Related papers: Compact Representation of Photosynthesis Dynamics …
A generalized approach towards modelling any optical experiment is presented. Beam splitter and phase retarders are described in terms of annihilation and creation operators. We notice that such description provides us a better way to…
Thermodynamics is accepted as a universal truth, encompassing all macroscopic objects. Therefore, it is surprising to find that, within our current understanding, the photovoltaic effect has so far eluded the first and second laws of…
Many natural and artificial reactions including photosynthesis or photopolymerization are initiated by stimulating organic molecules into an excited state, which enables new reaction paths. Controlling light-matter interaction can influence…
We develop an approach to light-matter coupling in waveguide QED based upon scattering amplitudes evaluated via Dyson series. For optical states containing more than single photons, terms in this series become increasingly complex and we…
The activity of biological cells is primarily based on chemical reactions and typically modeled as a reaction-diffusion system. Cells are, however, highly crowded with macromolecules, including a variety of molecular machines such as…
The electromagnetic processes in linear colliders are discussed on the basis of quasiclassical operator method. The complete set of expressions is written down for spectral probability of radiation from an electron and pair creation by a…
Introducing the effect of extinction into the so-called replicator equations in mathematical biology, we construct a general model of ecosystems. The present model shows mass extinction by its own extinction dynamics when the system…
To celebrate Hans Frauenfelder's achievements, we examine energy(-like) "landscapes" for complex living systems. Energy landscapes summarize all possible dynamics of some physical systems. Energy(-like) landscapes can explain some…
In this paper we show how inter-cellular molecular communication may change the overall levels of photosynthesis in plants. Individual plant cells respond to external stimuli, such as illumination levels, to regulate their photosynthetic…
We used the theory of finite periodic systems to explain the photoluminescence spectra dependence on the average diameter of nanocrystals embedded in oxide matrices. Because of the broad matrix band gap, the photoluminescence response is…
Morphogenesis is the ensemble of processes that determines form, shape and patterns in organisms. Based on a reaction-diffusion theoretical setting and some prototype reaction schemes, we make a review of the models and experiments that…
We study bulk recombination in a medium with energetic disorder by using the multiple trapping (MT) model under continuous irradiation with excitation light. Charge densities are shown to obey power law as a function of the intensity of…
Reaction networks are widely used models to describe biochemical processes. Stochastic fluctuations in the counts of biological macromolecules have amplified consequences due to their small population sizes. This makes it necessary to favor…
This article reviews trajectory surface hopping methods to study conformationally controlled photochemistry. Besides focusing on the linear response time-dependent density functional theory surface hopping method, it reviews the generation…
Photosynthesis first step mechanism concerns the sunlight absorption and both negative and positive charges separation. Recent and important photosynthesis literature claims that this mechanism is quantum mechanics controlled, however…
In multicellular organisms, relations among parts and between parts and the whole are contextual and interdependent. These organisms and their cells are ontogenetically linked: an organism starts as a cell that divides producing…
We introduce RuleVis, a web-based application for defining and editing "correct-by-construction" executable rules that model biochemical functionality, which can be used to simulate the behavior of protein-protein interaction networks and…
Why do plants reflect in the green and have a 'red edge' in the red, and should extrasolar photosynthesis be the same? We provide: 1) a brief review of how photosynthesis works; 2) an overview of the diversity of photosynthetic organisms,…
We study the reaction mechanism for the photoproduction of the Lambda(1520), based on an effective Lagrangian approach. We investigate each contribution of the s-, u-, t-channel processes and contact term, separately. One of the most…
A mathematical model to describe the growth of an arbitrarily large number of nanocrystals from solution is presented. First, the model for a single particle is developed. By non-dimensionalising the system we are able to determine the…