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https://www.readbyqxmd.com/read/28650819/towards-high-quality-visualization-of-superfluid-vortices
#1
Yulong Guo, Xiaopei Liu, Chi Xiong, Xuemiao Xu, Chi-Wing Fu
Superfluidity is a special state of matter exhibiting macroscopic quantum phenomena and acting like a fluid with zero viscosity. In such a state, superfluid vortices exist as phase singularities of the model equation with unique distributions. This paper presents novel techniques to aid the visual understanding of superfluid vortices based on the state-of-the-art non-linear Klein-Gordon equation, which evolves a complex scalar field, giving rise to special vortex lattice/ring structures with dynamic vortex formation, reconnection, and Kelvin waves, etc...
June 26, 2017: IEEE Transactions on Visualization and Computer Graphics
https://www.readbyqxmd.com/read/28649640/mri-derived-diffusion-parameters-in-the-human-optic-nerve-and-its-surrounding-sheath-during-head-down-tilt
#2
Darius A Gerlach, Karina Marshall-Goebel, Khader M Hasan, Larry A Kramer, Noam Alperin, Joern Rittweger
More than half of astronauts present with significant neuro-ophthalmic findings during 6-month missions onboard the International Space Station. Although the underlying cause of this Microgravity Ocular Syndrome is currently unknown, alterations in cerebrospinal fluid dynamics within the optic nerve sheath may play a role. In the presented study, diffusion tensor imaging was used to assess changes in diffusivity of the optic nerve and its surrounding sheath during head-down tilt, a ground-based model of microgravity...
2017: NPJ Microgravity
https://www.readbyqxmd.com/read/28647684/dynamics-of-helicobacter-pylori-infection-as-a-determinant-of-progression-of-gastric-precancerous-lesions-16-year-follow-up-of-an-eradication-trial
#3
Robertino M Mera, Luis E Bravo, M Constanza Camargo, Juan C Bravo, Alberto G Delgado, Judith Romero-Gallo, Maria C Yepez, José L Realpe, Barbara G Schneider, Douglas R Morgan, Richard M Peek, Pelayo Correa, Keith T Wilson, M Blanca Piazuelo
OBJECTIVE: To evaluate the long-term effect of cumulative time exposed to Helicobacter pylori infection on the progression of gastric lesions. DESIGN: 795 adults with precancerous gastric lesions were randomised to receive anti-H. pylori treatment at baseline. Gastric biopsies were obtained at baseline and at 3, 6, 12 and 16 years. A total of 456 individuals attended the 16-year visit. Cumulative time of H. pylori exposure was calculated as the number of years infected during follow-up...
June 24, 2017: Gut
https://www.readbyqxmd.com/read/28647163/observer-based-distributed-adaptive-fault-tolerant-containment-control-of-multi-agent-systems-with-general-linear-dynamics
#4
Dan Ye, Mengmeng Chen, Kui Li
In this paper, we consider the distributed containment control problem of multi-agent systems with actuator bias faults based on observer method. The objective is to drive the followers into the convex hull spanned by the dynamic leaders, where the input is unknown but bounded. By constructing an observer to estimate the states and bias faults, an effective distributed adaptive fault-tolerant controller is developed. Different from the traditional method, an auxiliary controller gain is designed to deal with the unknown inputs and bias faults together...
June 22, 2017: ISA Transactions
https://www.readbyqxmd.com/read/28646162/associations-between-global-dna-methylation-and-telomere-length-in-healthy-adolescents
#5
Yutong Dong, Ying Huang, Bernard Gutin, Anas Raed, Yanbin Dong, Haidong Zhu
Emerging evidence suggests that epigenetics regulates telomere dynamics in adults. However, the relationship between these pathways in children and youth remains unknown. Thus, we examined this association in 542 healthy adolescents aged 14 to 18 years old (44.8% African Americans; 55.2% females). Global DNA methylation level (%5-mC) was quantified using ELISA method. Leukocyte telomere length (LTL) was defined as relative telomere to single copy gene (T/S) ratio. Multiple linear regression models, adjusted for age, gender, ethnicity, Tanner stage, BMI, PA, and batch effect, revealed that %5 mC was associated with LTL (adjusted β = 0...
