Super-resolution orientation estimation and localization of fluorescent dipoles using 3-D steerable filters

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Event-driven acquisition uses neural-network-based recognition of specific biological events to trigger switching between slow and fast super-resolution imaging, enriching the capture of interesting events with high spatiotemporal resolution. A common goal ...

Fluorescent D-amino acids (FDAAs) have previ-ously been developed to enable in situ highlighting of locations of bacterial cell wall growth. Most bacterial cells lie at the edge of the diffraction limit of visible light; thus, resolving the precise details ...

Optical microscopy is an essential tool for biologists, who are often faced with the need to overcome the spatial and temporal resolution limitations of their devices to capture finer details. As upgrading imaging hardware is expensive, computational metho ...

In this thesis, we study the 3 challenges described above. First, we study different reconstruction techniques and assess the fidelity of each reconstruction results by means of structured illumination and phase conjugation. By reconstructing the 3D refrac ...

We discuss the properties of signal strength and integrated intensity in two-photon excitation confocal microscopy and image scanning microscopy. The resolution, optical sectioning and background rejection are all improved over nonconfocal two-photon micro ...

Nanometric scale size oscillations seem to be a fundamental feature of all living organisms on Earth. Their detection usually requires complex and very sensitive devices. However, some recent studies demonstrated that very simple optical microscopes and de ...

The topic of this thesis is the development of new algorithmic reconstruction methods for quantitative phase imaging (QPI). In the past decade, advanced QPI has emerged as a valuable tool to study label-free biological samples and uncover their 3D structur ...

These datasets contain the total particle number concentrations and normalized size distributions (dN/dlogDp) of excited, fluorescent, and hyper-fluorescent particles of sizes 0.5 to 20 μm (optical diameter). The normalized size distribution datasets are s ...

The accurate identification of the three-dimensional quantitative shape of a cell nucleus is now possible without fluorescent staining by applying computational segmentation to refractive index tomograms recorded in the flow cytometry mode. ...

Single-molecule localization microscopy (SMLM) can reveal nanometric details of biological samples, but its high phototoxicity hampers long-term imaging in live specimens. A significant part of this phototoxicity stems from repeated irradiations that are n ...

The NLRP3 inflammasome is a central component of the innate immune system. Its activation leads to for-mation of the ASC speck, a supramolecular assembly of the inflammasome adaptor protein ASC. Different models, based on ASC overexpression, have been prop ...

In this thesis, we explored on-chip high-resolution imaging of the fate of intestinal bacteria and bacterial products in Caenorhabditis elegans (C. elegans). In the first part, we carried out high-resolution z-stack fluorescent imaging of Red Fluorescent P ...

The search for an understanding of the causal elements that lead to neurodegenerative diseases has motivated researchers for decades. Today, Alzheimer's disease is the most prevalent form of dementia and affects approximately fifty million people worldwide ...

Super-resolution orientation estimation and localization of fluorescent dipoles using 3-D steerable filters

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Event-driven acquisition for content-enriched microscopy

Fluorescent D-Amino Acids for Super-resolution Microscopy of the Bacterial Cell Wall

Practical computational imaging by use of spatiotemporal light modulation: from simulations to applications in biological microscopy

Advanced Techniques in Optical Diffraction Tomography

Background Rejection in Two-Photon Fluorescence Image Scanning Microscopy

Mitochondrial nanomotion measured by optical microscopy

Nonlinear Inverse Problems in Quantitative Phase Imaging

Wideband integrated bioaerosol sensor (WIBS) excited, fluorescent, and hyper-fluorescent particle number concentrations and normalized size distributions (dN/dlogDp) measured in the Swiss container during MOSAiC 2019/2020

Stain-free identification of cell nuclei using tomographic phase microscopy in flow cytometry

Long-Term, Single-Molecule Imaging of Proteins in Live Cells with Photoregulated Fluxional Fluorophores

Nanoscale organization of the endogenous ASC speck

Microfluidic devices for automated analysis of ingested bacteria in the Caenorhabditis elegans intestine

Multidisciplinary Investigation of the Gut-Brain Ecosystem in a Model of Alzheimer's Disease