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At least 631 records · Page 35

Translocation of a Polymer Chain across a Nanopore: A Brownian Dynamics Simulation Study

We carried out Brownian dynamics simulation studies of the translocation of single polymer chains across a nanosized pore under the driving of an applied field (chemical potential gradient). The translocation process can be either dominated by the entropic barrier resulted from restricted motion of flexible polymer chains or by applied forces (or chemical gradient across the wall), we focused on the latter case in our studies. Calculation of radius of gyrations at the two opposite sides of the wall shows that the polymer chains are not in equilibrium during the translocation process. Despite this fact, our results show that the one-dimensional diffusion and the nucleation model provide an excellent description of the dependence of average translocation time on the chemical potential gradients, the polymer chain length and the solvent viscosity. In good agreement with experimental results and theoretical predictions, the translocation time distribution of our simple model shows strong non-Gaussian characteristics. It is observed that even for this simple tubelike pore geometry, more than one peak of translocation time distribution can be generated for proper pore diameter and applied field strengths. Both repulsive Weeks-Chandler-Anderson and attractive Lennard-Jones polymer-nanopore interaction were studied, attraction facilitates the translocation process by shortening the total translocation time and dramatically improve the capturing of polymer chain. The width of the translocation time distribution was found to decrease with increasing temperature, increasing field strength, and decreasing pore diameter.

Tian, Pu↗

Analytical Model for the Higher Order Moments of Midlatitude Atmospheric Temperature Distributions

Observed distributions of atmospheric temperature are non-Gaussian. Therefore, moments beyond variance are necessary in determining the frequency of extreme temperature events. Here we propose a simple kinematic model for atmospheric mid-latitude temperature variability based on symmetric advection from a non-symmetric background temperature profile. We then use this model to derive analytical expressions for the higher order moments of temperature distributions. Our results show that nonzero skewness and kurtosis arise due to the nonlinearity of the time-mean meridional temperature profile. The analytical model matches an idealized Held-Suarez atmospheric model, indicating nonlinearity of time-mean temperature in latitude is the dominant contribution to nonzero skewness and kurtosis in synoptic temperature variations. Model analysis further shows decrease in higher order moments due to climate change come roughly equally from changes in mixing length and changes in the background temperature profiles.

54 ENVIRONMENTAL SCIENCES↗

Momentum distributions of isotopes produced by fragmentation of relativistic C-12 and O-16 projectiles

The fragment momentum distributions in the projectile rest frame are, typically, Gaussian shaped, narrow, consistent with isotropy, depend on fragment and projectile, and have no significant correlation with target mass or beam energy. The nuclear temperature is inferred from the momentum distributions of the fragments and is approximately equal to the projectile nuclear binding energy, indicative of small energy transfer between target and fragment.

Greiner, D. E.↗

Some aspects of transient cooling of a radiating rectangular medium

The emission from a gray radiating medium is analyzed for transient cooling in surroundings at a low temperature. The medium is rectangular with no variations in the direction normal to the cross section. The integral equation for the transient temperature distribution is solved numerically using a two-dimensional Gaussian integration subroutine. The emissive ability for a rectangle at uniform temperature is compared with that for transient cooling where the temperature distribution of the region has reached a fully developed shape, as shown by a separation of variables solution. The two solutions provide the upper and lower bounds for the emittance of a rectangle during transient cooling. The emittances for various aspect ratios are presented as a function of the mean length of the rectangle and are compared with results for a plane layer and a cylinder.