June 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28645155/features-of-genomic-organization-in-a-nucleotide-resolution-molecular-model-of-the-escherichia-coli-chromosome
#6
William C Hacker, Shuxiang Li, Adrian H Elcock
We describe structural models of the Escherichia coli chromosome in which the positions of all 4.6 million nucleotides of each DNA strand are resolved. Models consistent with two basic chromosomal orientations, differing in their positioning of the origin of replication, have been constructed. In both types of model, the chromosome is partitioned into plectoneme-abundant and plectoneme-free regions, with plectoneme lengths and branching patterns matching experimental distributions, and with spatial distributions of highly-transcribed chromosomal regions matching recent experimental measurements of the distribution of RNA polymerases...
June 22, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28644841/low-dimensional-spike-rate-models-derived-from-networks-of-adaptive-integrate-and-fire-neurons-comparison-and-implementation
#7
Moritz Augustin, Josef Ladenbauer, Fabian Baumann, Klaus Obermayer
The spiking activity of single neurons can be well described by a nonlinear integrate-and-fire model that includes somatic adaptation. When exposed to fluctuating inputs sparsely coupled populations of these model neurons exhibit stochastic collective dynamics that can be effectively characterized using the Fokker-Planck equation. This approach, however, leads to a model with an infinite-dimensional state space and non-standard boundary conditions. Here we derive from that description four simple models for the spike rate dynamics in terms of low-dimensional ordinary differential equations using two different reduction techniques: one uses the spectral decomposition of the Fokker-Planck operator, the other is based on a cascade of two linear filters and a nonlinearity, which are determined from the Fokker-Planck equation and semi-analytically approximated...
June 23, 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28641745/long-term-stability-of-an-injection-molded-zirconia-bone-level-implant-a-testing-protocol-considering-aging-kinetics-and-dynamic-fatigue
#8
Benedikt C Spies, Madeleine E Maass, Erik Adolfsson, Valter Sergo, Tobias Kiemle, Christoph Berthold, Elisa Gurian, Stefano Fornasaro, Kirstin Vach, Ralf-Joachim Kohal
OBJECTIVE: Separately addressing the fatigue resistance (ISO 14801, evaluation of final product) and aging behavior (ISO 13356, standardized sample) of oral implants made from yttria-stabilized zirconia proved to be insufficient in verifying their long-term stability, since (1) implant processing is known to significantly influence transformation kinetics and (2) aging, up from a certain level, is liable to decrease fatigue resistance. Therefore, the aim of this investigation was to apply a new testing protocol considering environmental conditions adequately inducing aging during dynamic fatigue...
June 19, 2017: Dental Materials: Official Publication of the Academy of Dental Materials
https://www.readbyqxmd.com/read/28641435/validating-and-implementing-modified-filinov-phase-filtration-in-semiclassical-dynamics
#9
Matthew S Church, Sergey V Antipov, Nandini Ananth
The Mixed Quantum-Classical Initial Value Representation (MQC-IVR) is a recently introduced approximate semiclassical (SC) method for the calculation of real-time quantum correlation functions. MQC-IVR employs a modified Filinov filtration (MFF) scheme to control the overall phase of the SC integrand, extending the applicability of SC methods to complex systems while retaining their ability to accurately describe quantum coherence effects. Here, we address questions regarding the effectiveness of the MFF scheme in combination with SC dynamics...
June 21, 2017: Journal of Chemical Physics
https://www.readbyqxmd.com/read/28641418/measuring-the-carrier-dynamics-of-photocatalyst-micrograins-using-the-christiansen-effect
#10
Gangbei Zhu, Wei Lu, Jiangrui Zhu, Yunliang Li, Liwei Guo, Yuxiang Weng
The optical measurement of photocatalyst materials is subject to Mie scattering when the particle size is comparable to the wavelength of the probe light. A novel approach was developed to deal with this scattering problem in the transient spectroscopy of photocatalyst micrograins using the Christiansen effect because the probe light in the vicinity of the Christiansen frequency can be transmitted. Scattering theory was used to analyze the transient spectra of micrograins and estimate the extinction coefficient at the Christiansen frequency...
