7,487 research outputs found
Model-free reconstruction of neuronal network connectivity from calcium imaging signals
A systematic assessment of global neural network connectivity through direct
electrophysiological assays has remained technically unfeasible even in
dissociated neuronal cultures. We introduce an improved algorithmic approach
based on Transfer Entropy to reconstruct approximations to network structural
connectivities from network activity monitored through calcium fluorescence
imaging. Based on information theory, our method requires no prior assumptions
on the statistics of neuronal firing and neuronal connections. The performance
of our algorithm is benchmarked on surrogate time-series of calcium
fluorescence generated by the simulated dynamics of a network with known
ground-truth topology. We find that the effective network topology revealed by
Transfer Entropy depends qualitatively on the time-dependent dynamic state of
the network (e.g., bursting or non-bursting). We thus demonstrate how
conditioning with respect to the global mean activity improves the performance
of our method. [...] Compared to other reconstruction strategies such as
cross-correlation or Granger Causality methods, our method based on improved
Transfer Entropy is remarkably more accurate. In particular, it provides a good
reconstruction of the network clustering coefficient, allowing to discriminate
between weakly or strongly clustered topologies, whereas on the other hand an
approach based on cross-correlations would invariantly detect artificially high
levels of clustering. Finally, we present the applicability of our method to
real recordings of in vitro cortical cultures. We demonstrate that these
networks are characterized by an elevated level of clustering compared to a
random graph (although not extreme) and by a markedly non-local connectivity.Comment: 54 pages, 8 figures (+9 supplementary figures), 1 table; submitted
for publicatio
An extensive English language bibliography on graph theory and its applications
Bibliography on graph theory and its application
Synchronization in complex networks
Synchronization processes in populations of locally interacting elements are
in the focus of intense research in physical, biological, chemical,
technological and social systems. The many efforts devoted to understand
synchronization phenomena in natural systems take now advantage of the recent
theory of complex networks. In this review, we report the advances in the
comprehension of synchronization phenomena when oscillating elements are
constrained to interact in a complex network topology. We also overview the new
emergent features coming out from the interplay between the structure and the
function of the underlying pattern of connections. Extensive numerical work as
well as analytical approaches to the problem are presented. Finally, we review
several applications of synchronization in complex networks to different
disciplines: biological systems and neuroscience, engineering and computer
science, and economy and social sciences.Comment: Final version published in Physics Reports. More information
available at http://synchronets.googlepages.com
On Dynamics of Integrate-and-Fire Neural Networks with Conductance Based Synapses
We present a mathematical analysis of a networks with Integrate-and-Fire
neurons and adaptive conductances. Taking into account the realistic fact that
the spike time is only known within some \textit{finite} precision, we propose
a model where spikes are effective at times multiple of a characteristic time
scale , where can be \textit{arbitrary} small (in particular,
well beyond the numerical precision). We make a complete mathematical
characterization of the model-dynamics and obtain the following results. The
asymptotic dynamics is composed by finitely many stable periodic orbits, whose
number and period can be arbitrary large and can diverge in a region of the
synaptic weights space, traditionally called the "edge of chaos", a notion
mathematically well defined in the present paper. Furthermore, except at the
edge of chaos, there is a one-to-one correspondence between the membrane
potential trajectories and the raster plot. This shows that the neural code is
entirely "in the spikes" in this case. As a key tool, we introduce an order
parameter, easy to compute numerically, and closely related to a natural notion
of entropy, providing a relevant characterization of the computational
capabilities of the network. This allows us to compare the computational
capabilities of leaky and Integrate-and-Fire models and conductance based
models. The present study considers networks with constant input, and without
time-dependent plasticity, but the framework has been designed for both
extensions.Comment: 36 pages, 9 figure
Recent advances on filtering and control for nonlinear stochastic complex systems with incomplete information: A survey
This Article is provided by the Brunel Open Access Publishing Fund - Copyright @ 2012 Hindawi PublishingSome recent advances on the filtering and control problems for nonlinear stochastic complex systems with incomplete information are surveyed. The incomplete information under consideration mainly includes missing measurements, randomly varying sensor delays, signal quantization, sensor saturations, and signal sampling. With such incomplete information, the developments on various filtering and control issues are reviewed in great detail. In particular, the addressed nonlinear stochastic complex systems are so comprehensive that they include conventional nonlinear stochastic systems, different kinds of complex networks, and a large class of sensor networks. The corresponding filtering and control technologies for such nonlinear stochastic complex systems are then discussed. Subsequently, some latest results on the filtering and control problems for the complex systems with incomplete information are given. Finally, conclusions are drawn and several possible future research directions are pointed out.This work was supported in part by the National Natural Science Foundation of China under Grant nos. 61134009, 61104125, 61028008, 61174136, 60974030, and 61074129, the Qing Lan Project of Jiangsu Province of China, the Project sponsored by SRF for ROCS of SEM of China, the Engineering and Physical Sciences Research Council EPSRC of the UK under Grant GR/S27658/01, the Royal Society of the UK, and the Alexander von Humboldt Foundation of Germany
Large fluctuations and irreversibility in nonequilibrium systems.
Large rare fluctuations in a nonequilibrium system are investigated theoretically and by analogue electronic experiment. It is emphasized that the optimal paths calculated via the eikonal approximation of the Fokker-Planck equation can be identified with the locus of the ridges of the prehistory probability distributions which can be calculated and measured experimentally for paths terminating at a given final point in configuration sspace. The pattern of optimal paths and its singularities, such as caustics, cusps and switching lines has been calculated and measured experimentally for a periodically driven overdamped oscillator, yielding results that are shown to be in good agreement with each other
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