Siegel, Robert↗

[Using Molecular Simulations to Understand Complex Nanoscale Dynamic Phenomena in Polymer Solutions]

The first half of the project concentrated on molecular simulation studies of the translocation of model molecules for single-stranded DNA through a nanosized pore. This has resulted in the publication, Translocation of a polymer chain across a nanopore: A Brownian dynamics simulation study, by Pu Tian and Grant D. Smith, JOURNAL OF CHEMICAL PHYSICS VOLUME 119, NUMBER 21 1 DECEMBER 2003, which is attached to this report. In this work we carried out Brownian dynamics simulation studies of the translocation of single polymer chains across a nanosized pore under the driving of an applied field (chemical potential gradient) designed to mimic an electrostatic field. The translocation process can be either dominated by the entropic barrier resulted from restricted motion of flexible polymer chains or by applied forces (or chemical gradient). We focused on the latter case in our studies. Calculation of radius of gyration of the translocating chain at the two opposite sides of the wall shows that the polymer chains are not in equilibrium during the translocation process. Despite this fact, our results show that the one-dimensional diffusion and the nucleation model provide an excellent description of the dependence of average translocation time on the chemical potential gradients, the polymer chain length and the solvent viscosity. In good agreement with experimental results and theoretical predictions, the translocation time distribution of our simple model shows strong non-Gaussian characteristics. It is observed that even for this simple tube-like pore geometry, more than one peak of translocation time distribution can be generated for proper pore diameter and applied field strengths. Both repulsive Weeks-Chandler-Anderson and attractive Lennard-Jones polymer-nanopore interaction were studied. Attraction facilitates the translocation process by shortening the total translocation time and dramatically improve the capturing of polymer chain. The width of the translocation time distribution was found to decrease with increasing temperature, increasing field strength, and decreasing pore diameter.

Smith, Grant↗

Far-forward neutrinos at the Large Hadron Collider

We present a new calculation of the energy distribution of high-energy neutrinos from the decay of charm and bottom hadrons produced at the Large Hadron Collider (LHC). In the kinematical region of very forward rapidities, heavy-flavor production and decay is a source of tau neutrinos that leads to thousands of charged-current tau neutrino events in a 1 m long, 1 m radius lead neutrino detector at a distance of 480 m from the interaction region. In our computation, next-to-leading order QCD radiative corrections are accounted for in the production cross-sections. Non-perturbative intrinsic-kT effects are approximated by a simple phenomenological model introducing a Gaussian kT-smearing of the parton distribution functions, which might also mimic perturbative effects due to multiple initial-state soft-gluon emissions. The transition from partonic to hadronic states is described by phenomenological fragmentation functions. To study the effect of various input parameters, theoretical predictions for D± s production are compared with LHCb data on double-differential cross-sections in transverse momentum and rapidity. The uncertainties related to the choice of the input parameter values, ultimately affecting the predictions of the tau neutrino event distributions, are discussed. We consider a 3+1 neutrino mixing scenario to illustrate the potential for a neutrino experiment to constrain the 3+1 parameter space using tau neutrinos and antineutrinos. We find large theoretical uncertainties in the predictions of the neutrino fluxes in the far-forward region. Untangling the effects of tau neutrino oscillations into sterile neutrinos and distinguishing a 3+1 scenario from the standard scenario with three active neutrino flavours, will be challenging due to the large theoretical uncertainties from QCD.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Far-forward neutrinos at the Large Hadron Collider

We present a new calculation of the energy distribution of high-energy neutrinos from the decay of charm and bottom hadrons produced at the Large Hadron Collider (LHC). In the kinematical region of very forward rapidities, heavy-flavor production and decay is a source of tau neutrinos that leads to thousands of charged-current tau neutrino events in a 1 m long, 1 m radius lead neutrino detector at a distance of 480 m from the interaction region. In our computation, next-to-leading order QCD radiative corrections are accounted for in the production cross-sections. Non-perturbative intrinsic-k T effects are approximated by a simple phenomenological model introducing a Gaussian k T -smearing of the parton distribution functions, which might also mimic perturbative effects due to multiple initial-state soft-gluon emissions. The transition from partonic to hadronic states is described by phenomenological fragmentation functions. To study the effect of various input parameters, theoretical predictions for $D^{±}_s$ production are compared with LHCb data on double-differential cross-sections in transverse momentum and rapidity. The uncertainties related to the choice of the input parameter values, ultimately affecting the predictions of the tau neutrino event distributions, are discussed. We consider a 3+1 neutrino mixing scenario to illustrate the potential for a neutrino experiment to constrain the 3+1 parameter space using tau neutrinos and antineutrinos. We find large theoretical uncertainties in the predictions of the neutrino fluxes in the far-forward region. Untangling the effects of tau neutrino oscillations into sterile neutrinos and distinguishing a 3+1 scenario from the standard scenario with three active neutrino flavours, will be challenging due to the large theoretical uncertainties from QCD.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Search for low-mass resonances decaying into two jets and produced in association with a photon or a jet at √s = 13 TeV with the ATLAS detector

