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The exotic phenomenon of time translation symmetry breaking under periodic driving - the time crystal - has been shown to occur in many-body systems even in clean setups where disorder is absent. In this work, we propose the realization of…
Feedback loops are major components of biochemical systems. Many systems show multiple such (positive or negative) feedback loops. Nevertheless, very few quantitative analyses address the question how such multiple feedback loops evolved.…
We consider time-invariant nonlinear $n$-dimensional strongly $2$-cooperative systems, that is, systems that map the set of vectors with up to weak sign variation to its interior. Strongly $2$-cooperative systems enjoy a strong…
To function as gene regulatory elements in response to environmental signals, riboswitches must adopt specific secondary structures on appropriate time scales. We employ kinetic Monte Carlo simulation to model the time-dependent folding…
Two-dimensional systems with time-dependent controls admit a quadratic Hamiltonian modelling near potential minima. Independent, dynamical normal modes facilitate inverse Hamiltonian engineering to control the system dynamics, but some…
A variety of oscillations are observed in pancreatic islets.We establish a model, incorporating two oscillatory systems of different time scales: One is the well-known bursting model in pancreatic beta-cells and the other is the…
Driven-dissipative quantum many-body systems have been the subject of many studies in recent years. They possess unique, novel classes of dissipation-stabilized quantum many-body phases including the limit cycle. For a long time it has been…
During cell division paired (sister) chromosomes are observed to perform approximate saw-tooth oscillations across the cell mid-plane. Experimental data suggests that these oscillations are regulated through intersister tension. We propose…
We consider the two-dimensional quantum Ising model, in absence of disorder, subject to periodic imperfect global spin flips. We show by a combination of exact diagonalization and tensor-network methods that the system can sustain a…
Time crystalline structures can be created in periodically driven systems. They are temporal lattices which can reveal different condensed matter behaviours ranging from Anderson localization in time to temporal analogues of many-body…
Quantitative modeling of post-transcriptional regulation process is a challenging problem in systems biology. A mechanical model of the regulatory process needs to be able to describe the available spatio-temporal protein concentration and…
We investigate how dynamical decoupling methods may be used to manipulate the time evolution of quantum many-body systems. These methods consist of sequences of external control operations designed to induce a desired dynamics. The systems…
The conformational change of biological macromolecule is investigated from the point of quantum transition. A quantum theory on protein folding is proposed. Compared with other dynamical variables such as mobile electrons, chemical bonds…
The microscopic green alga Ostreococcus tauri is rapidly emerging as a promising model organism in the green lineage. In particular, recent results by Corellou et al. [Plant Cell, 21, 3436 (2009)] and Thommen et al. [PLoS Comput. Biol. 6,…
Time-delayed quantum feedback is a fast and efficient method to control and stabilize few and many-body quantum systems. However, a proper understanding of such systems stays opaque due to the non-Markovian nature of the feedback protocol.…
Persistent oscillatory dynamics in non-equilibrium many-body systems is a tantalizing manifestation of ergodicity breakdown that continues to attract much attention. Recent works have focused on two classes of such systems: discrete time…
Quantum computers, much like their classical counterparts, will likely benefit from flexible qubit encodings that can be matched to different tasks. For trapped ion quantum processors, a common way to access multiple encodings is to use…
Quantum algorithms are of great interest for their possible use in optimization problems. In particular, variational algorithms that use classical counterparts to optimize parameters hold promise for use in currently existing devices.…
We present a study on the near equilibrium dynamics of two small proteins in the family of truncated hemoglobins, developed under the framework of a Gaussian network approach. Effective beta carbon atoms are taken into account besides…
The purpose of this paper is to show the unusual behavior of a number of simple circuits under the effects of post-selection. A useful duality exists between post-selected ensembles and a consistent picture of acausal physics embodying the…