Related papers: Image-based physical characterization of magnetota…
Bacterial cells navigate around their environment by directing their movement along chemical gradients. This process, known as chemotaxis, can promote the rapid expansion of bacterial populations into previously unoccupied territories.…
We use moving light patterns to control the motion of {\it Escherichia coli} bacteria whose motility is photo-activated. Varying the pattern speed controls the magnitude and direction of the bacterial flux, and therefore the accumulation of…
Microbial communities assemble through a complex set of interactions between microbes and their environment, and the resulting metabolic impact on the host ecosystem can be profound. Microbial activity is known to impact human health, plant…
Combining experiments with artificial intelligence algorithms, we propose a new machine learning based approach to extract the cellular force distributions from the microscope images. The full process can be divided into three steps. First,…
The recently emerged molecular communication (MC) paradigm intends to leverage communication engineering tools for the design of synthetic chemical communication systems. These systems are envisioned to operate at nanoscale and in…
In nature, bacterial collectives typically consist of multiple species, which are interacting both biochemically and physically. Nonetheless, past studies on the physical properties of swarming bacteria were focused on axenic (single…
Predicting if red blood cells (RBC) are infected with the malaria parasite is an important problem in Pathology. Recently, supervised machine learning approaches have been used for this problem, and they have had reasonable success. In…
Combining optical tweezers with fluorescence microscopy is a powerful tool for single-cell analysis, playing a pivotal role in disease diagnosis, cell sorting, and the investigation of cellular dynamics. However, fluorescence detection…
The transition from localized to systemic spreading of bacteria, viruses and other agents is a fundamental problem that spans medicine, ecology, biology and agriculture science. We have conducted experiments and simulations in a simple…
Graphical models are powerful tools for capturing conditional dependence structures in complex systems but remain underexplored in analyzing ordinal data, especially in sports analytics. Ordinal variables, such as team rankings, player…
We controlled and observed individual magnetotactic bacteria (Magnetospirillum gryphiswaldense) inside a 5 {\mu}m high microfluidic channel for over four hours. After a period of constant velocity, the duration of which varied between…
A simulation approach to the stochastic growth of bacterial towers is presented, in which a non-uniform and finite nutrient supply essentially determines the emerging structure through elementary chemotaxis. The method is based on cellular…
We describe an approach for identifying groups of dynamically similar locations in spatial time-series data based on a simple Markov transition model. We give maximum-likelihood, empirical Bayes, and fully Bayesian formulations of the…
The genetic programming of biosynthesis of biogenic magnetic nanoparticles (BMNs) in plants was revealed by methods of comparative genomics. The samples of leaves and the root of Nicotiana tabacum, the stems and tubers of Solanum tuberosum…
We derived a number of numerical methods to treat biomolecular systems with multiple time scales. Based on the splitting of the operators associated with the slow-varying and fast-varying forces, new multiple time-stepping (MTS) methods are…
One approach to quantifying biological diversity consists of characterizing the statistical distribution of specific properties of a taxonomic group or habitat. Microorganisms living in fluid environments, and for whom motility is key,…
This fluid dynamics video presents three-dimensional kinetic simulations of the dynamics in suspensions of oxytactic bacteria confined in thin liquid film surrounded by air. At the initial time, the bacterial concentration is uniform and…
Harmful algae blooms (HABs), which produce lethal toxins, are a growing global concern since they negatively affect the quality of drinking water and have major negative impact on wildlife, the fishing industry, as well as tourism and…
Table-top extreme ultraviolet (EUV) ptychography enables nanoscale, label-free, and quantitative imaging with intrinsic elemental sensitivity, offering a unique modality for subcellular profiling of bacterial morphology and composition. In…
Microbiome `omics approaches can reveal intriguing relationships between the human microbiome and certain disease states. Along with the identification of specific bacteria taxa associated with diseases, recent scientific advancements…