Entanglement Dynamics of Coupled Quantum Oscillators in Independent NonMarkovian Baths.

This work strives to better understand how the entanglement in an open quantum system, here represented by two coupled Brownian oscillators, is affected by a nonMarkovian environment (with memories), here represented by two independent baths each oscillator separately interacts with. We consider two settings, a 'symmetric' configuration wherein the parameters of both oscillators and their baths are identical, and an 'asymmetric' configuration wherein they are different, in particular, a 'hybrid' configuration, where one of the two coupled oscillators interacts with a nonMarkovian bath and the other with a Markovian bath. Upon finding the solutions to the Langevin equations governing the system dynamics and the evolution of the covariance matrix elements entering into its entanglement dynamics, we ask two groups of questions: (Q1) Which time regime does the bath's nonMarkovianity benefit the system's entanglement most? The answers we get from detailed numerical studies suggest that (A1) For an initially entangled pair of oscillators, we see that in the intermediate time range, the duration of entanglement is proportional to the memory time, and it lasts a fraction of the relaxation time, but at late times when the dynamics reaches a steady state, the value of the symplectic eigenvalue of the partially transposed covariance matrix barely benefit from the bath nonMarkovianity. For the second group of questions: (Q2) Can the memory of one nonMarkovian bath be passed on to another Markovian bath? And if so, does this memory transfer help to sustain the system's entanglement dynamics? Our results from numerical studies of the asymmetric hybrid configuration indicate that (A2) A system with a short memory time can acquire improvement when it is coupled to another system with a long memory time, but, at a cost of the latter. The sustainability of the bipartite entanglement is determined by the party which breaks off entanglement most easily.

Quantum Thermodynamic Uncertainty Relations, Generalized Current Fluctuations and Nonequilibrium Fluctuation-Dissipation Inequalities.

Thermodynamic uncertainty relations (TURs) represent one of the few broad-based and fundamental relations in our toolbox for tackling the thermodynamics of nonequilibrium systems. One form of TUR quantifies the minimal energetic cost of achieving a certain precision in determining a nonequilibrium current. In this initial stage of our research program, our goal is to provide the quantum theoretical basis of TURs using microphysics models of linear open quantum systems where it is possible to obtain exact solutions. In paper [Dong et al., Entropy 2022, 24, 870], we show how TURs are rooted in the quantum uncertainty principles and the fluctuation-dissipation inequalities (FDI) under fully nonequilibrium conditions. In this paper, we shift our attention from the quantum basis to the thermal manifests. Using a microscopic model for the bath's spectral density in quantum Brownian motion studies, we formulate a "thermal" FDI in the quantum nonequilibrium dynamics which is valid at high temperatures. This brings the quantum TURs we derive here to the classical domain and can thus be compared with some popular forms of TURs. In the thermal-energy-dominated regimes, our FDIs provide better estimates on the uncertainty of thermodynamic quantities. Our treatment includes full back-action from the environment onto the system. As a concrete example of the generalized current, we examine the energy flux or power entering the Brownian particle and find an exact expression of the corresponding current-current correlations. In so doing, we show that the statistical properties of the bath and the causality of the system+bath interaction both enter into the TURs obeyed by the thermodynamic quantities.

Quantum Thermodynamic Uncertainties in Nonequilibrium Systems from Robertson-Schrödinger Relations.

Thermodynamic uncertainty principles make up one of the few rare anchors in the largely uncharted waters of nonequilibrium systems, the fluctuation theorems being the more familiar. In this work we aim to trace the uncertainties of thermodynamic quantities in nonequilibrium systems to their quantum origins, namely, to the quantum uncertainty principles. Our results enable us to make this categorical statement: For Gaussian systems, thermodynamic functions are functionals of the Robertson-Schrödinger uncertainty function, which is always non-negative for quantum systems, but not necessarily so for classical systems. Here, quantum refers to noncommutativity of the canonical operator pairs. From the nonequilibrium free energy, we succeeded in deriving several inequalities between certain thermodynamic quantities. They assume the same forms as those in conventional thermodynamics, but these are nonequilibrium in nature and they hold for all times and at strong coupling. In addition we show that a fluctuation-dissipation inequality exists at all times in the nonequilibrium dynamics of the system. For nonequilibrium systems which relax to an equilibrium state at late times, this fluctuation-dissipation inequality leads to the Robertson-Schrödinger uncertainty principle with the help of the Cauchy-Schwarz inequality. This work provides the microscopic quantum basis to certain important thermodynamic properties of macroscopic nonequilibrium systems.

