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Inverse ellipsometry, i.e., reconstructing optical constants and film thickness from the measured phase difference $\Delta$ and amplitude ratio $\Psi$, is a fundamentally ill-posed problem. Traditional solutions rely on slow, expert-driven…
Fluorescence microscopy (FM) imaging is a fundamental technique for observing live cell division, one of the most essential processes in the cycle of life and death. Observing 3D live cells requires scanning through the cell volume while…
Fluorescence microscopy has been a significant tool to observe long-term imaging of embryos (in vivo) growth over time. However, cumulative exposure is phototoxic to such sensitive live samples. While techniques like light-sheet…
We develop a method that recovers the surface, materials, and illumination of a scene from its posed multi-view images. In contrast to prior work, it does not require any additional data and can handle glossy objects or bright lighting. It…
In this two-part paper, we present a novel framework and methodology to analyze data from certain image-based biochemical assays, e.g., ELISPOT and Fluorospot assays. In this first part, we start by presenting a physical partial…
There is widespread interest in estimating the fluorescence properties of natural materials in an image. However, the separation between reflected and fluoresced components is difficult, because it is impossible to distinguish reflected and…
Optical diffraction tomography is an indispensable tool for studying objects in three-dimensions due to its ability to accurately reconstruct scattering objects. Until now this technique has been limited to coherent light because spatial…
In multi-photon microscopy (MPM), a recent in-vivo fluorescence microscopy system, the task of image restoration can be decomposed into two interlinked inverse problems: firstly, the characterization of the Point Spread Function (PSF) and…
Confocal laser-scanning microscopy (CLSM) is one of the most popular optical architectures for fluorescence imaging. In CLSM, a focused laser beam excites the fluorescence emission from a specific specimen position. Some actuators scan the…
We consider an inverse source problem for partially coherent light propagating in the Fresnel regime. The data is the coherence of the field measured away from the source. The reconstruction is based on a minimum residue formulation, which…
We study the problem of deconvolution for light-sheet microscopy, where the data is corrupted by spatially varying blur and a combination of Poisson and Gaussian noise. The spatial variation of the point spread function (PSF) of a…
Optical phase-space functions describe spatial and angular information simultaneously; examples include light fields in ray optics and Wigner functions in wave optics. Measurement of phase-space enables digital refocusing, aberration…
Traditional methods for biological shape inference, such as deep learning (DL) and active contour models, face important limitations in 3D. DL approaches require large annotated datasets, which are often impractical to obtain, while active…
Fluorescence photoacoustic tomography (fPAT) is a molecular imaging modality that combines photoacoustic tomography (PAT) with fluorescence imaging to obtain high-resolution imaging of fluorescence distributions inside heterogeneous media.…
Light-field microscopy (LFM) enables rapid volumetric imaging through single-frame acquisition and fast 3D reconstruction algorithms. The high speed and low phototoxicity of LFM make it highly suitable for real-time 3D fluorescence imaging,…
We consider an inverse transport problem in fluorescence ultrasound modulated optical tomography (fUMOT) with angularly averaged illuminations and measurements. We study the uniqueness and stability of the reconstruction of the absorption…
The paper considers an inverse problem of reconstructing the spatially distributed complex dielectric permittivity function using backscattered data of the electric field in the frequency domain. We develop iterative algorithm for…
We investigate a hybrid inverse problem in fluorescence ultrasound modulated optical tomography (fUMOT) in the diffusive regime. We prove that the absorption coefficient of the fluorophores at the excitation frequency and the quantum…
A phase retrieval technique using a spatial light modulator (SLM) and a phase diffuser for a fast reconstruction of smooth wave fronts is demonstrated experimentally. Diffuse illumination of a smooth test object with the aid of a phase…
Fluorescence molecular tomography (FMT) is an emerging powerful tool for biomedical research. There are two factors that influence FMT reconstruction most effectively. The first one is the regularization techniques. Traditional methods such…