, a growing number of information security incidents is being observed including the occurrence of unauthorized accesses, also named intrusions. As a consequence of...journal article 2021
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van den Berg, Paulien (author), Scholten, D.J. (author), Schachter, Jonathan (author), Blok, K. (author)A dynamic and fast-changing environment brings challenges for generating long-term scenarios. Although the need to update scenarios for decision-making is recognized, a structured way for executing this process remains unclear. To configure a solution, we propose two concepts that need to be introduced: 1) that scenarios consist of a multi...journal article 2021
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Stijnman, Peter R.S. (author), Mandija, Stefano (author), Fuchs, P.S. (author), van den Berg, Cornelis A.T. (author), Remis, R.F. (author)Purpose: To remove the necessity of the tranceive phase assumption for CSI-EPT and show electrical properties maps reconstructed from measured data obtained using a standard 3T birdcage body coil setup. Methods: The existing CSI-EPT algorithm is reformulated to use the transceive phase rather than relying on the transceive phase assumption....journal article 2021
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van den Berg, Joris (author), Bazuin, Rens (author), Jux, Constantin (author), Sciacchitano, A. (author), Westerweel, J. (author), van de Water, W. (author)Abstract: Our quest is for the thumb and finger positions that maximize drag in front crawl swimming and thus maximize propulsion efficiency. We focus on drag in a stationary flow. Swimming is in water, but using Reynolds similarity the drag experiments are done in a wind tunnel. We measure the forces on real-life models of a forearm with...journal article 2021
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Simon, B.G. (author), Kurdi, S. (author), La, Helena (author), Bertelli, I. (author), Carmiggelt, J.J. (author), Ruf, M.T. (author), de Jong, N. (author), van den Berg, J.H. (author), Katan, A.J. (author), van der Sar, T. (author)Controlling magnon densities in magnetic materials enables driving spin transport in magnonic devices. We demonstrate the creation of large, out-of-equilibrium magnon densities in a thin-film magnetic insulator via microwave excitation of coherent spin waves and subsequent multimagnon scattering. We image both the coherent spin waves and the...journal article 2021
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Estrada Bonilla, B.A. (author), Martins Costa, A.R. (author), van den Berg, D.F. (author), van Rossum, T. (author), Hagedoorn, Stefan (author), Walinga, Hielke (author), Xiao, Minfeng (author), Haas, Pieter Jan (author), Brouns, S.J.J. (author)Bacteriophages are an invaluable source of novel genetic diversity. Sequencing of phage genomes can reveal new proteins with potential uses as biotechnological and medical tools, and help unravel the diversity of biological mechanisms employed by phages to take over the host during viral infection. Aiming to expand the available collection of...journal article 2021
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van den Berg, Boudewijn (author), Manoochehri, M. (author), Kasting, Mindy (author), Schouten, A.C. (author), van der Helm, F.C.T. (author), Buitenweg, Jan R. (author)A sustained sensory stimulus with a periodic variation of intensity creates an electrophysiological brain response at associated frequencies, referred to as the steady-state evoked potential (SSEP). The SSEPs elicited by the periodic stimulation of nociceptors in the skin may represent activity of a brain network that is primarily involved in...journal article 2021
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van den Berg, Niels (author), Xin, H. (author), Veljkovic, M. (author)Orthotropic steel decks (OSD's) are susceptible to fatigue failure due to cyclic loading. Often fatigue cracks are found in the joint between the deck plate and the trough. Due to the welding process, residual stresses are present in and around the joint. In this paper, the effect of residual stresses on the fatigue crack propagation rate has...journal article 2021
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de Leeuw den Bouter, M.L. (author), van den Berg, P.M. (author), Remis, R.F. (author)In this paper we discuss an imaging method when the object has known support and its spatial Fourier transform is only known on a certain k-space undersampled pattern. The simple conjugate gradient least squares algorithm applied to the corresponding truncated Fourier transform equation produces reconstructions that are basically of a similar...journal article 2021