Quantum-parametric-oscillator heat engines in squeezed thermal baths: Foundational theoretical issues.

In this paper we examine some foundational issues of a class of quantum engines where the system consists of a single quantum parametric oscillator, operating in an Otto cycle consisting of four stages of two alternating phases: the isentropic phase is detached from any bath (thus a closed system) where the natural frequency of the oscillator is changed from one value to another, and the isothermal phase where the system (now rendered open) is put in contact with one or two squeezed baths of different temperatures, whose nonequilibrium dynamics follows the Hu-Paz-Zhang (HPZ) master equation for quantum Brownian motion. The HPZ equation is an exact non-Markovian equation which preserves the positivity of the density operator and is valid for (1) all temperatures, (2) arbitrary spectral density of the bath, and (3) arbitrary coupling strength between the system and the bath. Taking advantage of these properties we examine some key foundational issues of theories of quantum open and squeezed systems for these two phases of the quantum Otto engines. This includes (1) the non-Markovian regimes for non-Ohmic, low-temperature baths, (2) what to expect in nonadiabatic frequency modulations, (3) strong system-bath coupling, as well as (4) the proper junction conditions between these two phases. Our aim here is not to present ways for attaining higher efficiency but to build a more solid theoretical foundation for quantum engines of continuous variables covering a broader range of parameter spaces that we hope are of use for exploring such possibilities.

Intrinsic Entropy of Squeezed Quantum Fields and Nonequilibrium Quantum Dynamics of Cosmological Perturbations.

Density contrasts in the universe are governed by scalar cosmological perturbations which, when expressed in terms of gauge-invariant variables, contain a classical component from scalar metric perturbations and a quantum component from inflaton field fluctuations. It has long been known that the effect of cosmological expansion on a quantum field amounts to squeezing. Thus, the entropy of cosmological perturbations can be studied by treating them in the framework of squeezed quantum systems. Entropy of a free quantum field is a seemingly simple yet subtle issue. In this paper, different from previous treatments, we tackle this issue with a fully developed nonequilibrium quantum field theory formalism for such systems. We compute the covariance matrix elements of the parametric quantum field and solve for the evolution of the density matrix elements and the Wigner functions, and, from them, derive the von Neumann entropy. We then show explicitly why the entropy for the squeezed yet closed system is zero, but is proportional to the particle number produced upon coarse-graining out the correlation between the particle pairs. We also construct the bridge between our quantum field-theoretic results and those using the probability distribution of classical stochastic fields by earlier authors, preserving some important quantum properties, such as entanglement and coherence, of the quantum field.

Quantum Thermodynamics at Strong Coupling: Operator Thermodynamic Functions and Relations.

