Related papers: Application of electromagnetic centroids to coloca…
Three-dimensional (3D) fluorescence microscopy in general requires axial scanning to capture images of a sample at different planes. Here we demonstrate that a deep convolutional neural network can be trained to virtually refocus a 2D…
Light-field microscopes are able to capture spatial and angular information of incident light rays. This allows reconstructing 3D locations of neurons from a single snap-shot.In this work, we propose a model-inspired deep learning approach…
Fluorescence microscopy is an essential tool for the analysis of 3D subcellular structures in tissue. An important step in the characterization of tissue involves nuclei segmentation. In this paper, a two-stage method for segmentation of…
We describe the development of a tracking device, mounted on an epi-fluorescent inverted microscope, suited to obtain time resolved 3D Lagrangian tracks of fluorescent passive or active micro-objects in micro-fluidic devices. The system is…
Since manual object detection is very inaccurate and time consuming, some automatic object detection tools have been developed in recent years. At the moment, there is no image analysis software available which provides an automatic,…
Correlative light-electron microscopy (CLEM) unifies the versatility of light microscopy (LM) with the high resolution of electron microscopy (EM), allowing one to zoom into the complex organization of cells. Most CLEM techniques use…
Evanescent light excitation is widely used in super-resolution fluorescence microscopy to confine light and reduce background noise. Herein we propose a method of exploiting evanescent light in the context of emission. When a fluorophore is…
Various techniques have been developed to measure the 2D and 3D positions and 2D and 3D orientations of fluorescent molecules with improved precision over standard epifluorescence microscopes. Due to the challenging signal-to-background…
Analysis of three-dimensional biological samples is critical to understanding tissue function and the mechanisms of disease. Many chronic conditions, like neurodegenerative diseases and cancers, correlate with complex tissue changes that…
Correlative light and electron microscopy is a powerful tool to study the internal structure of cells. It combines the mutual benefit of correlating light (LM) and electron (EM) microscopy information. However, the classical approach of…
This paper presents deformable templates as a tool for segmentation and localization of biological structures in medical images. Structures are represented by a prototype template, combined with a parametric warp mapping used to deform the…
Tracking cells in 3D at high speed continues to attract extensive attention for many biomedical applications, such as monitoring immune cell migration and observing tumor metastasis in flowing blood vessels. Here, we propose a deep…
We introduce an approach for selecting objects in neural volumetric 3D representations, such as multi-plane images (MPI) and neural radiance fields (NeRF). Our approach takes a set of foreground and background 2D user scribbles in one view…
Robust and accurate nuclei centroid detection is important for the understanding of biological structures in fluorescence microscopy images. Existing automated nuclei localization methods face three main challenges: (1) Most of object…
Colocalization is a powerful tool to study the interactions between fluorescently labeled molecules in biological fluorescence microscopy. However, existing techniques for colocalization analysis have not undergone continued development…
Super-resolution imaging using sub-diffraction field localization by micron sized transparent beads (microspheres) was recently demonstrated [1]. Practical applications in microscopy require control over the positioning of the microspheres.…
Precisely measuring the three-dimensional position and orientation of individual fluorophores is challenging due to the substantial photon shot noise in single-molecule experiments. Facing this limited photon budget, numerous techniques…
We introduce MINFLUX, a concept for localizing photon emitters in space. By probing the emitter with a local intensity minimum of excitation light, MINFLUX minimizes the fluorescence photons needed for high localization precision. A 22-fold…
Medical images, especially volumetric images, are of high resolution and often exceed the capacity of standard desktop GPUs. As a result, most deep learning-based medical image analysis tasks require the input images to be downsampled,…
Microscopy is the workhorse of the physical and life sciences, producing crisp images of everything from atoms to cells well beyond the capabilities of the human eye. However, the analysis of these images is frequently little better than…