1,884 research outputs found
A Schroedinger link between non-equilibrium thermodynamics and Fisher information
It is known that equilibrium thermodynamics can be deduced from a constrained
Fisher information extemizing process. We show here that, more generally, both
non-equilibrium and equilibrium thermodynamics can be obtained from such a
Fisher treatment. Equilibrium thermodynamics corresponds to the ground state
solution, and non-equilibrium thermodynamics corresponds to excited state
solutions, of a Schroedinger wave equation (SWE). That equation appears as an
output of the constrained variational process that extremizes Fisher
information. Both equilibrium- and non-equilibrium situations can thereby be
tackled by one formalism that clearly exhibits the fact that thermodynamics and
quantum mechanics can both be expressed in terms of a formal SWE, out of a
common informational basis.Comment: 12 pages, no figure
Fisher's arrow of `time' in cosmological coherent phase space
Fisher's arrow of `time' in a cosmological phase space defined as in quantum
optics (i.e., whose points are coherent states) is introduced as follows.
Assuming that the phase space evolution of the universe starts from an initial
squeezed cosmological state towards a final thermal one, a Fokker-Planck
equation for the time-dependent, cosmological Q phase space probability
distribution can be written down. Next, using some recent results in the
literature, we derive an information arrow of time for the Fisher phase space
cosmological entropy based on the Q function. We also mention the application
of Fisher's arrow of time to stochastic inflation modelsComment: 10 pages, LaTex, Honorable Mention at GRF-199
Scaling in a continuous time model for biological aging
In this paper we consider a generalization to the asexual version of the
Penna model for biological aging, where we take a continuous time limit. The
genotype associated to each individual is an interval of real numbers over
which Dirac --functions are defined, representing genetically
programmed diseases to be switched on at defined ages of the individual life.
We discuss two different continuous limits for the evolution equation and two
different mutation protocols, to be implemented during reproduction. Exact
stationary solutions are obtained and scaling properties are discussed.Comment: 10 pages, 6 figure
Dynamics of the Fisher Information Metric
We present a method to generate probability distributions that correspond to
metrics obeying partial differential equations generated by extremizing a
functional , where is the
Fisher metric. We postulate that this functional of the dynamical variable
is stationary with respect to small variations of these
variables. Our approach enables a dynamical approach to Fisher information
metric. It allows to impose symmetries on a statistical system in a systematic
way. This work is mainly motivated by the entropy approach to nonmonotonic
reasoning.Comment: 11 page
Quantum theory of incompatible observations
Maximum likelihood principle is shown to be the best measure for relating the
experimental data with the predictions of quantum theory.Comment: 3 page
Delocalization and the semiclassical description of molecular rotation
We discuss phase-space delocalization for the rigid rotator within a
semiclassical context by recourse to the Husimi distributions of both the
linear and the anisotropic instances. Our treatment is based upon the
concomitant Fisher information measures. The pertinent Wehrl entropy is also
investigated in the linear case.Comment: 6 pages, 3 figure
Unravelling the size distribution of social groups with information theory on complex networks
The minimization of Fisher's information (MFI) approach of Frieden et al.
[Phys. Rev. E {\bf 60} 48 (1999)] is applied to the study of size distributions
in social groups on the basis of a recently established analogy between scale
invariant systems and classical gases [arXiv:0908.0504]. Going beyond the ideal
gas scenario is seen to be tantamount to simulating the interactions taking
place in a network's competitive cluster growth process. We find a scaling rule
that allows to classify the final cluster-size distributions using only one
parameter that we call the competitiveness. Empirical city-size distributions
and electoral results can be thus reproduced and classified according to this
competitiveness, which also allows to correctly predict well-established
assessments such as the "six-degrees of separation", which is shown here to be
a direct consequence of the maximum number of stable social relationships that
one person can maintain, known as Dunbar's number. Finally, we show that scaled
city-size distributions of large countries follow the same universal
distribution
Structure-function analysis of the curli accessory protein CsgE defines surfaces essential for coordinating amyloid fiber formation
Curli amyloid fibers are produced as part of the extracellular biofilm matrix and are composed primarily of the major structural subunit CsgA. The CsgE chaperone facilitates the secretion of CsgA through CsgG by forming a cap at the base of the nonameric CsgG outer membrane pore. We elucidated a series of finely tuned nonpolar and charge-charge interactions that facilitate the oligomerization of CsgE and its ability to transport unfolded CsgA to CsgG for translocation. CsgE oligomerization in vitro is temperature dependent and is disrupted by mutations in the W48 and F79 residues. Using nuclear magnetic resonance (NMR), we identified two regions of CsgE involved in the CsgE-CsgA interaction: a head comprising a positively charged patch centered around R47 and a stem comprising a negatively charged patch containing E31 and E85. Negatively charged residues in the intrinsically disordered N- and C-terminal “tails” were not implicated in this interaction. Head and stem residues were mutated and interrogated using in vivo measurements of curli production and in vitro amyloid polymerization assays. The R47 head residue of CsgE is required for stabilization of CsgA- and CsgE-mediated curli fiber formation. Mutation of the E31 and E85 stem residues to positively charged side chains decreased CsgE-mediated curli fiber formation but increased CsgE-mediated stabilization of CsgA. No single-amino-acid substitutions in the head, stem, or tail regions affected the ability of CsgE to cap the CsgG pore as determined by a bile salt sensitivity assay. These mechanistic insights into the directed assembly of functional amyloids in extracellular biofilms elucidate possible targets for biofilm-associated bacterial infections.Curli represent a class of functional amyloid fibers produced by Escherichia coli and other Gram-negative bacteria that serve as protein scaffolds in the extracellular biofilm matrix. Despite the lack of sequence conservation among different amyloidogenic proteins, the structural and biophysical properties of functional amyloids such as curli closely resemble those of amyloids associated with several common neurodegenerative diseases. These parallels are underscored by the observation that certain proteins and chemicals can prevent amyloid formation by the major curli subunit CsgA and by alpha-synuclein, the amyloid-forming protein found in Lewy bodies during Parkinson’s disease. CsgA subunits are targeted to the CsgG outer membrane pore by CsgE prior to secretion and assembly into fibers. Here, we use biophysical, biochemical, and genetic approaches to elucidate a mechanistic understanding of CsgE function in curli biogenesis
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