710 research outputs found
The Structure of DNA within Cationic Lipid/DNA Complexes
The structure of DNA within CLDCs used for gene delivery is controversial. Previous studies using CD have been interpreted to indicate that the DNA is converted from normal B to C form in complexes. This investigation reexamines this interpretation using CD of model complexes, FTIR as well as Raman spectroscopy and molecular dynamics simulations to address this issue. CD spectra of supercoiled plasmid DNA undergo a significant loss of rotational strength in the signal near 275 nm upon interaction with either the cationic lipid dimethyldioctadecylammonium bromide or 1,2-dioleoyltrimethylammonium propane. This loss of rotational strength is shown, however, by both FTIR and Raman spectroscopy to occur within the parameters of the B-type conformation. Contributions of absorption flattening and differential scattering to the CD spectra of complexes are unable to account for the observed spectra. Model studies of the CD of complexes prepared from synthetic oligonucleotides of varying length suggest that significant reductions in rotational strength can occur within short stretches of DNA. Furthermore, some alteration in the hydrogen bonding of bases within CLDCs is indicated in the FTIR and Raman spectroscopy results. In addition, alterations in base stacking interactions as well as hydrogen bonding are suggested by molecular dynamics simulations. A global interpretation of all of the data suggests the DNA component of CLDCs remains in a variant B form in which base/base interactions are perturbed
A posteriori error analysis and adaptive non-intrusive numerical schemes for systems of random conservation laws
In this article we consider one-dimensional random systems of hyperbolic
conservation laws. We first establish existence and uniqueness of random
entropy admissible solutions for initial value problems of conservation laws
which involve random initial data and random flux functions. Based on these
results we present an a posteriori error analysis for a numerical approximation
of the random entropy admissible solution. For the stochastic discretization,
we consider a non-intrusive approach, the Stochastic Collocation method. The
spatio-temporal discretization relies on the Runge--Kutta Discontinuous
Galerkin method. We derive the a posteriori estimator using continuous
reconstructions of the discrete solution. Combined with the relative entropy
stability framework this yields computable error bounds for the entire
space-stochastic discretization error. The estimator admits a splitting into a
stochastic and a deterministic (space-time) part, allowing for a novel
residual-based space-stochastic adaptive mesh refinement algorithm. We conclude
with various numerical examples investigating the scaling properties of the
residuals and illustrating the efficiency of the proposed adaptive algorithm
Collaborative Gaze Channelling for Improved Cooperation During Robotic Assisted Surgery
The use of multiple robots for performing complex tasks is becoming a common practice for many robot applications. When different operators are involved, effective cooperation with anticipated manoeuvres is important for seamless, synergistic control of all the end-effectors. In this paper, the concept of Collaborative Gaze Channelling (CGC) is presented for improved control of surgical robots for a shared task. Through eye tracking, the fixations of each operator are monitored and presented in a shared surgical workspace. CGC permits remote or physically separated collaborators to share their intention by visualising the eye gaze of their counterparts, and thus recovers, to a certain extent, the information of mutual intent that we rely upon in a vis-à-vis working setting. In this study, the efficiency of surgical manipulation with and without CGC for controlling a pair of bimanual surgical robots is evaluated by analysing the level of coordination of two independent operators. Fitts' law is used to compare the quality of movement with or without CGC. A total of 40 subjects have been recruited for this study and the results show that the proposed CGC framework exhibits significant improvement (p<0.05) on all the motion indices used for quality assessment. This study demonstrates that visual guidance is an implicit yet effective way of communication during collaborative tasks for robotic surgery. Detailed experimental validation results demonstrate the potential clinical value of the proposed CGC framework. © 2012 Biomedical Engineering Society.link_to_subscribed_fulltex
Accretions of Various Types of Dark Energies onto Morris-Thorne Wormhole
In this work, we have studied accretion of the dark energies onto
Morris-Thorne wormhole. For quintessence like dark energy, the mass of the
wormhole decreases and phantom like dark energy, the mass of wormhole
increases. We have assumed two types of dark energy like variable modified
Chaplygin gas (VMCG) and generalized cosmic Chaplygin gas (GCCG). We have found
the expression of wormhole mass in both cases. We have found the mass of the
wormhole at late universe and this is finite. For our choices the parameters
and the function , these models generate only quintessence dark energy
(not phantom) and so wormhole mass decreases during evolution of the universe.