A search is performed for localized excesses in the low-mass dijet invariant mass distribution, targeting a hypothetical new particle decaying into two jets and produced in association with either a high transverse momentum photon or a jet. The search uses the full Run 2 data sample from LHC proton-proton collisions collected by the ATLAS experiment at a center-of-mass energy of 13 TeV during 2015–2018. Two variants of the search are presented for each type of initial-state radiation: one that makes no jet flavor requirements and one that requires both of the jets to have been identified as containing b-hadrons. No excess is observed relative to the Standard Model prediction, and the data are used to set upper limits on the production cross section for a benchmark Z' model and, separately, for generic, beyond the Standard Model scenarios which might produce a Gaussian-shaped contribution to dijet invariant mass distributions. The results extend the current constraints on dijet resonances to the mass range between 200 and 650 GeV.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Structure, rotation, and the peculiar velocity cD galaxy in Abell 2107

The radial velocities of 75 galaxies in the field of Abell 2107 were measured within the framework of a program to study the kinematics of cD clusters of galaxies. Sixty-eight of these galaxies are cluster members. The mean observed velocity of A2107 is 12335 +/- 86 km/s, and the velocity dispersion is 672 +67/-52 km/s. The cD galaxy has a peculiar velocity of 270 km/s with respect to the cluster mean. The distribution of velocities is well fitted by a Gaussian, but the velocities are spatially correlated. Simple two-body subcluster models for A2107 are investigated; they are found to be consistent with the observed data and to account for the peculiar velocity of the cD galaxy. Alternatively, the spatial distribution of the velocities is also consistent with rotation of the single cluster at the 98-percent confidence level.

Oegerle, William R.↗

Topology of large-scale structure in seeded hot dark matter models

The topology of the isodensity surfaces in seeded hot dark matter models, in which static seed masses provide the density perturbations in a universe dominated by massive neutrinos is examined. When smoothed with a Gaussian window, the linear initial conditions in these models show no trace of non-Gaussian behavior for r0 equal to or greater than 5 Mpc (h = 1/2), except for very low seed densities, which show a shift toward isolated peaks. An approximate analytic expression is given for the genus curve expected in linear density fields from randomly distributed seed masses. The evolved models have a Gaussian topology for r0 = 10 Mpc, but show a shift toward a cellular topology with r0 = 5 Mpc; Gaussian models with an identical power spectrum show the same behavior.

Beaky, Matthew M.↗

State-space receptive fields of semicircular canal afferent neurons in the bullfrog

Receptive fields are commonly used to describe spatial characteristics of sensory neuron responses. They can be extended to characterize temporal or dynamical aspects by mapping neural responses in dynamical state spaces. The state-space receptive field of a neuron is the probability distribution of the dynamical state of the stimulus-generating system conditioned upon the occurrence of a spike. We have computed state-space receptive fields for semicircular canal afferent neurons in the bullfrog (Rana catesbeiana). We recorded spike times during broad-band Gaussian noise rotational velocity stimuli, computed the frequency distribution of head states at spike times, and normalized these to obtain conditional pdfs for the state. These state-space receptive fields quantify what the brain can deduce about the dynamical state of the head when a single spike arrives from the periphery. c2001 Elsevier Science B.V. All rights reserved.

