1,320 research outputs found
A Sparse Reformulation of the Green's Function Formalism Allows Efficient Simulations of Morphological Neuron Models
We prove that when a class of partial differential equations, generalized from the cable equation, is defined on tree graphs and the inputs are restricted to a spatially discrete, well chosen set of points, the Green's function (GF) formalism can be rewritten to scale as O (n) with the number n of inputs locations, contrary to the previously reported O (n(2)) scaling. We show that the linear scaling can be combined with an expansion of the remaining kernels as sums of exponentials to allow efficient simulations of equations from the aforementioned class. We furthermore validate this simulation paradigm on models of nerve cells and explore its relation with more traditional finite difference approaches. Situations in which a gain in computational performance is expected are discussed.Peer reviewedFinal Accepted Versio
From Therapeutic Drug Monitoring to Model-Informed Precision Dosing for Antibiotic
Therapeutic drug monitoring (TDM) and model-informed precision dosing (MIPD) have evolved as important tools to inform rational dosing of antibiotics in individual patients with infections. In particular, critically ill patients display altered, highly variable pharmacokinetics and often suffer from infections caused by less susceptible bacteria. Consequently, TDM has been used to individualize dosing in this patient group for many years. More recently, there has been increasing research on the use of MIPD software to streamline the TDM process, which can increase the flexibility and precision of dose individualization but also requires adequate model validation and re-evaluation of existing workflows. In parallel, new minimally invasive and noninvasive technologies such as microneedle-based sensors are being developed, which-together with MIPD software-have the potential to revolutionize how patients are dosed with antibiotics. Nonetheless, carefully designed clinical trials to evaluate the benefit of TDM and MIPD approaches are still sparse, but are critically needed to justify the implementation of TDM and MIPD in clinical practice. The present review summarizes the clinical pharmacology of antibiotics, conventional TDM and MIPD approaches, and evidence of the value of TDM/MIPD for aminoglycosides, beta-lactams, glycopeptides, and linezolid, for which precision dosing approaches have been recommended
Climbing the Jaynes-Cummings Ladder and Observing its Sqrt(n) Nonlinearity in a Cavity QED System
The already very active field of cavity quantum electrodynamics (QED),
traditionally studied in atomic systems, has recently gained additional
momentum by the advent of experiments with semiconducting and superconducting
systems. In these solid state implementations, novel quantum optics experiments
are enabled by the possibility to engineer many of the characteristic
parameters at will. In cavity QED, the observation of the vacuum Rabi mode
splitting is a hallmark experiment aimed at probing the nature of matter-light
interaction on the level of a single quantum. However, this effect can, at
least in principle, be explained classically as the normal mode splitting of
two coupled linear oscillators. It has been suggested that an observation of
the scaling of the resonant atom-photon coupling strength in the
Jaynes-Cummings energy ladder with the square root of photon number n is
sufficient to prove that the system is quantum mechanical in nature. Here we
report a direct spectroscopic observation of this characteristic quantum
nonlinearity. Measuring the photonic degree of freedom of the coupled system,
our measurements provide unambiguous, long sought for spectroscopic evidence
for the quantum nature of the resonant atom-field interaction in cavity QED. We
explore atom-photon superposition states involving up to two photons, using a
spectroscopic pump and probe technique. The experiments have been performed in
a circuit QED setup, in which ultra strong coupling is realized by the large
dipole coupling strength and the long coherence time of a superconducting qubit
embedded in a high quality on-chip microwave cavity.Comment: ArXiv version of manuscript published in Nature in July 2008, 5
pages, 5 figures, hi-res version at
http://www.finkjohannes.com/SqrtNArxivPreprint.pd
Quantum computing and information extraction for a dynamical quantum system
We discuss the simulation of a complex dynamical system, the so-called
quantum sawtooth map model, on a quantum computer. We show that a quantum
computer can be used to efficiently extract relevant physical information for
this model. It is possible to simulate the dynamical localization of classical
chaos and extract the localization length of the system with quadratic speed up
with respect to any known classical computation. We can also compute with
algebraic speed up the diffusion coefficient and the diffusion exponent both in
the regimes of Brownian and anomalous diffusion. Finally, we show that it is
possible to extract the fidelity of the quantum motion, which measures the
stability of the system under perturbations, with exponential speed up.Comment: 11 pages, 5 figures, submitted to Quantum Information Processing,
Special Issue devoted to the Physics of Quantum Computin
NetCTLpan: pan-specific MHC class I pathway epitope predictions
Reliable predictions of immunogenic peptides are essential in rational vaccine design and can minimize the experimental effort needed to identify epitopes. In this work, we describe a pan-specific major histocompatibility complex (MHC) class I epitope predictor, NetCTLpan. The method integrates predictions of proteasomal cleavage, transporter associated with antigen processing (TAP) transport efficiency, and MHC class I binding affinity into a MHC class I pathway likelihood score and is an improved and extended version of NetCTL. The NetCTLpan method performs predictions for all MHC class I molecules with known protein sequence and allows predictions for 8-, 9-, 10-, and 11-mer peptides. In order to meet the need for a low false positive rate, the method is optimized to achieve high specificity. The method was trained and validated on large datasets of experimentally identified MHC class I ligands and cytotoxic T lymphocyte (CTL) epitopes. It has been reported that MHC molecules are differentially dependent on TAP transport and proteasomal cleavage. Here, we did not find any consistent signs of such MHC dependencies, and the NetCTLpan method is implemented with fixed weights for proteasomal cleavage and TAP transport for all MHC molecules. The predictive performance of the NetCTLpan method was shown to outperform other state-of-the-art CTL epitope prediction methods. Our results further confirm the importance of using full-type human leukocyte antigen restriction information when identifying MHC class I epitopes. Using the NetCTLpan method, the experimental effort to identify 90% of new epitopes can be reduced by 15% and 40%, respectively, when compared to the NetMHCpan and NetCTL methods. The method and benchmark datasets are available at http://www.cbs.dtu.dk/services/NetCTLpan/