Next we have assumed 5 kinds of parametrizations of well known dark energy
models. These models generate both quintessence and phantom scenarios. So if
these dark energies accrete onto the wormhole, then for quintessence stage,
wormhole mass decreases upto a certain value (finite value) and then again
increases to infinite value for phantom stage during whole evolution of the
universe. We also shown these results graphically.Comment: 9 pages, 7 figures. arXiv admin note: text overlap with
arXiv:1112.615
Contribution of anadromous fish to the diet of European catfish in a large river system
Many anadromous fish species, when migrating from the sea to spawn in fresh waters, can potentially be a valuable prey for larger predatory fish, thereby efficiently linking these two ecosystems. Here, we assess the contribution of anadromous fish to the diet of European catfish (Silurus glanis) in a large river system (Garonne, southwestern France) using stable isotope analysis and allis shad (Alosa alosa) as an example of anadromous fish. Allis shad caught in the Garonne had a very distinct marine delta(13)C value, over 8 per thousand higher after lipid extraction compared to the mean delta(13)C value of all other potential freshwater prey fish. The delta(13)C values of European catfish varied considerably between these two extremes and some individuals were clearly specializing on freshwater prey, whereas others specialized on anadromous fish. The mean contribution of anadromous fish to the entire European catfish population was estimated to be between 53% and 65%, depending on the fractionation factor used for delta(13)C
Emergent complex neural dynamics
A large repertoire of spatiotemporal activity patterns in the brain is the
basis for adaptive behaviour. Understanding the mechanism by which the brain's
hundred billion neurons and hundred trillion synapses manage to produce such a
range of cortical configurations in a flexible manner remains a fundamental
problem in neuroscience. One plausible solution is the involvement of universal
mechanisms of emergent complex phenomena evident in dynamical systems poised
near a critical point of a second-order phase transition. We review recent
theoretical and empirical results supporting the notion that the brain is
naturally poised near criticality, as well as its implications for better
understanding of the brain
Recognizing recurrent neural networks (rRNN): Bayesian inference for recurrent neural networks
Recurrent neural networks (RNNs) are widely used in computational
neuroscience and machine learning applications. In an RNN, each neuron computes
its output as a nonlinear function of its integrated input. While the
importance of RNNs, especially as models of brain processing, is undisputed, it
is also widely acknowledged that the computations in standard RNN models may be
an over-simplification of what real neuronal networks compute. Here, we suggest
that the RNN approach may be made both neurobiologically more plausible and
computationally more powerful by its fusion with Bayesian inference techniques
for nonlinear dynamical systems. In this scheme, we use an RNN as a generative
model of dynamic input caused by the environment, e.g. of speech or kinematics.
Given this generative RNN model, we derive Bayesian update equations that can
decode its output. Critically, these updates define a 'recognizing RNN' (rRNN),
in which neurons compute and exchange prediction and prediction error messages.
The rRNN has several desirable features that a conventional RNN does not have,
for example, fast decoding of dynamic stimuli and robustness to initial
conditions and noise. Furthermore, it implements a predictive coding scheme for
dynamic inputs. We suggest that the Bayesian inversion of recurrent neural
networks may be useful both as a model of brain function and as a machine
learning tool. We illustrate the use of the rRNN by an application to the
online decoding (i.e. recognition) of human kinematics
Virtual Partner Interaction (VPI): Exploring Novel Behaviors via Coordination Dynamics
Inspired by the dynamic clamp of cellular neuroscience, this paper introduces VPI—Virtual Partner Interaction—a coupled dynamical system for studying real time interaction between a human and a machine. In this proof of concept study, human subjects coordinate hand movements with a virtual partner, an avatar of a hand whose movements are driven by a computerized version of the Haken-Kelso-Bunz (HKB) equations that have been shown to govern basic forms of human coordination. As a surrogate system for human social coordination, VPI allows one to examine regions of the parameter space not typically explored during live interactions. A number of novel behaviors never previously observed are uncovered and accounted for. Having its basis in an empirically derived theory of human coordination, VPI offers a principled approach to human-machine interaction and opens up new ways to understand how humans interact with human-like machines including identification of underlying neural mechanisms
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