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At least 1,783 records · Page 99Linked to original sources
PubMed2005

Three-dimensional fiber-deposited PEOT/PBT copolymer scaffolds for tissue engineering: influence of porosity, molecular network mesh size, and swelling in aqueous media on dynamic mechanical properties.

Among novel scaffold fabrication techniques, 3D fiber deposition (3DF) has recently emerged as a means to fabricate well-defined and custom-made scaffolds for tissue regeneration, with 100% interconnected pores. The mechanical behavior of these constructs is dependent not only on different three-dimensional architectural and geometric features, but also on the intrinsic chemical properties of the material used. These affect the mechanics of the solid material and eventually of 3D porous constructs derived from them. For instance, poly(ethylene oxide terephthalate)-poly(butylene terephthalate) (PEOT/PBT) block copolymers are known to have mechanical properties, depending on the PEOT/PBT weight ratio in block form and on the molecular weight of the initial poly(ethylene glycol) (PEG) blocks. These differences are enhanced even more by their different swelling properties in aqueous media. Therefore, this article examines the influence of copolymer compositions in terms of their swelling on dynamic mechanical properties of solid material and porous 3DF scaffolds. The molecular weight of the starting PEG blocks used in the copolymer synthesis varied from 300 to 1000 g/mol. The PEOT/PBT weight ratio in the blocks used varied from 55/45 to 80/20. This corresponded to an increase of the swelling ratio Q from 1.06 to 2.46, and of the mesh size xi from approximately 9 Angstrom to approximately 47 Angstrom. With increased swelling, dynamic mechanical analysis (DMA) revealed a decrease in elastic response and an increase of viscoelasticity. Thus, by coupling structural and chemical characteristics, the viscoelastic properties of PEOT/PBT 3DF scaffolds may be fine tuned to achieve mechanical requirements for a variety of engineered tissues. Ultimately, the combination of 3DF and DMA may be useful to validate the hypothesis that mimicking the biomechanical behavior of a specific tissue for its optimal replacement is an important issue for at least some tissue-engineering applications.

Animals↗
PubMed2004

Electrical synapses: a dynamic signaling system that shapes the activity of neuronal networks.

Gap junctions consist of intercellular channels dedicated to providing a direct pathway for ionic and biochemical communication between contacting cells. After an initial burst of publications describing electrical coupling in the brain, gap junctions progressively became less fashionable among neurobiologists, as the consensus was that this form of synaptic transmission would play a minimal role in shaping neuronal activity in higher vertebrates. Several new findings over the last decade (e.g. the implication of connexins in genetic diseases of the nervous system, in processing sensory information and in synchronizing the activity of neuronal networks) have brought gap junctions back into the spotlight. The appearance of gap junctional coupling in the nervous system is developmentally regulated, restricted to distinct cell types and persists after the establishment of chemical synapses, thus suggesting that this form of cell-cell signaling may be functionally interrelated with, rather than alternative to chemical transmission. This review focuses on gap junctions between neurons and summarizes the available data, derived from molecular, biological, electrophysiological, and genetic approaches, that are contributing to a new appreciation of their role in brain function.

Animals↗
PubMed2006

Oculomotor functions of the parietal lobe: Effects of chronic lesions in humans.

This review summarises research in patients with chronic lesions of parietal oculomotor cortex and compares their oculomotor performance to patients with lesions of the frontal eye field (FEF). The observations identify the oculomotor functions for which these regions are indispensable, and explore dynamic interactions within cortical and subcortical networks for oculomotor control. The experiments examined endogenously generated saccades, saccades to visual targets, antisaccades, saccade choice and saccade remapping for inhibitory spatial tagging. The findings suggest that the key function of parietal oculomotor cortex is the computation of sensorimotor transformations, rather than the initiation of either voluntary or reflexive saccades. They also reveal the re-organisation of cortico-subcortical networks after brain injury, and provide insight into their dynamic interactions: FEF lesions result in disinhibition of reflexive saccades toward the contralesional field and an impairment of reflexive saccades toward the ipsilesional field; whereas parietal lesion result in the opposite pattern.

Chronic Disease↗
PubMed2004

Dynamic algorithm for inferring qualitative models of gene regulatory networks.

