Transport and Dissipation in Quantum Pumps

This paper is about adiabatic transport in quantum pumps. The notion of ``energy shift'', a self-adjoint operator dual to the Wigner time delay, plays a role in our approach: It determines the current, the dissipation, the noise and the entropy currents in quantum pumps. We discuss the geometric and topological content of adiabatic transport and show that the mechanism of Thouless and Niu for quantized transport via Chern numbers cannot be realized in quantum pumps where Chern numbers necessarily vanish.Comment: 31 pages, 10 figure

Dynamics of a classical Hall system driven by a time-dependent Aharonov--Bohm flux

We study the dynamics of a classical particle moving in a punctured plane under the influence of a strong homogeneous magnetic field, an electrical background, and driven by a time-dependent singular flux tube through the hole. We exhibit a striking classical (de)localization effect: in the far past the trajectories are spirals around a bound center; the particle moves inward towards the flux tube loosing kinetic energy. After hitting the puncture it becomes ``conducting'': the motion is a cycloid around a center whose drift is outgoing, orthogonal to the electric field, diffusive, and without energy loss

Connecting protein and mRNA burst distributions for stochastic models of gene expression

The intrinsic stochasticity of gene expression can lead to large variability in protein levels for genetically identical cells. Such variability in protein levels can arise from infrequent synthesis of mRNAs which in turn give rise to bursts of protein expression. Protein expression occurring in bursts has indeed been observed experimentally and recent studies have also found evidence for transcriptional bursting, i.e. production of mRNAs in bursts. Given that there are distinct experimental techniques for quantifying the noise at different stages of gene expression, it is of interest to derive analytical results connecting experimental observations at different levels. In this work, we consider stochastic models of gene expression for which mRNA and protein production occurs in independent bursts. For such models, we derive analytical expressions connecting protein and mRNA burst distributions which show how the functional form of the mRNA burst distribution can be inferred from the protein burst distribution. Additionally, if gene expression is repressed such that observed protein bursts arise only from single mRNAs, we show how observations of protein burst distributions (repressed and unrepressed) can be used to completely determine the mRNA burst distribution. Assuming independent contributions from individual bursts, we derive analytical expressions connecting means and variances for burst and steady-state protein distributions. Finally, we validate our general analytical results by considering a specific reaction scheme involving regulation of protein bursts by small RNAs. For a range of parameters, we derive analytical expressions for regulated protein distributions that are validated using stochastic simulations. The analytical results obtained in this work can thus serve as useful inputs for a broad range of studies focusing on stochasticity in gene expression

Extinction Rates for Fluctuation-Induced Metastabilities : A Real-Space WKB Approach

The extinction of a single species due to demographic stochasticity is analyzed. The discrete nature of the individual agents and the Poissonian noise related to the birth-death processes result in local extinction of a metastable population, as the system hits the absorbing state. The Fokker-Planck formulation of that problem fails to capture the statistics of large deviations from the metastable state, while approximations appropriate close to the absorbing state become, in general, invalid as the population becomes large. To connect these two regimes, a master equation based on a real space WKB method is presented, and is shown to yield an excellent approximation for the decay rate and the extreme events statistics all the way down to the absorbing state. The details of the underlying microscopic process, smeared out in a mean field treatment, are shown to be crucial for an exact determination of the extinction exponent. This general scheme is shown to reproduce the known results in the field, to yield new corollaries and to fit quite precisely the numerical solutions. Moreover it allows for systematic improvement via a series expansion where the small parameter is the inverse of the number of individuals in the metastable state

Anderson localization for a class of models with a sign-indefinite single-site potential via fractional moment method

A technically convenient signature of Anderson localization is exponential decay of the fractional moments of the Green function within appropriate energy ranges. We consider a random Hamiltonian on a lattice whose randomness is generated by the sign-indefinite single-site potential, which is however sign-definite at the boundary of its support. For this class of Anderson operators we establish a finite-volume criterion which implies that above mentioned the fractional moment decay property holds. This constructive criterion is satisfied at typical perturbative regimes, e. g. at spectral boundaries which satisfy 'Lifshitz tail estimates' on the density of states and for sufficiently strong disorder. We also show how the fractional moment method facilitates the proof of exponential (spectral) localization for such random potentials.Comment: 29 pages, 1 figure, to appear in AH

Time-Energy coherent states and adiabatic scattering

Coherent states in the time-energy plane provide a natural basis to study adiabatic scattering. We relate the (diagonal) matrix elements of the scattering matrix in this basis with the frozen on-shell scattering data. We describe an exactly solvable model, and show that the error in the frozen data cannot be estimated by the Wigner time delay alone. We introduce the notion of energy shift, a conjugate of Wigner time delay, and show that for incoming state $\rho(H_0)$ the energy shift determines the outgoing state.Comment: 11 pages, 1 figur

Rare Events Statistics in Reaction--Diffusion Systems

We develop an efficient method to calculate probabilities of large deviations from the typical behavior (rare events) in reaction--diffusion systems. The method is based on a semiclassical treatment of underlying "quantum" Hamiltonian, encoding the system's evolution. To this end we formulate corresponding canonical dynamical system and investigate its phase portrait. The method is presented for a number of pedagogical examples.Comment: 12 pages, 6 figure

Towards Classification of Phase Transitions in Reaction--Diffusion Models

Equilibrium phase transitions are associated with rearrangements of minima of a (Lagrangian) potential. Treatment of non-equilibrium systems requires doubling of degrees of freedom, which may be often interpreted as a transition from the ``coordinate'' to the ``phase'' space representation. As a result, one has to deal with the Hamiltonian formulation of the field theory instead of the Lagrangian one. We suggest a classification scheme of phase transitions in reaction-diffusion models based on the topology of the phase portraits of corresponding Hamiltonians. In models with an absorbing state such a topology is fully determined by intersecting curves of zero ``energy''. We identify four families of topologically distinct classes of phase portraits stable upon RG transformations.Comment: 14 pages, 9 figure

Smooth adiabatic evolutions with leaky power tails

Adiabatic evolutions with a gap condition have, under a range of circumstances, exponentially small tails that describe the leaking out of the spectral subspace. Adiabatic evolutions without a gap condition do not seem to have this feature in general. This is a known fact for eigenvalue crossing. We show that this is also the case for eigenvalues at the threshold of the continuous spectrum by considering the Friedrichs model.Comment: Final form, to appear in J. Phys. A; 11 pages, no figure