202 research outputs found
Edge usage, motifs and regulatory logic for cell cycling genetic networks
The cell cycle is a tightly controlled process, yet its underlying genetic
network shows marked differences across species. Which of the associated
structural features follow solely from the ability to impose the appropriate
gene expression patterns? We tackle this question in silico by examining the
ensemble of all regulatory networks which satisfy the constraint of producing a
given sequence of gene expressions. We focus on three cell cycle profiles
coming from baker's yeast, fission yeast and mammals. First, we show that the
networks in each of the ensembles use just a few interactions that are
repeatedly reused as building blocks. Second, we find an enrichment in network
motifs that is similar in the two yeast cell cycle systems investigated. These
motifs do not have autonomous functions, but nevertheless they reveal a
regulatory logic for cell cycling based on a feed-forward cascade of activating
interactions.Comment: 9 pages, 9 figures, to be published in Phys. Rev.
Adaptive networks of trading agents
Multi-agent models have been used in many contexts to study generic
collective behavior. Similarly, complex networks have become very popular
because of the diversity of growth rules giving rise to scale-free behavior.
Here we study adaptive networks where the agents trade ``wealth'' when they are
linked together while links can appear and disappear according to the wealth of
the corresponding agents; thus the agents influence the network dynamics and
vice-versa. Our framework generalizes a multi-agent model of Bouchand and
Mezard, and leads to a steady state with fluctuating connectivities. The system
spontaneously self-organizes into a critical state where the wealth
distribution has a fat tail and the network is scale-free; in addition, network
heterogeneities lead to enhanced wealth condensation.Comment: 7 figure
Network of inherent structures in spin glasses: scaling and scale-free distributions
The local minima (inherent structures) of a system and their associated
transition links give rise to a network. Here we consider the topological and
distance properties of such a network in the context of spin glasses. We use
steepest descent dynamics, determining for each disorder sample the transition
links appearing within a given barrier height. We find that differences between
linked inherent structures are typically associated with local clusters of
spins; we interpret this within a framework based on droplets in which the
characteristic ``length scale'' grows with the barrier height. We also consider
the network connectivity and the degrees of its nodes. Interestingly, for spin
glasses based on random graphs, the degree distribution of the network of
inherent structures exhibits a non-trivial scale-free tail.Comment: minor changes and references adde
From simple to complex networks: inherent structures, barriers and valleys in the context of spin glasses
Given discrete degrees of freedom (spins) on a graph interacting via an
energy function, what can be said about the energy local minima and associated
inherent structures? Using the lid algorithm in the context of a spin glass
energy function, we investigate the properties of the energy landscape for a
variety of graph topologies. First, we find that the multiplicity Ns of the
inherent structures generically has a lognormal distribution. In addition, the
large volume limit of ln/ differs from unity, except for the
Sherrington-Kirkpatrick model. Second, we find simple scaling laws for the
growth of the height of the energy barrier between the two degenerate ground
states and the size of the associated valleys. For finite connectivity models,
changing the topology of the underlying graph does not modify qualitatively the
energy landscape, but at the quantitative level the models can differ
substantially.Comment: 10 pages, 9 figs, slightly improved presentation, more references,
accepted for publication in Phys Rev
Grand-Canonical Ensemble of Random Surfaces with Four Species of Ising Spins
The grand-canonical ensemble of dynamically triangulated surfaces coupled to
four species of Ising spins (c=2) is simulated on a computer. The effective
string susceptibility exponent for lattices with up to 1000 vertices is found
to be . A specific scenario for models is
conjectured.Comment: LaTeX, 11 pages + 1 postscript figure appended, preprint LPTHE-Orsay
94/1
Energy consumption and capacity utilization of galvanizing furnaces
An explicit equation leading to a method for improving furnace efficiency is presented. This equation is dimensionless and can be applied to furnaces of any size and fuel type for the purposes of comparison. The implications for current furnace design are discussed. Currently the technique most commonly used to reduce energy consumption in galvanizing furnaces is to increase burner turndown. This is shown by the analysis presented here actually to worsen the thermal efficiency of the furnace, particularly at low levels of capacity utilization. Galvanizing furnaces are different to many furnaces used within industry, as a quantity of material (in this case zinc) is kept molten within the furnace at all times, even outside production periods. The dimensionless analysis can, however, be applied to furnaces with the same operational function as a galvanizing furnace, such as some furnaces utilized within the glass industry. © IMechE 2004
On the microscopic dynamics of DCC formation
The dynamics of the pion field after a quench is studied in the framework of
the linear sigma model. Our aim is to determine to what extent the amplified
pion field resembles the DCC picture originally proposed in the early '90s. We
present the result of a computer experiment where, among other things, we study
in detail the correlation between isospin orientations of the distinct modes of
the field. We show that this correlation is absent. In a sense, the distinct
modes behave as distinct DCCs. The implications of this observation are
discussed.Comment: 19 pages, Latex2e, 7 figures in EPS, uses (included) boldgreek.sty
and standard epsf package
A Remark on the Renormalization Group Equation for the Penner Model
It is possible to extract values for critical couplings and gamma_string in
matrix models by deriving a renormalization group equation for the variation of
the of the free energy as the size N of the matrices in the theory is varied.
In this paper we derive a ``renormalization group equation'' for the Penner
model by direct differentiation of the partition function and show that it
reproduces the correct values of the critical coupling and gamma_string and is
consistent with the logarithmic corrections present for g=0,1.Comment: LaTeX, 5 pages, LPTHE-Orsay-94-5
Local charge compensation from colour preconfinement as a key to the dynamics of hadronization
If, as is commonly accepted, the colour-singlet, `preconfined', perturbative
clusters are the primary units of hadronization, then the electric charge is
necessarily compensated locally at the scale of the typical cluster mass. As a
result, the minijet electric charge is suppressed at scales that are greater
than the cluster mass. We hence argue, and demonstrate by means of Monte Carlo
simulations using HERWIG, that the scale at which charge compensation is
violated is close to the mass of the clusters involved in hadronization, and
its measurement would provide a clue to resolving the nature of the dynamics.
We repeat the calculation using PYTHIA and find that the numbers produced by
the two generators are similar. The cluster mass distribution is sensitive to
soft emission that is considered unresolved in the parton shower phase. We
discuss how the description of the splitting of large clusters in terms of
unresolved emission modifies the algorithm of HERWIG, and relate the findings
to the yet unknown underlying nonperturbative mechanism. In particular, we
propose a form of that follows from a power-enhanced beta function,
and discuss how this that governs unresolved emission may be related
to power corrections. Our findings are in agreement with experimental data.Comment: 37 pages, 20 figure
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