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Sample records for permeation free-energy profile

  1. Bias-Exchange Metadynamics Simulation of Membrane Permeation of 20 Amino Acids.

    Science.gov (United States)

    Cao, Zanxia; Bian, Yunqiang; Hu, Guodong; Zhao, Liling; Kong, Zhenzhen; Yang, Yuedong; Wang, Jihua; Zhou, Yaoqi

    2018-03-16

    Thermodynamics of the permeation of amino acids from water to lipid bilayers is an important first step for understanding the mechanism of cell-permeating peptides and the thermodynamics of membrane protein structure and stability. In this work, we employed bias-exchange metadynamics simulations to simulate the membrane permeation of all 20 amino acids from water to the center of a dipalmitoylphosphatidylcholine (DPPC) membrane (consists of 256 lipids) by using both directional and torsion angles for conformational sampling. The overall accuracy for the free energy profiles obtained is supported by significant correlation coefficients (correlation coefficient at 0.5-0.6) between our results and previous experimental or computational studies. The free energy profiles indicated that (1) polar amino acids have larger free energy barriers than nonpolar amino acids; (2) negatively charged amino acids are the most difficult to enter into the membrane; and (3) conformational transitions for many amino acids during membrane crossing is the key for reduced free energy barriers. These results represent the first set of simulated free energy profiles of membrane crossing for all 20 amino acids.

  2. Bias-Exchange Metadynamics Simulation of Membrane Permeation of 20 Amino Acids

    Directory of Open Access Journals (Sweden)

    Zanxia Cao

    2018-03-01

    Full Text Available Thermodynamics of the permeation of amino acids from water to lipid bilayers is an important first step for understanding the mechanism of cell-permeating peptides and the thermodynamics of membrane protein structure and stability. In this work, we employed bias-exchange metadynamics simulations to simulate the membrane permeation of all 20 amino acids from water to the center of a dipalmitoylphosphatidylcholine (DPPC membrane (consists of 256 lipids by using both directional and torsion angles for conformational sampling. The overall accuracy for the free energy profiles obtained is supported by significant correlation coefficients (correlation coefficient at 0.5–0.6 between our results and previous experimental or computational studies. The free energy profiles indicated that (1 polar amino acids have larger free energy barriers than nonpolar amino acids; (2 negatively charged amino acids are the most difficult to enter into the membrane; and (3 conformational transitions for many amino acids during membrane crossing is the key for reduced free energy barriers. These results represent the first set of simulated free energy profiles of membrane crossing for all 20 amino acids.

  3. Free energy profiles from single-molecule pulling experiments.

    Science.gov (United States)

    Hummer, Gerhard; Szabo, Attila

    2010-12-14

    Nonequilibrium pulling experiments provide detailed information about the thermodynamic and kinetic properties of molecules. We show that unperturbed free energy profiles as a function of molecular extension can be obtained rigorously from such experiments without using work-weighted position histograms. An inverse Weierstrass transform is used to relate the system free energy obtained from the Jarzynski equality directly to the underlying molecular free energy surface. An accurate approximation for the free energy surface is obtained by using the method of steepest descent to evaluate the inverse transform. The formalism is applied to simulated data obtained from a kinetic model of RNA folding, in which the dynamics consists of jumping between linker-dominated folded and unfolded free energy surfaces.

  4. SAMPA: A free software tool for skin and membrane permeation data analysis.

    Science.gov (United States)

    Bezrouk, Aleš; Fiala, Zdeněk; Kotingová, Lenka; Krulichová, Iva Selke; Kopečná, Monika; Vávrová, Kateřina

    2017-10-01

    Skin and membrane permeation experiments comprise an important step in the development of a transdermal or topical formulation or toxicological risk assessment. The standard method for analyzing these data relies on the linear part of a permeation profile. However, it is difficult to objectively determine when the profile becomes linear, or the experiment duration may be insufficient to reach a maximum or steady state. Here, we present a software tool for Skin And Membrane Permeation data Analysis, SAMPA, that is easy to use and overcomes several of these difficulties. The SAMPA method and software have been validated on in vitro and in vivo permeation data on human, pig and rat skin and model stratum corneum lipid membranes using compounds that range from highly lipophilic polycyclic aromatic hydrocarbons to highly hydrophilic antiviral drug, with and without two permeation enhancers. The SAMPA performance was compared with the standard method using a linear part of the permeation profile and a complex mathematical model. SAMPA is a user-friendly, open-source software tool for analyzing the data obtained from skin and membrane permeation experiments. It runs on a Microsoft Windows platform and is freely available as a Supporting file to this article. Copyright © 2017 Elsevier Ltd. All rights reserved.

  5. Permeation through graphene ripples

    Science.gov (United States)

    Liang, Tao; He, Guangyu; Wu, Xu; Ren, Jindong; Guo, Hongxuan; Kong, Yuhan; Iwai, Hideo; Fujita, Daisuke; Gao, Hongjun; Guo, Haiming; Liu, Yingchun; Xu, Mingsheng

    2017-06-01

    Real graphene sheets show limited anti-permeation performance deviating from the ideally flat honeycomb carbon lattice that is impermeable to gases. Ripples in graphene are prevalent and they could significantly influence carrier transport. However, little attention has been paid to the role of ripples in the permeation properties of graphene. Here, we report that gases can permeate through graphene ripples at room temperature. The feasibility of gas permeation through graphene ripples is determined by detecting the initial oxidation sites of Cu surface covered with isolated graphene domain. Nudged elastic band (NEB) calculations demonstrate that the oxygen atom permeation occurs via the formation of C-O-C bond, in which process the energy barrier through the rippled graphene lattice is much smaller than that through a flat graphene lattice, rendering permeation through ripples more favorable. Combining with the recent advances in atoms intercalation between graphene and metal substrate for transfer-free and electrically insulated graphene, this discovery provides new perspectives regarding graphene’s limited anti-permeation performance and evokes for rational design of graphene-based encapsulation for barrier and selective gas separation applications through ripple engineering.

  6. Efficient Construction of Free Energy Profiles of Breathing Metal-Organic Frameworks Using Advanced Molecular Dynamics Simulations.

    Science.gov (United States)

    Demuynck, Ruben; Rogge, Sven M J; Vanduyfhuys, Louis; Wieme, Jelle; Waroquier, Michel; Van Speybroeck, Veronique

    2017-12-12

    In order to reliably predict and understand the breathing behavior of highly flexible metal-organic frameworks from thermodynamic considerations, an accurate estimation of the free energy difference between their different metastable states is a prerequisite. Herein, a variety of free energy estimation methods are thoroughly tested for their ability to construct the free energy profile as a function of the unit cell volume of MIL-53(Al). The methods comprise free energy perturbation, thermodynamic integration, umbrella sampling, metadynamics, and variationally enhanced sampling. A series of molecular dynamics simulations have been performed in the frame of each of the five methods to describe structural transformations in flexible materials with the volume as the collective variable, which offers a unique opportunity to assess their computational efficiency. Subsequently, the most efficient method, umbrella sampling, is used to construct an accurate free energy profile at different temperatures for MIL-53(Al) from first principles at the PBE+D3(BJ) level of theory. This study yields insight into the importance of the different aspects such as entropy contributions and anharmonic contributions on the resulting free energy profile. As such, this thorough study provides unparalleled insight in the thermodynamics of the large structural deformations of flexible materials.

  7. Efficient Construction of Free Energy Profiles of Breathing Metal–Organic Frameworks Using Advanced Molecular Dynamics Simulations

    Science.gov (United States)

    2017-01-01

    In order to reliably predict and understand the breathing behavior of highly flexible metal–organic frameworks from thermodynamic considerations, an accurate estimation of the free energy difference between their different metastable states is a prerequisite. Herein, a variety of free energy estimation methods are thoroughly tested for their ability to construct the free energy profile as a function of the unit cell volume of MIL-53(Al). The methods comprise free energy perturbation, thermodynamic integration, umbrella sampling, metadynamics, and variationally enhanced sampling. A series of molecular dynamics simulations have been performed in the frame of each of the five methods to describe structural transformations in flexible materials with the volume as the collective variable, which offers a unique opportunity to assess their computational efficiency. Subsequently, the most efficient method, umbrella sampling, is used to construct an accurate free energy profile at different temperatures for MIL-53(Al) from first principles at the PBE+D3(BJ) level of theory. This study yields insight into the importance of the different aspects such as entropy contributions and anharmonic contributions on the resulting free energy profile. As such, this thorough study provides unparalleled insight in the thermodynamics of the large structural deformations of flexible materials. PMID:29131647

  8. Free energy profiles of cocaine esterase-cocaine binding process by molecular dynamics and potential of mean force simulations.

    Science.gov (United States)

    Zhang, Yuxin; Huang, Xiaoqin; Han, Keli; Zheng, Fang; Zhan, Chang-Guo

    2016-11-25

    The combined molecular dynamics (MD) and potential of mean force (PMF) simulations have been performed to determine the free energy profile of the CocE)-(+)-cocaine binding process in comparison with that of the corresponding CocE-(-)-cocaine binding process. According to the MD simulations, the equilibrium CocE-(+)-cocaine binding mode is similar to the CocE-(-)-cocaine binding mode. However, based on the simulated free energy profiles, a significant free energy barrier (∼5 kcal/mol) exists in the CocE-(+)-cocaine binding process whereas no obvious free energy barrier exists in the CocE-(-)-cocaine binding process, although the free energy barrier of ∼5 kcal/mol is not high enough to really slow down the CocE-(+)-cocaine binding process. In addition, the obtained free energy profiles also demonstrate that (+)-cocaine and (-)-cocaine have very close binding free energies with CocE, with a negligible difference (∼0.2 kcal/mol), which is qualitatively consistent with the nearly same experimental K M values of the CocE enzyme for (+)-cocaine and (-)-cocaine. The consistency between the computational results and available experimental data suggests that the mechanistic insights obtained from this study are reasonable. Copyright © 2016 Elsevier Ireland Ltd. All rights reserved.

  9. Water Vapor Permeation of Metal Oxide/Polymer Coated Plastic Films

    Science.gov (United States)

    Numata, Yukihiro; Oya, Toshiyuki; Kuwahara, Mitsuru; Ito, Katsuya

    Barrier performance to water vapor permeation of ceramic coated layers deposited on flexible polymer films is of great interest to food packaging, medical device packaging and flat panel display industries. In this study, a new type film in which a ceramic layer is deposited on a polymer coated film was proposed for lower water vapor permeation. It is important how to control interfacial properties between each layer and film for good barrier performance. Several kinds of polymer coated materials were prepared for changing surface free energy of the films before and after depositing the ceramic layer. The ceramic layer, which is composed of mixed material of SiO2 and Al2O3, was adopted under the same conditions. The following results were obtained; 1) Water vapor permeation is not related to the surface energy of polymer coated films, 2) After depositing the ceramic layer, however, a strong correlation is observed between the water vapor permeation and surface free energy. 3) The phenomenon is considered that the polarity of the polymer layers plays a key role in changing the structure of ceramic coated layers.

  10. Influence of an imperfect energy profile on a seeded free electron laser performance

    Directory of Open Access Journals (Sweden)

    Botao Jia

    2010-06-01

    Full Text Available A single-pass high-gain x-ray free electron laser (FEL calls for a high quality electron bunch. In particular, for a seeded FEL amplifier and for a harmonic generation FEL, the electron bunch initial energy profile uniformity is crucial for generating an FEL with a narrow bandwidth. After the acceleration, compression, and transportation, the electron bunch energy profile entering the undulator can acquire temporal nonuniformity. We study the influence of the electron bunch initial energy profile nonuniformity on the FEL performance. Intrinsically, for a harmonic generation FEL, the harmonic generation FEL in the final radiator starts with an electron bunch having energy modulation acquired in the previous stages, due to the FEL interaction at those FEL wavelengths and their harmonics. The influence of this electron bunch energy nonuniformity on the harmonic generation FEL in the final radiator is then studied.

  11. Quantum mechanical free energy profiles with post-quantization restraints: Binding free energy of the water dimer over a broad range of temperatures.

    Science.gov (United States)

    Bishop, Kevin P; Roy, Pierre-Nicholas

    2018-03-14

    Free energy calculations are a crucial part of understanding chemical systems but are often computationally expensive for all but the simplest of systems. Various enhanced sampling techniques have been developed to improve the efficiency of these calculations in numerical simulations. However, the majority of these approaches have been applied using classical molecular dynamics. There are many situations where nuclear quantum effects impact the system of interest and a classical description fails to capture these details. In this work, path integral molecular dynamics has been used in conjunction with umbrella sampling, and it has been observed that correct results are only obtained when the umbrella sampling potential is applied to a single path integral bead post quantization. This method has been validated against a Lennard-Jones benchmark system before being applied to the more complicated water dimer system over a broad range of temperatures. Free energy profiles are obtained, and these are utilized in the calculation of the second virial coefficient as well as the change in free energy from the separated water monomers to the dimer. Comparisons to experimental and ground state calculation values from the literature are made for the second virial coefficient at higher temperature and the dissociation energy of the dimer in the ground state.

  12. The Magnetic Free Energy in Active Regions

    Science.gov (United States)

    Metcalf, Thomas R.; Mickey, Donald L.; LaBonte, Barry J.

    2001-01-01

    The magnetic field permeating the solar atmosphere governs much of the structure, morphology, brightness, and dynamics observed on the Sun. The magnetic field, especially in active regions, is thought to provide the power for energetic events in the solar corona, such as solar flares and Coronal Mass Ejections (CME) and is believed to energize the hot coronal plasma seen in extreme ultraviolet or X-rays. The question remains what specific aspect of the magnetic flux governs the observed variability. To directly understand the role of the magnetic field in energizing the solar corona, it is necessary to measure the free magnetic energy available in active regions. The grant now expiring has demonstrated a new and valuable technique for observing the magnetic free energy in active regions as a function of time.

  13. Acquisition of Preparative Gel Permeation Chromatography for Research and Education in Energy Conversion and Nanocomposites

    Science.gov (United States)

    2017-04-19

    AFRL-AFOSR-VA-TR-2017-0090 Acquisition of Preparative Gel Permeation Chromatography for Research and Education in Energy Conversion and...TITLE AND SUBTITLE Acquisition of Preparative Gel Permeation Chromatography for Research and Education in Energy Conversion and Nanocomposites 5a... research with education at all levels across a broad range of materials, and create important opportunities to expose and train undergraduates, women

  14. Microscopically derived free energy of dislocations

    NARCIS (Netherlands)

    Kooiman, M.; Hütter, M.; Geers, M.G.D.

    2015-01-01

    The dynamics of large amounts of dislocations is the governing mechanism in metal plasticity. The free energy of a continuous dislocation density profile plays a crucial role in the description of the dynamics of dislocations, as free energy derivatives act as the driving forces of dislocation

  15. Pervaporation membrane bioreactor with permeate fractional condensation and mechanical vapor compression for energy efficient ethanol production

    International Nuclear Information System (INIS)

    Fan, Senqing; Xiao, Zeyi; Li, Minghai; Li, Sizhong

    2016-01-01

    Graphical abstract: Pervaporation membrane bioreactor with permeate partial condensation and mechanical vapor compression is developed for an energy efficient ethanol production. - Highlights: • PVMBR-MVC for energy efficient ethanol production. • Process separation factor of 20–44 for ethanol achieved by fractional condensation. • Energy production of 20.25 MJ and hourly energy production of 56.25 kJ/h achieved. • Over 50% of energy saved in PVMBR-MVC compared with PVMBR-LTC. • Integrated heat pump with COP of 7–9 for the energy recovery of the permeate. - Abstract: Improved process separation factor and heat integration are two key issues to increase the energy efficiency of ethanol production in a pervaporation membrane bioreactor (PVMBR). A PVMBR with permeate fractional condensation and mechanical vapor compression was developed for energy efficient ethanol production. A condensation model based on the mass balance and thermodynamic equilibrium in the partial vacuum condenser was developed for predicting the purification performance of the permeate vapor. Three runs of ethanol fermentation-pervaporation experiment were carried out and ethanol concentration of higher than 50 wt% could be achieved in the final condensate, with the separation factor of the process for ethanol increased to 20. Ethanol production could be enhanced in the bioreactor and 17.1 MJ of the energy could be produced in per liter of fermentation broth, owing to 27.0 MJ/kg heating value of the recovered ethanol. Compared with the traditional pervaporation process with low temperature condensation for ethanol production, 50% of the energy would be saved in the process. The energy consumption would be further reduced, if the available energy of the permeate vapor was utilized by integrating the mechanical vapor compression heat pump.

  16. The influence of corneocyte structure on the interpretation of permeation profiles of nanoparticles across skin

    Energy Technology Data Exchange (ETDEWEB)

    Pinheiro, T. [LFI, Instituto Tecnologico Nuclear, and Centro de Fisica Nuclear, Universidade Lisboa E.N. 10, 2685-953 Sacavem (Portugal)]. E-mail: murmur@itn.pt; Pallon, J. [Lund Institute of Technology, Physics Department, Lund University, Lund (Sweden)]. E-mail: Jan.Pallon@pixe.lth.se; Alves, L.C. [LFI, Instituto Tecnologico Nuclear, and Centro de Fisica Nuclear, Universidade Lisboa E.N. 10, 2685-953 Sacavem (Portugal)]. E-mail: lcalves@itn.pt; Verissimo, A. [LFI, Instituto Tecnologico Nuclear, and Centro de Fisica Nuclear, Universidade Lisboa E.N. 10, 2685-953 Sacavem (Portugal)]. E-mail: averissimo@vims.edu; Filipe, P. [Departamento Dermatologia, Hospital Sta. Maria, Lisbon (Portugal)]. E-mail: pfilipe@fm.ul.pt; Silva, J.N. [Departamento Dermatologia, Hospital Sta. Maria, Lisbon (Portugal)]. E-mail: maiasilva@fm.ul.pt; Silva, R. [Departamento Dermatologia, Hospital Sta. Maria, Lisbon (Portugal)]. E-mail: rpalminhas@netcabo.pt

    2007-07-15

    The permeability of skin to nanoparticles of titanium dioxide (TiO{sub 2}) used in sunscreens as a reflector of the UV wavelengths of sunlight, was examined using nuclear microscopy techniques. Special attention was given to the permeation characteristics of these nanoparticles across the outer layers of skin, the stratum corneum, in healthy and psoriatic skin condition. Aspects that may influence the interpretation of results such as sample preparation difficulties and skin condition were focused. Sample preparation can damage the integrity of the corneocyte layers inducing unwanted artefacts that may bias the evaluation of results. Irradiation conditions may also introduce distortions in the labile structures of human skin. Skin condition, such as loss of corneocyte cohesion occurring in psoriasis also influence the permeation profile of the nanoparticles. Weighing and accounting for these features in the examination of skin by nuclear microscopy is crucial to accurately assess the TiO{sub 2} nanoparticles permeation depth.

  17. Emotional valence and the free-energy principle.

    Science.gov (United States)

    Joffily, Mateus; Coricelli, Giorgio

    2013-01-01

    The free-energy principle has recently been proposed as a unified Bayesian account of perception, learning and action. Despite the inextricable link between emotion and cognition, emotion has not yet been formulated under this framework. A core concept that permeates many perspectives on emotion is valence, which broadly refers to the positive and negative character of emotion or some of its aspects. In the present paper, we propose a definition of emotional valence in terms of the negative rate of change of free-energy over time. If the second time-derivative of free-energy is taken into account, the dynamics of basic forms of emotion such as happiness, unhappiness, hope, fear, disappointment and relief can be explained. In this formulation, an important function of emotional valence turns out to regulate the learning rate of the causes of sensory inputs. When sensations increasingly violate the agent's expectations, valence is negative and increases the learning rate. Conversely, when sensations increasingly fulfil the agent's expectations, valence is positive and decreases the learning rate. This dynamic interaction between emotional valence and learning rate highlights the crucial role played by emotions in biological agents' adaptation to unexpected changes in their world.