Non-NASA Center↗

e RPCA : Robust Principal Component Analysis for Exponential Family Distributions

Abstract Robust principal component analysis (RPCA) is a widely used method for recovering low‐rank structure from data matrices corrupted by significant and sparse outliers. These corruptions may arise from occlusions, malicious tampering, or other causes for anomalies, and the joint identification of such corruptions with low‐rank background is critical for process monitoring and diagnosis. However, existing RPCA methods and their extensions largely do not account for the underlying probabilistic distribution for the data matrices, which in many applications are known and can be highly non‐Gaussian. We thus propose a new method called RPCA for exponential family distributions (), which can perform the desired decomposition into low‐rank and sparse matrices when such a distribution falls within the exponential family. We present a novel alternating direction method of multiplier optimization algorithm for efficient decomposition, under either its natural or canonical parametrization. The effectiveness of is then demonstrated in two applications: the first for steel sheet defect detection and the second for crime activity monitoring in the Atlanta metropolitan area.

Zheng, Xiaojun↗

A non-Gaussian model of continuous atmospheric turbulence proposed for use in aircraft design

This paper describes a statistical model proposed for use in forecasting vehicle responses to stationary continuous atmospheric turbulence. The model is suggested by the observed patchy character of turbulence, and differs from models now in use in that it does not assume the gust velocity to be a Gaussian process. For simplicity only the vertical gust component is considered here. The validity of the proposed model is established through comparison with published data. This comparison shows that the model is in better agreement with observed gust velocity probability distributions and exceedance frequencies than is the widely used Gaussian model, especially insofar as high velocity gusts are concerned. A method of applying the proposed model to the determination of vehicle responses is developed. It is shown that response probability distributions as well as exceedance frequencies can be derived from the eigenvalues and eigenfunction of certain unsymmetric kernels.

Reeves, P. M.↗

Bayesian operator inference for data-driven reduced-order modeling

This work proposes a Bayesian inference method for the reduced-order modeling of time-dependent systems. Informed by the structure of the governing equations, the task of learning a reduced-order model from data is posed as a Bayesian inverse problem with Gaussian prior and likelihood. The resulting posterior distribution characterizes the operators defining the reduced-order model, hence the predictions subsequently issued by the reduced-order model are endowed with uncertainty. The statistical moments of these predictions are estimated via a Monte Carlo sampling of the posterior distribution. Since the reduced models are fast to solve, this sampling is computationally efficient. Furthermore, the proposed Bayesian framework provides a statistical interpretation of the regularization term that is present in the deterministic operator inference problem, and the empirical Bayes approach of maximum marginal likelihood suggests a selection algorithm for the regularization hyperparameters. The proposed method is demonstrated on two examples: the compressible Euler equations with noise-corrupted observations, and a single-injector combustion process.

97 MATHEMATICS AND COMPUTING↗

Uniform Beam Simulation Technique for Beam Scans and Machine Learning Studies at Fermilab

Fermilab's neutrino facilities, including NuMI and the upcoming LBNF, use proton beams to produce positively and negatively charged pions and kaons. Detailed simulations are necessary to study particle interactions and beam propagation. To efficiently analyze beam scan effects, we propose a technique to generate multiple simulation samples with high statistics. These samples can be used to develop beamline simulation based machine learning applications. In this technique, we generate a uniformly distributed single simulation data sample. We calculate Gaussian weights for each beam configurations and apply them to post-processing measurements. In this poster, we demonstrate the proposed simulation technique. This technique reduces simulation time and computing resources significantly.

Wickremasinghe, Athula↗

Semi-empirical calculation of depletion region width in n+-p silicon solar cells

An extension of the width calculation for impurity distributions of complementary error function and the Gaussian function, in addition to the exponential function is used in combination with experimental width values deduced from capacitance measurements at zero bias to numerically determine the width occurring in both the n+ and p junctions. The total possible error o the semi-empirical calculation is less than plus or minus 3%. Results show considerable variation in the depletion widths occurring in the n+ and p regions for different impurity profiles.

Wang, E. Y.↗