It is still an open problem to identify functional relations with o(N . n(k)) time for any domain[2], where N is the number of learning instances, n is the number of genes (or variables) in the Gene Regulatory Network (GRN) models and k is the indegree of the genes. To solve the problem, we introduce a novel algorithm, DFL (Discrete Function Learning), for reconstructing qualitative models of GRNs from gene expression data in this paper. We analyze its complexity of O(k . N . n(2)) on the average and its data requirements. We also perform experiments on both synthetic and Cho et al. [7] yeast cell cycle gene expression data to validate the efficiency and prediction performance of the DFL algorithm. The experiments of synthetic Boolean networks show that the DFL algorithm is more efficient than current algorithms without loss of prediction performances. The results of yeast cell cycle gene expression data show that the DFL algorithm can identify biologically significant models with reasonable accuracy, sensitivity and high precision with respect to the literature evidences. We further introduce a method called epsilon function to deal with noises in data sets. The experimental results show that the epsilon function method is a good supplement to the DFL algorithm.

Algorithms↗
PubMed2006

Comments on "Dynamical optimal training for interval type-2 fuzzy neural network (T2FNN)".

In this comment, it will be shown that the backpropagation (BP) equations by Wang et al. are not correct. These BP equations were used to tune the parameters of the antecedent type-2 membership functions as well as the consequent part of the interval type-2 fuzzy neural networks (T2FNNs). These incorrect equations would have led to erroneous results, and hence this might affect the comparisons and findings presented by Wang et al. This comment will highlight the correct BP tuning equations for the T2FNN.

Algorithms↗
PubMed2006

Collision detection in complex dynamic scenes using an LGMD-based visual neural network with feature enhancement.

The lobula giant movement detector (LGMD) is an identified neuron in the locust brain that responds most strongly to the images of an approaching object such as a predator. Its computational model can cope with unpredictable environments without using specific object recognition algorithms. In this paper, an LGMD-based neural network is proposed with a new feature enhancement mechanism to enhance the expanded edges of colliding objects via grouped excitation for collision detection with complex backgrounds. The isolated excitation caused by background detail will be filtered out by the new mechanism. Offline tests demonstrated the advantages of the presented LGMD-based neural network in complex backgrounds. Real time robotics experiments using the LGMD-based neural network as the only sensory system showed that the system worked reliably in a wide range of conditions; in particular, the robot was able to navigate in arenas with structured surrounds and complex backgrounds.

Algorithms↗
PubMed1997

Dynamic properties of lung parenchyma: mechanical contributions of fiber network and interstitial cells.

We investigated the contributions of the connective tissue fiber network and interstitial cells to parenchymal mechanics in a surfactant-free system. In eight strips of uniform dimension from guinea pig lung, we assessed the storage (G') and loss (G") moduli by using pseudo-random length oscillations containing a specially designed set of seven frequencies from 0.07 to 2.4 Hz at baseline, during methacholine (MCh) challenge, and after death of the interstitial cells. Measurements were made at mean forces of 0.5 and 1 g and strain amplitudes of 5, 10, and 15% and were repeated 12 h later in the same, but nonviable samples. The results were interpreted using a linear viscoelastic model incorporating both tissue damping (G) and stiffness (H). The G' and G" increased linearly with the logarithm of frequency, and both G and H showed negative strain amplitude and positive mean force dependence. After MCh challenge, the G' and G" spectra were elevated uniformly, and G and H increased by < 15%. Tissue stiffness, strain amplitude, and mean force dependence were virtually identical in the viable and nonviable samples. The G and hence energy dissipation were approximately 10% smaller in the nonviable samples due to absence of actin-myosin cross-bridge cycling. We conclude that the connective tissue network may also dominate parenchymal mechanics in the intact lung, which can be influenced by the tone or contraction of interstitial cells.

Animals↗
PubMed1997

Dynamic interactions determine partial thalamic quiescence in a computer network model of spike-and-wave seizures.