  18. Emotional valence and the free-energy principle.

    Directory of Open Access Journals (Sweden)

    Mateus Joffily

    Full Text Available The free-energy principle has recently been proposed as a unified Bayesian account of perception, learning and action. Despite the inextricable link between emotion and cognition, emotion has not yet been formulated under this framework. A core concept that permeates many perspectives on emotion is valence, which broadly refers to the positive and negative character of emotion or some of its aspects. In the present paper, we propose a definition of emotional valence in terms of the negative rate of change of free-energy over time. If the second time-derivative of free-energy is taken into account, the dynamics of basic forms of emotion such as happiness, unhappiness, hope, fear, disappointment and relief can be explained. In this formulation, an important function of emotional valence turns out to regulate the learning rate of the causes of sensory inputs. When sensations increasingly violate the agent's expectations, valence is negative and increases the learning rate. Conversely, when sensations increasingly fulfil the agent's expectations, valence is positive and decreases the learning rate. This dynamic interaction between emotional valence and learning rate highlights the crucial role played by emotions in biological agents' adaptation to unexpected changes in their world.

  19. On Diffusion and Permeation

    KAUST Repository

    Peppin, Stephen S. L.

    2009-01-01

    Diffusion and permeation are discussed within the context of irreversible thermodynamics. A new expression for the generalized Stokes-Einstein equation is obtained which links the permeability to the diffusivity of a two-component solution and contains the poroelastic Biot-Willis coefficient. The theory is illustrated by predicting the concentration and pressure profiles during the filtration of a protein solution. At low concentrations the proteins diffuse independently while at higher concentrations they form a nearly rigid porous glass through which the fluid permeates. The theoretically determined pressure drop is nonlinear in the diffusion regime and linear in the permeation regime, in quantitative agreement with experimental measurements. © 2009 Walter de Gruyter, Berlin, New York.

  20. Competing quantum effects in the free energy profiles and diffusion rates of hydrogen and deuterium molecules through clathrate hydrates.

    Science.gov (United States)

    Cendagorta, Joseph R; Powers, Anna; Hele, Timothy J H; Marsalek, Ondrej; Bačić, Zlatko; Tuckerman, Mark E

    2016-11-30

    Clathrate hydrates hold considerable promise as safe and economical materials for hydrogen storage. Here we present a quantum mechanical study of H 2 and D 2 diffusion through a hexagonal face shared by two large cages of clathrate hydrates over a wide range of temperatures. Path integral molecular dynamics simulations are used to compute the free-energy profiles for the diffusion of H 2 and D 2 as a function of temperature. Ring polymer molecular dynamics rate theory, incorporating both exact quantum statistics and approximate quantum dynamical effects, is utilized in the calculations of the H 2 and D 2 diffusion rates in a broad temperature interval. We find that the shape of the quantum free-energy profiles and their height relative to the classical free energy barriers at a given temperature, as well as the rate of diffusion, are strongly affected by competing quantum effects: above 25 K, zero-point energy (ZPE) perpendicular to the reaction path for diffusion between cavities decreases the quantum rate compared to the classical rate, whereas at lower temperatures tunneling outcompetes the ZPE and as a result the quantum rate is greater than the classical rate.

  1. Atomistic detailed mechanism and weak cation-conducting activity of HIV-1 Vpu revealed by free energy calculations.

    Directory of Open Access Journals (Sweden)

    Siladitya Padhi

    Full Text Available The viral protein U (Vpu encoded by HIV-1 has been shown to assist in the detachment of virion particles from infected cells. Vpu forms cation-specific ion channels in host cells, and has been proposed as a potential drug target. An understanding of the mechanism of ion transport through Vpu is desirable, but remains limited because of the unavailability of an experimental structure of the channel. Using a structure of the pentameric form of Vpu--modeled and validated based on available experimental data--umbrella sampling molecular dynamics simulations (cumulative simulation time of more than 0.4 µs were employed to elucidate the energetics and the molecular mechanism of ion transport in Vpu. Free energy profiles corresponding to the permeation of Na+ and K+ were found to be similar to each other indicating lack of ion selection, consistent with previous experimental studies. The Ser23 residue is shown to enhance ion transport via two mechanisms: creating a weak binding site, and increasing the effective hydrophilic length of the channel, both of which have previously been hypothesized in experiments. A two-dimensional free energy landscape has been computed to model multiple ion permeation, based on which a mechanism for ion conduction is proposed. It is shown that only one ion can pass through the channel at a time. This, along with a stretch of hydrophobic residues in the transmembrane domain of Vpu, explains the slow kinetics of ion conduction. The results are consistent with previous conductance studies that showed Vpu to be a weakly conducting ion channel.

  2. Free surface profiles in river flows: Can standard energy-based gradually-varied flow computations be pursued?

    Science.gov (United States)

    Cantero, Francisco; Castro-Orgaz, Oscar; Garcia-Marín, Amanda; Ayuso, José Luis; Dey, Subhasish

    2015-10-01

    Is the energy equation for gradually-varied flow the best approximation for the free surface profile computations in river flows? Determination of flood inundation in rivers and natural waterways is based on the hydraulic computation of flow profiles. This is usually done using energy-based gradually-varied flow models, like HEC-RAS, that adopts a vertical division method for discharge prediction in compound channel sections. However, this discharge prediction method is not so accurate in the context of advancements over the last three decades. This paper firstly presents a study of the impact of discharge prediction on the gradually-varied flow computations by comparing thirteen different methods for compound channels, where both energy and momentum equations are applied. The discharge, velocity distribution coefficients, specific energy, momentum and flow profiles are determined. After the study of gradually-varied flow predictions, a new theory is developed to produce higher-order energy and momentum equations for rapidly-varied flow in compound channels. These generalized equations enable to describe the flow profiles with more generality than the gradually-varied flow computations. As an outcome, results of gradually-varied flow provide realistic conclusions for computations of flow in compound channels, showing that momentum-based models are in general more accurate; whereas the new theory developed for rapidly-varied flow opens a new research direction, so far not investigated in flows through compound channels.

  3. An ab initio approach to free-energy reconstruction using logarithmic mean force dynamics

    International Nuclear Information System (INIS)

    Nakamura, Makoto; Obata, Masao; Morishita, Tetsuya; Oda, Tatsuki

    2014-01-01

    We present an ab initio approach for evaluating a free energy profile along a reaction coordinate by combining logarithmic mean force dynamics (LogMFD) and first-principles molecular dynamics. The mean force, which is the derivative of the free energy with respect to the reaction coordinate, is estimated using density functional theory (DFT) in the present approach, which is expected to provide an accurate free energy profile along the reaction coordinate. We apply this new method, first-principles LogMFD (FP-LogMFD), to a glycine dipeptide molecule and reconstruct one- and two-dimensional free energy profiles in the framework of DFT. The resultant free energy profile is compared with that obtained by the thermodynamic integration method and by the previous LogMFD calculation using an empirical force-field, showing that FP-LogMFD is a promising method to calculate free energy without empirical force-fields

  4. Energy buildup in sheared force-free magnetic fields

    Science.gov (United States)

    Wolfson, Richard; Low, Boon C.

    1992-01-01

    Photospheric displacement of the footpoints of solar magnetic field lines results in shearing and twisting of the field, and consequently in the buildup of electric currents and magnetic free energy in the corona. The sudden release of this free energy may be the origin of eruptive events like coronal mass ejections, prominence eruptions, and flares. An important question is whether such an energy release may be accompanied by the opening of magnetic field lines that were previously closed, for such open field lines can provide a route for matter frozen into the field to escape the sun altogether. This paper presents the results of numerical calculations showing that opening of the magnetic field is permitted energetically, in that it is possible to build up more free energy in a sheared, closed, force-free magnetic field than is in a related magnetic configuration having both closed and open field lines. Whether or not the closed force-free field attains enough energy to become partially open depends on the form of the shear profile; the results presented compare the energy buildup for different shear profiles. Implications for solar activity are discussed briefly.

  5. Rapid Convergence of Energy and Free Energy Profiles with Quantum Mechanical Size in Quantum Mechanical-Molecular Mechanical Simulations of Proton Transfer in DNA.

    Science.gov (United States)

    Das, Susanta; Nam, Kwangho; Major, Dan Thomas

    2018-03-13

    In recent years, a number of quantum mechanical-molecular mechanical (QM/MM) enzyme studies have investigated the dependence of reaction energetics on the size of the QM region using energy and free energy calculations. In this study, we revisit the question of QM region size dependence in QM/MM simulations within the context of energy and free energy calculations using a proton transfer in a DNA base pair as a test case. In the simulations, the QM region was treated with a dispersion-corrected AM1/d-PhoT Hamiltonian, which was developed to accurately describe phosphoryl and proton transfer reactions, in conjunction with an electrostatic embedding scheme using the particle-mesh Ewald summation method. With this rigorous QM/MM potential, we performed rather extensive QM/MM sampling, and found that the free energy reaction profiles converge rapidly with respect to the QM region size within ca. ±1 kcal/mol. This finding suggests that the strategy of QM/MM simulations with reasonably sized and selected QM regions, which has been employed for over four decades, is a valid approach for modeling complex biomolecular systems. We point to possible causes for the sensitivity of the energy and free energy calculations to the size of the QM region, and potential implications.

  6. Measurement of Skin Permeation/Penetration of Nanoparticles for Their Safety Evaluation

    OpenAIRE

    木村, 恵理子; 河野, 雄一郎; 藤堂, 浩明; 五十嵐, 良明; 杉林, 堅次

    2012-01-01

    The aim of the present study was to quantitatively evaluate the skin permeation/penetration of nanomaterials and to consider their penetration pathway through skin. Firstly, penetration/permeation of a model fluorescent nanoparticle, Fluoresbrite?, was determined through intact rat skin and several damaged skins. Fluoresbrite? permeated through only needle-punctured skin. The permeation profiles of soluble high molecular compounds, fluorescein isothiocyanate-dextrans (FITC-dextrans, FDs), wit...

  7. The free energy profile of tubulin straight-bent conformational changes, with implications for microtubule assembly and drug discovery.

    Directory of Open Access Journals (Sweden)

    Lili X Peng

    2014-02-01

    Full Text Available αβ-tubulin dimers need to convert between a 'bent' conformation observed for free dimers in solution and a 'straight' conformation required for incorporation into the microtubule lattice. Here, we investigate the free energy landscape of αβ-tubulin using molecular dynamics simulations, emphasizing implications for models of assembly, and modulation of the conformational landscape by colchicine, a tubulin-binding drug that inhibits microtubule polymerization. Specifically, we performed molecular dynamics, potential-of-mean force simulations to obtain the free energy profile for unpolymerized GDP-bound tubulin as a function of the ∼12° intradimer rotation differentiating the straight and bent conformers. Our results predict that the unassembled GDP-tubulin heterodimer exists in a continuum of conformations ranging between straight and bent, but, in agreement with existing structural data, suggests that an intermediate bent state has a lower free energy (by ∼1 kcal/mol and thus dominates in solution. In agreement with predictions of the lattice model of microtubule assembly, lateral binding of two αβ-tubulins strongly shifts the conformational equilibrium towards the straight state, which is then ∼1 kcal/mol lower in free energy than the bent state. Finally, calculations of colchicine binding to a single αβ-tubulin dimer strongly shifts the equilibrium toward the bent states, and disfavors the straight state to the extent that it is no longer thermodynamically populated.

  8. Implantation driven permeation behavior of deuterium through pure tungsten

    Energy Technology Data Exchange (ETDEWEB)

    Nakamura, Hirofumi E-mail: nakamura@tpl.tokai.jaeri.go.jp; Hayashi, Takumi; Nishi, Masataka; Arita, Makoto; Okuno, Kenji

    2001-09-01

    Implantation driven permeation behavior of deuterium through pure tungsten has been investigated to estimate the amount of tritium permeation through its barrier in a thermo-nuclear fusion device. The permeation experiments were performed on pure tungsten foil of 25 {mu}m thickness under conditions of incident flux of 1.9x10{sup 18}-1.1x10{sup 19} D{sup +}/m{sup 2}s, incident ion energy of 200-2000 eV, and specimen temperature of 512-660 K. As a result of this steady-state permeation experiment, the rate-determining process of deuterium permeation was found to be controlled by diffusion at both implanted and permeated sides. On the other hand, transient permeation was strongly affected by trap effect in the specimen. Simulation analysis using TMAP code on transient permeation behavior indicates the existence of a trap site with a trap energy of nearly 1eV and with a trap density of over several ten's ppm in tungsten.

  9. Implantation driven permeation behavior of deuterium through pure tungsten

    International Nuclear Information System (INIS)

    Nakamura, Hirofumi; Hayashi, Takumi; Nishi, Masataka; Arita, Makoto; Okuno, Kenji

    2001-01-01

    Implantation driven permeation behavior of deuterium through pure tungsten has been investigated to estimate the amount of tritium permeation through its barrier in a thermo-nuclear fusion device. The permeation experiments were performed on pure tungsten foil of 25 μm thickness under conditions of incident flux of 1.9x10 18 -1.1x10 19 D + /m 2 s, incident ion energy of 200-2000 eV, and specimen temperature of 512-660 K. As a result of this steady-state permeation experiment, the rate-determining process of deuterium permeation was found to be controlled by diffusion at both implanted and permeated sides. On the other hand, transient permeation was strongly affected by trap effect in the specimen. Simulation analysis using TMAP code on transient permeation behavior indicates the existence of a trap site with a trap energy of nearly 1eV and with a trap density of over several ten's ppm in tungsten

  10. Molecular dynamics simulations and free energy profile of ...

    Indian Academy of Sciences (India)

    aDepartment of Chemical Engineering, bDepartment of Chemistry, Amirkabir University of Technology,. 15875-4413 ... Lipid bilayers; Paracetamol; free energy; molecular dynamics simulation; membrane. 1. ..... bilayer is less favourable due to the hydrophobic nature .... Orsi M and Essex J W 2010 Soft Matter 6 3797. 54.

  11. Atomic scale simulation of H2O2 permeation through aquaporin: toward the understanding of plasma cancer treatment

    Science.gov (United States)

    Yusupov, Maksudbek; Yan, Dayun; Cordeiro, Rodrigo M.; Bogaerts, Annemie

    2018-03-01

    Experiments have demonstrated the potential selective anticancer capacity of cold atmospheric plasmas (CAPs), but the underlying mechanisms remain unclear. Using computer simulations, we try to shed light on the mechanism of selectivity, based on aquaporins (AQPs), i.e. transmembrane protein channels transferring external H2O2 and other reactive oxygen species, created e.g. by CAPs, to the cell interior. Specifically, we perform molecular dynamics simulations for the permeation of H2O2 through AQP1 (one of the members of the AQP family) and the palmitoyl-oleoyl-phosphatidylcholine (POPC) phospholipid bilayer (PLB). The free energy barrier of H2O2 across AQP1 is lower than for the POPC PLB, while the permeability coefficient, calculated using the free energy and diffusion rate profiles, is two orders of magnitude higher. This indicates that the delivery of H2O2 into the cell interior should be through AQP. Our study gives a better insight into the role of AQPs in the selectivity of CAPs for treating cancer cells.

  12. Experimental Validation of Hybrid Distillation-Vapor Permeation Process for Energy Efficient Ethanol-Water Separation

    Science.gov (United States)

    The energy demand of distillation-based systems for ethanol recovery and dehydration can be significant, particularly for dilute solutions. An alternative separation process integrating vapor stripping with a vapor compression step and a vapor permeation membrane separation step,...

  13. Batch pervaporative fermentation with coupled membrane and its influence on energy consumption in permeate recovery and distillation stage

    International Nuclear Information System (INIS)

    Leon, Juan A.; Palacios-Bereche, Reynaldo; Nebra, Silvia A.

    2016-01-01

    In the ethanol production process from sugarcane molasses, the distillation process is a high-energy demand stage. The distillation energy efficiency is strongly associated with the alcoholic fermentation performance in the process. The final ethanol concentration in the alcoholic wines has a direct impact on consumption of thermal energy in ethanol separation. In this paper, ethanol production with a H-SBMF (Hybrid-Simple Batch Membrane Fermenter) using PDMS (polydimethylsiloxane) pervaporation membrane was modelled and simulated, in order to determine its influence on energy consumption in distillation. Steam in distillation and electrical energy needs in permeate recovery were mainly influenced by membrane adaptation. The H-SBMF achieved a higher ethanol production in the range of 10–13% compared to the conventional batch fermenter, and an increase in productivity of 150%. The distillation system consisted of two sets of columns: the ethanol recovery column and the rectification column. The permeate recovery system (i.e. vacuum and compression) was regarded in order to evaluate the electrical energy requirement, and the thermal energy demand was evaluated. A decrease in steam consumption was evidenced by the adaptation of the membrane to the fermenter. Higher energy efficiencies were achieved in distillation with larger membrane areas, achieving almost 17% steam reduction. - Highlights: • Higher and faster ethanol productions were achieved by fermenter hybridization. • Multi-stage permeate compression and inter-stage heat recovery were assumed. • Energy demand was studied based on an integrated fermentation and distillation scheme. • High-energy efficiency was attained in the distillation to produce hydrated alcohol.

  14. Simulation of water transport through a lipid membrane

    Energy Technology Data Exchange (ETDEWEB)

    Marrink, S.J.; Berendsen, H.J.C. (Univ. of Groningen (Netherlands))

    1994-04-14

    To obtain insight in the process of water permeation through a lipid membrane we performed molecular dynamics simulations on a phospholipid (DPPC)/water system with atomic detail. Since the actual process of permeation is too slow to be studied directly, we deduced the permeation rate indirectly via computation of the free energy and diffusion rate profiles of a water molecule across the bilayer. We concluded that the permeation of water through a lipid membrane cannot be described adequately by a simple homogeneous solubility-diffusion model. Both the excess free energy and the diffusion rate strongly depend on the position in the membrane, as a result from the inhomogeneous nature of the membrane. The calculated excess free energy profile has a shallow slope and a maximum height of 26 kJ/mol. The diffusion rate is highest in the middle of the membrane where the lipid density is low. In the interfacial region almost all water molecules are bound by the lipid headgroups, and the diffusion turns out to be 1 order of magnitude smaller. The total transport process is essentially determined by the free energy barrier. 78 refs., 12 figs.

  15. Measurement of skin permeation/penetration of nanoparticles for their safety evaluation.

    Science.gov (United States)

    Kimura, Eriko; Kawano, Yuichiro; Todo, Hiroaki; Ikarashi, Yoshiaki; Sugibayashi, Kenji

    2012-01-01

    The aim of the present study was to quantitatively evaluate the skin permeation/penetration of nanomaterials and to consider their penetration pathway through skin. Firstly, penetration/permeation of a model fluorescent nanoparticle, Fluoresbrite®, was determined through intact rat skin and several damaged skins. Fluoresbrite® permeated through only needle-punctured skin. The permeation profiles of soluble high molecular compounds, fluorescein isothiocyanate-dextrans (FITC-dextrans, FDs), with different molecular weights were also measured for comparison. The effects of molecular sizes and different skin pretreatments on the skin barrier were determined on the skin penetration/permeation of Fluoresbrite® and FDs. Fluoresbrite® was not permeated the intact skin, but FDs were permeated the skin. The skin distribution of titanium dioxide and zinc oxide nanoparticles was also observed after topical application of commercial cosmetics. Nanoparticles in sunscreen cosmetics were easily distributed into the groove and hair follicles after their topical application, but seldom migrated from the groove or follicles to viable epidermis and dermis. The obtained results suggested that nanoparticles did not permeate intact skin, but permeated pore-created skin. No or little permeation was observed for these nanomaterials through the stratum corneum.

  16. Predicting solute partitioning in lipid bilayers: Free energies and partition coefficients from molecular dynamics simulations and COSMOmic

    Science.gov (United States)

    Jakobtorweihen, S.; Zuniga, A. Chaides; Ingram, T.; Gerlach, T.; Keil, F. J.; Smirnova, I.

