1,268 research outputs found
Good Learning and Implicit Model Enumeration
MathSBML is an open-source, freely-downloadable Mathematica package that facilitates working with Systems Biology Markup Language (SBML) models. SBML is a toolneutral,computer-readable format for representing models of biochemical reaction networks, applicable to metabolic networks, cell-signaling pathways, genomic regulatory networks, and other modeling problems in systems biology that is widely supported by the systems biology community. SBML is based on XML, a standard medium for representing and transporting data that is widely supported on the internet as well as in computational biology and bioinformatics. Because SBML is tool-independent, it enables model transportability, reuse, publication and survival. In addition to MathSBML, a number of other tools that support SBML model examination and manipulation are provided on the sbml.org website, including libSBML, a C/C++ library for reading SBML models; an SBML Toolbox for MatLab; file conversion programs; an SBML model validator and visualizer; and SBML specifications and schemas. MathSBML enables SBML file import to and export from Mathematica as well as providing an API for model manipulation and simulation
Nonuniversal correlations in multiple scattering
We show that intensity of a wave created by a source embedded inside a
three-dimensional disordered medium exhibits a non-universal space-time
correlation which depends explicitly on the short-distance properties of
disorder, source size, and dynamics of disorder in the immediate neighborhood
of the source. This correlation has an infinite spatial range and is
long-ranged in time. We suggest that a technique of "diffuse microscopy" might
be developed employing spatially-selective sensitivity of the considered
correlation to the disorder properties.Comment: 15 pages, 3 postscript figures, accepted to Phys. Rev.
Quantum-Noise Reduction in a Driven Cavity with Feedback
We show that amplitude-squeezed states may be produced by driving a feedback-controlled cavity with a coherent input signal. The feedback controls the transmissivity of one output from the cavity and is essentially equivalent to nonlinear absorption. The cavity effectively acts as a nonlinear reflector. Hence, amplitude-squeezed states with arbitrarily strong coherent intensities can be obtained
Mode-Locking in Driven Disordered Systems as a Boundary-Value Problem
We study mode-locking in disordered media as a boundary-value problem.
Focusing on the simplest class of mode-locking models which consists of a
single driven overdamped degree-of-freedom, we develop an analytical method to
obtain the shape of the Arnol'd tongues in the regime of low ac-driving
amplitude or high ac-driving frequency. The method is exact for a scalloped
pinning potential and easily adapted to other pinning potentials. It is
complementary to the analysis based on the well-known Shapiro's argument that
holds in the perturbative regime of large driving amplitudes or low driving
frequency, where the effect of pinning is weak.Comment: 6 pages, 7 figures, RevTeX, Submitte
Spiral Galaxies Rotation Curves with a Logarithmic Corrected Newtonian Gravitational Potential
We analyze the rotation curves of 10 spiral galaxies with a newtonian
potential corrected with an extra logarithmic term, using a disc modelization
for the spiral galaxies. There is a new constant associated with the extra term
in the potential. The rotation curve of the chosen sample of spiral galaxies is
well reproduced for a given range of the new constant. It is argued that this
correction can have its origin from string configurations. The compatibility of
this correction with local physics is discussed.Comment: Latex file, 6 pages, 20 figure
Phase-Locking of Vortex Lattices Interacting with Periodic Pinning
We examine Shapiro steps for vortex lattices interacting with periodic
pinning arrays driven by AC and DC currents. The vortex flow occurs by the
motion of the interstitial vortices through the periodic potential generated by
the vortices that remain pinned at the pinning sites. Shapiro steps are
observed for fields B_{\phi} < B < 2.25B_{\phi} with the most pronouced steps
occuring for fields where the interstitial vortex lattice has a high degree of
symmetry. The widths of the phase-locked current steps as a function of the
magnitude of the AC driving are found to follow a Bessel function in agreement
with theory.Comment: 5 pages 5 postscript figure
A Hedged Monte Carlo Approach to Real Option Pricing
In this work we are concerned with valuing optionalities associated to invest
or to delay investment in a project when the available information provided to
the manager comes from simulated data of cash flows under historical (or
subjective) measure in a possibly incomplete market. Our approach is suitable
also to incorporating subjective views from management or market experts and to
stochastic investment costs. It is based on the Hedged Monte Carlo strategy
proposed by Potters et al (2001) where options are priced simultaneously with
the determination of the corresponding hedging. The approach is particularly
well-suited to the evaluation of commodity related projects whereby the
availability of pricing formulae is very rare, the scenario simulations are
usually available only in the historical measure, and the cash flows can be
highly nonlinear functions of the prices.Comment: 25 pages, 14 figure
The Relativistic Factor in the Orbital Dynamics of Point Masses
There is a growing population of relativistically relevant minor bodies in
the Solar System and a growing population of massive extrasolar planets with
orbits very close to the central star where relativistic effects should have
some signature. Our purpose is to review how general relativity affects the
orbital dynamics of the planetary systems and to define a suitable relativistic
correction for Solar System orbital studies when only point masses are
considered. Using relativistic formulae for the N body problem suited for a
planetary system given in the literature we present a series of numerical
orbital integrations designed to test the relevance of the effects due to the
general theory of relativity in the case of our Solar System. Comparison
between different algorithms for accounting for the relativistic corrections
are performed. Relativistic effects generated by the Sun or by the central star
are the most relevant ones and produce evident modifications in the secular
dynamics of the inner Solar System. The Kozai mechanism, for example, is
modified due to the relativistic effects on the argument of the perihelion.
Relativistic effects generated by planets instead are of very low relevance but
detectable in numerical simulations
Temporal fluctuations of waves in weakly nonlinear disordered media
We consider the multiple scattering of a scalar wave in a disordered medium
with a weak nonlinearity of Kerr type. The perturbation theory, developed to
calculate the temporal autocorrelation function of scattered wave, fails at
short correlation times. A self-consistent calculation shows that for
nonlinearities exceeding a certain threshold value, the multiple-scattering
speckle pattern becomes unstable and exhibits spontaneous fluctuations even in
the absence of scatterer motion. The instability is due to a distributed
feedback in the system "coherent wave + nonlinear disordered medium". The
feedback is provided by the multiple scattering. The development of instability
is independent of the sign of nonlinearity.Comment: RevTeX, 15 pages (including 5 figures), accepted for publication in
Phys. Rev.
Dynamics of an anisotropic Haldane antiferromagnet in strong magnetic field
We report the results of elastic and inelastic neutron scattering experiments
on the Haldane gap quantum antiferromagnet Ni(C5D14N2)2N3(PF6) performed at mK
temperatures in a wide range of magnetic field applied parallel to the S = 1
spin chains. Even though this geometry is closest to an ideal axially symmetric
configuration, the Haldane gap closes at the critical field Hc~4T, but reopens
again at higher fields. The field dependence of the two lowest magnon modes is
experimentally studied and the results are compared with the predictions of
several theoretical models. We conclude that of several existing theories, only
the recently proposed model [Zheludev et al., cond-mat/0301424 ] is able to
reproduce all the features observed experimentally for different field
orientations.Comment: 11 pages 8 figures submitted to Phys. Rev.
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