In vivo intracellular recording from cat thalamus and cortex was performed during spontaneous spike-wave seizures characterized by synchronously firing cortical neurons correlated with the electroencephalogram. During these seizures, thalamic reticular (RE) neurons discharged with long spike bursts riding on a depolarization, whereas thalamocortical (TC) neurons were either entrained into the seizures (40%) or were quiescent (60%). During quiescence, TC neurons showed phasic inhibitory postsynaptic potentials (IPSPs) that coincided with paroxysmal depolarizing shifts in the simultaneously recorded cortical neuron. Computer simulations of a reciprocally connected TC-RE pair showed two major modes of TC-RE interaction. In one mode, a mutual oscillation involved direct TC neuron excitation of the RE neuron leading to a burst that fed back an IPSP into the TC neuron, producing a low-threshold spike. In the other, quiescent mode, the TC neuron was subject to stronger coalescing IPSPs. Simulated cortical stimulation could trigger a transition between the two modes. This transition could go in either direction and was dependent on the precise timing of the input. The transition did not always follow the stimulation immediately. A larger, multicolumnar simulation was set up to assess the role of the TC-RE pair in the context of extensive divergence and convergence. The amount of TC neuron spiking generally correlated with the strength of total inhibitory input, but large variations in the amount of spiking could be seen. Evidence for mutual oscillation could be demonstrated by comparing TC neuron firing with that in reciprocally connected RE neurons. An additional mechanism for TC neuron quiescence was assessed with the use of a cooperative model of gamma-aminobutyric acid-B (GABA(B))-mediated responses. With this model, RE neurons receiving repeated strong excitatory input produced TC neuron quiescence due to burst-duration-associated augmentation of GABA(B) current. We predict the existence of spatial inhomogeneity in apparently generalized spike-wave seizures, involving a center-surround pattern. In the center, intense cortical and RE neuron activity would be associated with TC neuron quiescence. In the surround, less intense hyperpolarization of TC neurons would allow low-threshold spikes to occur. This surround, an "epileptic penumbra," would be the forefront of the expanding epileptic wave during the process of initial seizure generalization. Therapeutically, we would then predict that agents that reduce TC neuron activity would have a greater effect on seizure onset than on ongoing spike-wave seizures or other thalamic oscillations.

Action Potentials↗
PubMed2006

Intracellular transport dynamics of endosomes containing DNA polyplexes along the microtubule network.

We have explored the transport of DNA polyplexes enclosed in endosomes within the cellular environment by multiple particle tracking (MPT). The polyplex-loaded endosomes demonstrate enhanced diffusion at short timescales (t<7 s) with their mean-square displacement (MSD) Deltax(t)2 scaling as t1.25. For longer time intervals they exhibit subdiffusive transport and have an MSD scaling as t0.7. This crossover from an enhanced diffusion to a subdiffusive regime can be explained by considering the action of motor proteins that actively transport these endosomes along the cellular microtubule network and the thermal bending modes of the microtubule network itself.

Biological Transport, Active↗
PubMedDate not supplied

[Dynamic processes during the organization of neurono-glial networks in nerve tissue culture].

Studies have been made on the pattern of cell behaviour and distribution of cellular projections during stabilization of neuroglial nets in the cortex of newborn rat puppies under the conditions of tissue culture. Observations were made on surviving cells at the 3rd day of cultivation. Projection growth and changes in cell location were registered microphotographically within a day with a 4-hour interval. It was found that together with relative stability of their location, cells exhibit translocations in various directions up to a distance of several cellular diameters. Projection growth in the vicinity of cells occurs mainly in a rhythmic pattern.

Animals↗
PubMed2004

Evidence for dynamically organized modularity in the yeast protein-protein interaction network.

In apparently scale-free protein-protein interaction networks, or 'interactome' networks, most proteins interact with few partners, whereas a small but significant proportion of proteins, the 'hubs', interact with many partners. Both biological and non-biological scale-free networks are particularly resistant to random node removal but are extremely sensitive to the targeted removal of hubs. A link between the potential scale-free topology of interactome networks and genetic robustness seems to exist, because knockouts of yeast genes encoding hubs are approximately threefold more likely to confer lethality than those of non-hubs. Here we investigate how hubs might contribute to robustness and other cellular properties for protein-protein interactions dynamically regulated both in time and in space. We uncovered two types of hub: 'party' hubs, which interact with most of their partners simultaneously, and 'date' hubs, which bind their different partners at different times or locations. Both in silico studies of network connectivity and genetic interactions described in vivo support a model of organized modularity in which date hubs organize the proteome, connecting biological processes--or modules--to each other, whereas party hubs function inside modules.

Computer Simulation↗
PubMed1995

Compensatory mechanisms in an attractor neural network model of schizophrenia.