June 21, 2017: Journal of Chemical Physics
https://www.readbyqxmd.com/read/28641417/spectral-line-shapes-in-linear-absorption-and-two-dimensional-spectroscopy-with-skewed-frequency-distributions
#11
Marwa H Farag, Bernhard J Hoenders, Jasper Knoester, Thomas L C Jansen
The effect of Gaussian dynamics on the line shapes in linear absorption and two-dimensional correlation spectroscopy is well understood as the second-order cumulant expansion provides exact spectra. Gaussian solvent dynamics can be well analyzed using slope line analysis of two-dimensional correlation spectra as a function of the waiting time between pump and probe fields. Non-Gaussian effects are not as well understood, even though these effects are common in nature. The interpretation of the spectra, thus far, relies on complex case to case analysis...
June 21, 2017: Journal of Chemical Physics
https://www.readbyqxmd.com/read/28640810/lassim-a-network-inference-toolbox-for-genome-wide-mechanistic-modeling
#12
Rasmus Magnusson, Guido Pio Mariotti, Mattias Köpsén, William Lövfors, Danuta R Gawel, Rebecka Jörnsten, Jörg Linde, Torbjörn Nordling, Elin Nyman, Sylvie Schulze, Colm E Nestor, Huan Zhang, Gunnar Cedersund, Mikael Benson, Andreas Tjärnberg, Mika Gustafsson
Recent technological advancements have made time-resolved, quantitative, multi-omics data available for many model systems, which could be integrated for systems pharmacokinetic use. Here, we present large-scale simulation modeling (LASSIM), which is a novel mathematical tool for performing large-scale inference using mechanistically defined ordinary differential equations (ODE) for gene regulatory networks (GRNs). LASSIM integrates structural knowledge about regulatory interactions and non-linear equations with multiple steady state and dynamic response expression datasets...
June 22, 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28640803/brain-network-eigenmodes-provide-a-robust-and-compact-representation-of-the-structural-connectome-in-health-and-disease
#13
Maxwell B Wang, Julia P Owen, Pratik Mukherjee, Ashish Raj
Recent research has demonstrated the use of the structural connectome as a powerful tool to characterize the network architecture of the brain and potentially generate biomarkers for neurologic and psychiatric disorders. In particular, the anatomic embedding of the edges of the cerebral graph have been postulated to elucidate the relative importance of white matter tracts to the overall network connectivity, explaining the varying effects of localized white matter pathology on cognition and behavior. Here, we demonstrate the use of a linear diffusion model to quantify the impact of these perturbations on brain connectivity...
June 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28639440/the-relationship-between-jumping-performance-isokinetic-strength-and-dynamic-postural-control-in-elite-youth-soccer-players
#14
Robert Śliwowski, Monika Grygorowicz, Andrzej Wieczorek, Łukasz Jadczak
BACKGROUND: The aim of this study was (i) to investigate the relationship between vertical jumping performance, isokinetic strength of knee extensors/flexors, and postural priority and (ii) an attempt to describe a multiple regression model that accounts for the effects of selected parameters of isokinetic strength and postural priority on vertical jumping performance. METHODS: Thirty-one professional male soccer players, aged from 17 to 20 years, participated in this study (mean age: ± SD 18,6 ± 1...
June 21, 2017: Journal of Sports Medicine and Physical Fitness
https://www.readbyqxmd.com/read/28637443/trichoderma-virens-%C3%AE-glucosidase-i-bgli-gene-expression-in-saccharomyces-cerevisiae-including-docking-and-molecular-dynamics-studies
#15
Gammadde Hewa Ishan Maduka Wickramasinghe, Pilimathalawe Panditharathna Attanayake Mudiyanselage Samith Indika Rathnayake, Naduviladath Vishvanath Chandrasekharan, Mahindagoda Siril Samantha Weerasinghe, Ravindra Lakshman Chundananda Wijesundera, Wijepurage Sandhya Sulochana Wijesundera
BACKGROUND: Cellulose, a linear polymer of β 1-4, linked glucose, is the most abundant renewable fraction of plant biomass (lignocellulose). It is synergistically converted to glucose by endoglucanase (EG) cellobiohydrolase (CBH) and β-glucosidase (BGL) of the cellulase complex. BGL plays a major role in the conversion of randomly cleaved cellooligosaccharides into glucose. As it is well known, Saccharomyces cerevisiae can efficiently convert glucose into ethanol under anaerobic conditions...
