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We develop a numerical framework to simulate the locomotion of a flagellated bacterium with a spheroidal head (such as Escherichia coli) in biological fluids like mucus, which are entangled polymer solutions exhibiting elasto-viscoplastic…
A hallmark of bacterial populations cultured in vitro is their homogeneity of growth, where the majority of cells display identical growth rate, cell size and content. Recent insights, however, have revealed that even cells growing in…
The ocean is filled with microscopic microalgae called phytoplankton, which together are responsible for as much photosynthesis as all plants on land combined. Our ability to predict their response to the warming ocean relies on…
A Bayesian feature allocation model (FAM) is presented for identifying cell subpopulations based on multiple samples of cell surface or intracellular marker expression level data obtained by cytometry by time of flight (CyTOF). Cell…
The results of applying a laser dynamic speckle technique to characterize bacterial activity are presented. The speckle activity was detected in two-compartment Petri dishes. One compartment was inoculated and the other one was left as a…
This paper presents a finite volume method for simulating two-phase flows using a level set approach coupled with volume of fluid method capable of simulating sharp fluid interfaces. The efficiency of the method is a result of the fact that…
Microbiome research has immense potential for unlocking insights into human health and disease. A common goal in human microbiome research is identifying subgroups of individuals with similar microbial composition that may be linked to…
A novel 3-electrode cell type is introduced to run parametrical studies of H$_2$ evolution in an alkaline electrolyte on porous electrodes. Electrochemical methods combined with a high-speed optical measurement system are applied…
Bioclogging, the clogging of pores with living particles, is a complex process that involves various coupled mechanisms such as hydrodynamics and particle properties. This article explores bioclogging at the microscale level. At this scale,…
Recent studies have demonstrated the advantages of fractional-order calculus tools for probing the viscoelastic properties of collagenous tissue, characterizing the arterial blood flow and red cell membrane mechanics, and modeling the…
Understanding the physics of blood is challenging due to its nature as a suspension of soft particles and the fact that typical problems involve different scales. This is valid also for numerical investigations. In fact, many computational…
Sterile filters incorporating endotoxin adsorption function emerged recently to pretreat dialysate liquids fed to a hemodialysis filtration process. Their application significantly enhances the survival rate during dialysis treatment as…
The ability to accurately forecast and control inpatient census, and thereby workloads, is a critical and longstanding problem in hospital management. Majority of current literature focuses on optimal scheduling of inpatients, but largely…
We use in vivo measurements of swimming bacteria in an optical trap to determine fundamental properties of bacterial propulsion. In particular, we determine the propulsion matrix, which relates the angular velocity of the flagellum to the…
We propose a model for bacterial Quorum Sensing based on an auxiliary electrostatic-like interac-tion originating from a fictitious electrical charge that represents bacteria activity. A cooperative mechanism for charge/activity exchange is…
New experimental results on bacterial growth inspire a novel top-down approach to study cell metabolism, combining mass balance and proteomic constraints to extend and complement Flux Balance Analysis. We introduce here Constrained…
Emerging sampling algorithms based on normalizing flows have the potential to solve ergodicity problems in lattice calculations. Furthermore, it has been noted that flows can be used to compute thermodynamic quantities which are difficult…
Coronary angiography is the main tool for assessing coronary artery disease, but visual grading of stenosis is variable and only moderately related to ischaemia. Wire based fractional flow reserve (FFR) improves lesion selection but is not…
Living systems continuously sense, integrate, and act on chemical information using multiscale biochemical networks whose dynamics are inherently nonlinear, adaptive, and energy-efficient. Yet, most attempts to harness such "wetware" for…
Bacterial swimming is well characterized in uniform liquids at rest. The natural habitat of bacterial swimmers, however, is often dominated by moving fluids and interfaces, resulting in shear flows that may strongly alter bacterial…