We investigate the effect of synaptic compensation on the dynamic behavior of an attractor neural network receiving its input stimuli as external fields projecting on the network. It is shown how, in the face of weakened inputs, memory performance may be preserved by strengthening internal synaptic connections and increasing the noise level. Yet, these compensatory changes necessarily have adverse side effects, leading to spontaneous, stimulus-independent retrieval of stored patterns. These results can support Stevens' recent hypothesis that the onset of schizophrenia is associated with frontal synaptic regeneration, occurring subsequent to the degeneration of temporal neurons projecting on these areas.

Brain↗
PubMed2006

Synthesis of PHBV block copolymers driven by an oscillatory genetic network.

Artificial genetic networks constitute a powerful tool to achieve various biotechnological objectives. In this work, we propose the modification of an oscillatory genetic network, known as the repressilator, to drive synthesis of poly(3hydroxybutyrate-co-3hydroxyvalerate) (PHBV) block copolymer chains in recombinant Escherichia coli cells. To study the feasibility of this idea, we developed a detailed mathematical model describing the dynamics of the genetic network, which drive the formation of monomer units that are subsequently incorporated into actively growing block copolymer chains. Extensive simulation studies have shown that appropriate choice of the molecular characteristics of the network and manipulation of extracelllular conditions lead to tight control of both the micro- and macro-structures of the resulting block copolymer chains. Thus, the model can guide network design aiming at producing block copolymer structures with desirable characteristics.

Biological Clocks↗
PubMed2006

A model of the ethylene signaling pathway and its gene response in Arabidopsis thaliana: pathway cross-talk and noise-filtering properties.

Dynamic models of molecular networks and pathways enable in silico evaluations of the consistency of proposed interactions and the outcomes of perturbations as well as of hypotheses on system-level structure and function. We postulate a continuous model of the activation dynamics of the ethylene response factor 1 (ERF1) gene in response to ethylene signaling. This activation elicits the response of the plant defensin 1 (PDF1) gene, which also responds to jasmonic acid, and the inhibition of the putative auxin responsive factor 2 (ARF2) gene, that also responds to auxin. Our model allows the effect of different ethylene concentrations in eliciting contrasting genetic and phenotypic responses to be evaluated allows the effect of different ethylene concentrations in eliciting contrasting genetic and phenotypic responses to be evaluated and seems to consider key components of the ethylene pathway because the ERF1 dose-response curve that we predict has the same qualitative form as the phenotypic dose-response curves obtained experimentally. Therefore, our model suggests that the phenotypic dose-response curves obtained experimentally could be due, at least in part, to ERF1 changes to different ethylene concentrations. Stability analyses show that the model's results are robust to parameter estimates. Of interest is that our model predicts that the ethylene pathway may filter stochastic and rapid chaotic fluctuations in ethylene availability. This novel approach may be applied to any cellular signaling and response pathway in plants and animals.

Arabidopsis↗
PubMed2001

Neural networks and logical reasoning systems: a translation table.

A correspondence is established between the basic elements of logic reasoning systems (knowledge bases, rules, inference and queries) and the structure and dynamical evolution laws of neural networks. The correspondence is pictured as a translation dictionary which might allow to go back and forth between symbolic and network formulations, a desirable step in learning-oriented systems and multicomputer networks. In the framework of Horn clause logics, it is found that atomic propositions with n arguments correspond to nodes with nth order synapses, rules to synaptic intensity constraints, forward chaining to synaptic dynamics and queries either to simple node activation or to a query tensor dynamics.

Logic↗
PubMed2005

Mitochondrial criticality: a new concept at the turning point of life or death.

A variety of stressors can cause the collapse of mitochondrial membrane potential (DeltaPsi(m)), but the events leading up to this catastrophic cellular event are not well understood at the mechanistic level. Based on our recent studies of oscillations in mitochondrial energetics, we have coined the term "mitochondrial criticality" to describe the state in which the mitochondrial network of cardiomyocytes becomes very sensitive to small perturbations in reactive oxygen species (ROS), resulting in the scaling of local mitochondrial uncoupling and DeltaPsi(m) loss to the whole cell, and the myocardial syncytium. At the point of criticality, the dynamics of the mitochondrial network bifurcate to oscillatory behavior. These energetic changes are translated into effects on the electrical excitability of the cell, inducing dramatic changes in the morphology and the threshold for activating an action potential. Emerging evidence suggests that this mechanism, by creating spatial and temporal heterogeneity of excitability in the heart during ischemia and reperfusion, underlies the genesis of potentially lethal cardiac arrhythmias.

Animals↗