Related papers: Geometric phase shifts in biological oscillators
We characterize the geometrical and topological aspects of a dynamical system by associating a geometric phase with a phase space trajectory. Using the example of a nonlinear driven damped oscillator, we show that this phase is resilient to…
We study the geometric phase acquired by an inertial atom whose trajectories are parallel to a reflecting boundary due its coupling to vacuum fluctuations of electromagnetic fields, by treating the atom as an open quantum system in a bath…
We calculate the geometric phase associated with the time evolution of the wave function of a Bose-Einstein condensate system in a double-well trap by using a model for tunneling between the wells. For a cyclic evolution, this phase is…
The geometric phase induced in an auxiliary qubit by a many-body system is calculated and discussed. Two kinds of coupling between the auxiliary qubit and the many-body system are considered, which lead to dephasing and dissipation in the…
Oscillators are ubiquitous in nature, and usually associated with the existence of an asymptotic phase that governs the long-term dynamics of the oscillator. % We show that asymptotic phase can be estimated using a carefully chosen series…
In the first part of this review we introduce the basics theory behind geometric phases and emphasize their importance in quantum theory. The subject is presented in a general way so as to illustrate its wide applicability, but we also…
Biomolecular condensates constitute a newly recognized form of spatial organization in living cells. Although many condensates are believed to form as a result of phase separation, the physicochemical properties that determine the phase…
Isologous diversification theory for cell differentiation is proposed, based on simulations of interacting cells with biochemical networks and cell division process following consumption of some chemicals. According to the simulations of…
Presented with sensory challenges, living cells employ extensive noisy, fluctuating signalling and communication among themselves to compute a physiologically proper response which often results in symmetry breaking. We propose, based on…
In recent years it is increasingly being recognized that biochemical signals are not necessarily constant in time and that the temporal dynamics of a signal can be the information carrier. Moreover, it is now well established that…
The notion of geometric phase has been recently introduced to analyze the quantum phase transitions of many-body systems from the geometrical perspective. In this work, we study the geometric phase of the ground state for an inhomogeneous…
For the study of complex synthetic and biological molecular systems by computer simulations one is still restricted to simple model systems or to by far too small time scales. To overcome this problem multiscale techniques are being…
Rhythmic activity is ubiquitous in biological systems from the cellular to organism level. Reconstructing the instantaneous phase is the first step in analyzing the essential mechanism leading to a synchronization state from the observed…
Circadian rhythms are archetypical examples of nonlinear oscillations. While these oscillations are usually attributed to circuits of biochemical interactions among clock genes and proteins, recent experimental studies reveal that they are…
We obtain the geometric phase for states of a particle in a spherical infinite potential well with a moving wall in two different cases; First, when the radius of the well increases (or decreases) monotonically. Second, when the radius…
In this paper, we investigate the geometric phase of the field interacting with $\Xi $-type moving three-level atom. The results show that the atomic motion and the field-mode structure play important roles in the evolution of the system…
Active phenomena which involve force generation and motion play a key role in a number of phenomena in living cells such as cell motility, muscle contraction and the active transport of material and organelles. Here we discuss mechanical…
We show that geometric phases may be generated in a quantum system subject to noise by adiabatic manipulations of the fluctuating fields, e.g., by variation of the system-environment coupling. For a two-state quantum system we express this…
A general formalism of the relation between geometric phases produced by circularly evolving interacting spin systems and their criticality behavior is presented. This opens up the way for the use of geometric phases as a tool to study…
We study the geometric phase accumulated during non-adiabatic charging of different driven open quantum systems serving as quantum battery models. We provide a full numerical analysis of dynamics under different type of noises typically…