    2014-07-01

    Quantitative predictions of biomembrane/water partition coefficients are important, as they are a key property in pharmaceutical applications and toxicological studies. Molecular dynamics (MD) simulations are used to calculate free energy profiles for different solutes in lipid bilayers. How to calculate partition coefficients from these profiles is discussed in detail and different definitions of partition coefficients are compared. Importantly, it is shown that the calculated coefficients are in quantitative agreement with experimental results. Furthermore, we compare free energy profiles from MD simulations to profiles obtained by the recent method COSMOmic, which is an extension of the conductor-like screening model for realistic solvation to micelles and biomembranes. The free energy profiles from these molecular methods are in good agreement. Additionally, solute orientations calculated with MD and COSMOmic are compared and again a good agreement is found. Four different solutes are investigated in detail: 4-ethylphenol, propanol, 5-phenylvaleric acid, and dibenz[a,h]anthracene, whereby the latter belongs to the class of polycyclic aromatic hydrocarbons. The convergence of the free energy profiles from biased MD simulations is discussed and the results are shown to be comparable to equilibrium MD simulations. For 5-phenylvaleric acid the influence of the carboxyl group dihedral angle on free energy profiles is analyzed with MD simulations.

  17. Predicting solute partitioning in lipid bilayers: Free energies and partition coefficients from molecular dynamics simulations and COSMOmic

    International Nuclear Information System (INIS)

    Jakobtorweihen, S.; Ingram, T.; Gerlach, T.; Smirnova, I.; Zuniga, A. Chaides; Keil, F. J.

    2014-01-01

    Quantitative predictions of biomembrane/water partition coefficients are important, as they are a key property in pharmaceutical applications and toxicological studies. Molecular dynamics (MD) simulations are used to calculate free energy profiles for different solutes in lipid bilayers. How to calculate partition coefficients from these profiles is discussed in detail and different definitions of partition coefficients are compared. Importantly, it is shown that the calculated coefficients are in quantitative agreement with experimental results. Furthermore, we compare free energy profiles from MD simulations to profiles obtained by the recent method COSMOmic, which is an extension of the conductor-like screening model for realistic solvation to micelles and biomembranes. The free energy profiles from these molecular methods are in good agreement. Additionally, solute orientations calculated with MD and COSMOmic are compared and again a good agreement is found. Four different solutes are investigated in detail: 4-ethylphenol, propanol, 5-phenylvaleric acid, and dibenz[a,h]anthracene, whereby the latter belongs to the class of polycyclic aromatic hydrocarbons. The convergence of the free energy profiles from biased MD simulations is discussed and the results are shown to be comparable to equilibrium MD simulations. For 5-phenylvaleric acid the influence of the carboxyl group dihedral angle on free energy profiles is analyzed with MD simulations

  18. Effect of Intercalated Water on Potassium Ion Transport through Kv1.2 Channels Studied via On-the-Fly Free-Energy Parametrization.

    Science.gov (United States)

    Paz, S Alexis; Maragliano, Luca; Abrams, Cameron F

    2018-05-08

    We introduce a two-dimensional version of the method called on-the-fly free energy parametrization (OTFP) to reconstruct free-energy surfaces using Molecular Dynamics simulations, which we name OTFP-2D. We first test the new method by reconstructing the well-known dihedral angles free energy surface of solvated alanine dipeptide. Then, we use it to investigate the process of K + ions translocation inside the Kv1.2 channel. By comparing a series of two-dimensional free energy surfaces for ion movement calculated with different conditions on the intercalated water molecules, we first recapitulate the widely accepted knock-on mechanism for ion translocation and then confirm that permeation occurs with water molecules alternated among the ions, in accordance with the latest experimental findings. From a methodological standpoint, our new OTFP-2D algorithm demonstrates the excellent sampling acceleration of temperature-accelerated molecular dynamics and the ability to efficiently compute 2D free-energy surfaces. It will therefore be useful in large variety complex biomacromolecular simulations.

  19. Modus operandi for maximizing energy efficiency and increasing permeate flux of community scale solar powered reverse osmosis systems

    International Nuclear Information System (INIS)

    Vyas, Harsh; Suthar, Krunal; Chauhan, Mehul; Jani, Ruchita; Bapat, Pratap; Patel, Pankaj; Markam, Bhupendra; Maiti, Subarna

    2015-01-01

    Highlights: • Experimental data on energy efficient photovoltaic powered reverse osmosis system. • Synergetic management of electrical, thermal and hydraulic energies. • Use of reflectors, heat exchanger and turgo turbine. - Abstract: Photovoltaic powered reverse osmosis systems can only be made cost effective if they are made highly energy efficient. In this work we describe a protocol to maximize energy efficiency and increase permeate flux in a fully integrated installation of such a system. The improved system consisted of (i) photovoltaic array fitted with suitably positioned and aligned North–South V-trough reflectors to enhance power output from the array; (ii) direct contact heat exchanger fitted on the rear of the photovoltaic modules for active cooling of the same while safeguarding the terminals from short-circuit and corrosion; (iii) use of reverse osmosis feed water as heat exchange medium while taking due care to limit the temperature rise of feed water; (iv) enhancing permeate flux through the rise in feed water temperature; (v) turgo-turbine for conversion of hydraulic energy in reverse osmosis reject water into mechanical energy to provide part of the energy to replace booster pump utilized in the reverse osmosis unit. The V-trough reflectors onto the photovoltaic modules with thermal energy recovery system brought about an increase in power output of 40% and the synergistic effect of (i)–(iv) gave rise to total permeate volume boost of 59%. Integration of (v) resulted in 56% and 26% saving of electrical power when the reverse osmosis plant was operated by battery bank and direct photovoltaic array respectively

  20. Free energy evaluation in polymer translocation via Jarzynski equality

    Energy Technology Data Exchange (ETDEWEB)

    Mondaini, Felipe, E-mail: fmondaini@if.ufrj.br [Centro Federal de Educação Tecnológica Celso Suckow da Fonseca, Petrópolis, 25.620-003, RJ (Brazil); Moriconi, L., E-mail: moriconi@if.ufrj.br [Instituto de Física, Universidade Federal do Rio de Janeiro, C.P. 68528, 21945-970, Rio de Janeiro, RJ (Brazil)

    2014-05-01

    We perform, with the help of cloud computing resources, extensive Langevin simulations, which provide free energy estimates for unbiased three-dimensional polymer translocation. We employ the Jarzynski equality in its rigorous setting, to compute the variation of the free energy in single monomer translocation events. In our three-dimensional Langevin simulations, the excluded-volume and van der Waals interactions between beads (monomers and membrane atoms) are modeled through a repulsive Lennard-Jones (LJ) potential and consecutive monomers are subject to the Finite-Extension Nonlinear Elastic (FENE) potential. Analysing data for polymers with different lengths, the free energy profile is noted to have interesting finite-size scaling properties.

  1. Free energy evaluation in polymer translocation via Jarzynski equality

    International Nuclear Information System (INIS)

    Mondaini, Felipe; Moriconi, L.

    2014-01-01

    We perform, with the help of cloud computing resources, extensive Langevin simulations, which provide free energy estimates for unbiased three-dimensional polymer translocation. We employ the Jarzynski equality in its rigorous setting, to compute the variation of the free energy in single monomer translocation events. In our three-dimensional Langevin simulations, the excluded-volume and van der Waals interactions between beads (monomers and membrane atoms) are modeled through a repulsive Lennard-Jones (LJ) potential and consecutive monomers are subject to the Finite-Extension Nonlinear Elastic (FENE) potential. Analysing data for polymers with different lengths, the free energy profile is noted to have interesting finite-size scaling properties.

  2. Optical measurement of the free carrier profile in ion implanted silicon

    International Nuclear Information System (INIS)

    Geffroy, Y.; Bennaceur, R.; Sebenne, C.; Balkanski, M.

    1974-01-01

    The infrared reflective power spectrum measured for Si inhomogeneously doped samples, near plasma resonance can be reproduced by a computer program from a given profile of free carrier concentration. A comparison between theoretical and experimental plots allows the appropriate selection of a series of parameters defining the depth distribution of free carriers. The method appears well suited for investigating the upper part of the concentration profiles of strongly doped films (implantation doses above 10 14 cm -2 for 100keV energies). The sensitivity obtained grows with the dose up to 15-20% in the 10 16 cm -2 range [fr

  3. Grain-boundary free energy in an assembly of elastic disks.

    Science.gov (United States)

    Lusk, Mark T; Beale, Paul D

    2004-02-01

    Grain-boundary free energy is estimated as a function of misoriention for symmetric tilt boundaries in an assembly of nearly hard disks. Fluctuating cell theory is used to accomplish this since the most common techniques for calculating interfacial free energy cannot be applied to such assemblies. The results are analogous to those obtained using a Leonard-Jones potential, but in this case the interfacial energy is dominated by an entropic contribution. Disk assemblies colorized with free and specific volume elucidate differences between these two characteristics of boundary structure. Profiles are also provided of the Helmholtz and Gibbs free energies as a function of distance from the grain boundaries. Low angle grain boundaries are shown to follow the classical relationship between dislocation orientation/spacing and misorientation angle.

  4. Free energy simulations with the AMOEBA polarizable force field and metadynamics on GPU platform.

    Science.gov (United States)

    Peng, Xiangda; Zhang, Yuebin; Chu, Huiying; Li, Guohui

    2016-03-05

    The free energy calculation library PLUMED has been incorporated into the OpenMM simulation toolkit, with the purpose to perform enhanced sampling MD simulations using the AMOEBA polarizable force field on GPU platform. Two examples, (I) the free energy profile of water pair separation (II) alanine dipeptide dihedral angle free energy surface in explicit solvent, are provided here to demonstrate the accuracy and efficiency of our implementation. The converged free energy profiles could be obtained within an affordable MD simulation time when the AMOEBA polarizable force field is employed. Moreover, the free energy surfaces estimated using the AMOEBA polarizable force field are in agreement with those calculated from experimental data and ab initio methods. Hence, the implementation in this work is reliable and would be utilized to study more complicated biological phenomena in both an accurate and efficient way. © 2015 Wiley Periodicals, Inc. © 2015 Wiley Periodicals, Inc.

  5. Enhanced piezoelectricity in A B O3 ferroelectrics via intrinsic stress-driven flattening of the free-energy profile

    Science.gov (United States)

    Feng, Yu; Li, Wei-Li; Yu, Yang; Jia, He-Nan; Qiao, Yu-Long; Fei, Wei-Dong

    2017-11-01

    An approach to greatly enhance the piezoelectric properties (˜4 00 pC/N) of the tetragonal BaTi O3 polycrystal using a small number of A -site acceptor-donor substitutions [D. Xu et al., Acta Mater. 79, 84 (2014), 10.1016/j.actamat.2014.07.023] has been proposed. In this study, Pb (ZrTi ) O3 (PZT) based polycrystals with various crystal symmetries (tetragonal, rhombohedral, and so on) were chosen to investigate the piezoelectricity enhancement mechanism. X-ray diffraction results show that doping generates an intrinsic uniaxial compressive stress along the [001] pc direction in the A B O3 lattices. Piezoelectric maps in the parameter space of temperature and Ti concentration in the PZT and doped system show a more significant enhancement effect of L i+-A l3 + codoping in tetragonal PZT than in the rhombohedral phase. Phenomenological thermodynamic analysis indicates that the compressive stress results in more serious flattening of the free-energy profile in tetragonal PZT, compared with that in the rhombohedral phase. The chemical stress obtained by this acceptor-donor codoping can be utilized to optimize the piezoelectric performance on the tetragonal-phase site of the morphotropic phase boundary in the PZT system. The present study provides a promising route to the large piezoelectric effect induced by chemical-stress-driven flattening of the free-energy profile.

  6. Free-energy analysis of spin models on hyperbolic lattice geometries.

    Science.gov (United States)

    Serina, Marcel; Genzor, Jozef; Lee, Yoju; Gendiar, Andrej

    2016-04-01

    We investigate relations between spatial properties of the free energy and the radius of Gaussian curvature of the underlying curved lattice geometries. For this purpose we derive recurrence relations for the analysis of the free energy normalized per lattice site of various multistate spin models in the thermal equilibrium on distinct non-Euclidean surface lattices of the infinite sizes. Whereas the free energy is calculated numerically by means of the corner transfer matrix renormalization group algorithm, the radius of curvature has an analytic expression. Two tasks are considered in this work. First, we search for such a lattice geometry, which minimizes the free energy per site. We conjecture that the only Euclidean flat geometry results in the minimal free energy per site regardless of the spin model. Second, the relations among the free energy, the radius of curvature, and the phase transition temperatures are analyzed. We found out that both the free energy and the phase transition temperature inherit the structure of the lattice geometry and asymptotically approach the profile of the Gaussian radius of curvature. This achievement opens new perspectives in the AdS-CFT correspondence theories.

  7. Skin permeation and antioxidant efficacy of topically applied resveratrol.

    Science.gov (United States)

    Alonso, Cristina; Martí, M; Barba, C; Carrer, V; Rubio, L; Coderch, L

    2017-08-01

    The permeation of resveratrol was assessed by in vitro and in vivo experiments 24 h after topical administration. The in vitro profile of resveratrol was assessed by Raman spectroscopy. Human skin permeation was analysed in vivo by the tape stripping method with the progressive removal of the stratum corneum layers using adhesive tape strips. Moreover, the free radical scavenging activity of resveratrol after its topical application was determined using the DPPH assay. The Raman spectra indicated that the topically applied resveratrol penetrates deep into the skin. The results showed high amounts of resveratrol in the different stratum corneum layers close to the surface and a constant lower amount in the upper layers of the viable epidermis. The concentration of resveratrol present in the outermost stratum corneum layers was obtained by tape stripping after in vivo application. The results demonstrated that resveratrol mainly remained in the human stratum corneum layers. After topical application, resveratrol maintained its antiradical activity. The antioxidant efficacy of the compound was higher in the inner layers of the stratum corneum. As these results have demonstrated, topically applied resveratrol reinforces the antioxidant system of the stratum corneum and provides an efficient means of increasing the tissue levels of antioxidants in the human epidermis.

  8. Computing the Free Energy along a Reaction Coordinate Using Rigid Body Dynamics.

    Science.gov (United States)

    Tao, Peng; Sodt, Alexander J; Shao, Yihan; König, Gerhard; Brooks, Bernard R

    2014-10-14

    The calculations of potential of mean force along complex chemical reactions or rare events pathways are of great interest because of their importance for many areas in chemistry, molecular biology, and material science. The major difficulty for free energy calculations comes from the great computational cost for adequate sampling of the system in high-energy regions, especially close to the reaction transition state. Here, we present a method, called FEG-RBD, in which the free energy gradients were obtained from rigid body dynamics simulations. Then the free energy gradients were integrated along a reference reaction pathway to calculate free energy profiles. In a given system, the reaction coordinates defining a subset of atoms (e.g., a solute, or the quantum mechanics (QM) region of a quantum mechanics/molecular mechanics simulation) are selected to form a rigid body during the simulation. The first-order derivatives (gradients) of the free energy with respect to the reaction coordinates are obtained through the integration of constraint forces within the rigid body. Each structure along the reference reaction path is separately subjected to such a rigid body simulation. The individual free energy gradients are integrated along the reference pathway to obtain the free energy profile. Test cases provided demonstrate both the strengths and weaknesses of the FEG-RBD method. The most significant benefit of this method comes from the fast convergence rate of the free energy gradient using rigid-body constraints instead of restraints. A correction to the free energy due to approximate relaxation of the rigid-body constraint is estimated and discussed. A comparison with umbrella sampling using a simple test case revealed the improved sampling efficiency of FEG-RBD by a factor of 4 on average. The enhanced efficiency makes this method effective for calculating the free energy of complex chemical reactions when the reaction coordinate can be unambiguously defined by a

  9. Transcorneal permeation of diclofenac as a function of temperature from film formulation in presence of triethanolamine and benzalkonium chloride.

    Science.gov (United States)

    Mohapatra, Rajaram; Senapati, Sibananda; Sahoo, Chinmaya; Mallick, Subrata

    2014-11-01

    The objective of this report was to evaluate the transcorneal permeation of diclofenac potassium (DCP) as a function of temperature from hydroxypropyl methylcellulose (HPMC) matrix film containing triethanolamine (TEM) as plasticizer and benzalkonium chloride (BKC) as preservative. Activation energy (Ea), enthalpy (ΔH), entropy (ΔS) and free energy (ΔG) of permeation, diffusion and partition were evaluated to understand the underlying mechanism of permeation. Permeation improved with the presence of both the plasticizer and preservative compared to preservative alone. Further, increased amount of TEM in the film increased drug transport across the cornea. Decreased Ea value of the film supported the fact. Rise of temperature from 26 to 30, 34 and 40 °C increased permeation in all the films. Ocular residence of the film in vivo in the rabbit revealed that the film swelled by pronounced lachrymal fluid uptake and traces of hydrogel remained still at the end of 6 h of application. Absence of characteristic exothermic peak of the drug in the thermogram of film formulations indicated the molecular dispersion of drug in polymer matrix. Scanning electron microscopy indicated that the drug crystal size decreased with increasing concentration of TEM in presence of BKC due to effective wetting of drug particles by the polymer. Copyright © 2014 Elsevier B.V. All rights reserved.

  10. Diffusion in multicomponent systems: a free energy approach

    International Nuclear Information System (INIS)

    Emmanuel, Simon; Cortis, Andrea; Berkowitz, Brian

    2004-01-01

    This work examines diffusion in ternary non-ideal systems and derives coupled non-linear equations based on a non-equilibrium thermodynamic approach in which an explicit expression for the free energy is substituted into standard diffusion equations. For ideal solutions, the equations employ four mobility parameters (M aa , M ab , M ba , and M bb ), and uphill diffusion is predicted for certain initial conditions and combinations of mobilities. For the more complex case of ternary Simple Mixtures, two non-ideality parameters (χ ac and χ bc ) that are directly related to the excess free energy of mixing are introduced. The solution of the equations is carried out by means of two different numerical schemes: (1) spectral collocation and (2) finite element. An error minimization technique is coupled with the spectral collocation method and applied to diffusional profiles to extract the M and χ parameters. The model satisfactorily reproduces diffusional profiles from published data for silicate melts. Further improvements in numerical and experimental techniques are then suggested

  11. Mechanism of active transport: free energy dissipation and free energy transduction.

    OpenAIRE

    Tanford, C

    1982-01-01

    The thermodynamic pathway for "chemiosmotic" free energy transduction in active transport is discussed with an ATP-driven Ca2+ pump as an illustrative example. Two innovations are made in the analysis. (i) Free energy dissipated as heat is rigorously excluded from overall free energy bookkeeping by focusing on the dynamic equilibrium state of the chemiosmotic process. (ii) Separate chemical potential terms for free energy donor and transported ions are used to keep track of the thermodynamic ...

  12. Employing photoacoustic spectroscopy in the evaluation of the skin permeation profile of emulsion containing antioxidant phenolic-rich extract of Melochia arenosa.

    Science.gov (United States)

    Tunin, Luana Magri; Borghi, Fernanda Belincanta; Nogueira, Ana Claudia; Higachi, Luciana; Barbosa, Décio Sabbatini; Baesso, Mauro Luciano; Hernandes, Luzmarina; Diniz, Andréa; Truiti, Maria da Conceição Torrado

    2016-01-01

    Oxidative stress is an important factor modulating skin alterations. Melochia arenosa Benth. (Malvaceae) is a Brazilian plant with antimicrobial activity and antioxidant potential. The objective of this study is to develop a topical formulation containing antioxidant phenolic-rich extract of M. arenosa and to evaluate its skin permeation profile. Response surface methodology was used to maximize the total phenolic (TP) content of the extract and its antioxidant activity was evaluated by 2,2-diphenyl-1-picryl-hydrazyl (DPPH), 2,2'-azinobis (3-ethylbenzothiazoline-6-sulfonic acid) (ABTS), and respiratory burst methods. An emulsion containing 1% optimized extract (OE) was developed and employed photoacoustic spectroscopy (PAS) for the determination of its skin permeation profile. The morphology of the skin was studied in histological sections stained with hematoxylin-eosin. The optimum conditions predicted for the major extractive efficiency of the phenolics with 100% ethanol led extraction time 101 h and plant:solvent proportion 1:13.5 (w/v). OE presented TP = 724.6 ± 8.2 mg GAE/g extract and scavenging capacity of DPPH (IC50 value = 11.43 ± 0.14 µg/mL) and ABTS radicals (IC50 value = 35.42 ± 0.48 µg/mL). The production of ROS by neutrophils after stimulation with phorbol miristate acetate was lower when the OE was present in the reaction medium, endorsing its high antioxidant capacity. The data obtained by PAS indicated that the OE present in the emulsion has permeated and was distributed in the whole skin. No histopathological alterations were observed in the histological analysis. The formulation developed is a promising tool for skin care and could prevent the damage caused by oxidative stress.