Identifying or constructing a fine-grained microscopic theory that will emerge under specific conditions to a known macroscopic theory is always a formidable challenge. Thermodynamics is perhaps one of the most powerful theories and best understood examples of emergence in physical sciences, which can be used for understanding the characteristics and mechanisms of emergent processes, both in terms of emergent structures and the emergent laws governing the effective or collective variables. Viewing quantum mechanics as an emergent theory requires a better understanding of all this. In this work we aim at a very modest goal, not quantum mechanics as thermodynamics, not yet, but the thermodynamics of quantum systems, or quantum thermodynamics. We will show why even with this minimal demand, there are many new issues which need be addressed and new rules formulated. The thermodynamics of small quantum many-body systems strongly coupled to a heat bath at low temperatures with non-Markovian behavior contains elements, such as quantum coherence, correlations, entanglement and fluctuations, that are not well recognized in traditional thermodynamics, built on large systems vanishingly weakly coupled to a non-dynamical reservoir. For quantum thermodynamics at strong coupling, one needs to reexamine the meaning of the thermodynamic functions, the viability of the thermodynamic relations and the validity of the thermodynamic laws anew. After a brief motivation, this paper starts with a short overview of the quantum formulation based on Gelin & Thoss and Seifert. We then provide a quantum formulation of Jarzynski's two representations. We show how to construct the operator thermodynamic potentials, the expectation values of which provide the familiar thermodynamic variables. Constructing the operator thermodynamic functions and verifying or modifying their relations is a necessary first step in the establishment of a viable thermodynamics theory for quantum systems. We mention noteworthy subtleties for quantum thermodynamics at strong coupling, such as in issues related to energy and entropy, and possible ambiguities of their operator forms. We end by indicating some fruitful pathways for further developments.

The role of causality in tunable Fermi gas condensates.

We develop a new formalism for the description of the condensates of cold Fermi atoms whose speed of sound can be tuned with the aid of a narrow Feshbach resonance. We use this to look for spontaneous phonon creation that mimics spontaneous particle creation in curved space-time in Friedmann-Robertson-Walker and other model universes.

Dynamic functional modules in co-expressed protein interaction networks of dilated cardiomyopathy.

BACKGROUND: Molecular networks represent the backbone of molecular activity within cells and provide opportunities for understanding the mechanism of diseases. While protein-protein interaction data constitute static network maps, integration of condition-specific co-expression information provides clues to the dynamic features of these networks. Dilated cardiomyopathy is a leading cause of heart failure. Although previous studies have identified putative biomarkers or therapeutic targets for heart failure, the underlying molecular mechanism of dilated cardiomyopathy remains unclear. RESULTS: We developed a network-based comparative analysis approach that integrates protein-protein interactions with gene expression profiles and biological function annotations to reveal dynamic functional modules under different biological states. We found that hub proteins in condition-specific co-expressed protein interaction networks tended to be differentially expressed between biological states. Applying this method to a cohort of heart failure patients, we identified two functional modules that significantly emerged from the interaction networks. The dynamics of these modules between normal and disease states further suggest a potential molecular model of dilated cardiomyopathy. CONCLUSIONS: We propose a novel framework to analyze the interaction networks in different biological states. It successfully reveals network modules closely related to heart failure; more importantly, these network dynamics provide new insights into the cause of dilated cardiomyopathy. The revealed molecular modules might be used as potential drug targets and provide new directions for heart failure therapy.

Essential core of protein-protein interaction network in Escherichia coli.

Essential genes are responsible for the viability of an organism. Global protein interaction network analysis provides an effective way to understand the relationships between protein products of genes. By means of large-scale identification of essential genes and protein-protein interactions, we investigated the substructure of the protein interaction network in Escherichia coli and identified all the cliques in the network. Our analysis showed that larger cliques tend to have larger fractions of proteins encoded by essential genes. By merging the maximum clique with overlapping neighboring cliques, we observed a dense core of the protein interaction network in Escherichia coliwith significantly higher ratio of essential genes. The protein network of Saccharomyces cerevisiae also shows strong correlation between clique and essentiality, and there exist similar dense clusters with high essentiality. Our results indicated that the observed structure of essential cores might exist in higher organisms and play important roles in their respective protein networks.

External time-varying fields and electron coherence.

The effect of time-varying electromagnetic fields on electron coherence is investigated. A sinusoidal electromagnetic field produces a time-varying Aharonov-Bohm phase. In a measurement of the interference pattern which averages over this phase, the effect is a loss of contrast. This is effectively a form of decoherence. We calculate the magnitude of this effect for various electromagnetic field configurations. The result seems to be sufficiently large to be observable.