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Arindrarto, Wibowo (author), Borràs, Daniel M. (author), de Groen, Ruben A.L. (author), van den Berg, Redmar R. (author), Locher, Irene J. (author), van Diessen, Saskia A.M.E. (author), Valk, Peter J.M. (author), Janssen, Bart (author), van den Akker, E.B. (author)Acute myeloid leukemia (AML) is caused by genetic aberrations that also govern the prognosis of patients and guide risk-adapted and targeted therapy. Genetic aberrations in AML are structurally diverse and currently detected by different diagnostic assays. This study sought to establish whole transcriptome RNA sequencing as single,...journal article 2021
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van den Berg, Jan (author)For most people, cybersecurity is a difficult notion to grasp. Traditionally, cybersecurity has been considered a technical challenge, and still many specialists understand it as information security, with the notions of confidentiality, integrity, and availability as its foundation. Although many have searched for different and broader...journal article 2020
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van den Berg, L. (author), Kirkland, Catherine M. (author), Seymour, Joseph D. (author), Codd, Sarah L. (author), van Loosdrecht, Mark C.M. (author), de Kreuk, M.K. (author)Aerobic granular sludge (AGS) technology allows simultaneous nitrogen, phosphorus, and carbon removal in compact wastewater treatment processes. To operate, design, and model AGS reactors, it is essential to properly understand the diffusive transport within the granules. In this study, diffusive mass transfer within full-scale and lab-scale...journal article 2020
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Fernandez Rivas, David (author), Boffito, Daria C. (author), Faria-Albanese, Jimmy (author), Glassey, Jarka (author), Afraz, Nona (author), Akse, Henk (author), Boodhoo, Kamelia V.K. (author), Bos, Rene (author), Cantin, Judith (author), (Emily) Chiang, Yi Wai (author), Commenge, Jean Marc (author), Dubois, Jean Luc (author), Galli, Federico (author), de Mussy, Jean Paul Gueneau (author), Harmsen, Jan (author), Kalra, Siddharth (author), Keil, Frerich J. (author), Morales-Menendez, Ruben (author), Navarro-Brull, Francisco J. (author), Noël, Timothy (author), Ogden, Kim (author), Patience, Gregory S. (author), Reay, David (author), Santos, Rafael M. (author), Smith-Schoettker, Ashley (author), Stankiewicz, A.I. (author), van den Berg, Henk (author), van Gerven, Tom (author), van Gestel, Jeroen (author), van der Stelt, Michiel (author), van de Ven, Mark (author), Weber, R. S. (author)Achieving the United Nations sustainable development goals requires industry and society to develop tools and processes that work at all scales, enabling goods delivery, services, and technology to large conglomerates and remote regions. Process Intensification (PI) is a technological advance that promises to deliver means to reach these...journal article 2020
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Fokkema, J.T. (author), van den Berg, Peter M. (author)Maxwell's equations are transformed from a Cartesian geometry to a Riemannian geometry. A geodetic path in the Riemannian geometry is defined as the raypath on which the electromagnetic energy efficiently travels through the medium. Consistent with the spatial behavior of the Poynting vector, the metric tensor is required to be functionally...journal article 2020
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van den Berg, L. (author), van Loosdrecht, Mark C.M. (author), de Kreuk, M.K. (author)Biofilm and granular sludge processes depend on diffusion of substrates. Despite their importance for the kinetic description of biofilm reactors, biofilm diffusion coefficients reported in literature vary greatly. The aim of this simulation study was to determine to what extent the methods that are used to measure diffusion coefficients...journal article 2020
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van den Berg, Ileen (author), Hofland, Bas (author), Reedijk, Bas (author)Many rubble mound breakwaters are nowadays made with an armour layer consisting of single layer interlocking elements. The stability of these armour layers could well be influenced by the irregularity of the rock underlayer, as that influences the degree of interlocking. Especially for the new types of regularly placed armour, this might be...journal article 2020
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Maathuis, E.C. (author), Pieters, W. (author), van den Berg, Jan (author)Cyber operations are relatively a new phenomenon of the last two decades. During that period, they have increased in number, complexity, and agility, while their design and development have been processes well kept under secrecy. As a consequence, limited data(sets) regarding these incidents are available. Although various academic and...journal article 2020