Spectroscopy of drums and quantum billiards: perturbative and non-perturbative results

We develop powerful numerical and analytical techniques for the solution of the Helmholtz equation on general domains. We prove two theorems: the first theorem provides an exact formula for the ground state of an arbirtrary membrane, while the second theorem generalizes this result to any excited state of the membrane. We also develop a systematic perturbative scheme which can be used to study the small deformations of a membrane of circular or square shapes. We discuss several applications, obtaining numerical and analytical results.Comment: 29 pages, 12 figures, 7 tabl

Scale-Free topologies and Activatory-Inhibitory interactions

A simple model of activatory-inhibitory interactions controlling the activity of agents (substrates) through a "saturated response" dynamical rule in a scale-free network is thoroughly studied. After discussing the most remarkable dynamical features of the model, namely fragmentation and multistability, we present a characterization of the temporal (periodic and chaotic) fluctuations of the quasi-stasis asymptotic states of network activity. The double (both structural and dynamical) source of entangled complexity of the system temporal fluctuations, as an important partial aspect of the Correlation Structure-Function problem, is further discussed to the light of the numerical results, with a view on potential applications of these general results.Comment: Revtex style, 12 pages and 12 figures. Enlarged manuscript with major revision and new results incorporated. To appear in Chaos (2006

Systematic derivation of a rotationally covariant extension of the 2-dimensional Newell-Whitehead-Segel equation

An extension of the Newell-Whitehead-Segel amplitude equation covariant under abritrary rotations is derived systematically by the renormalization group method.Comment: 8 pages, to appear in Phys. Rev. Letters, March 18, 199

Kink Arrays and Solitary Structures in Optically Biased Phase Transition

An interphase boundary may be immobilized due to nonlinear diffractional interactions in a feedback optical device. This effect reminds of the Turing mechanism, with the optical field playing the role of a diffusive inhibitor. Two examples of pattern formation are considered in detail: arrays of kinks in 1d, and solitary spots in 2d. In both cases, a large number of equilibrium solutions is possible due to the oscillatory character of diffractional interaction.Comment: RevTeX 13 pages, 3 PS-figure

Generalized Haldane Equation and Fluctuation Theorem in the Steady State Cycle Kinetics of Single Enzymes

Enyzme kinetics are cyclic. We study a Markov renewal process model of single-enzyme turnover in nonequilibrium steady-state (NESS) with sustained concentrations for substrates and products. We show that the forward and backward cycle times have idential non-exponential distributions: \QQ_+(t)=\QQ_-(t). This equation generalizes the Haldane relation in reversible enzyme kinetics. In terms of the probabilities for the forward ($p_+$) and backward ($p_-$) cycles, $k_BT\ln(p_+/p_-)$ is shown to be the chemical driving force of the NESS, $\Delta\mu$. More interestingly, the moment generating function of the stochastic number of substrate cycle $\nu(t)$, follows the fluctuation theorem in the form of Kurchan-Lebowitz-Spohn-type symmetry. When $\lambda$ = $\Delta\mu/k_BT$, we obtain the Jarzynski-Hatano-Sasa-type equality: $\equiv$ 1 for all $t$, where $\nu\Delta\mu$ is the fluctuating chemical work done for sustaining the NESS. This theory suggests possible methods to experimentally determine the nonequilibrium driving force {\it in situ} from turnover data via single-molecule enzymology.Comment: 4 pages, 3 figure

Shear induced grain boundary motion for lamellar phases in the weakly nonlinear regime

We study the effect of an externally imposed oscillatory shear on the motion of a grain boundary that separates differently oriented domains of the lamellar phase of a diblock copolymer. A direct numerical solution of the Swift-Hohenberg equation in shear flow is used for the case of a transverse/parallel grain boundary in the limits of weak nonlinearity and low shear frequency. We focus on the region of parameters in which both transverse and parallel lamellae are linearly stable. Shearing leads to excess free energy in the transverse region relative to the parallel region, which is in turn dissipated by net motion of the boundary toward the transverse region. The observed boundary motion is a combination of rigid advection by the flow and order parameter diffusion. The latter includes break up and reconnection of lamellae, as well as a weak Eckhaus instability in the boundary region for sufficiently large strain amplitude that leads to slow wavenumber readjustment. The net average velocity is seen to increase with frequency and strain amplitude, and can be obtained by a multiple scale expansion of the governing equations

Longitudinal response functions of 3H and 3He

Trinucleon longitudinal response functions R_L(q,omega) are calculated for q values up to 500 MeV/c. These are the first calculations beyond the threshold region in which both three-nucleon (3N) and Coulomb forces are fully included. We employ two realistic NN potentials (configuration space BonnA, AV18) and two 3N potentials (UrbanaIX, Tucson-Melbourne). Complete final state interactions are taken into account via the Lorentz integral transform technique. We study relativistic corrections arising from first order corrections to the nuclear charge operator. In addition the reference frame dependence due to our non-relativistic framework is investigated. For q less equal 350 MeV/c we find a 3N force effect between 5 and 15 %, while the dependence on other theoretical ingredients is small. At q greater equal 400 MeV/c relativistic corrections to the charge operator and effects of frame dependence, especially for large omega, become more important. In comparison with experimental data there is generally a rather good agreement. Exceptions are the responses at excitation energies close to threshold, where there exists a large discrepancy with experiment at higher q. Concerning the effect of 3N forces there are a few cases, in particular for the R_L of 3He, where one finds a much improved agreement with experiment if 3N forces are included.Comment: 26 pages, 9 figure

Michaelis-Menten Relations for Complex Enzymatic Networks

All biological processes are controlled by complex systems of enzymatic chemical reactions. Although the majority of enzymatic networks have very elaborate structures, there are many experimental observations indicating that some turnover rates still follow a simple Michaelis-Menten relation with a hyperbolic dependence on a substrate concentration. The original Michaelis-Menten mechanism has been derived as a steady-state approximation for a single-pathway enzymatic chain. The validity of this mechanism for many complex enzymatic systems is surprising. To determine general conditions when this relation might be observed in experiments, enzymatic networks consisting of coupled parallel pathways are investigated theoretically. It is found that the Michaelis-Menten equation is satisfied for specific relations between chemical rates, and it also corresponds to the situation with no fluxes between parallel pathways. Our results are illustrated for simple models. The importance of the Michaelis-Menten relationship and derived criteria for single-molecule experimental studies of enzymatic processes are discussed.Comment: 10 pages, 4 figure

Thermodynamic Limit Of The Ginzburg-Landau Equations

We investigate the existence of a global semiflow for the complex Ginzburg-Landau equation on the space of bounded functions in unbounded domain. This semiflow is proven to exist in dimension 1 and 2 for any parameter values of the standard cubic Ginzburg-Landau equation. In dimension 3 we need some restrictions on the parameters but cover nevertheless some part of the Benjamin-Feijer unstable domain.Comment: uuencoded dvi file (email: [email protected]