  13. Density Profiles, Energy, and Oscillation Strength of a Quantum Dot in Two Dimensions with a Harmonic Oscillator External Potential using an Orbital-free Energy Functional Based on Thomas–Fermi Theory

    Directory of Open Access Journals (Sweden)

    Suhufa Alfarisa

    2016-03-01

    Full Text Available This research aims i to determine the density profile and calculate the ground state energy of a quantum dot in two dimensions (2D with a harmonic oscillator potential using orbital-free density functional theory, and ii to understand the effect of the harmonic oscillator potential strength on the electron density profiles in the quantum dot. This study determines the total energy functional of the quantum dot that is a functional of the density that depends only on spatial variables. The total energy functional consists of three terms. The first term is the kinetic energy functional, which is the Thomas–Fermi approximation in this case. The second term is the external potential. The harmonic oscillator potential is used in this study. The last term is the electron–electron interactions described by the Coulomb interaction. The functional is formally solved to obtain the electron density as a function of spatial variables. This equation cannot be solved analytically, and thus a numerical method is used to determine the profile of the electron density. Using the electron density profiles, the ground state energy of the quantum dot in 2D can be calculated. The ground state energies obtained are 2.464, 22.26, 90.1957, 252.437, and 496.658 au for 2, 6, 12, 20, and 56 electrons, respectively. The highest electron density is localized close to the middle of the quantum dot. The density profiles decrease with the increasing distance, and the lowest density is at the edge of the quantum dot. Generally, increasing the harmonic oscillator potential strength reduces the density profiles around the center of the quantum dot.

  14. Free Energy Reconstruction from Logarithmic Mean-Force Dynamics Using Multiple Nonequilibrium Trajectories.

    Science.gov (United States)

    Morishita, Tetsuya; Yonezawa, Yasushige; Ito, Atsushi M

    2017-07-11

    Efficient and reliable estimation of the mean force (MF), the derivatives of the free energy with respect to a set of collective variables (CVs), has been a challenging problem because free energy differences are often computed by integrating the MF. Among various methods for computing free energy differences, logarithmic mean-force dynamics (LogMFD) [ Morishita et al., Phys. Rev. E 2012 , 85 , 066702 ] invokes the conservation law in classical mechanics to integrate the MF, which allows us to estimate the free energy profile along the CVs on-the-fly. Here, we present a method called parallel dynamics, which improves the estimation of the MF by employing multiple replicas of the system and is straightforwardly incorporated in LogMFD or a related method. In the parallel dynamics, the MF is evaluated by a nonequilibrium path-ensemble using the multiple replicas based on the Crooks-Jarzynski nonequilibrium work relation. Thanks to the Crooks relation, realizing full-equilibrium states is no longer mandatory for estimating the MF. Additionally, sampling in the hidden subspace orthogonal to the CV space is highly improved with appropriate weights for each metastable state (if any), which is hardly achievable by typical free energy computational methods. We illustrate how to implement parallel dynamics by combining it with LogMFD, which we call logarithmic parallel dynamics (LogPD). Biosystems of alanine dipeptide and adenylate kinase in explicit water are employed as benchmark systems to which LogPD is applied to demonstrate the effect of multiple replicas on the accuracy and efficiency in estimating the free energy profiles using parallel dynamics.

  15. Free energy calculations along entropic pathways. III. Nucleation of capillary bridges and bubbles

    Science.gov (United States)

    Desgranges, Caroline; Delhommelle, Jerome

    2017-05-01

    Using molecular simulation, we analyze the capillary condensation and evaporation processes for argon confined in a cylindrical nanopore. For this purpose, we define the entropy of the adsorbed fluid as a reaction coordinate and determine the free energy associated with both processes along entropic pathways. For capillary condensation, we identify a complex free energy profile resulting from the multi-stage nature of this phenomenon. We find capillary condensation to proceed through the nucleation of a liquid bridge across the nanopore, followed by its expansion throughout the pore to give rise to the stable phase of high density. In the case of capillary evaporation, the free energy profile along the entropy pathway also exhibits different regimes, corresponding to the initial destabilization of the layered structure of the fluid followed by the formation, and subsequent expansion, of a bubble across the nanopore.

  16. Molybdenum carbide nanoparticles as catalysts for oil sands upgrading: Dynamics and free-energy profiles

    International Nuclear Information System (INIS)

    Liu, Xingchen; Salahub, Dennis R.

    2015-01-01

    There is no doubt that a huge gap exists in understanding heterogeneous catalysis between a cluster model of a few atoms and a bulk model of periodic slabs. Nanoparticles, which are crucial in heterogeneous catalysis in industry, lie in the middle of the gap. We present here our work on the computational modelling of molybdenum carbide nanoparticles (MCNPs) as the catalysts for the upgrading of oil sands in the in-situ environment, using benzene hydrogenation as a model reaction. With a cluster model, efforts were first made to understand the mechanism of the reaction with a density functional theory (DFT) study on the adsorption of benzene and its hydrogenation product – cyclohexane, as well as the cyclic hydrogenation reaction intermediates on the Mo 2 C(0001) surface. From the thermodynamic data, along with literature information, it was found that the benzene hydrogenation reaction on molybdenum carbide happens most likely through a Langmuir-Hinshelwood mechanism with the gradual lifting up of the benzene molecule. The electron localization function (ELF) was then used to help understand the nature of the interactions between the MCNPs, identifying strong multi-center interactions between the adsorbates and the MCNPs. To enable the treatment of larger nanoparticles, a fast semi-empirical density functional tight-binding (DFTB) method was parameterized. With this method, the potential energy profiles of benzene hydrogenation reactions on different sizes of MCNPs are calculated. The study was then extended to consider a MCNP embedded in solvent (benzene), using a quantum mechanical (DFTB) / molecular mechanical approach. Calculations on the free energies profiles with the umbrella sampling method show that the entropy of the MCNPs and the solvent are essential in understanding the catalytic activity of the transition metal related nanoparticles for solid/liquid heterogeneous catalysis

  17. Molybdenum carbide nanoparticles as catalysts for oil sands upgrading: Dynamics and free-energy profiles

    Energy Technology Data Exchange (ETDEWEB)

    Liu, Xingchen; Salahub, Dennis R. [Department of Chemistry, Institute for Quantum Science and Technology, and Centre for Molecular Simulation, University of Calgary, 2500 University Drive NW, Calgary, Alberta, Canada T2N 1N4 (Canada)

    2015-12-31

    There is no doubt that a huge gap exists in understanding heterogeneous catalysis between a cluster model of a few atoms and a bulk model of periodic slabs. Nanoparticles, which are crucial in heterogeneous catalysis in industry, lie in the middle of the gap. We present here our work on the computational modelling of molybdenum carbide nanoparticles (MCNPs) as the catalysts for the upgrading of oil sands in the in-situ environment, using benzene hydrogenation as a model reaction. With a cluster model, efforts were first made to understand the mechanism of the reaction with a density functional theory (DFT) study on the adsorption of benzene and its hydrogenation product – cyclohexane, as well as the cyclic hydrogenation reaction intermediates on the Mo{sub 2}C(0001) surface. From the thermodynamic data, along with literature information, it was found that the benzene hydrogenation reaction on molybdenum carbide happens most likely through a Langmuir-Hinshelwood mechanism with the gradual lifting up of the benzene molecule. The electron localization function (ELF) was then used to help understand the nature of the interactions between the MCNPs, identifying strong multi-center interactions between the adsorbates and the MCNPs. To enable the treatment of larger nanoparticles, a fast semi-empirical density functional tight-binding (DFTB) method was parameterized. With this method, the potential energy profiles of benzene hydrogenation reactions on different sizes of MCNPs are calculated. The study was then extended to consider a MCNP embedded in solvent (benzene), using a quantum mechanical (DFTB) / molecular mechanical approach. Calculations on the free energies profiles with the umbrella sampling method show that the entropy of the MCNPs and the solvent are essential in understanding the catalytic activity of the transition metal related nanoparticles for solid/liquid heterogeneous catalysis.

  18. Free electron lasers for transmission of energy in space

    Science.gov (United States)

    Segall, S. B.; Hiddleston, H. R.; Catella, G. C.

    1981-01-01

    A one-dimensional resonant-particle model of a free electron laser (FEL) is used to calculate laser gain and conversion efficiency of electron energy to photon energy. The optical beam profile for a resonant optical cavity is included in the model as an axial variation of laser intensity. The electron beam profile is matched to the optical beam profile and modeled as an axial variation of current density. Effective energy spread due to beam emittance is included. Accelerators appropriate for a space-based FEL oscillator are reviewed. Constraints on the concentric optical resonator and on systems required for space operation are described. An example is given of a space-based FEL that would produce 1.7 MW of average output power at 0.5 micrometer wavelength with over 50% conversion efficiency of electrical energy to laser energy. It would utilize a 10 m-long amplifier centered in a 200 m-long optical cavity. A 3-amp, 65 meV electrostatic accelerator would provide the electron beam and recover the beam after it passes through the amplifier. Three to five shuttle flights would be needed to place the laser in orbit.

  19. The Gibbs free energy of homogeneous nucleation: From atomistic nuclei to the planar limit.

    Science.gov (United States)

    Cheng, Bingqing; Tribello, Gareth A; Ceriotti, Michele

    2017-09-14

    In this paper we discuss how the information contained in atomistic simulations of homogeneous nucleation should be used when fitting the parameters in macroscopic nucleation models. We show how the number of solid and liquid atoms in such simulations can be determined unambiguously by using a Gibbs dividing surface and how the free energy as a function of the number of solid atoms in the nucleus can thus be extracted. We then show that the parameters (the chemical potential, the interfacial free energy, and a Tolman correction) of a model based on classical nucleation theory can be fitted using the information contained in these free-energy profiles but that the parameters in such models are highly correlated. This correlation is unfortunate as it ensures that small errors in the computed free energy surface can give rise to large errors in the extrapolated properties of the fitted model. To resolve this problem we thus propose a method for fitting macroscopic nucleation models that uses simulations of planar interfaces and simulations of three-dimensional nuclei in tandem. We show that when the chemical potentials and the interface energy are pinned to their planar-interface values, more precise estimates for the Tolman length are obtained. Extrapolating the free energy profile obtained from small simulation boxes to larger nuclei is thus more reliable.

  20. Computational scheme for pH-dependent binding free energy calculation with explicit solvent.

    Science.gov (United States)

    Lee, Juyong; Miller, Benjamin T; Brooks, Bernard R

    2016-01-01

    We present a computational scheme to compute the pH-dependence of binding free energy with explicit solvent. Despite the importance of pH, the effect of pH has been generally neglected in binding free energy calculations because of a lack of accurate methods to model it. To address this limitation, we use a constant-pH methodology to obtain a true ensemble of multiple protonation states of a titratable system at a given pH and analyze the ensemble using the Bennett acceptance ratio (BAR) method. The constant pH method is based on the combination of enveloping distribution sampling (EDS) with the Hamiltonian replica exchange method (HREM), which yields an accurate semi-grand canonical ensemble of a titratable system. By considering the free energy change of constraining multiple protonation states to a single state or releasing a single protonation state to multiple states, the pH dependent binding free energy profile can be obtained. We perform benchmark simulations of a host-guest system: cucurbit[7]uril (CB[7]) and benzimidazole (BZ). BZ experiences a large pKa shift upon complex formation. The pH-dependent binding free energy profiles of the benchmark system are obtained with three different long-range interaction calculation schemes: a cutoff, the particle mesh Ewald (PME), and the isotropic periodic sum (IPS) method. Our scheme captures the pH-dependent behavior of binding free energy successfully. Absolute binding free energy values obtained with the PME and IPS methods are consistent, while cutoff method results are off by 2 kcal mol(-1) . We also discuss the characteristics of three long-range interaction calculation methods for constant-pH simulations. © 2015 The Protein Society.

  1. Impact of Humidity on In Vitro Human Skin Permeation Experiments for Predicting In Vivo Permeability.

    Science.gov (United States)

    Ishida, Masahiro; Takeuchi, Hiroyuki; Endo, Hiromi; Yamaguchi, Jun-Ichi

    2015-12-01

    In vitro skin permeation studies have been commonly conducted to predict in vivo permeability for the development of transdermal therapeutic systems (TTSs). We clarified the impact of humidity on in vitro human skin permeation of two TTSs having different breathability and then elucidated the predictability of in vivo permeability based on in vitro experimental data. Nicotinell(®) TTS(®) 20 and Frandol(®) tape 40mg were used as model TTSs in this study. The in vitro human skin permeation experiments were conducted under humidity levels similar to those used in clinical trials (approximately 50%) as well as under higher humidity levels (approximately 95%). The skin permeability values of drugs at 95% humidity were higher than those at 50% humidity. The time profiles of the human plasma concentrations after TTS application fitted well with the clinical data when predicted based on the in vitro permeation parameters at 50% humidity. On the other hand, those profiles predicted based on the parameters at 95% humidity were overestimated. The impact of humidity was higher for the more breathable TTS; Frandol(®) tape 40mg. These results show that in vitro human skin permeation experiments should be investigated under realistic clinical humidity levels especially for breathable TTSs. © 2015 Wiley Periodicals, Inc. and the American Pharmacists Association.

  2. Ion-driven deuterium permeation through tungsten at high temperatures

    Science.gov (United States)

    Gasparyan, Yu. M.; Golubeva, A. V.; Mayer, M.; Pisarev, A. A.; Roth, J.

    2009-06-01

    The ion-driven permeation (IDP) through 50 μm thick pure tungsten foils was measured in the temperature range of 823-923 K during irradiation by 200 eV/D + ion beam with a flux of 10 17-10 18 D/m 2s. Gas driven permeation (GDP) from the deuterium background gas was observed as well. Calculations using both the analytical formula for the diffusion limited regime (DLR) and the TMAP 7 code gave good agreement with the experimental data. Defects with a detrapping energy of (2.05 ± 0.15) eV were found to limit the permeation lag time in our experimental conditions.

  3. Ion-driven deuterium permeation through tungsten at high temperatures

    Energy Technology Data Exchange (ETDEWEB)

    Gasparyan, Yu.M., E-mail: yury.gasparyan@ipp.mpg.d [Max-Planck-Institut fuer Plasmaphysik, EURATOM Association, Boltzmanstrasse 2, D-85748 Garching (Germany); Moscow Engineering and Physics Institute, Kashirskoe sh. 31, Moscow 115409 (Russian Federation); Golubeva, A.V. [RRC ' Kurchatov Institute' , Ac. Kurchatov sq., 1/1, Moscow RU-123182 (Russian Federation); Mayer, M. [Max-Planck-Institut fuer Plasmaphysik, EURATOM Association, Boltzmanstrasse 2, D-85748 Garching (Germany); Pisarev, A.A. [Moscow Engineering and Physics Institute, Kashirskoe sh. 31, Moscow 115409 (Russian Federation); Roth, J. [Max-Planck-Institut fuer Plasmaphysik, EURATOM Association, Boltzmanstrasse 2, D-85748 Garching (Germany)

    2009-06-15

    The ion-driven permeation (IDP) through 50 mum thick pure tungsten foils was measured in the temperature range of 823-923 K during irradiation by 200 eV/D{sup +} ion beam with a flux of 10{sup 17}-10{sup 18} D/m{sup 2}s. Gas driven permeation (GDP) from the deuterium background gas was observed as well. Calculations using both the analytical formula for the diffusion limited regime (DLR) and the TMAP 7 code gave good agreement with the experimental data. Defects with a detrapping energy of (2.05 +- 0.15) eV were found to limit the permeation lag time in our experimental conditions.

  4. Ion-driven deuterium permeation through tungsten at high temperatures

    International Nuclear Information System (INIS)

    Gasparyan, Yu.M.; Golubeva, A.V.; Mayer, M.; Pisarev, A.A.; Roth, J.

    2009-01-01

    The ion-driven permeation (IDP) through 50 μm thick pure tungsten foils was measured in the temperature range of 823-923 K during irradiation by 200 eV/D + ion beam with a flux of 10 17 -10 18 D/m 2 s. Gas driven permeation (GDP) from the deuterium background gas was observed as well. Calculations using both the analytical formula for the diffusion limited regime (DLR) and the TMAP 7 code gave good agreement with the experimental data. Defects with a detrapping energy of (2.05 ± 0.15) eV were found to limit the permeation lag time in our experimental conditions.

  5. Protein Folding Free Energy Landscape along the Committor - the Optimal Folding Coordinate.

    Science.gov (United States)

    Krivov, Sergei V

    2018-06-06

    Recent advances in simulation and experiment have led to dramatic increases in the quantity and complexity of produced data, which makes the development of automated analysis tools very important. A powerful approach to analyze dynamics contained in such data sets is to describe/approximate it by diffusion on a free energy landscape - free energy as a function of reaction coordinates (RC). For the description to be quantitatively accurate, RCs should be chosen in an optimal way. Recent theoretical results show that such an optimal RC exists; however, determining it for practical systems is a very difficult unsolved problem. Here we describe a solution to this problem. We describe an adaptive nonparametric approach to accurately determine the optimal RC (the committor) for an equilibrium trajectory of a realistic system. In contrast to alternative approaches, which require a functional form with many parameters to approximate an RC and thus extensive expertise with the system, the suggested approach is nonparametric and can approximate any RC with high accuracy without system specific information. To avoid overfitting for a realistically sampled system, the approach performs RC optimization in an adaptive manner by focusing optimization on less optimized spatiotemporal regions of the RC. The power of the approach is illustrated on a long equilibrium atomistic folding simulation of HP35 protein. We have determined the optimal folding RC - the committor, which was confirmed by passing a stringent committor validation test. It allowed us to determine a first quantitatively accurate protein folding free energy landscape. We have confirmed the recent theoretical results that diffusion on such a free energy profile can be used to compute exactly the equilibrium flux, the mean first passage times, and the mean transition path times between any two points on the profile. We have shown that the mean squared displacement along the optimal RC grows linear with time as for

  6. Permeation barrier for lightweight liquid hydrogen tanks

    Energy Technology Data Exchange (ETDEWEB)

    Schultheiss, D.

    2007-04-16

    For the future usage of hydrogen as an automotive fuel, its on-board storage is crucial. One approach is the storage of liquid hydrogen (LH2, 20 K) in double-walled, vacuum insulated tanks. The introduction of carbon fiber reinforced plastics (CFRP) as structural material enables a high potential of reducing the weight in comparison to the state-of-the-art stainless steel tanks. The generally high permeability of hydrogen through plastics, however, can lead to long-term degradation of the insulating vacuum. The derived objective of this dissertation was to find and apply an adequate permeation barrier (liner) on CFRP. The investigated liners were either foils adhered on CFRP specimens or coatings deposited on CFRP specimens. The coatings were produced by means of thermal spraying, metal plating or physical vapor deposition (PVD). The materials of the liners included Al, Au, Cu, Ni and Sn as well as stainless steel and diamond-like carbon. The produced liners were tested for their permeation behavior, thermal shock resistance and adherence to the CFRP substrate. Additionally, SEM micrographs were used to characterize and qualify the liners. The foils, although being a good permeation barrier, adhered weakly to the substrate. Furthermore, leak-free joining of foil segments is a challenge still to be solved. The metal plating liners exhibited the best properties. For instance, no permeation could be detected through a 50 {mu}m thick Cu coating within the accuracy of the measuring apparatus. This corresponds to a reduction of the permeation gas flow by more than factor 7400 compared to uncoated CFRP. In addition, the metal platings revealed a high adherence and thermal shock resistance. The coatings produced by means of thermal spraying and PVD did not show a sufficient permeation barrier effect. After having investigated the specimens, a 170 liter CFRP tank was fully coated with 50 {mu}m Cu by means of metal plating. (orig.)

  7. Molecular dynamics and brownian dynamics investigation of ion permeation and anesthetic halothane effects on a proton-gated ion channel.