June 21, 2017: BMC Microbiology
https://www.readbyqxmd.com/read/28636238/segmental-domain-selective-perdeuteration-and-small-angle-neutron-scattering-for-structural-analysis-of-multi-domain-proteins
#16
Miriam Sonntag, Pravin Jagtap, Bernd Simon, Marie-Sousai Appavou, Arie Geerlof, Ralf Stehle, Frank Gabel, Janosch Hennig, Michael Sattler
Multi-domain proteins play critical roles in fine-tuning essential processes in cellular signaling and gene regulation. Typically, multiple globular domains that are connected by flexible linkers undergo dynamic re-arrangements upon binding to protein, DNA or RNA ligands. RNA binding proteins (RBPs) represent an important class of multi-domain proteins, which regulate gene expression by recognizing linear or structured RNA sequence motifs. Here, we employ segmental perdeuteration of the three RNA recognition motif (RRM) domains in the RBP TIA-1 using Sortase A-mediated protein ligation...
June 21, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28634369/forecasting-effusive-dynamics-and-decompression-rates-by-magmastatic-model-at-open-vent-volcanoes
#17
Maurizio Ripepe, Marco Pistolesi, Diego Coppola, Dario Delle Donne, Riccardo Genco, Giorgio Lacanna, Marco Laiolo, Emanuele Marchetti, Giacomo Ulivieri, Sébastien Valade
Effusive eruptions at open-conduit volcanoes are interpreted as reactions to a disequilibrium induced by the increase in magma supply. By comparing four of the most recent effusive eruptions at Stromboli volcano (Italy), we show how the volumes of lava discharged during each eruption are linearly correlated to the topographic positions of the effusive vents. This correlation cannot be explained by an excess of pressure within a deep magma chamber and raises questions about the actual contributions of deep magma dynamics...
June 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28632407/prediction-of-the-structural-response-of-the-femoral-shaft-under-dynamic-loading-using-subject-specific-finite-element-models
#18
Gwansik Park, Taewung Kim, Jason Forman, Matthew B Panzer, Jeff R Crandall
The goal of this study was to predict the structural response of the femoral shaft under dynamic loading conditions using subject-specific finite element (SS-FE) models and to evaluate the prediction accuracy of the models in relation to the model complexity. In total, SS-FE models of 31 femur specimens were developed. Using those models, dynamic three-point bending and combined loading tests (bending with four different levels of axial compression) of bare femurs were simulated, and the prediction capabilities of five different levels of model complexity were evaluated based on the impact force time histories: baseline, mass-based scaled, structure-based scaled, geometric SS-FE, and heterogenized SS-FE models...
June 20, 2017: Computer Methods in Biomechanics and Biomedical Engineering
https://www.readbyqxmd.com/read/28632144/optimal-pitching-axis-location-of-flapping-wings-for-efficient-hovering-flight
#19
Qi Wang, J Goosen, Fred Van Keulen
Flapping wings can pitch passively about their pitching axes due to their flexibility, inertia, and aerodynamic loads. A shift in the pitching axis location can dynamically alter the aerodynamic loads, which in turn changes the passive pitching motion and the flight efficiency. Therefore, it is of great interest to investigate the optimal pitching axis for flapping wings to maximize the power efficiency during hovering flight. In this study, flapping wings are modeled as rigid plates with non-uniform mass distribution...
June 20, 2017: Bioinspiration & Biomimetics
https://www.readbyqxmd.com/read/28631411/function-of-bacterial-community-dynamics-in-the-formation-of-cadaveric-semiochemicals-during-in-situ-carcass-decomposition
#20
Javier Pascual, Christian von Hoermann, Ann-Marie Rottler-Hoermann, Omer Nevo, Alicia Geppert, Johannes Sikorski, Katharina J Huber, Sandra Steiger, Manfred Ayasse, Jörg Overmann
The decomposition of dead mammalian tissue involves a complex temporal succession of epinecrotic bacteria. Microbial activity may release different cadaveric volatile organic compounds which in turn attract other key players of carcass decomposition such as scavenger insects. To elucidate the dynamics and potential functions of epinecrotic bacteria on carcasses, we monitored bacterial communities developing on still-born piglets incubated in different forest ecosystems by combining high-throughput Illumina 16S rRNA sequencing with gas chromatography-mass spectrometry of volatiles...
June 19, 2017: Environmental Microbiology
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