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Nagalingam, Nagaraj (author), Raghunathan, Aswin (author), Korede, V.B. (author), Overmars, E.F.J. (author), Hung, S. (author), Hartkamp, Remco (author), Padding, J.T. (author), Smith, C.S. (author), Eral, H.B. (author)Optofluidic devices have revolutionized the manipulation and transportation of fluid at smaller length scales ranging from micrometers to millimeters. We describe a dedicated optical setup for studying laser-induced cavitation inside a microchannel. In a typical experiment, we use a tightly focused laser beam to locally evaporate the solution...journal article 2023
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Sharaf, A.M.S.E. (author), Frimat, J. P. (author), Kremers, G. J. (author), Accardo, A. (author)Two-photon polymerization (2PP) has provided the field of cell biology with the opportunity to fabricate precisely designed microscaffolds for a wide range of studies, from mechanobiology to in vitro disease modelling. However, a multitude of commercial and in-house developed photosensitive materials employed in 2PP suffers from high auto...journal article 2023
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Mc Cluskey, K.A. (author), Dekker, N.H. (author)TIRF (Total Internal Reflection Fluorescence) microscopy is a powerful tool for measuring the intra- and intermolecular dynamics of fluorescently-labeled single molecules. As TIRF measurements move to more complex biological systems with more fluorescent probes, the multi-band-pass dichroic that separates excitation from emission becomes...journal article 2023
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Yang, Sora (author), Klughammer, N. (author), Barth, A. (author), Tanenbaum, M. (author), Dekker, C. (author)Single-molecule fluorescence imaging experiments generally require sub-nanomolar protein concentrations to isolate single protein molecules, which makes such experiments challenging in live cells due to high intracellular protein concentrations. Here, we show that single-molecule observations can be achieved in live cells through a drastic...journal article 2023
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Voltage Imaging with Engineered Proton-Pumping Rhodopsins: Insights from the Proton Transfer PathwayMeng, X. (author), Ganapathy, S. (author), van Roemburg, Lars (author), Post, M.G. (author), Brinks, D. (author)Voltage imaging using genetically encoded voltage indicators (GEVIs) has taken the field of neuroscience by storm in the past decade. Its ability to create subcellular and network level readouts of electrical dynamics depends critically on the kinetics of the response to voltage of the indicator used. Engineered microbial rhodopsins form a...review 2023
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Ganapathy, S. (author), Meng, X. (author), Mossel, D.D.M. (author), Jagt, Mels (author), Brinks, D. (author)Genetically encoded voltage indicators, particularly those based on microbial rhodopsins, are gaining traction in neuroscience as fluorescent sensors for imaging voltage dynamics with high-spatiotemporal precision. Here we establish a novel genetically encoded voltage indicator candidate based on the recently discovered subfamily of the...journal article 2023
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Noom, J. (author), Soloviev, O.A. (author), Smith, C.S. (author), Nguyen, Hieu Thao (author), Verhaegen, M.H.G. (author)We demonstrate a novel closed-loop input design technique on the detection of particles in an imaging system such as a fluorescence microscope. The probability of misdiagnosis is minimized while constraining the input energy such that for instance phototoxicity is reduced. The key novelty of the closed-loop design is that each next input is...conference paper 2022
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Inamdar, A.S. (author), Gromala, Przemyslaw Jakub (author), Prisacaru, Alexandru (author), Kabakchiev, Alexander (author), Yang, Yu Hsiang (author), Han, Bongtae (author)Epoxy molding compound (EMC) is widely used for encapsulating automotive electronics. Among all of the components of an electronic package, EMC is most exposed to the atmosphere, and thus undergoes aging. During high-temperature operation, EMC is oxidized, which alters its mechanical properties, and thus can affect the reliability of electronic...book chapter 2022
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Legerstee, Karin (author), Sueters, J. (author), Abraham, Tsion E. (author), Slotman, Johan A. (author), Kremers, Gert Jan (author), Hoogenboom, J.P. (author), Houtsmuller, A.B. (author)Focal adhesions (FAs) are the main cellular structures to link the intracellular cytoskeleton to the extracellular matrix. FAs mediate cell adhesion, are important for cell migration and are involved in many (patho)-physiological processes. Here we examined FAs and their associated actin fibres using correlative fluorescence and scanning...journal article 2022