    Science.gov (United States)

    Cheng, Mary Hongying; Coalson, Rob D; Tang, Pei

    2010-11-24

    Bacterial Gloeobacter violaceus pentameric ligand-gated ion channel (GLIC) is activated to cation permeation upon lowering the solution pH. Its function can be modulated by anesthetic halothane. In the present work, we integrate molecular dynamics (MD) and Brownian dynamics (BD) simulations to elucidate the ion conduction, charge selectivity, and halothane modulation mechanisms in GLIC, based on recently resolved X-ray crystal structures of the open-channel GLIC. MD calculations of the potential of mean force (PMF) for a Na(+) revealed two energy barriers in the extracellular domain (R109 and K38) and at the hydrophobic gate of transmembrane domain (I233), respectively. An energy well for Na(+) was near the intracellular entrance: the depth of this energy well was modulated strongly by the protonation state of E222. The energy barrier for Cl(-) was found to be 3-4 times higher than that for Na(+). Ion permeation characteristics were determined through BD simulations using a hybrid MD/continuum electrostatics approach to evaluate the energy profiles governing the ion movement. The resultant channel conductance and a near-zero permeability ratio (P(Cl)/P(Na)) were comparable to experimental data. On the basis of these calculations, we suggest that a ring of five E222 residues may act as an electrostatic gate. In addition, the hydrophobic gate region may play a role in charge selectivity due to a higher dehydration energy barrier for Cl(-) ions. The effect of halothane on the Na(+) PMF was also evaluated. Halothane was found to perturb salt bridges in GLIC that may be crucial for channel gating and open-channel stability, but had no significant impact on the single ion PMF profiles.

  8. Free energy landscape and molecular pathways of gas hydrate nucleation

    Energy Technology Data Exchange (ETDEWEB)

    Bi, Yuanfei; Porras, Anna; Li, Tianshu, E-mail: tsli@gwu.edu [Department of Civil and Environmental Engineering, George Washington University, Washington DC 20052 (United States)

    2016-12-07

    Despite the significance of gas hydrates in diverse areas, a quantitative knowledge of hydrate formation at a molecular level is missing. The impediment to acquiring this understanding is primarily attributed to the stochastic nature and ultra-fine scales of nucleation events, posing a great challenge for both experiment and simulation to explore hydrate nucleation. Here we employ advanced molecular simulation methods, including forward flux sampling (FFS), p{sub B} histogram analysis, and backward flux sampling, to overcome the limit of direct molecular simulation for exploring both the free energy landscape and molecular pathways of hydrate nucleation. First we test the half-cage order parameter (H-COP) which we developed for driving FFS, through conducting the p{sub B} histogram analysis. Our results indeed show that H-COP describes well the reaction coordinates of hydrate nucleation. Through the verified order parameter, we then directly compute the free energy landscape for hydrate nucleation by combining both forward and backward flux sampling. The calculated stationary distribution density, which is obtained independently of nucleation theory, is found to fit well against the classical nucleation theory (CNT). Subsequent analysis of the obtained large ensemble of hydrate nucleation trajectories show that although on average, hydrate formation is facilitated by a two-step like mechanism involving a gradual transition from an amorphous to a crystalline structure, there also exist nucleation pathways where hydrate crystallizes directly, without going through the amorphous stage. The CNT-like free energy profile and the structural diversity suggest the existence of multiple active transition pathways for hydrate nucleation, and possibly also imply the near degeneracy in their free energy profiles among different pathways. Our results thus bring a new perspective to the long standing question of how hydrates crystallize.

  9. Free energy landscape and molecular pathways of gas hydrate nucleation

    International Nuclear Information System (INIS)

    Bi, Yuanfei; Porras, Anna; Li, Tianshu

    2016-01-01

    Despite the significance of gas hydrates in diverse areas, a quantitative knowledge of hydrate formation at a molecular level is missing. The impediment to acquiring this understanding is primarily attributed to the stochastic nature and ultra-fine scales of nucleation events, posing a great challenge for both experiment and simulation to explore hydrate nucleation. Here we employ advanced molecular simulation methods, including forward flux sampling (FFS), p B histogram analysis, and backward flux sampling, to overcome the limit of direct molecular simulation for exploring both the free energy landscape and molecular pathways of hydrate nucleation. First we test the half-cage order parameter (H-COP) which we developed for driving FFS, through conducting the p B histogram analysis. Our results indeed show that H-COP describes well the reaction coordinates of hydrate nucleation. Through the verified order parameter, we then directly compute the free energy landscape for hydrate nucleation by combining both forward and backward flux sampling. The calculated stationary distribution density, which is obtained independently of nucleation theory, is found to fit well against the classical nucleation theory (CNT). Subsequent analysis of the obtained large ensemble of hydrate nucleation trajectories show that although on average, hydrate formation is facilitated by a two-step like mechanism involving a gradual transition from an amorphous to a crystalline structure, there also exist nucleation pathways where hydrate crystallizes directly, without going through the amorphous stage. The CNT-like free energy profile and the structural diversity suggest the existence of multiple active transition pathways for hydrate nucleation, and possibly also imply the near degeneracy in their free energy profiles among different pathways. Our results thus bring a new perspective to the long standing question of how hydrates crystallize.

  10. Free energy landscape and molecular pathways of gas hydrate nucleation.

    Science.gov (United States)

    Bi, Yuanfei; Porras, Anna; Li, Tianshu

    2016-12-07

    Despite the significance of gas hydrates in diverse areas, a quantitative knowledge of hydrate formation at a molecular level is missing. The impediment to acquiring this understanding is primarily attributed to the stochastic nature and ultra-fine scales of nucleation events, posing a great challenge for both experiment and simulation to explore hydrate nucleation. Here we employ advanced molecular simulation methods, including forward flux sampling (FFS), p B histogram analysis, and backward flux sampling, to overcome the limit of direct molecular simulation for exploring both the free energy landscape and molecular pathways of hydrate nucleation. First we test the half-cage order parameter (H-COP) which we developed for driving FFS, through conducting the p B histogram analysis. Our results indeed show that H-COP describes well the reaction coordinates of hydrate nucleation. Through the verified order parameter, we then directly compute the free energy landscape for hydrate nucleation by combining both forward and backward flux sampling. The calculated stationary distribution density, which is obtained independently of nucleation theory, is found to fit well against the classical nucleation theory (CNT). Subsequent analysis of the obtained large ensemble of hydrate nucleation trajectories show that although on average, hydrate formation is facilitated by a two-step like mechanism involving a gradual transition from an amorphous to a crystalline structure, there also exist nucleation pathways where hydrate crystallizes directly, without going through the amorphous stage. The CNT-like free energy profile and the structural diversity suggest the existence of multiple active transition pathways for hydrate nucleation, and possibly also imply the near degeneracy in their free energy profiles among different pathways. Our results thus bring a new perspective to the long standing question of how hydrates crystallize.

  11. Compensation effect in H 2 permeation kinetics of PdAg membranes

    KAUST Repository

    Zeng, Gaofeng

    2012-08-30

    Knowledge about the (inter)dependence of permeation kinetic parameters on the stoichiometry of H 2-selective alloys is still rudimentary, although uncovering the underlying systematic correlations will greatly facilitate current efforts into the design of novel high-performance H 2 separation membranes. Permeation measurements with carefully engineered, 2-7 μm thick supported Pd 100-xAg x membranes reveal that the activation energy and pre-exponential factor of H 2 permeation laws vary systematically with alloy composition, and both kinetic parameters are strongly correlated for x ≤ 50. We show that this permeation kinetic compensation effect corresponds well with similar correlations in the hydrogen solution thermodynamics and diffusion kinetics of PdAg alloys that govern H 2 permeation rates. This effect enables the consistent description of permeation characteristics over wide temperature and alloy stoichiometry ranges, whereas hydrogen solution thermodynamics may play a role, too, as a yet unrecognized source of kinetic compensation in, for example, H 2-involving reactions over metal catalysts or hydrogenation/ dehydrogenation of hydrogen storage materials. © 2012 American Chemical Society.

  12. Free Energy Contribution Analysis Using Response Kernel Approximation: Insights into the Acylation Reaction of a Beta-Lactamase.

    Science.gov (United States)

    Asada, Toshio; Ando, Kanta; Bandyopadhyay, Pradipta; Koseki, Shiro

    2016-09-08

    A widely applicable free energy contribution analysis (FECA) method based on the quantum mechanical/molecular mechanical (QM/MM) approximation using response kernel approaches has been proposed to investigate the influences of environmental residues and/or atoms in the QM region on the free energy profile. This method can evaluate atomic contributions to the free energy along the reaction path including polarization effects on the QM region within a dramatically reduced computational time. The rate-limiting step in the deactivation of the β-lactam antibiotic cefalotin (CLS) by β-lactamase was studied using this method. The experimentally observed activation barrier was successfully reproduced by free energy perturbation calculations along the optimized reaction path that involved activation by the carboxylate moiety in CLS. It was found that the free energy profile in the QM region was slightly higher than the isolated energy and that two residues, Lys67 and Lys315, as well as water molecules deeply influenced the QM atoms associated with the bond alternation reaction in the acyl-enzyme intermediate. These facts suggested that the surrounding residues are favorable for the reactant complex and prevent the intermediate from being too stabilized to proceed to the following deacylation reaction. We have demonstrated that the free energy contribution analysis should be a useful method to investigate enzyme catalysis and to facilitate intelligent molecular design.

  13. In vitro profiling of the vaginal permeation potential of anti-HIV microbicides and the influence of formulation excipients.

    Science.gov (United States)

    Grammen, Carolien; Augustijns, Patrick; Brouwers, Joachim

    2012-11-01

    In the search for an effective anti-HIV microbicidal gel, limited drug penetration into the vaginal submucosa is a possible reason for failed protection against HIV transmission. To address this issue in early development, we here describe a simple in vitro strategy to predict the tissue permeation potential of vaginally applied drugs, based on solubility, permeability and flux assessment. We demonstrated this approach for four model microbicides (tenofovir, darunavir, saquinavir mesylate and dapivirine) and additionally examined the influence of formulation excipients on the permeation potential. When formulated in an aqueous-based HEC gel, high flux values across an HEC-1A cell layer were reached by tenofovir, as a result of its high aqueous solubility. In contrast, saquinavir and dapivirine fluxes remained low due to poor permeability and solubility, respectively. These low fluxes suggest limited in vivo tissue penetration, possibly leading to lack of efficacy. Dapivirine fluxes, however, could be enhanced up to 30-fold, by including formulation excipients such as polyethylene glycol 1000 (20%) or cyclodextrins (5%) in the HEC gels. Alternative formulations, i.e. emulsions or silicone elastomer gels, were less effective in flux enhancement compared to cyclodextrin-HEC gels. In conclusion, implementing the proposed solubility and permeability profiling in early microbicide development may contribute to the successful selection of promising microbicide candidates and appropriate formulations. Copyright © 2012 Elsevier B.V. All rights reserved.

  14. In-pile tritium permeation experiment

    International Nuclear Information System (INIS)

    Longhurst, G.R.; Miller, L.G.; Watts, K.D.; Kershner, C.J.; Rogers, M.L.

    1982-01-01

    The experiments in progress are examining various aspects of the permeation of hydrogen isotopes through fusion materials. Of particular importance will be the measurement of permeation due to ion implantation in the presence of a neutron radiation field. Theoretical and early experimental results for these experiments have suggested that sufficient tritium will permeate fusion reactor interior structures that development of a permeation barrier will be needed. (orig.)

  15. In-pile tritium permeation experiment

    Energy Technology Data Exchange (ETDEWEB)

    Longhurst, G.R.; Miller, L.G.; Watts, K.D. (Idaho National Engineering Lab., Idaho Falls (USA)); Kershner, C.J.; Rogers, M.L. (Monsanto Research Corp., Miamisburg, OH (USA). Mound Facility)

    The experiments in progress are examining various aspects of the permeation of hydrogen isotopes through fusion materials. Of particular importance will be the measurement of permeation due to ion implantation in the presence of a neutron radiation field. Theoretical and early experimental results for these experiments have suggested that sufficient tritium will permeate fusion reactor interior structures that development of a permeation barrier will be needed.

  16. LIBRETTO-3: modelling tritium extraction/permeation and evaluation of permeation barriers under irradiation

    International Nuclear Information System (INIS)

    Sedano, L.A.; Fuetterer, M.A.; Viola, R.; Dies, X.

    1996-01-01

    Permeation barriers are required in order to limit the size and cost of the detritiation plants for future fusion reactor blankets of the water-cooled Pb-17Li type. The LIBRETTO irradiations were performed to evaluate the efficiency of permeation barriers under high flux reactor (HFR) conditions. Tritium extraction and permeation characteristics from Pb-17Li under variable temperatures 553-723 K, H 2 doping (0-1 vol%) and purge gas flow rates 20-100 scc/min were tested in LIBRETTO-3. An external TiC coating, an internal (TiC+Al 2 O 3 ), both produced by chemical vapour deposition (CVD), and an internal Al 2 O 3 produced by pack cementation (PC) on AISI 316L steel were tested as permeation barriers. The release mechanisms, experimental uncertainties and method for permeation barriers qualification are presented. As a result permeation reduction factors (PRF) at 0.1 dpa of 17 and 34 were obtained for the CVD-Al 2 O 3 at 498 K and for the PC-Al 2 O 3 at 508 K, respectively. These values were confirmed by a residence time analysis and are higher than in a preliminary analysis. (orig.)

  17. Tritium permeation through helium-heated steam generators of ceramic breeder blankets for DEMO

    International Nuclear Information System (INIS)

    Fuetterer, M.A.; Raepsaet, X.; Proust, E.

    1994-01-01

    The specifications of permeation barriers, tritium recovery process maintaining a very low tritium activity in the coolant, and control of the coolant chemistry, required the evaluation of the tritium losses through the steam generators and include the definition of its operating conditions by thermodynamic cycle calculations and its thermal-hydraulic design. For both tasks specific computer tools were developed. The obtained geometry, surface area, and temperature profiles along the heat exchanger tubes were then used to estimate the daily tritium permeation into the steam cycle. Steam oxidized Incoloy 800 austenitic stainless steel was identified as the best suited existing material; in nominal steady-state operation, the tritium escape into the steam cycle could be restricted to less than 10 Ci/d. Tritium permeation during temperature and pressure transients in the steam generator (destruction and possible self-healing of the permeation barrier) is identified to bear a large tritium release potential. Solutions are proposed. (from authors). 4 figs., 1 tab

  18. Tritium permeation through helium-heated steam generators of ceramic breeder blankets for DEMO

    Energy Technology Data Exchange (ETDEWEB)

    Fuetterer, M A; Raepsaet, X; Proust, E

    1994-12-31

    The specifications of permeation barriers, tritium recovery process maintaining a very low tritium activity in the coolant, and control of the coolant chemistry, required the evaluation of the tritium losses through the steam generators and include the definition of its operating conditions by thermodynamic cycle calculations and its thermal-hydraulic design. For both tasks specific computer tools were developed. The obtained geometry, surface area, and temperature profiles along the heat exchanger tubes were then used to estimate the daily tritium permeation into the steam cycle. Steam oxidized Incoloy 800 austenitic stainless steel was identified as the best suited existing material; in nominal steady-state operation, the tritium escape into the steam cycle could be restricted to less than 10 Ci/d. Tritium permeation during temperature and pressure transients in the steam generator (destruction and possible self-healing of the permeation barrier) is identified to bear a large tritium release potential. Solutions are proposed. (from authors). 4 figs., 1 tab.

  19. Deuterium permeation through Flibe facing materials

    International Nuclear Information System (INIS)

    Fukada, S.; Anderl, R.A.; Smolik, G.R.

    2004-01-01

    Experiment of deuterium permeation through Ni facing with purified Flibe is being carried out under the Japan-US joint research project (JUPITER-II). The experiment has been proceeding in the following phases; (i) fabrication and assembly of a dual-probe permeation apparatus, (ii) a single-probe Ni/D 2 , permeation experiment without Flibe, (iii) a dual-probe Ar/Ni/D 2 permeation experiment without Flibe, (iv) Flibe chemical purification by HF/H 2 gas bubbling, (v) physical purification by Flibe transport through a porous Ni filter, (vi) Ar/Ni/Flibe/Ni/D 2 permeation experiment using the dual Ni probe, and (vii) Ar/Ni/Flibe/Ni/HT permeation experiment. The present paper describe results until the Ar/Ni/Flibe/Ni/D 2 permeation experiment in detail. (author)

  20. Deuterium gas-driven permeation and subsequent retention in rolled tungsten foils

    International Nuclear Information System (INIS)

    Liu, Feng; Zhou, Haishan; Li, Xiao-Chun; Xu, Yuping; An, Zhongqing; Mao, Hongmin; Xing, Wenjing; Hou, Qing; Luo, Guang-Nan

    2014-01-01

    Experiments concerning deuterium gas-driven permeation through rolled tungsten foils in the temperature range of 850–950 K and subsequent deuterium retention have been performed. The steady state permeation flux of deuterium is proportional to the square root of the driving pressure. The permeability of deuterium is in an order of 10 −14 mol m −1 s −1 Pa −1/2 in this temperature range and the activation energy for permeation is 1.21 eV. Measurements of diffusivity are significantly affected by the driving pressure, which can be well explained by a saturable-trap model. Thermal desorption spectra of samples feature a single deuterium release peak at about 873 K. TMAP 4 modeling of this peak gives a detrapping energy of 1.70 eV, which fits the dissociation enthalpy of deuterium desorbing from the inner wall of vacancy clusters or pores in tungsten

  1. Deuterium gas-driven permeation and subsequent retention in rolled tungsten foils

    Science.gov (United States)

    Liu, Feng; Zhou, Haishan; Li, Xiao-Chun; Xu, Yuping; An, Zhongqing; Mao, Hongmin; Xing, Wenjing; Hou, Qing; Luo, Guang-Nan

    2014-12-01

    Experiments concerning deuterium gas-driven permeation through rolled tungsten foils in the temperature range of 850-950 K and subsequent deuterium retention have been performed. The steady state permeation flux of deuterium is proportional to the square root of the driving pressure. The permeability of deuterium is in an order of 10-14 mol m-1 s-1 Pa-1/2 in this temperature range and the activation energy for permeation is 1.21 eV. Measurements of diffusivity are significantly affected by the driving pressure, which can be well explained by a saturable-trap model. Thermal desorption spectra of samples feature a single deuterium release peak at about 873 K. TMAP 4 modeling of this peak gives a detrapping energy of 1.70 eV, which fits the dissociation enthalpy of deuterium desorbing from the inner wall of vacancy clusters or pores in tungsten.

  2. EFFECT OF POLARIMETRIC NOISE ON THE ESTIMATION OF TWIST AND MAGNETIC ENERGY OF FORCE-FREE FIELDS

    International Nuclear Information System (INIS)

    Tiwari, Sanjiv Kumar; Venkatakrishnan, P.; Gosain, Sanjay; Joshi, Jayant

    2009-01-01

    The force-free parameter α, also known as helicity parameter or twist parameter, bears the same sign as the magnetic helicity under some restrictive conditions. The single global value of α for a whole active region gives the degree of twist per unit axial length. We investigate the effect of polarimetric noise on the calculation of global α value and magnetic energy of an analytical bipole. The analytical bipole has been generated using the force-free field approximation with a known value of constant α and magnetic energy. The magnetic parameters obtained from the analytical bipole are used to generate Stokes profiles from the Unno-Rachkovsky solutions for polarized radiative transfer equations. Then we add random noise of the order of 10 -3 of the continuum intensity (I c ) in these profiles to simulate the real profiles obtained by modern spectropolarimeters such as Hinode (SOT/SP), SVM (USO), ASP, DLSP, POLIS, and SOLIS etc. These noisy profiles are then inverted using a Milne-Eddington inversion code to retrieve the magnetic parameters. Hundred realizations of this process of adding random noise and polarimetric inversion is repeated to study the distribution of error in global α and magnetic energy values. The results show that (1) the sign of α is not influenced by polarimetric noise and very accurate values of global twist can be calculated, and (2) accurate estimation of magnetic energy with uncertainty as low as 0.5% is possible under the force-free condition.