The New Physics at RHIC. From Transparency to High p Suppression
Heavy ion collisions at RHIC energies (Au+Au collisions at
GeV) exhibit significant new features as compared to
earlier experiments at lower energies. The reaction is characterized by a high
degree of transparency of the collisions partners leading to the formation of a
baryon-poor central region. In this zone, particle production occurs mainly
from the stretching of the color field. The initial energy density is well
above the one considered necessary for the formation of the Quark Gluon Plasma,
QGP. The production of charged particles of various masses is consistent with
chemical and thermal equilibrium. Recently, a suppression of the high
transverse momentum component of hadron spectra has been observed in central
Au+Au collisions. This can be explained by the energy loss experienced by
leading partons in a medium with a high density of unscreened color charges. In
contrast, such high jets are not suppressed in d+Au collisions suggesting
that the high suppression is not due to initial state effects in the
ultrarelativistic colliding nuclei.Comment: 15 pages, 11 figures. to appear in Nucl. Physics A. Invited talk at
'Nucleus-Nucleus Collisions 2003' conference, Mosco
Global and regional brain metabolic scaling and its functional consequences
Background: Information processing in the brain requires large amounts of
metabolic energy, the spatial distribution of which is highly heterogeneous
reflecting complex activity patterns in the mammalian brain.
Results: Here, it is found based on empirical data that, despite this
heterogeneity, the volume-specific cerebral glucose metabolic rate of many
different brain structures scales with brain volume with almost the same
exponent around -0.15. The exception is white matter, the metabolism of which
seems to scale with a standard specific exponent -1/4. The scaling exponents
for the total oxygen and glucose consumptions in the brain in relation to its
volume are identical and equal to , which is significantly larger
than the exponents 3/4 and 2/3 suggested for whole body basal metabolism on
body mass.
Conclusions: These findings show explicitly that in mammals (i)
volume-specific scaling exponents of the cerebral energy expenditure in
different brain parts are approximately constant (except brain stem
structures), and (ii) the total cerebral metabolic exponent against brain
volume is greater than the much-cited Kleiber's 3/4 exponent. The
neurophysiological factors that might account for the regional uniformity of
the exponents and for the excessive scaling of the total brain metabolism are
discussed, along with the relationship between brain metabolic scaling and
computation.Comment: Brain metabolism scales with its mass well above 3/4 exponen
Charge separation relative to the reaction plane in Pb-Pb collisions at TeV
Measurements of charge dependent azimuthal correlations with the ALICE
detector at the LHC are reported for Pb-Pb collisions at TeV. Two- and three-particle charge-dependent azimuthal correlations in
the pseudo-rapidity range are presented as a function of the
collision centrality, particle separation in pseudo-rapidity, and transverse
momentum. A clear signal compatible with a charge-dependent separation relative
to the reaction plane is observed, which shows little or no collision energy
dependence when compared to measurements at RHIC energies. This provides a new
insight for understanding the nature of the charge dependent azimuthal
correlations observed at RHIC and LHC energies.Comment: 12 pages, 3 captioned figures, authors from page 2 to 6, published
version, figures at http://aliceinfo.cern.ch/ArtSubmission/node/286
A note on comonotonicity and positivity of the control components of decoupled quadratic FBSDE
In this small note we are concerned with the solution of Forward-Backward
Stochastic Differential Equations (FBSDE) with drivers that grow quadratically
in the control component (quadratic growth FBSDE or qgFBSDE). The main theorem
is a comparison result that allows comparing componentwise the signs of the
control processes of two different qgFBSDE. As a byproduct one obtains
conditions that allow establishing the positivity of the control process.Comment: accepted for publicatio
Centrality dependence of charged particle production at large transverse momentum in Pb-Pb collisions at TeV
The inclusive transverse momentum () distributions of primary
charged particles are measured in the pseudo-rapidity range as a
function of event centrality in Pb-Pb collisions at
TeV with ALICE at the LHC. The data are presented in the range
GeV/ for nine centrality intervals from 70-80% to 0-5%.
The Pb-Pb spectra are presented in terms of the nuclear modification factor
using a pp reference spectrum measured at the same collision
energy. We observe that the suppression of high- particles strongly
depends on event centrality. In central collisions (0-5%) the yield is most
suppressed with at -7 GeV/. Above
GeV/, there is a significant rise in the nuclear modification
factor, which reaches for GeV/. In
peripheral collisions (70-80%), the suppression is weaker with almost independently of . The measured nuclear
modification factors are compared to other measurements and model calculations.Comment: 17 pages, 4 captioned figures, 2 tables, authors from page 12,
published version, figures at
http://aliceinfo.cern.ch/ArtSubmission/node/284
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