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Guo, Y. (author), Aveyard, R.A. (author), Rieger, B. (author)
In this paper, we present a multichannel cross-modal fusion algorithm to combine two complementary modalities in electron tomography: X-ray spectroscopy and scanning transmission electron microscopy (STEM). The former reveals compositions with high elemental specificity but low signal-to-noise ratio (SNR), while the latter characterizes the...
journal article 2019
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Guo, Y. (author), Rieger, B. (author)
Regularization has been introduced to electron tomography for enhancing the reconstruction quality. Since over-regularization smears out sharp edges and under-regularization leaves the image too noisy, finding the optimal regularization strength is crucial. To this end, one can either manually tune regularization parameters by trial and error...
conference paper 2019
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Rieger, V.S. (author)
Emissions of road traffic crucially influence Earth’s climate. The vehicle fleet emits not only carbon dioxide (CO2), but also nitrogen oxides (NOx), volatile organic compounds (VOC) and carbon monoxide (CO) which produce ozone (O3) and destroy methane (CH4) in the troposphere. As the demand of mobility is expected to further increase in future,...
doctoral thesis 2018
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Rieger, V.S. (author), Mertens, Mariano (author), Grewe, V. (author)
To mitigate the human impact on climate change, it is essential to determine the contribution of emissions to the concentration of trace gases. In particular, the source attribution of short-lived species such as OH and HO<sub>2</sub> is important as they play a crucial role for atmospheric chemistry. This study presents an advanced version...
journal article 2018
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Mertens, Mariano (author), Grewe, V. (author), Rieger, V.S. (author), Jöckel, Patrick (author)
We quantify the contribution of land transport and shipping emissions to tropospheric ozone for the first time with a chemistry-climate model including an advanced tagging method (also known as source apportionment), which considers not only the emissions of nitrogen oxides (NOx, NO, and NO2), carbon monoxide (CO), and volatile organic...
journal article 2018
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Heydarian, H. (author), Schueder, Florian (author), Strauss, Maximilian T. (author), van Werkhoven, Ben (author), Fazel, Mohamadreza (author), Lidke, K.A. (author), Jungmann, Ralf (author), Stallinga, S. (author), Rieger, B. (author)
Methods that fuse multiple localization microscopy images of a single structure can improve signal-to-noise ratio and resolution, but they generally suffer from template bias or sensitivity to registration errors. We present a template-free particle-fusion approach based on an all-to-all registration that provides robustness against...
journal article 2018
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Martens, Koen J.A. (author), Bader, Arjen N. (author), Baas, Sander (author), Rieger, B. (author), Hohlbein, Johannes (author)
We present a fast and model-free 2D and 3D single-molecule localization algorithm that allows more than 3 × 106 localizations per second to be calculated on a standard multi-core central processing unit with localization accuracies in line with the most accurate algorithms currently available. Our algorithm converts the region of interest around...
journal article 2018
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Guo, Y. (author), Rieger, B. (author)
With electron tomography, we can reconstruct a threedimensional<br/>(3D) volume of a specimen from a series of its two-dimensional (2D) projection images on the nanoscale. In a scanning transmission electron microscope (STEM), element-specific maps and mass-contrast projections can be simultaneously acquired from the X-ray spectrometer and...
conference paper 2018
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Guo, Y. (author), Rieger, B. (author)
Bimodal tomography introduces a weighting factor α to incorporate X-ray data into projection images acquired from scanning transmission electron microscope (STEM) for achieving an atom-specific three-dimensional (3D) reconstruction of an object on the nanoscale. Currently its value is chosen by computing reconstructions for a large range of...
conference paper 2018
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Zhong, Zhichao (author), Aveyard, R.A. (author), Rieger, B. (author), Bals, Sara (author), Palenstijn, Willem Jan (author), Batenburg, K. Joost (author)
HAADF-STEM tomography is a common technique for characterizing the three-dimensional morphology of nanomaterials. In conventional tomographic reconstruction algorithms, the image intensity is assumed to be a linear projection of a physical property of the specimen. However, this assumption of linearity is not completely valid due to the...
journal article 2018
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Rieger, B. (author), Stallinga, S. (author)
Standard fluorescent light microscopy is rapidly approaching resolutions of a few nanometers when computationally combining information from hundreds of identical structures. We have developed algorithms to combine this information taking into account the specifics of fluorescent imaging.
journal article 2017
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Aveyard, R.A. (author), Zhong, Z. (author), Batenburg, KJ (author), Rieger, B. (author)
Tomographic reconstruction algorithms offer a means by which a tilt-series of transmission images can be combined to yield a three dimensional model of the specimen. Conventional reconstruction algorithms assume that the measured signal is a linear projection of some property, typically the density, of the material. Here we report the use of...
journal article 2017
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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), Bates, M. (author), Szymborska, A. (author), Lidke, K.A. (author), Rieger, B. (author), Stallinga, S. (author)
journal article 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), 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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Selig, B. (author), Vermeer, K.A. (author), Rieger, B. (author), Hillenaar, T. (author), Hendriks, C.L.L. (author)
Background Manual and semi-automatic analyses of images, acquired in vivo by confocal microscopy, are often used to determine the quality of corneal endothelium in the human eye. These procedures are highly time consuming. Here, we present two fully automatic methods to analyze and quantify corneal endothelium imaged by in vivo white light slit...
journal article 2015
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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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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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