  3. Computation of free energy

    NARCIS (Netherlands)

    van Gunsteren, WF; Daura, [No Value; Mark, AE

    2002-01-01

    Many quantities that are standardly used to characterize a chemical system are related to free-energy differences between particular states of the system. By statistical mechanics, free-energy differences may be expressed in terms of averages over ensembles of atomic configurations for the molecular

  4. Hydrogen ion-driven permeation in carbonaceous films

    International Nuclear Information System (INIS)

    Anderl, R.A.; Holland, D.F.; Longhurst, G.R.

    1989-01-01

    This paper presents the results of investigations into the permeation properties of amorphous carbonaceous, a-C:H, films produced by plasmachemical deposition techniques. Carbonaceous films on iron substrates with thickness ranging from 60 nm to 110 nm were subjected to high fluence implantations with mass analyzed D 3 + ions with energies ranging from 600 eV to 3000 eV and fluxes ranging from 5x10 14 D/cm 2 s to 5x10 15 D/cm 2 s, respectively. Deuterium re-emission upstream, deuterium permeation downstream and secondary ions sputtered from the implantation surface were measured as a function of implantation fluence for specimens at 420 K. The present studies indicate that the a-C:H film permeability is directly related to the time, hence the fluence, required to achieve isotopic replacement and saturation of the deuterium ion beam atoms stopped in the implant region. Once the deuterium saturation level is achieved in the layer, a significant fraction of the implanting ions can result in permeation. For the present experiment, this permeation factor was much higher than that for uncoated iron specimens subjected to similar beam conditions. Carbon sputter yields of 0.008-0.01 C/D were determined in this work for 1000-eV to 400-eV deuterium ions incident on a-C:H films. (orig.)

  5. Hydrogen ion-driven permeation in carbonaceous films

    Energy Technology Data Exchange (ETDEWEB)

    Anderl, R.A.; Holland, D.F.; Longhurst, G.R.

    1989-04-01

    This paper presents the results of investigations into the permeation properties of amorphous carbonaceous, a-C:H, films produced by plasmachemical deposition techniques. Carbonaceous films on iron substrates with thickness ranging from 60 nm to 110 nm were subjected to high fluence implantations with mass analyzed D/sub 3//sup +/ ions with energies ranging from 600 eV to 3000 eV and fluxes ranging from 5x10/sup 14/ D/cm/sup 2/ s to 5x10/sup 15/ D/cm/sup 2/ s, respectively. Deuterium re-emission upstream, deuterium permeation downstream and secondary ions sputtered from the implantation surface were measured as a function of implantation fluence for specimens at 420 K. The present studies indicate that the a-C:H film permeability is directly related to the time, hence the fluence, required to achieve isotopic replacement and saturation of the deuterium ion beam atoms stopped in the implant region. Once the deuterium saturation level is achieved in the layer, a significant fraction of the implanting ions can result in permeation. For the present experiment, this permeation factor was much higher than that for uncoated iron specimens subjected to similar beam conditions. Carbon sputter yields of 0.008-0.01 C/D were determined in this work for 1000-eV to 400-eV deuterium ions incident on a-C:H films. (orig.).

  6. Hydrogen ion-driven permeation in carbonaceous films

    Science.gov (United States)

    Anderl, R. A.; Holland, D. F.; Longhurst, G. R.

    1989-04-01

    This paper presents the results of investigations into the permeation properties of amorphous carbonaceous, a-C: H, films produced by plasmachemical deposition techniques. Carbonaceous films on iron substrates with thickness ranging from 60 nm to 110 nm were subjected to high fluence implantations with mass analyzed D +3 ions with energies ranging from 600 eV to 3000 eV and fluxes ranging from 5 × 10 14D/ cm2 s to 5 × 10 15D/ cm2 s, respectively. Deuterium re-emission upstream, deuterium permeation downstream and secondary ions sputtered from the implantation surface were measured as a function of implantation fluence for specimens at 420 K. The present studies indicate that the a-C : H film permeability is directly related to the time, hence the fluence, required to achieve isotopic replacement and saturation of the deuterium ion beam atoms stopped in the implant region. Once the deuterium saturation level is achieved in the layer, a significant fraction of the implanting ions can result in permeation. For the present experiment, this permeation factor was much higher than that for uncoated iron specimens subjected to similar beam conditions. Carbon sputter yields of 0.008-0.01 C/D were determined in this work for 1000-eV to 400-eV deuterium ions incident on a-C : H films.

  7. Hydrogen and deuterium permeation in copper alloys, copper--gold brazing alloys, gold, and the in situ growth of stable oxide permeation barriers

    International Nuclear Information System (INIS)

    Begeal, D.R.

    1978-01-01

    The deuterium permeation through several copper alloys has been measured over a temperature range of 550 to 830 K using the membrane technique. In some cases, the hydrogen permeability was also measured. The results were divided into three categories: common alloys, gold alloys, and stable oxide forming alloys. Common alloys which showed typical bulk metallic diffusion with litle change in the permeation activation energy as compared to copper (77 kJ/mol for D 2 ) were: (additions are in weight percent) 5% Sn, 2.3% U, 0.15% Zr, 4% Sn+4% Pb+4% Zn, 3% Si, and 7% Al+2% Fe. Compared to copper, the D 2 permeability at 573 K was reduced by factors of 2.0, 2.7, 4.5, 5.3, 5.9, and 7.0, respectively. A series of gold--copper alloys including pure gold, 80% Au, 50% Au, 49% Au, and 35% Au also showed typical bulk metallic diffusion with a trend of decreasing permeability (increasing activation energies for permeation) with increasing gold content. There were also pronounced inflections or shifts in the permeability at approx.370 0 C, or about the order--disorder transition for Cu 3 Au and CuAu, for the 80% and 50% alloys. Two alloys did not exhibit bulk metallic permeation behavior and the permeabiltiy was in fact controlled by surface oxide layers. It was found that a layer of beryllium oxide could be formed on Cu+2% Be and a layer of aluminum oxide could be formed on Cu+7% Al+2% Si. As compared to 0.25 mm-thick copper, the deuterium permeability at 500 0 C was reduced by a factor of approx.250 for Cu--Be and approx.1000 for Cu--Al--Si. The activation energies for deuterium permeation were 98 kJ/mol and 132 kJ/mol, respectively. The mechanism for the oxide growth is the high-temperature hydrogen reduction of nearby less stable oxides, simultaneous with oxidation of the active metal, Be or Al, by trace amounts of water in the hydrogen. Ion microprobe mass analysis identified the oxide layers as containing beryllium or aluminum but not containing copper

  8. Deuterium permeation of amorphous alumina coating on 316L prepared by MOCVD

    International Nuclear Information System (INIS)

    Li Shuai; He Di; Liu Xiaopeng; Wang Shumao; Jiang Lijun

    2012-01-01

    Highlights: ► Deuterium permeation behavior of alumina coating by MOCVD is investigated. ► The as-prepared alumina is amorphous. ► The alumina coating is dense and well adherent to substrate. ► Deuterium permeation rate of alumina coating is 2–3 orders of magnitude lower than martensitic steels. - Abstract: The deuterium permeation behavior of the alumina coating on 316L stainless steel prepared by metal organic chemical vapor deposition (MOCVD) was investigated. The alumina coating was also characterized by X-ray photoelectron spectroscopy (XPS), X-ray diffraction (XRD) and scanning electron microscope (SEM). It was found that the as-prepared coating consisted of amorphous alumina. This alumina coating had a dense, crack-free and homogeneous morphology. Although the alumina coating was amorphous, effective suppression of deuterium permeation was demonstrated. The deuterium permeability of the alumina coating was 51–60 times less than that of the 316L stainless steel and 153–335 times less than that of the referred low activation martensitic steels at 860–960 K.

  9. Free energy landscapes of electron transfer system in dipolar environment below and above the rotational freezing temperature

    International Nuclear Information System (INIS)

    Suzuki, Yohichi; Tanimura, Yoshitaka

    2007-01-01

    Electron transfer reaction in a polar solvent is modeled by a solute dipole surrounded by dipolar molecules with simple rotational dynamics posted on the three-dimensional distorted lattice sites. The interaction energy between the solute and solvent dipoles as a reaction coordinate is adopted and free energy landscapes are calculated by generating all possible states for a 26 dipolar system and by employing Wang-Landau sampling algorithm for a 92 dipolar system. For temperatures higher than the energy scale of dipole-dipole interactions, the free energy landscapes for the small reaction coordinate region have quadratic shape as predicted by Marcus [Rev. Mod. Phys. 65, 599 (1993)] whereas for the large reaction coordinate region, the landscapes exhibit a nonquadratic shape. When the temperature drops, small notched structures appear on the free energy profiles because of the frustrated interactions among dipoles. The formation of notched structure is analyzed with statistical approach and it is shown that the amplitude of notched structure depend upon the segment size of the reaction coordinate and is characterized by the interaction energy among the dipoles. Using simulated free energy landscapes, the authors calculate the reaction rates as a function of the energy gap for various temperatures. At high temperature, the reactions rates follow a bell shaped (inverted parabolic) energy gap law in the small energy gap regions, while it becomes steeper than the parabolic shape in a large energy gap regions due to the nonquadratic shape of the free energy landscape. The peak position of parabola also changes as the function of temperature. At low temperature, the profile of the reaction rates is no longer smooth because of the many local minima of the free energy landscape

  10. Dual-directional regulation of drug permeating amount by combining the technique of ion-pair complexation with chemical enhancers for the synchronous permeation of indapamide and bisoprolol in their compound patch through rabbit skin.

    Science.gov (United States)

    Song, Wenting; Cun, Dongmei; Quan, Peng; Liu, Nannan; Chen, Yang; Cui, Hongxia; Xiang, Rongwu; Fang, Liang

    2015-04-01

    To achieve the synchronous skin permeation of indapamide (IND) and bisoprolol (BSP) in their compound patch, the techniques of ion-pair complexation and chemical enhancers were combined to dual-directionally regulate drug permeating amounts. Ion-pair complexes of BSP and various organic acids were formed by the technique of ion-pair complexation. Among the complexes formed, bisoprolol tartrate (BSP.T) down-regulated the permeating amount of BSP to the same extent as that of IND. Then, to simultaneously up-regulate the amounts of the two drugs, an enhancer combination of 15.8% Span80 (SP), 6.0% Azone (AZ) and 2.2% N-methyl pyrrolidone (NMP) was obtained by central composite design and exhibited an outstanding and simultaneous enhancement on IND and BSP with enhancing ratio (ER) of 4.52 and 3.49, respectively. The effect of the dual-directional regulation was evaluated by in vitro permeation experiments and in vivo pharmacokinetic studies. For IND and BSP, their observed permeation profiles were comparable and their MAT (mean absorption time) showed no significant difference, which both demonstrated these two drugs achieved the synchronous skin permeation in their compound patch by the dual-directional regulation strategy of combining the technique of ion-pair complexation with chemical enhancers. Copyright © 2015 Elsevier B.V. All rights reserved.

  11. Deuterium gas-driven permeation and subsequent retention in rolled tungsten foils

    Energy Technology Data Exchange (ETDEWEB)

    Liu, Feng [Institute of Plasma Physics, Chinese Academy of Sciences, Hefei 230031 (China); Zhou, Haishan [Department of Fusion Science, The Graduate University for Advanced Studies, Toki 509-5292 (Japan); Li, Xiao-Chun [Institute of Plasma Physics, Chinese Academy of Sciences, Hefei 230031 (China); Xu, Yuping; An, Zhongqing [Institute of Plasma Physics, Chinese Academy of Sciences, Hefei 230031 (China); School of Nuclear Science and Technology, University of Science and Technology of China, Hefei 230026 (China); Mao, Hongmin; Xing, Wenjing [Institute of Plasma Physics, Chinese Academy of Sciences, Hefei 230031 (China); Hou, Qing [Key Laboratory for Radiation Physics and Technology, Sichuan University, Chengdu 610061 (China); Luo, Guang-Nan, E-mail: gnluo@ipp.ac.cn [Institute of Plasma Physics, Chinese Academy of Sciences, Hefei 230031 (China); School of Nuclear Science and Technology, University of Science and Technology of China, Hefei 230026 (China)

    2014-12-15

    Experiments concerning deuterium gas-driven permeation through rolled tungsten foils in the temperature range of 850–950 K and subsequent deuterium retention have been performed. The steady state permeation flux of deuterium is proportional to the square root of the driving pressure. The permeability of deuterium is in an order of 10{sup −14} mol m{sup −1} s{sup −1} Pa{sup −1/2} in this temperature range and the activation energy for permeation is 1.21 eV. Measurements of diffusivity are significantly affected by the driving pressure, which can be well explained by a saturable-trap model. Thermal desorption spectra of samples feature a single deuterium release peak at about 873 K. TMAP 4 modeling of this peak gives a detrapping energy of 1.70 eV, which fits the dissociation enthalpy of deuterium desorbing from the inner wall of vacancy clusters or pores in tungsten.

  12. Free energies of stable and metastable pores in lipid membranes under tension.

    Science.gov (United States)

    den Otter, Wouter K

    2009-11-28

    The free energy profile of pore formation in a lipid membrane, covering the entire range from a density fluctuation in an intact bilayer to a large tension-stabilized pore, has been calculated by molecular dynamics simulations with a coarse-grained lipid model. Several fixed elongations are used to obtain the Helmholtz free energy as a function of pore size for thermodynamically stable, metastable, and unstable pores, and the system-size dependence of these elongations is discussed. A link to the Gibbs free energy at constant tension, commonly known as the Litster model, is established by a Legendre transformation. The change of genus upon pore formation is exploited to estimate the saddle-splay modulus or Gaussian curvature modulus of the membrane leaflets. Details are provided of the simulation approach, which combines the potential of mean constraint force method with a reaction coordinate based on the local lipid density.

  13. On Diffusion and Permeation

    KAUST Repository

    Peppin, Stephen S. L.

    2009-01-01

    concentrations they form a nearly rigid porous glass through which the fluid permeates. The theoretically determined pressure drop is nonlinear in the diffusion regime and linear in the permeation regime, in quantitative agreement with experimental measurements

  14. Free energies of stable and metastable pores in lipid membranes under tension

    NARCIS (Netherlands)

    den Otter, Wouter K.

    2009-01-01

    The free energy profile of pore formation in a lipid membrane, covering the entire range from a density fluctuation in an intact bilayer to a large tension-stabilized pore, has been calculated by molecular dynamics simulations with a coarse-grained lipid model. Several fixed elongations are used to

  15. Water vapor permeation and dehumidification performance of poly(vinyl alcohol)/lithium chloride composite membranes

    KAUST Repository

    Bui, Duc Thuan

    2015-10-09

    Thin and robust composite membranes comprising stainless steel scaffold, fine and porous TiO2 and polyvinyl alcohol/lithium chloride were fabricated and studied for air dehumidification application. Higher hydrophilicity, sorption and permeation were observed for membranes with increased lithium chloride content up to 50%. The permeation and sorption properties of the membranes were investigated under different temperatures. The results provided a deeper insight into the membrane water vapor permeation process. It was specifically noted that lithium chloride significantly reduces water diffusion energy barrier, resulting in the change of permeation energy from positive to negative values. Higher water vapor permeance was observed for the membrane with higher LiCl content at lower temperature. The isothermal air dehumidification tests show that the membrane is suitable for dehumidifying air in high humid condition. Additionally, results also indicate a trade-off between the humidity ratio drop with the water vapor removal rate when varying air flowrate.

  16. Water permeation through anion exchange membranes

    Science.gov (United States)

    Luo, Xiaoyan; Wright, Andrew; Weissbach, Thomas; Holdcroft, Steven

    2018-01-01

    An understanding of water permeation through solid polymer electrolyte (SPE) membranes is crucial to offset the unbalanced water activity within SPE fuel cells. We examine water permeation through an emerging class of anion exchange membranes, hexamethyl-p-terphenyl poly (dimethylbenzimidazolium) (HMT-PMBI), and compare it against series of membrane thickness for a commercial anion exchange membrane (AEM), Fumapem® FAA-3, and a series of proton exchange membranes, Nafion®. The HMT-PMBI membrane is found to possess higher water permeabilities than Fumapem® FAA-3 and comparable permeability than Nafion (H+). By measuring water permeation through membranes of different thicknesses, we are able to decouple, for the first time, internal and interfacial water permeation resistances through anion exchange membranes. Permeation resistances on liquid/membrane interface is found to be negligible compared to that for vapor/membrane for both series of AEMs. Correspondingly, the resistance of liquid water permeation is found to be one order of magnitude smaller compared to that of vapor water permeation. HMT-PMBI possesses larger effective internal water permeation coefficient than both Fumapem® FAA-3 and Nafion® membranes (60 and 18% larger, respectively). In contrast, the effective interfacial permeation coefficient of HMT-PMBI is found to be similar to Fumapem® (±5%) but smaller than Nafion®(H+) (by 14%).

  17. Tritium permeation through iron

    International Nuclear Information System (INIS)

    Hagi, Hideki; Hayashi, Yasunori

    1989-01-01

    An experimental method for measuring diffusion coefficients and permeation rates of tritium in metals around room temperature has been established, and their values in iron have been obtained by using the method. Permeation rates of tritium and hydrogen through iron were measured by the electrochemical method in which a tritiated aqueous solution was used as a cathodic electrolyte. Tritium and hydrogen were introduced from one side of a membrane specimen by cathodic polarization, while at the other side of the specimen the permeating tritium and hydrogen were extracted by potentiostatical ionization. The amount of permeated hydrogen was obtained by integrating the anodic current, and that of tritium was determined by measuring the radioactivity of the electrolyte sampled from the extraction side. Diffusion coefficients of tritium (D T ) and hydrogen (D H ) were determined from the time lag of tritium and hydrogen permeation. D T =9x10 -10 m 2 /s and D H =4x10 -9 m 2 /s at 286 K for annealed iron specimens. These values of D T and D H were compared with the previous data of the diffusion coefficients of hydrogen and deuterium, and the isotope effect in diffusion was discussed. (orig.)

  18. Gibbs Free-Energy Gradient along the Path of Glucose Transport through Human Glucose Transporter 3.

    Science.gov (United States)

    Liang, Huiyun; Bourdon, Allen K; Chen, Liao Y; Phelix, Clyde F; Perry, George

    2018-06-11

    Fourteen glucose transporters (GLUTs) play essential roles in human physiology by facilitating glucose diffusion across the cell membrane. Due to its central role in the energy metabolism of the central nervous system, GLUT3 has been thoroughly investigated. However, the Gibbs free-energy gradient (what drives the facilitated diffusion of glucose) has not been mapped out along the transport path. Some fundamental questions remain. Here we present a molecular dynamics study of GLUT3 embedded in a lipid bilayer to quantify the free-energy profile along the entire transport path of attracting a β-d-glucose from the interstitium to the inside of GLUT3 and, from there, releasing it to the cytoplasm by Arrhenius thermal activation. From the free-energy profile, we elucidate the unique Michaelis-Menten characteristics of GLUT3, low K M and high V MAX , specifically suitable for neurons' high and constant demand of energy from their low-glucose environments. We compute GLUT3's binding free energy for β-d-glucose to be -4.6 kcal/mol in agreement with the experimental value of -4.4 kcal/mol ( K M = 1.4 mM). We also compute the hydration energy of β-d-glucose, -18.0 kcal/mol vs the experimental data, -17.8 kcal/mol. In this, we establish a dynamics-based connection from GLUT3's crystal structure to its cellular thermodynamics with quantitative accuracy. We predict equal Arrhenius barriers for glucose uptake and efflux through GLUT3 to be tested in future experiments.

  19. Accurate calculation of conformational free energy differences in explicit water: the confinement-solvation free energy approach.

    Science.gov (United States)

    Esque, Jeremy; Cecchini, Marco

    2015-04-23

    The calculation of the free energy of conformation is key to understanding the function of biomolecules and has attracted significant interest in recent years. Here, we present an improvement of the confinement method that was designed for use in the context of explicit solvent MD simulations. The development involves an additional step in which the solvation free energy of the harmonically restrained conformers is accurately determined by multistage free energy perturbation simulations. As a test-case application, the newly introduced confinement/solvation free energy (CSF) approach was used to compute differences in free energy between conformers of the alanine dipeptide in explicit water. The results are in excellent agreement with reference calculations based on both converged molecular dynamics and umbrella sampling. To illustrate the general applicability of the method, conformational equilibria of met-enkephalin (5 aa) and deca-alanine (10 aa) in solution were also analyzed. In both cases, smoothly converged free-energy results were obtained in agreement with equilibrium sampling or literature calculations. These results demonstrate that the CSF method may provide conformational free-energy differences of biomolecules with small statistical errors (below 0.5 kcal/mol) and at a moderate computational cost even with a full representation of the solvent.

