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We present an in-depth investigation of a fully automated Fourier-based analysis to determine the cell size and the width of its distribution in 3D biological tissues. The results are thoroughly tested using generated images, and we offer…
Stress and strain fields in a two-dimensional pixelwise disordered system are computed by a Fast Fourier Transform method. The system, a model for a ductile damaged medium, consists of an elastic-perfectly matrix containing void pixels. Its…
Collagen fibres play an important role in the mechanical behaviour of many soft tissues. Modelling of such tissues now often incorporates a collagen fibre distribution. However, the availability of accurate structural data has so far lagged…
Within developing embryos, tissues flow and reorganize dramatically on timescales as short as minutes. This includes epithelial tissues, which often narrow and elongate in convergent extension movements due to anisotropies in external…
Serial section electron microscopy (ssEM) is a widely used technique for obtaining volumetric information of biological tissues at nanometer scale. However, accurate 3D reconstructions of identified cellular structures and volumetric…
Colour and coarseness of skin are visually different. When image processing is involved in the skin analysis, it is important to quantitatively evaluate such differences using texture features. In this paper, we discuss a texture analysis…
Analysis of microscopy images can provide insight into many biological processes. One particularly challenging problem is cell nuclear segmentation in highly anisotropic and noisy 3D image data. Manually localizing and segmenting each and…
Studying the growth and metabolism of microbes provides critical insights into their evolutionary adaptations to harsh environments, which are essential for microbial research and biotechnology applications. In this study, we developed an…
Biological soft tissues encountered in clinical and pre-clinical imaging mainly consist of light element atoms, and their composition is nearly uniform with little density variation. Thus, x-ray attenuation imaging suffers from low image…
Artificial intelligence is nowadays used for cell detection and classification in optical microscopy, during post-acquisition analysis. The microscopes are now fully automated and next expected to be smart, to make acquisition decisions…
Current methods for diagnosing the progression of multiple types of cancer within patients rely on interpreting stained needle biopsies. This process is time-consuming and susceptible to error throughout the paraffinization, Hematoxylin and…
Analysis of microscope images is a tedious work which requires patience and time, usually done manually by the microscopist after data collection. Here we introduce an approach of automatic image analysis, which is based on locally applied…
This article addresses the problem of two- and higher dimensional pattern matching, i.e. the identification of instances of a template within a larger signal space, which is a form of registration. Unlike traditional correlation, we aim at…
Many media are divided into elementary units with irregular shape and size, as exemplified by domains in magnetic materials, bubbles in foams, or cells in biological tissues. Such media are essentially characterized by geometrical disorder…
We introduce a 3D Mueller Matrix (MM) image reconstruction technique using digital holographic approach for the layer-by-layer profiling thin films with polycrystalline structures, like dehydrated blood smears. The proposed method…
While a linear growth behavior is one of the fingerprints of textbook atomic layer deposition processes, the growth often deviates from that behavior in the initial regime, i.e. the first few cycles of a process. To properly understand the…
Over the last two decades, scientific literature has been blooming with various means of simulating epithelial cell colonies. Each of these simulations can be separated by their respective efficiency (expressed in terms of consumed…
Computational micromechanics and homogenization require the solution of the mechanical equilibrium of a periodic cell that comprises a (generally complex) microstructure. Techniques that apply the Fast Fourier Transform have attracted much…
This work presents a new procedure to extract features of grey-level texture images based on the discrete Schroedinger transform. This is a non-linear transform where the image is mapped as the initial probability distribution of a wave…
Many morphogenetic processes involve mechanical rearrangement of epithelial tissues that is driven by precisely regulated cytoskeletal forces and cell adhesion. The mechanical state of the cell and intercellular adhesion are not only the…