Related papers: Image-Based Biospeckle Contrast Analysis for Rapid…
A photoacoustic contrast mechanism is presented based on the photoacoustic fluctuations induced by microbubbles flowing inside a micro vessel filled with a continuous absorber. It is demonstrated that the standard deviation of a homogeneous…
Ultrasound localization microscopy offers new radiation-free diagnostic tools for vascular imaging deep within the tissue. Sequential localization of echoes returned from inert microbubbles with low-concentration within the bloodstream…
Bacteria sense a diverse range of environmental analytes with high sensitivity and temporal resolution. Engineering and synthetic biology approaches enabled harnessing this capability through development of whole-cell biosensors that…
Barten's model of spatio-temporal contrast sensitivity function of human visual system is embedded in a multi-slice channelized Hotelling observer. This is done by 3D filtering of the stack of images with the spatio-temporal contrast…
We present a detailed analysis of the mechanism of the primary charge separation process in bacterial photosynthesis using real-time path integrals. Direct computer simulations as well as an approximate analytical theory have been employed…
The mother machine is a popular microfluidic device that allows long-term time-lapse imaging of thousands of cells in parallel by microscopy. It has become a valuable tool for single-cell level quantitative analysis and characterization of…
Malaria is a major health issue worldwide, and its diagnosis requires scalable solutions that can work effectively with low-cost microscopes (LCM). Deep learning-based methods have shown success in computer-aided diagnosis from microscopic…
A method combining video imaging in parallel microchannels with a semi-empirical mathematical model provides non-intrusive, high-throughput measurements of time-varying biofilm viscosity. The approach is demonstrated for early growth…
Characterizing the anchoring properties of smectic liquid crystals (LCs) in contact with bacterial solutions is crucial for developing biosensing platforms. In this study, we investigate the anchoring properties of a smectic LC when exposed…
We present a computational live bacteria detection system that periodically captures coherent microscopy images of bacterial growth inside a 60 mm diameter agar-plate and analyzes these time-lapsed holograms using deep neural networks for…
The human microbiome is a complex ecological system, and describing its structure and function under different environmental conditions is important from both basic scientific and medical perspectives. Viewed through a biostatistical lens,…
In this paper we propose a workflow to detect and track mitotic cells in time-lapse microscopy image sequences. In order to avoid the requirement for cell lines expressing fluorescent markers and the associated phototoxicity, phase contrast…
Rapid antibiotic susceptibility tests (ASTs) are essential for quick selection of effective drugs to treat bacterial infections at an early stage. However, the most widely used phenotypic ASTs in clinical practice often require 24 - 48…
Vast quantities of person-generated health data (wearables) are collected but the process of annotating to feed to machine learning models is impractical. This paper discusses ways in which self-supervised approaches that use contrastive…
More and more diseases have been found to be strongly correlated with disturbances in the microbiome constitution, e.g., obesity, diabetes, or some cancer types. Thanks to modern high-throughput omics technologies, it becomes possible to…
Antibiotic-resistant bacterial infection becomes one of the most serious risks to public health care today. However, discouragingly, the development of new antibiotics has been little progressed over the last decade. There is an urgent need…
The advent of high-throughput sequencing technologies has made data from DNA material readily available, leading to a surge of microbiome-related research establishing links between markers of microbiome health and specific outcomes.…
Many studies have been performed to characterize the dynamics and stability of the microbiome across a range of environmental contexts [Costello et al., 2012, Faust et al., 2015]. For example, it is often of interest to identify time…
The so-called gut-brain axis has stimulated extensive research on microbiomes. One focus is to assess the association between certain clinical outcomes and the relative abundances of gut microbes, which can be presented as sub-compositional…
Current detection and identification of micro-organisms is based on either rather unspecific rapid microscopy or on more accurate complex, time-consuming procedures. In a medical context, the determination of the bacteria Gram type is of…