  20. Tritium permeation in fusion reactors: INTOR

    International Nuclear Information System (INIS)

    Baskes, M.I.; Bauer, W.; Kerst, R.A.; Swansiger, W.A.; Wilson, K.L.

    1981-12-01

    Tritium permeation through the first wall of advanced fusion reactors is examined. A fraction of the D-T which bombards the first wall as charge exchange neutral particles will permeate through the first wall and enter the coolant. Calculations of the steady state permeation rate for the US INTOR Tokamak design result in values of less than or equal to 0.002 grams of tritium per day under the most favorable conditions. For unfavorable surface conditions the rate is greater than or equal to 0.1 g/day. The magnitude of these permeation rates is critically dependent on the temperatures and surface conditions of the wall. The introduction of permeation barriers at the wall-coolant interface can significantly reduce permeation rates and hence may be desirable for reactor applications

  1. Gas permeation process for post combustion CO2 capture

    International Nuclear Information System (INIS)

    Pfister, Marc

    2017-01-01

    CO 2 Capture and Storage (CCS) is a promising solution to separate CO 2 from flue gas, to reduce the CO 2 emissions in the atmosphere, and hence to reduce global warming. In CCS, one important constraint is the high additional energy requirement of the different capture processes. That statement is partly explained by the low CO 2 fraction in the inlet flue gas and the high output targets in terms of CO 2 capture and purity (≥90%). Gas permeation across dense membrane can be used in post combustion CO 2 capture. Gas permeation in a dense membrane is ruled by a mass transfer mechanism and separation performance in a dense membrane are characterized by component's effective permeability and selectivity. One of the newest and encouraging type of membrane in terms of separation performance is the facilitated transport membrane. Each particular type of membrane is defined by a specific mass transfer law. The most important difference to the mass transfer behavior in a dense membrane is related to the facilitated transport mechanism and the solution diffusion mechanism and its restrictions and limitations. Permeation flux modelling across a dense membrane is required to perform a post combustion CO 2 capture process simulation. A CO 2 gas permeation separation process is composed of a two-steps membrane process, one drying step and a compression unit. Simulation on the energy requirement and surface area of the different membrane modules in the global system are useful to determine the benefits of using dense membranes in a post combustion CO 2 capture technology. (author)

  2. Permeation behavior of deuterium implanted into beryllium

    Energy Technology Data Exchange (ETDEWEB)

    Nakamura, Hirofumi; Hayashi, Takumi; O' hira, Shigeru; Nishi, Masataka [Japan Atomic Energy Research Inst., Tokai, Ibaraki (Japan). Tokai Research Establishment

    2001-09-01

    Study on Implantation Driven Permeation (IDP) behavior of deuterium through pure beryllium was investigated as a part of the research to predict the tritium permeation through the first wall components ITER (International Thermonuclear Experimental Reactor). The permeation experiments were carried out with two beryllium specimens, one was an unannealed specimen and the other was that annealed at 1173 K. The permeation flux was measured as a function of specimen temperature and incident ion flux. Surface analysis of specimen was also carried out after the permeation experiment. Permeation was observed only with the annealed specimen and no significant permeation was observed with unannealed specimen under the present experimental condition (maximum temperature: 685 K, detection limit: 1x10{sup 13} D atoms/m{sup 2}s). It could be attributed that the intrinsic lattice defects, which act as diffusion preventing site, decreased with the specimen annealing. Based on the result of steady and transient permeation behavior and surface analysis, it was estimated that the deuterium permeation implanted into annealed beryllium was controlled by surface recombination due to the oxide layer on the surface of the permeated side. (author)

  3. Flibe-D2 Permeation Experiment and Analysis

    International Nuclear Information System (INIS)

    Fukada, S.; Anderl, R.A.; Pawelko, R.J.; Smolik, G.R.; Schuetz, S.T.; O'Brien, J.E.; Nishimura, H.; Hatano, Y.; Terai, T.; Petti, D.A.; Sze, D.-K.; Tanaka, S.

    2003-01-01

    Experiment of D 2 permeation through Ni facing with purified Flibe is being carried out under the Japan-US joint research project (JUPITER-II). The experiment is proceeding in the following phases; (i) fabrication and assembly of a dual-probe permeation apparatus, (ii) a single-probe Ni/D 2 permeation experiment without Flibe, (iii) a dual-probe Ni/D 2 permeation experiment without Flibe, (iv) Flibe chemical purification by HF/H 2 gas bubbling, (v) physical purification by Flibe transport through a porous Ni filter, (vi) Ni/Flibe/D 2 permeation experiment, and (vii) Ni/Flibe/HT permeation experiment. The present paper describes results of the single and dual Ni/D 2 permeation experiments in detail

  4. Transcriptome and membrane fatty acid analyses reveal different strategies for responding to permeating and non-permeating solutes in the bacterium Sphingomonas wittichii

    Directory of Open Access Journals (Sweden)

    Johnson David R

    2011-11-01

    Full Text Available Abstract Background Sphingomonas wittichii strain RW1 can completely oxidize dibenzo-p-dioxins and dibenzofurans, which are persistent contaminants of soils and sediments. For successful application in soil bioremediation systems, strain RW1 must cope with fluctuations in water availability, or water potential. Thus far, however, little is known about the adaptive strategies used by Sphingomonas bacteria to respond to changes in water potential. To improve our understanding, strain RW1 was perturbed with either the cell-permeating solute sodium chloride or the non-permeating solute polyethylene glycol with a molecular weight of 8000 (PEG8000. These solutes are assumed to simulate the solute and matric components of the total water potential, respectively. The responses to these perturbations were then assessed and compared using a combination of growth assays, transcriptome profiling, and membrane fatty acid analyses. Results Under conditions producing a similar decrease in water potential but without effect on growth rate, there was only a limited shared response to perturbation with sodium chloride or PEG8000. This shared response included the increased expression of genes involved with trehalose and exopolysaccharide biosynthesis and the reduced expression of genes involved with flagella biosynthesis. Mostly, the responses to perturbation with sodium chloride or PEG8000 were very different. Only sodium chloride triggered the increased expression of two ECF-type RNA polymerase sigma factors and the differential expression of many genes involved with outer membrane and amino acid metabolism. In contrast, only PEG8000 triggered the increased expression of a heat shock-type RNA polymerase sigma factor along with many genes involved with protein turnover and repair. Membrane fatty acid analyses further corroborated these differences. The degree of saturation of membrane fatty acids increased after perturbation with sodium chloride but had the

  5. Converging ligand-binding free energies obtained with free-energy perturbations at the quantum mechanical level.

    Science.gov (United States)

    Olsson, Martin A; Söderhjelm, Pär; Ryde, Ulf

    2016-06-30

    In this article, the convergence of quantum mechanical (QM) free-energy simulations based on molecular dynamics simulations at the molecular mechanics (MM) level has been investigated. We have estimated relative free energies for the binding of nine cyclic carboxylate ligands to the octa-acid deep-cavity host, including the host, the ligand, and all water molecules within 4.5 Å of the ligand in the QM calculations (158-224 atoms). We use single-step exponential averaging (ssEA) and the non-Boltzmann Bennett acceptance ratio (NBB) methods to estimate QM/MM free energy with the semi-empirical PM6-DH2X method, both based on interaction energies. We show that ssEA with cumulant expansion gives a better convergence and uses half as many QM calculations as NBB, although the two methods give consistent results. With 720,000 QM calculations per transformation, QM/MM free-energy estimates with a precision of 1 kJ/mol can be obtained for all eight relative energies with ssEA, showing that this approach can be used to calculate converged QM/MM binding free energies for realistic systems and large QM partitions. © 2016 The Authors. Journal of Computational Chemistry Published by Wiley Periodicals, Inc. © 2016 The Authors. Journal of Computational Chemistry Published by Wiley Periodicals, Inc.

  6. SOCIAL EQUIVALENT OF FREE ENERGY

    Directory of Open Access Journals (Sweden)

    Josip Stepanic

    2004-06-01

    Full Text Available Characterisation of unbounded resources of a social system within the sociological interpretation has resulted in a large number of different notions, which are relevant in different situations. From the view point of statistical mechanics, these notions resemble free energy. In this paper the concept of social free energy is introduced and first steps toward its development presented. The social free energy is a function equal to physical free energy appropriately determined for the social system, with intrinsically sociological interpretation as a measure of social action obtainable in a given social system without changes in its structure. Its construction is a consequence of response of a social system to recognised parts of environment dynamics. It is argued that development of a social system response resembles exciting the normal modes of a general, physical system.

  7. A permeation theory for single-file ion channels: one- and two-step models.

    Science.gov (United States)

    Nelson, Peter Hugo

    2011-04-28

    How many steps are required to model permeation through ion channels? This question is investigated by comparing one- and two-step models of permeation with experiment and MD simulation for the first time. In recent MD simulations, the observed permeation mechanism was identified as resembling a Hodgkin and Keynes knock-on mechanism with one voltage-dependent rate-determining step [Jensen et al., PNAS 107, 5833 (2010)]. These previously published simulation data are fitted to a one-step knock-on model that successfully explains the highly non-Ohmic current-voltage curve observed in the simulation. However, these predictions (and the simulations upon which they are based) are not representative of real channel behavior, which is typically Ohmic at low voltages. A two-step association/dissociation (A/D) model is then compared with experiment for the first time. This two-parameter model is shown to be remarkably consistent with previously published permeation experiments through the MaxiK potassium channel over a wide range of concentrations and positive voltages. The A/D model also provides a first-order explanation of permeation through the Shaker potassium channel, but it does not explain the asymmetry observed experimentally. To address this, a new asymmetric variant of the A/D model is developed using the present theoretical framework. It includes a third parameter that represents the value of the "permeation coordinate" (fractional electric potential energy) corresponding to the triply occupied state n of the channel. This asymmetric A/D model is fitted to published permeation data through the Shaker potassium channel at physiological concentrations, and it successfully predicts qualitative changes in the negative current-voltage data (including a transition to super-Ohmic behavior) based solely on a fit to positive-voltage data (that appear linear). The A/D model appears to be qualitatively consistent with a large group of published MD simulations, but no

  8. In vitro skin permeation and decontamination of the organophosphorus pesticide paraoxon under various physical conditions--evidence for a wash-in effect.

    Science.gov (United States)

    Misik, Jan; Pavlikova, Ruzena; Josse, Denis; Cabal, Jiri; Kuca, Kamil

    2012-09-01

    Misuse of various chemicals, such as chemical warfare agents, industrial chemicals or pesticides during warfare or terrorists attacks requires adequate protection. Thus, development and evaluation of novel decontamination dispositives and techniques are needed. In this study, in vitro permeation and decontamination of a potentially hazardous compound paraoxon, an active metabolite of organophosphorus pesticide parathion, was investigated. Skin permeation and decontamination experiments were carried out in modified Franz diffusion cells. Pig skin was used as a human skin model. Commercially produced detergent-based washing solutions FloraFree(™) and ArgosTM were used as decontamination means. The experiments were done under "warm", "cold", "dry" and "wet" skin conditions in order to determine an effect of various physical conditions on skin permeation of paraoxon and on a subsequent decontamination process. There was no significant difference in skin permeation of paraoxon under warm, cold and dry conditions, whereas wet conditions provided significantly higher permeation rates. In the selected conditions, decontamination treatments performed 1 h after a skin exposure did not decrease the agent volume that permeated through the skin. An exception were wet skin conditions with non-significant decontamination efficacy 18 and 28% for the FloraFree(™) and Argos(™) treatment, respectively. In contrast, the skin permeation of paraoxon under warm, cold and dry conditions increased up to 60-290% following decontamination compared to non-decontaminated controls. This has previously been described as a skin wash-in effect.

  9. Exploring the ab initio/classical free energy perturbation method: The hydration free energy of water

    International Nuclear Information System (INIS)

    Sakane, Shinichi; Yezdimer, Eric M.; Liu, Wenbin; Barriocanal, Jose A.; Doren, Douglas J.; Wood, Robert H.

    2000-01-01

    The ab initio/classical free energy perturbation (ABC-FEP) method proposed previously by Wood et al. [J. Chem. Phys. 110, 1329 (1999)] uses classical simulations to calculate solvation free energies within an empirical potential model, then applies free energy perturbation theory to determine the effect of changing the empirical solute-solvent interactions to corresponding interactions calculated from ab initio methods. This approach allows accurate calculation of solvation free energies using an atomistic description of the solvent and solute, with interactions calculated from first principles. Results can be obtained at a feasible computational cost without making use of approximations such as a continuum solvent or an empirical cavity formation energy. As such, the method can be used far from ambient conditions, where the empirical parameters needed for approximate theories of solvation may not be available. The sources of error in the ABC-FEP method are the approximations in the ab initio method, the finite sample of configurations, and the classical solvent model. This article explores the accuracy of various approximations used in the ABC-FEP method by comparing to the experimentally well-known free energy of hydration of water at two state points (ambient conditions, and 973.15 K and 600 kg/m3). The TIP4P-FQ model [J. Chem. Phys. 101, 6141 (1994)] is found to be a reliable solvent model for use with this method, even at supercritical conditions. Results depend strongly on the ab initio method used: a gradient-corrected density functional theory is not adequate, but a localized MP2 method yields excellent agreement with experiment. Computational costs are reduced by using a cluster approximation, in which ab initio pair interaction energies are calculated between the solute and up to 60 solvent molecules, while multi-body interactions are calculated with only a small cluster (5 to 12 solvent molecules). Sampling errors for the ab initio contribution to

  10. Ion-driven permeation of deuterium through tungsten under simultaneous helium and deuterium irradiation

    International Nuclear Information System (INIS)

    Lee, H.T.; Tanaka, H.; Ohtsuka, Y.; Ueda, Y.

    2011-01-01

    Ion-driven permeation of D through tungsten under simultaneous irradiation with He-D was measured as a function of temperature, flux, and energy. He reduced the permeation flux with the reduction increasing with decreasing temperature. The reduction in permeation flux followed a linear dependence to the incident flux at T > 1000 K, but shifted to a square root dependence at T < 1000 K. The results were interpreted as shifts from diffusion limited to recombination limited H transport according to Doyle and Brice's theory. Arrhenius functions of front diffusivity and recombination coefficients were derived and used to calculate the transport parameter W. The effect of He can be interpreted as changes to the front diffusivity that approaches H diffusion behavior in the absence of traps. The reduction in total concentration results in a shallower concentration gradient that can describe the observed decrease in permeation.

  11. Renewable Energy Country Profiles. Caribbean

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    2012-09-15

    IRENA Renewable Energy Country Profiles take stock of the latest developments in the field of renewables at country level around the world. Each profile combines analysis by IRENA's specialists with the latest available country data and additional information from a wide array of sources. The resulting reports provide a brief yet comprehensive picture of the situation with regard to renewable energy, including energy supply, electrical generation and grid capacity, and access. Energy policies, targets and projects are also considered, along with each country's investment climate and endowment with renewable energy resources. The energy statistics presented here span the period from 2009 until 2012, reflecting varying timelines in the source material. Since data availability differs from country to country, wider regional comparisons are possible only for the latest year with figures available for every country included. Despite the time lag in some cases, the evident differences and disparities between countries and regions around the world remain striking. The current package of country profiles is just a starting point. The geographic scope will continue to expand, and existing profiles will be enhanced with new indicators, with the whole series maintained as a live product on the IRENA website (www.irena.org)

  12. Effect of argon ion sputtering of surface on hydrogen permeation through vanadium

    International Nuclear Information System (INIS)

    Yamawaki, Michio; Namba, Takashi; Yoneoka, Toshiaki; Kanno, Masayoshi; Shida, Koji.

    1983-01-01

    In order to measure the hydrogen permeation rate through V with atomically cleaned surface, an Ar ion sputtering apparatus has been installed in the hydrogen permeability measuring system. The permeation rate of the initial specimen was found to be increased by about one order of magnitude after Ar ion sputtering of its upstream side surface. Repeating of such a sputter-cleaning was not so much effective in increasing the steady state permeation rate as the initial sputtering was, but it accelerated the transient response rate by a factor of 2 or 3. The transient response rate was also accelerated by the increase of hydrogen pressure, but this effect tended to be diminished by the sputter-cleaning of specimen surface. The surface impurity layer on the downstream side of specimen was also inferred to act as a diffusion barrier affecting the steady state permeation rate. The present value of activation energy for hydrogen permeation through V at temperatures below 873K was the smallest one ever obtained, showing that the surface effect was minimized in the present study on account of the surface sputter-cleaning in addition to the ultra high vacuum system. (author)

  13. Diabat Interpolation for Polymorph Free-Energy Differences.

    Science.gov (United States)

    Kamat, Kartik; Peters, Baron

    2017-02-02

    Existing methods to compute free-energy differences between polymorphs use harmonic approximations, advanced non-Boltzmann bias sampling techniques, and/or multistage free-energy perturbations. This work demonstrates how Bennett's diabat interpolation method ( J. Comput. Phys. 1976, 22, 245 ) can be combined with energy gaps from lattice-switch Monte Carlo techniques ( Phys. Rev. E 2000, 61, 906 ) to swiftly estimate polymorph free-energy differences. The new method requires only two unbiased molecular dynamics simulations, one for each polymorph. To illustrate the new method, we compute the free-energy difference between face-centered cubic and body-centered cubic polymorphs for a Gaussian core solid. We discuss the justification for parabolic models of the free-energy diabats and similarities to methods that have been used in studies of electron transfer.

  14. Free energy analysis of cell spreading.

    Science.gov (United States)

    McEvoy, Eóin; Deshpande, Vikram S; McGarry, Patrick

    2017-10-01

    In this study we present a steady-state adaptation of the thermodynamically motivated stress fiber (SF) model of Vigliotti et al. (2015). We implement this steady-state formulation in a non-local finite element setting where we also consider global conservation of the total number of cytoskeletal proteins within the cell, global conservation of the number of binding integrins on the cell membrane, and adhesion limiting ligand density on the substrate surface. We present a number of simulations of cell spreading in which we consider a limited subset of the possible deformed spread-states assumed by the cell in order to examine the hypothesis that free energy minimization drives the process of cell spreading. Simulations suggest that cell spreading can be viewed as a competition between (i) decreasing cytoskeletal free energy due to strain induced assembly of cytoskeletal proteins into contractile SFs, and (ii) increasing elastic free energy due to stretching of the mechanically passive components of the cell. The computed minimum free energy spread area is shown to be lower for a cell on a compliant substrate than on a rigid substrate. Furthermore, a low substrate ligand density is found to limit cell spreading. The predicted dependence of cell spread area on substrate stiffness and ligand density is in agreement with the experiments of Engler et al. (2003). We also simulate the experiments of Théry et al. (2006), whereby initially circular cells deform and adhere to "V-shaped" and "Y-shaped" ligand patches. Analysis of a number of different spread states reveals that deformed configurations with the lowest free energy exhibit a SF distribution that corresponds to experimental observations, i.e. a high concentration of highly aligned SFs occurs along free edges, with lower SF concentrations in the interior of the cell. In summary, the results of this study suggest that cell spreading is driven by free energy minimization based on a competition between decreasing

  15. Deuterium permeation of amorphous alumina coating on 316L prepared by MOCVD

    Science.gov (United States)

    Li, Shuai; He, Di; Liu, Xiaopeng; Wang, Shumao; Jiang, Lijun

    2012-01-01

    The deuterium permeation behavior of the alumina coating on 316L stainless steel prepared by metal organic chemical vapor deposition (MOCVD) was investigated. The alumina coating was also characterized by X-ray photoelectron spectroscopy (XPS), X-ray diffraction (XRD) and scanning electron microscope (SEM). It was found that the as-prepared coating consisted of amorphous alumina. This alumina coating had a dense, crack-free and homogeneous morphology. Although the alumina coating was amorphous, effective suppression of deuterium permeation was demonstrated. The deuterium permeability of the alumina coating was 51-60 times less than that of the 316L stainless steel and 153-335 times less than that of the referred low activation martensitic steels at 860-960 K.