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Dreesens, L.L. (author)Phages are nanomachines composed of a protein coat encapsulating a genome. Since they are metabolically inert, they depend on a bacterial host for replication. They are abundantly present in all kinds of environments, patiently awaiting their target. The nanoscopic mechanical details of how phages or phage-like particles find the correct target...doctoral thesis 2021
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Deb Roy, S. (author)The basis of this thesis has been the curiosity, however modest, to understand how DNA replication happens in vivo, particularly during the onset of DNA damage and beyond. DNA damage is a recurring phenomenon, which a (bacterial) cell faces in its lifetime from the environment or even its inherent metabolism. While we understand much about...doctoral thesis 2020
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Wong, H.S. (author), Poole, A.B. (author), Wells, B. (author), Eden, M. (author), Barnes, R. (author), Ferrari, J. (author), Fox, R. (author), Yio, M.H.N. (author), Copuroglu, Oguzhan (author)Water to cement (w/c) ratio is usually the most important parameter specified in concrete design and is sometimes the subject of dispute when a shortfall in concrete strength or durability is an issue. However, determination of w/c ratio in hardened concrete by testing is very difficult once the concrete has set. This paper presents the...journal article 2020
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Noguera López, J. (author)The creation of artificial cells with the minimal set of components to exhibit self-maintenance, self-reproducibility and evolvability (in other words, to be considered alive) is one of the most exciting areas within the field of synthetic biology. Such entities, here called minimal cells, are constructed by either the top-down or bottom-up...doctoral thesis 2019
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Beekers, D.I. (author), Lattwein, Kirby R. (author), Kouijzer, Joop J.P. (author), Langeveld, Simone A.G. (author), Vegter, M. (author), Beurskens, Robert (author), Mastik, F. (author), Verduyn Lunel, Rogier (author), van der Steen, A.F.W. (author), de Jong, N. (author)Controlling microbubble-mediated drug delivery requires the underlying biological and physical mechanisms to be unraveled. To image both microbubble oscillation upon ultrasound insonification and the resulting cellular response, we developed an optical imaging system that can achieve the necessary nanosecond temporal and nanometer spatial...journal article 2019
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Ha, S. (author)This thesis describes developments in the single-molecule instrumentation, in particular optical torque wrench and DNA nanocurtains, with the goal of employing these techniques in studies of biomolecules and biomotors. Importantly, the use of single-crystal rutile titanium dioxide nanocylinders is suggested for optical torque wrench, enabling...doctoral thesis 2018
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Wilding, D. (author), Pozzi, P. (author), Soloviev, O.A. (author), Vdovin, Gleb (author), Verhaegen, M.H.G. (author)In life sciences, interest in the microscopic imaging of increasingly complex three dimensional samples, such as cell spheroids, zebrafish embryos, and in vivo applications in small animals, is growing quickly. Due to the increasing complexity of samples, more and more life scientists are considering the implementation of adaptive optics in...conference paper 2018
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Ando, Toshio (author), Bhamidimarri, Satya Prathyusha (author), Brending, Niklas (author), Colin-York, H. (author), Collinson, Lucy (author), De Jonge, Niels (author), De Pablo, P. J. (author), Debroye, Elke (author), Eggeling, Christian (author), Franck, Christian (author), Hoogenboom, J.P. (author)Developments in microscopy have been instrumental to progress in the life sciences, and many new techniques have been introduced and led to new discoveries throughout the last century. A wide and diverse range of methodologies is now available, including electron microscopy, atomic force microscopy, magnetic resonance imaging, small-angle x...review 2018
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- Gritti, N. (author) doctoral thesis 2017
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Tiruvadi Krishnan, S. (author)All living organisms pass on their genetic information to their offspring in the form of DNA or RNA molecules by duplicating them across generations. In the bacteria, their genes are packed in long chains of DNA molecules or chromosomes. One of the widely studied model organisms, Escherichia coli, replicates its circular chromosome in two...doctoral thesis 2016
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- De Martino, M. (author) doctoral thesis 2016