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Structured illumination has been widely used for optical sectioning and 3D surface recovery. In a typical implementation, multiple images under non-uniform pattern illumination are used to recover a single object section. Axial scanning of…

Computer Vision and Pattern Recognition · Computer Science 2019-04-26 Shaowei Jiang , Jun Liao , Zichao Bian , Pengming Song , Garrett Soler , Kazunori Hoshino , Guoan Zheng

Fluorescence microscopy is essential in biological and medical research, providing critical insights into cellular structures. However, limited by optical diffraction and background noise, a substantial amount of hidden information is still…

Biological Physics · Physics 2026-04-14 Xiaofeng Zhang , Yongsheng Huang , Jielong Yang , Zhili Wang , Si Chen , Linbo Liu , Xin Ge

Compact direct electron detectors are becoming increasingly popular in electron microscopy applications including electron backscatter diffraction, as they offer an opportunity for low cost and accessible microstructural analysis. In this…

Materials Science · Physics 2025-10-17 Tianbi Zhang , Ruth Birch , Graeme Francolini , Ebru Karakurt Uluscu , Ben Britton

Materials science inherently spans disciplines: experimentalists use advanced microscopy to uncover micro- and nanoscale structure, while theorists and computational scientists develop models that link processing, structure, and properties.…

Machine Learning · Computer Science 2026-03-25 Simon Daubner , Alexander E. Cohen , Benjamin Dörich , Samuel J. Cooper

Miniature fluorescence microscopes are a standard tool in systems biology. However, widefield miniature microscopes capture only 2D information, and modifications that enable 3D capabilities increase the size and weight and have poor…

Image and Video Processing · Electrical Eng. & Systems 2020-10-13 Kyrollos Yanny , Nick Antipa , William Liberti , Sam Dehaeck , Kristina Monakhova , Fanglin Linda Liu , Konlin Shen , Ren Ng , Laura Waller

Deploying advanced imaging solutions to robotic and autonomous systems by mimicking human vision requires simultaneous acquisition of multiple fields of views, named the peripheral and fovea regions. Low-resolution peripheral field provides…

Dielectric tensor tomography is an imaging technique for mapping three-dimensional distributions of dielectric properties in transparent materials. This work introduces an enhanced illumination strategy employing a micro-electromechanical…

Three-dimensional electron diffraction (3D ED) has emerged as a powerful method for solving the structures of sub-micron-sized particles down to nanoparticles. However, it faces technical challenges when applied to beam-sensitive samples or…

The living body is composed of innumerable fine and complex structures and although these structures have been studied in the past, a vast amount of information pertaining to them still remains unknown. When attempting to observe these…

Medical Physics · Physics 2021-11-30 Raku Son , Kenji Yamazawa , Akiko Oguchi , Mitsuo Suga , Masaru Tamura , Yasuhiro Murakawa , Satoshi Kume

Fluorescence microscopic imaging in centimeter-deep tissue has been highly sought-after for many years because much interesting in vivo micro-information, such as microcirculation, tumor angiogenesis, and metastasis, may deeply locate in…

Here, we report analysis and summary of research in the field of localization microscopy for optical imaging. We introduce the basic elements of super-resolved localization microscopy methods for PALM and STORM, commonly used both in vivo…

Optics · Physics 2021-02-25 Jack W Shepherd , Mark C Leake

The use of fast pixelated detectors and direct electron detection technology is revolutionising many aspects of scanning transmission electron microscopy (STEM). The widespread adoption of these new technologies is impeded by the technical…

Instrumentation and Detectors · Physics 2020-08-06 Magnus Nord , Robert W. H. Webster , Kirsty A. Paton , Stephen McVitie , Damien McGrouther , Ian MacLaren , Gary W. Paterson

An interferometric fluorescent microscope and a novel theoretic image reconstruction approach were developed and used to obtain super-resolution images of live biological samples and to enable dynamic real time tracking. The tracking…

Insight in the structure of nanoparticle assemblies up to a single particle level is key to understand the collective properties of these assemblies, which critically depend on the individual particle positions and orientations. However,…

Current biological and medical research is aimed at obtaining a detailed spatiotemporal map of a live cell's interior to describe and predict cell's physiological state. We present here an algorithm for complete 3-D modelling of cellular…

Quantitative Methods · Quantitative Biology 2017-04-03 Renata Rychtarikova , Tomas Nahlik , Kevin Shi , Daria Malakhova , Petr Machacek , Rebecca Smaha , Jan Urban , Dalibor Stys

Three-dimensional (3D) subcellular imaging is essential for biomedical research, but the diffraction limit of optical microscopy compromises axial resolution, hindering accurate 3D structural analysis. This challenge is particularly…

Colocalization aims at characterizing spatial associations between two fluorescently-tagged biomolecules by quantifying the co-occurrence and correlation between the two channels acquired in fluorescence microscopy. Colocalization is…

Applications · Statistics 2019-07-12 Frédéric Lavancier , Thierry Pécot , Liu Zengzhen , Charles Kervrann

This paper introduces a new method of data-driven microscope design for virtual fluorescence microscopy. Our results show that by including a model of illumination within the first layers of a deep convolutional neural network, it is…

Image and Video Processing · Electrical Eng. & Systems 2020-04-23 Colin L. Cooke , Fanjie Kong , Amey Chaware , Kevin C. Zhou , Kanghyun Kim , Rong Xu , D. Michael Ando , Samuel J. Yang , Pavan Chandra Konda , Roarke Horstmeyer

Automatic detection and segmentation of cells and nuclei in microscopy images is important for many biological applications. Recent successful learning-based approaches include per-pixel cell segmentation with subsequent pixel grouping, or…

Computer Vision and Pattern Recognition · Computer Science 2018-11-09 Uwe Schmidt , Martin Weigert , Coleman Broaddus , Gene Myers

Diffraction-limited focusing deep into biological tissue is challenging due to spherical aberrations that lead to a broadening of the focal spot particularly in axial direction. While the diffraction-limit can be restored employing…