Searched for: subject%3A%22microscopy%22
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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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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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Meng, 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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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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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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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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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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Moerland, R.J. (author), Hoogenboom, J.P. (author)
Available data: Complex refractive index of Indium Tin Oxide, http://dx.doi.org/10.4121/uuid:59febf27-a532-4ac9-8ec0-29d4195b2c8c Transparent conductive oxides (TCOs), such as the well-known indium-tin oxide, find widespread use in modern (nano)technological applications because of their unique combination of negligible optical absorption and...
journal article 2016
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Chakrova, N. (author), Rieger, B. (author), Stallinga, S. (author)
We present a versatile fluorescence microscope, built by complementing a conventional fluorescence microscope with a digital micro-mirror device (DMD) in the illumination path. Arbitrary patterns can be created on the DMD and projected onto the sample. This patterned illumination can be used to improve lateral and axial resolution over the...
conference paper 2015
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Nieuwenhuizen, R.P.J. (author), Nahidiazar, L. (author), Manders, E.M.M. (author), Jalink, K. (author), Stallinga, S. (author), Rieger, B. (author)
Co-localization analysis is a widely used tool to seek evidence for functional interactions between molecules in different color channels in microscopic images. Here we extend the basic co-localization analysis by including the orientations of the structures on which the molecules reside. We refer to the combination of co-localization of...
journal article 2015
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Nieuwenhuizen, R.P.J. (author), Bates, M. (author), Szymborska, A. (author), Lidke, K.A. (author), Rieger, B. (author), Stallinga, S. (author)
Quantification in localization microscopy with reversibly switchable fluorophores is severely hampered by the unknown number of switching cycles a fluorophore undergoes and the unknown stoichiometry of fluorophores on a marker such as an antibody. We overcome this problem by measuring the average number of localizations per fluorophore, or...
journal article 2015
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Burri, S. (author), Maruyama, Y. (author), Michalet, X. (author), Regazzoni, F. (author), Bruschini, C. (author), Charbon, E. (author)
We present the architecture and three applications of the largest resolution image sensor based on single-photon avalanche diodes (SPADs) published to date. The sensor, fabricated in a high-voltage CMOS process, has a resolution of 512 × 128 pixels and a pitch of 24 ?m. The fill-factor of 5% can be increased to 30% with the use of microlenses....
journal article 2014
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Broeken, J. (author), Rieger, B. (author), Stallinga, S. (author)
We propose a method for simultaneously measuring the position and emission color of single fluorescent emitters based on the use of a large pitch diffraction grating in the emission light path. The grating produces satellite spots adjacent to the main spot; the relative distance between the spots is a measure for the emission wavelength. We...
journal article 2014
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Righolt, C.H. (author), Mai, S. (author), Van Vliet, L.J. (author), Stallinga, S. (author)
The quality of the reconstructed image in structured illumination microscopy (SIM) depends on various aspects of the image filtering process. To optimize the trade-off between resolution and ringing artifacts, which lead to negative intensities, we extend Lukosz-bound filtering to 3D SIM and derive the parametrization of the 3D SIM cut-off. We...
journal article 2014
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Meddens, M.B.M. (author), Rieger, B. (author), Figdor, C.G. (author), Cambi, A. (author), Van den Dries, K. (author)
Podosomes are cellular adhesion structures involved in matrix degradation and invasion that comprise an actin core and a ring of cytoskeletal adaptor proteins. They are most often identified by staining with phalloidin, which binds F-actin and therefore visualizes the core. However, not only podosomes, but also many other cytoskeletal structures...
journal article 2013
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Huang, Z. (author)
Heterogeneity is a general feature in biological system. In order to avoid possible misleading effects of ensemble averaging, and to ensure a correct understanding of the biological system, it is very important to look into individuals, such as a single bio-molecule or a single cell, for details. The size of a single bio-molecule/cell typically...
doctoral thesis 2012
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Stallinga, S. (author), Rieger, B. (author)
We introduce a method for determining the position and orientation of fixed dipole emitters based on a combination of polarimetry and spot shape detection. A key element is an effective Point Spread Function model based on Hermite functions. The model offers a good description of the shape variations with dipole orientation and polarization...
journal article 2012
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