Publications related to Living specimen tomography by digital holographic microscopy: morphometry of testate amoeba

Exploring Novel Modalities for Optical Diffraction Tomography

In the past decade, optical diffraction tomography has gained a lot of attention for its ability to create label-free three-dimensional (3D) images of the refractive index distribution of biological samples using scattered fields measured through holograph ...

EPFL2023

Correlating cryo-super resolution radial fluctuations and dual-axis cryo-scanning transmission electron tomography to bridge the light-electron resolution gap

Prabhu Prasad Swain

Visualization of organelles and their interactions with other features in the native cell remains a challenge in modern biology. We have introduced cryo-scanning transmission electron tomography (CSTET), which can ac-cess 3D volumes on the scale of 1 micro ...

Elsevier2023

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

François Thierry M Marelli

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 ...

EPFL2023

van der Waals Materials for Overcoming Fundamental Limitations in Photonic Integrated Circuitry

Arslan Mazitov

With the advance of on-chip nanophotonics, there is a high demand for high-refractive-index and low-loss materials. Currently, this technology is dominated by silicon, but van der Waals (vdW) materials with a high refractive index can offer a very advanced ...

AMER CHEMICAL SOC2023

Automated Dual-Mode Cell Monitoring To Simultaneously Explore Calcium Dynamics and Contraction-Relaxation Kinetics within Drug-Treated Stem Cell-Derived Cardiomyocytes

Gerardo Turcatti, Pierre Marquet, Benjamin Rappaz, Bokyoung Kim

This manuscript proposes a new dual-mode cell imaging system for studying the relationships between calcium dynamics and the contractility process of cardiomyocytes derived from human-induced pluripotent stem cells. Practically, this dual-mode cell imaging ...

AMER CHEMICAL SOC2023

Scalable angular spectrum propagation

Felix Wechsler

Coherent field propagation is an essential computational tool in optics with applications ranging from computational optics and optical design to iterative field reconstructions. An improvement in the computational speed of current propagation methods is t ...

Optica Publishing Group2023

Advanced Techniques in Optical Diffraction Tomography

Ahmed Bassam Sayed Ayoub Mohamed Emam

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 ...

EPFL2022

Nonlinear Inverse Problems in Quantitative Phase Imaging

Thanh-An Michel Pham

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 ...

EPFL2022

The new X-ray/visible microscopy MAXWELL technique for fast three-dimensional nanoimaging with isotropic resolution

Giorgio Margaritondo, Lin Yang

Microscopy by Achromatic X-rays With Emission of Laminar Light (MAXWELL) is a new X-ray/visible technique with attractive characteristics including isotropic resolution in all directions, large-volume imaging and high throughput. An ultrathin, laminar X-ra ...

Nature Portfolio2022

2.5 Hz sample rate time-domain near-infrared optical tomography based on SPAD-camera image tissue hemodynamics

Edoardo Charbon, Scott Anthony Lindner, Jingjing Jiang, Martin Wolf

Tim-domain near-infrared optical tomography (TD NIROT) techniques based on diffuse light were gaining performance over the last years. They are capable of imaging tissue at several centimeters depth and reveal clinically relevant information, such as tissu ...

OPTICAL SOC AMER2022

Amplitude and phase reconstruction for Low-Energy Electron Holography of individual proteins

Hannah Julia Ochner

Single-molecule imaging methods are of importance in structural biology, and specifically in the imaging of proteins, since they can elucidate conformational variability and structural changes that might be lost in imaging methods relying on averaging proc ...

EPFL2022

Physics-informed neural networks for diffraction tomography

Demetri Psaltis, Ahmed Ayoub, Carlo Gigli, Amirhossein Saba Shirvan

We propose a physics-informed neural network (PINN) as the forward model for tomographic reconstructions of biological samples. We demonstrate that by training this network with the Helmholtz equation as a physical loss, we can predict the scattered field ...

SPIE-SOC PHOTO-OPTICAL INSTRUMENTATION ENGINEERS2022

Glass-in-glass infiltration for 3D micro-optical composite components

Yves Bellouard, Andreas Mortensen, Jérôme Faist, Enrico Casamenti, Luciano Borasi, Gözden Torun, Mathieu Bertrand

Chalcogenide glass exhibits a wide transmission window in the infrared range, a high refractive index, and nonlinear optical properties; however, due to its poor mechanical properties and low chemical and environmental stability, producing three-dimensiona ...

2022

Bragg edge tomography characterization of additively manufactured 316L steel

Christian Leinenbach, Roland Logé, Nikola Kalentics, Efthymios Polatidis, Markus Strobl

In this work we perform a neutron Bragg edge tomography of stainless steel 316L additive manufacturing samples, one as built via standard laser powder bed fusion, and one using the novel three-dimensional (3D) laser shock peening technique. First, we consi ...

AMER PHYSICAL SOC2022

Combining Model Driven and Data Driven Approaches for Inverse Problems in Parameter Estimation and Image Reconstruction: From Modelling to Validation

Thomas Yu

Machine learning has become the state of the art for the solution of the diverse inverse problems arising from computer vision and medical imaging, e.g. denoising, super-resolution, de-blurring, reconstruction from scanner data, quantitative magnetic reson ...

EPFL2022

Polarization-sensitive optics diffraction tomography

Demetri Psaltis, Ahmed Ayoub, Joowon Lim, Elizabeth Elena Antoine, Amirhossein Saba Shirvan

Polarization of light has been widely used as a contrast mechanism in two-dimensional (2D) microscopy and also in some three-dimensional (3D) imaging modalities. In this paper, we report the 3D tomographic reconstruction of the refractive index (RI) tensor ...

2021

Piecewise linear interface-capturing volume-of-fluid method in axisymmetric cylindrical coordinates

Andreas Pautz, Lubomír Bures, Yohei Sato

The paper describes a novel implementation of the piecewise linear interface-capturing volume-of-fluid method (PLIC-VOF) in axisymmetric cylindrical coordinates. The principal innovative feature involved in this work is that both the forward and inverse re ...

ACADEMIC PRESS INC ELSEVIER SCIENCE2021

3D reconstruction of weakly scattering objects from 2D intensity-only measurements using the Wolf transform

Demetri Psaltis, Ahmed Ayoub, Joowon Lim, Elizabeth Elena Antoine

A new approach to optical diffraction tomography (ODT) based on intensity measurements is presented. By applying the Wolf transform directly to intensity measurements, we observed unexpected behavior in the 3D reconstruction of the sample. Such a reconstru ...

2021

Phase calibration of a basic bright-field microscope for 3D metrology of transparent samples at the nanoscale

Martinus Gijs, Daniel Migliozzi, Bingying Zhao

Optical retrieval of the structure of transparent objects at the nano-scale requires adapted methods capable of probing their interaction with suitable light. Scattering events, for instance, depend on the content and the arrangement of the medium encounte ...

SPIE-INT SOC OPTICAL ENGINEERING2021

Sensing of Surface and Bulk Refractive Index Using Magnetophotonic Crystal with Hybrid Magneto-Optical Response

Serguei Sekatski

We propose an all-dielectric magneto-photonic crystal with a hybrid magneto-optical response that allows for the simultaneous measurements of the surface and bulk refractive index of the analyzed substance. The approach is based on two different spectral f ...

2021