  16. The free energy principle, negative energy modes, and stability

    International Nuclear Information System (INIS)

    Morrison, P.J.; Kotschenreuther, M.

    1990-01-01

    This paper is concerned with instability of equilibria of Hamiltonian, fluid and plasma dynamical systems. Usually the dynamical equilibrium of interest is not the state of thermodynamic equilibrium, and does not correspond to a free energy minimum. The relaxation of this type of equilibrium is conventionally considered to be initiated by linear instability. However, there are many cases where linear instability is not present, but the equilibrium is nonlinearly unstable to arbitrarily small perturbations. This paper is about general free energy expressions for determining the presence of linear or nonlinear instabilities. These expressions are simple and practical, and can be obtained for all equilibria of all ideal fluid and plasma models. By free energy, we mean the energy change upon perturbations of the equilibrium that respect dynamical phase space constraints. This quantity is measured by a self-adjoint quadratic form, called δ 2 F. The free energy can result in instability when δ 2 F is indefinite; i.e. there exist accessible perturbations that lower the free energy of the system. A primary purpose of this paper is to tie together three manifestations of what we will refer to as negative energy modes. The first is the conventional plasma physics notion of negative energy mode that is based on the definition of the energy in a homogeneous dielectric medium. A negative energy mode is a normal mode of the medium (plasma) that possesses negative dielectric energy. The second manifestation occurs in finite degree-of-freedom Hamiltonian normal form theory. The quadratic part of a Hamiltonian in the vicinity of an equilibrium point, which possesses only distinct oscillatory eigenvalues, has an invariant signature. Thus in cases where the quadratic form is indefinite, it is natural to refer to the modes corresponding to the negative signature as negative energy modes

  17. Influence of bulk and surface phenomena on the hydrogen permeation through metals

    International Nuclear Information System (INIS)

    Waelbroeck, F.; Wienhold, P.; Winter, J.; Rota, E.; Bauno, T.

    1984-12-01

    We discuss the permeation of hydrogen through metals and alloys such as iron, nickel, steels and Inconel wherein H dissolves endothermically from an H 2 gas. We assume first that trapping centers, surface contamination layers, the saturation of the H surface coverage and the implantation profile - when energetic ions drive the permeation - can be neglected, that a quasi-equilibrium exists between the H atom concentration ν in the adsorbed layer and c in the near surface layers and that the H solubility and diffusivity are homogeneous in the membrane. We evaluate thereafter separately the influence of these various effects and identify the parameter domains where appreciable corrections result. The permeation phenomenon is complex even when these simplifications are made: the penetration rate is proportional to the flux of thermal molecules, atoms or energetic ions - depending upon the case - which strike the surface; the diffusion in the metal is proportional to the gradient of c; the release rate depends on c 2 ; the time-dependent diffusion equation includes a double spatial derivative of c. Permeation can only be fully described when computer codes such as PERI is used. Simple analytical relations are however obtained in several limiting cases. They are the object of this report. Some of them had already been derived by other authors but they were not shown to be part of a single, self consistent permeation model. A comparison of predicted and experimental results shows that the simplified model describes surprisingly accurately the hydrogen exchange between gas and metal solutions. (orig./GSCH)

  18. Communication: Theoretical prediction of free-energy landscapes for complex self-assembly

    Energy Technology Data Exchange (ETDEWEB)

    Jacobs, William M.; Reinhardt, Aleks; Frenkel, Daan [Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW (United Kingdom)

    2015-01-14

    We present a technique for calculating free-energy profiles for the nucleation of multicomponent structures that contain as many species as building blocks. We find that a key factor is the topology of the graph describing the connectivity of the target assembly. By considering the designed interactions separately from weaker, incidental interactions, our approach yields predictions for the equilibrium yield and nucleation barriers. These predictions are in good agreement with corresponding Monte Carlo simulations. We show that a few fundamental properties of the connectivity graph determine the most prominent features of the assembly thermodynamics. Surprisingly, we find that polydispersity in the strengths of the designed interactions stabilizes intermediate structures and can be used to sculpt the free-energy landscape for self-assembly. Finally, we demonstrate that weak incidental interactions can preclude assembly at equilibrium due to the combinatorial possibilities for incorrect association.

  19. Country Energy Profile, South Africa

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1995-08-01

    This country energy profile provides energy and economic information about South Africa. Areas covered include: Economics, demographics, and environment; Energy situation; Energy structure; Energy investment opportunities; Department of Energy (DOE) programs in South Africa; and a listing of International aid to South Africa.

  20. Country Energy Profile, South Africa

    International Nuclear Information System (INIS)

    1995-08-01

    This country energy profile provides energy and economic information about South Africa. Areas covered include: Economics, demographics, and environment; Energy situation; Energy structure; Energy investment opportunities; Department of Energy (DOE) programs in South Africa; and a listing of International aid to South Africa

  1. Modell experiments to determine the effect of inhibitive oxide layers on metals against hydrogen permeation

    International Nuclear Information System (INIS)

    Zink, U.

    1983-11-01

    The coupling of H 2 -permeation and corrosion has been examined with the high-temperature alloys Incoloy 800 and Incoloy 802. Permeationsrates as well as corrosionsrates have been measured simultanously under H 2 O-H 2 atmospheres in the test-facility HD-PERM. Test parameters have been temperature and oxidationpotential. Parabolic laws for the growth of the oxide scales have been identified and are considered to be highly important for the efficiency of a permeation barrier. A comparison between the temperature dependencies of corrosionsrates and H 2 -permeationsrates has revealed that permeation and corrosion are coupled only in so far that the permeation barrier is formed by the corrosion reaction. The corrosion data (parabolic rate constant, activation energy) of the oxide scales have given clear indications for the existence of a Cr 2 O 3 -layer, which is considered to be responsible for efficient oxide permeation barriers. (orig.) [de

  2. Calculation of molecular free energies in classical potentials

    International Nuclear Information System (INIS)

    Farhi, Asaf; Singh, Bipin

    2016-01-01

    Free energies of molecules can be calculated by quantum chemistry computations or by normal mode classical calculations. However, the first can be computationally impractical for large molecules and the second is based on the assumption of harmonic dynamics. We present a novel, accurate and complete calculation of molecular free energies in standard classical potentials. In this method we transform the molecule by relaxing potential terms which depend on the coordinates of a group of atoms in that molecule and calculate the free energy difference associated with the transformation. Then, since the transformed molecule can be treated as non-interacting systems, the free energy associated with these atoms is analytically or numerically calculated. This two-step calculation can be applied to calculate free energies of molecules or free energy difference between (possibly large) molecules in a general environment. We demonstrate the method in free energy calculations for methanethiol and butane molecules in vacuum and solvent. We suggest the potential application of free energy calculation of chemical reactions in classical molecular simulations. (paper)

  3. Fermentation of lactose to ethanol in cheese whey permeate and concentrated permeate by engineered Escherichia coli.

    Science.gov (United States)

    Pasotti, Lorenzo; Zucca, Susanna; Casanova, Michela; Micoli, Giuseppina; Cusella De Angelis, Maria Gabriella; Magni, Paolo

    2017-06-02

    Whey permeate is a lactose-rich effluent remaining after protein extraction from milk-resulting cheese whey, an abundant dairy waste. The lactose to ethanol fermentation can complete whey valorization chain by decreasing dairy waste polluting potential, due to its nutritional load, and producing a biofuel from renewable source at the same time. Wild type and engineered microorganisms have been proposed as fermentation biocatalysts. However, they present different drawbacks (e.g., nutritional supplements requirement, high transcriptional demand of recombinant genes, precise oxygen level, and substrate inhibition) which limit the industrial attractiveness of such conversion process. In this work, we aim to engineer a new bacterial biocatalyst, specific for dairy waste fermentation. We metabolically engineered eight Escherichia coli strains via a new expression plasmid with the pyruvate-to-ethanol conversion genes, and we carried out the selection of the best strain among the candidates, in terms of growth in permeate, lactose consumption and ethanol formation. We finally showed that the selected engineered microbe (W strain) is able to efficiently ferment permeate and concentrated permeate, without nutritional supplements, in pH-controlled bioreactor. In the conditions tested in this work, the selected biocatalyst could complete the fermentation of permeate and concentrated permeate in about 50 and 85 h on average, producing up to 17 and 40 g/l of ethanol, respectively. To our knowledge, this is the first report showing efficient ethanol production from the lactose contained in whey permeate with engineered E. coli. The selected strain is amenable to further metabolic optimization and represents an advance towards efficient biofuel production from industrial waste stream.

  4. Free energy of hydration of niobium oxide

    International Nuclear Information System (INIS)

    Plodinec, M.J.

    1996-01-01

    Some of the glasses being formulated by SRTC researchers contain niobium oxide. In this report, the free energy of hydration of the oxide is calculated from the free energies of formation of the oxide, the hydroxide, and water. This value can be used in calculations of the free energy of hydration of glasses containing niobium

  5. Liposomal buccal mucoadhesive film for improved delivery and permeation of water-soluble vitamins.

    Science.gov (United States)

    Abd El Azim, Heba; Nafee, Noha; Ramadan, Alyaa; Khalafallah, Nawal

    2015-07-05

    This study aims at improving the buccal delivery of vitamin B6 (VB6) as a model highly water-soluble, low permeable vitamin. Two main strategies were combined; first VB6 was entrapped in liposomes, which were then formulated as mucoadhesive film. Both plain and VB6-loaded liposomes (LPs) containing Lipoid S100 and propylene glycol (∼ 200 nm) were then incorporated into mucoadhesive film composed of SCMC and HPMC. Results showed prolonged release of VB6 (72.65%, T50% diss 105 min) after 6h from LP-film compared to control film containing free VB6 (96.37%, T50% diss 30 min). Mucoadhesion was assessed both ex vivo on chicken pouch and in vivo in human. Mucoadhesive force of 0.2N and residence time of 4.4h were recorded. Ex vivo permeation of VB6, across chicken pouch mucosa indicated increased permeation from LP-systems compared to corresponding controls. Interestingly, incorporation of the vesicles in mucoadhesive film reduced the flux by 36.89% relative to LP-dispersion. Meanwhile, both films provided faster initial permeation than the liquid forms. Correlating the cumulative percent permeated ex vivo with the cumulative percent released in vitro indicated that LPs retarded VB6 release but improved permeation. These promising results represent a step forward in the field of buccal delivery of water-soluble vitamins. Copyright © 2015 Elsevier B.V. All rights reserved.

  6. Alfuzosin hydrochloride transdermal films: evaluation of physicochemical, in vitro human cadaver skin permeation and thermodynamic parameters

    Directory of Open Access Journals (Sweden)

    Satyanarayan Pattnaik

    2009-12-01

    Full Text Available Purpose: The main objective of the investigation was to develop a transdermal therapeutic system for alfuzosin hydrochloride and to study the effects of polymeric system and loading dose on the in vitro skin permeation pattern. Materials and methods: Principles of experimental design have been exploited to develop the dosage form. Ratio of ethyl cellulose (EC and polyvinyl pyrrolidone (PVP and loading dose were selected as independent variables and their influence on the cumulative amount of alfuzosin hydrochloride permeated per cm2 of human cadaver skin at 24 h (Q24, permeation flux (J and steady state permeability coefficient (P SS were studied using experimental design. Various physicochemical parameters of the transdermal films were also evaluated. Activation energy for in vitro transdermal permeation has been estimated. Results: Ratio of EC and PVP was found to be the main influential factor for all the dependent variables studied. Drug loading dose was also found to influence the dependent variables but to a lesser extent. Physicochemical parameters of the prepared films were evaluated and found satisfactory. Activation energy for alfuzosin permeation has also been estimated and reported. Conclusion: The therapeutic system was found to be dermatologically non-irritant and hence, a therapeutically effective amount of alfuzosin hydrochloride can be delivered via a transdermal route.

  7. Renewable Energy Country Profiles. Pacific

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    2012-09-15

    The IRENA Renewable Energy Country Profiles take stock of the latest development of renewable energy in two regions where renewable energy can make a significant contribution to combat climate change and bring modern energy services to everyone: Africa and the Pacific. These two regions are presented separately in this volume and its sister publication. The country profiles combine elements of IRENA analysis with the latest information available from a vast array of sources in order to give a brief yet comprehensive and up-to-date picture of the situation of renewable energy that includes energy supply, electrical capacity, energy access, policies, targets, investment climate, projects and endowment in renewable energy resources. Because of the different timelines of these sources, data presented here refer to years between 2008 and 2012. Data availability also differs from country to country, which makes comparison with a wider regional group possible only for the year for which figures are available for all the members of the group; while this may not be the most recent year, the differences between countries, regions and the world remain striking. The current country profiles are just a starting point; they will be extended upon with new indicators to make them more informative, and maintained as a live product on the IRENA website as a key source of information on renewable energy.

  8. Renewable Energy Country Profiles. Africa

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    2012-02-15

    The IRENA Renewable Energy Country Profiles take stock of the latest development of renewable energy in two regions where renewable energy can make a significant contribution to combat climate change and bring modern energy services to everyone: Africa and the Pacific. These two regions are presented separately in this volume and its sister publication. The country profiles combine elements of IRENA analysis with the latest information available from a vast array of sources in order to give a brief yet comprehensive and up-to-date picture of the situation of renewable energy that includes energy supply, electrical capacity, energy access, policies, targets, investment climate, projects and endowment in renewable energy resources. Because of the different timelines of these sources, data presented here refer to years between 2008 and 2012. Data availability also differs from country to country, which makes comparison with a wider regional group possible only for the year for which figures are available for all the members of the group; while this may not be the most recent year, the differences between countries, regions and the world remain striking. The current country profiles are just a starting point; they will be extended upon with new indicators to make them more informative, and maintained as a live product on the IRENA website as a key source of information on renewable energy.

  9. Evaluation of whey, milk, and delactosed permeates as salt substitutes.

    Science.gov (United States)

    Smith, S T; Metzger, L; Drake, M A

    2016-11-01

    Whey and milk permeates are by-products of high-protein dairy powder manufacture. Previous work has shown that these permeates contribute to salty taste without contributing significantly to sodium content. The objective of this study was to explore the sensory characteristics and compositional analysis of permeates from different milk and whey streams and a low-sodium product application made from them. Skim milk, Cheddar, cottage, and Mozzarella cheese whey permeates were manufactured in triplicate, and delactosed whey permeate was obtained in triplicate. Composition (protein, fat, solids, minerals) was conducted on permeates. Organic acid composition was determined using HPLC. Volatile compounds were extracted from permeates by solid phase microextraction with gas chromatography-mass spectrometry. A trained sensory panel documented sensory attributes of permeates and cream of broccoli soups with and without salt or permeates followed by consumer acceptance testing (n=105) on the soups. Cottage cheese whey permeate contained a higher lactic acid content than other permeates, which has been shown to contribute to a higher salty taste. Cottage cheese whey permeate also contained potato or brothy and caramel flavors and sour and salty tastes, whereas delactosed whey permeate had high intensities of cardboard and beefy or brothy flavors and salty taste. Milk, Cheddar, and Mozzarella cheese whey permeates were characterized by sweet taste and cooked milky flavor. Permeates with higher cardboard flavor had higher levels of aldehydes. All permeates contributed to salty taste and to salty taste perception in soups; although the control soup with added salt was perceived as saltier and was preferred by consumers over permeate soups. Soup with permeate from cottage cheese was the least liked of all soups, likely due to its sour taste. All other permeate soups scored at parity for liking. These results demonstrate the potential for milk, whey, and delactosed permeates from

  10. Counter-diffusion and -permeation of deuterium and hydrogen through metals

    Energy Technology Data Exchange (ETDEWEB)

    Kizu, Kaname; Tanabe,; Tetsuo, [Nagoya Univ. (Japan)

    1998-03-01

    The first experiments for counter-diffusion and -permeation of deuterium and hydrogen through palladium were performed. Deuterium permeation rates against D{sub 2} pressure were measured under the condition where hydrogen permeated to opposite direction by supplying H{sub 2} gas at the permeated side of D{sub 2}. It was found that not a small amount of deuterium was clearly permeated even if the deuterium pressure was much smaller than the hydrogen pressure. Deuterium permeation rate was gradually reduced by increasing the counter H permeation. The deuterium permeation rate under the counter H permeation is well represented by a simple model in which the ratio of the deuterium permeation rates with and without the counter H permeation was proportional to the fractional concentration of deuterium in the bulk. As increasing the hydrogen counter flow, however, the deuterium permeation rate deviates from the model. This means that adsorption (absorption) of D{sub 2} from gas phase is inhibited and surface recombination of deuterium is blocked by hydrogen. (author)

  11. The Limit of Free Magnetic Energy in Active Regions

    Science.gov (United States)

    Moore, Ron; Falconer, David; Sterling, Alphonse

    2012-01-01

    By measuring from active-region magnetograms a proxy of the free energy in the active region fs magnetic field, it has been found previously that (1) there is an abrupt upper limit to the free energy the field can hold that increases with the amount of magnetic field in the active region, the active region fs magnetic flux content, and (2) the free energy is usually near its limit when the field explodes in a CME/flare eruption. That is, explosive active regions are concentrated in a main-sequence path bordering the free-energy ]limit line in (flux content, free-energy proxy) phase space. Here, from measurement of Marshall Space Flight Center vector magnetograms, we find the magnetic condition that underlies the free ]energy limit and the accompanying main sequence of explosive active regions. Using a suitable free ]energy proxy measured from vector magnetograms of 44 active regions, we find that (1) in active regions at and near their free ]energy limit, the ratio of magnetic-shear free energy to the non ]free magnetic energy the potential field would have is approximately 1 in the core field, the field rooted along the neutral line, and (2) this ratio is progressively less in active regions progressively farther below their free ]energy limit. This shows that most active regions in which this core-field energy ratio is much less than 1 cannot be triggered to explode; as this ratio approaches 1, most active regions become capable of exploding; and when this ratio is 1 or greater, most active regions are compelled to explode. From these results we surmise the magnetic condition that determines the free ]energy limit is the ratio of the free magnetic energy to the non-free energy the active region fs field would have were it completely relaxed to its potential ]field configuration, and that this ratio is approximately 1 at the free-energy limit and in the main sequence of explosive active regions.

  12. Good Practices in Free-energy Calculations

    Science.gov (United States)

    Pohorille, Andrew; Jarzynski, Christopher; Chipot, Christopher

    2013-01-01

    As access to computational resources continues to increase, free-energy calculations have emerged as a powerful tool that can play a predictive role in drug design. Yet, in a number of instances, the reliability of these calculations can be improved significantly if a number of precepts, or good practices are followed. For the most part, the theory upon which these good practices rely has been known for many years, but often overlooked, or simply ignored. In other cases, the theoretical developments are too recent for their potential to be fully grasped and merged into popular platforms for the computation of free-energy differences. The current best practices for carrying out free-energy calculations will be reviewed demonstrating that, at little to no additional cost, free-energy estimates could be markedly improved and bounded by meaningful error estimates. In energy perturbation and nonequilibrium work methods, monitoring the probability distributions that underlie the transformation between the states of interest, performing the calculation bidirectionally, stratifying the reaction pathway and choosing the most appropriate paradigms and algorithms for transforming between states offer significant gains in both accuracy and precision. In thermodynamic integration and probability distribution (histogramming) methods, properly designed adaptive techniques yield nearly uniform sampling of the relevant degrees of freedom and, by doing so, could markedly improve efficiency and accuracy of free energy calculations without incurring any additional computational expense.

  13. Permeation of Comite through protective gloves.

    Science.gov (United States)

    Zainal, Hanaa; Que Hee, Shane S

    2006-09-01

    The goal of the study was to assess how protective disposable (Safeskin) and chemical protective (Sol-Vex) nitrile gloves were against Comite emulsifiable concentrate formulation containing propargite (PROP) as active pesticidal ingredient, because there were no explicit recommendations for the gloves that should be worn for hand protection. The glove material was exposed in ASTM-type I-PTC-600 permeation cells at 30.0+/-0.5 degrees C, and gas chromatography-mass spectrometry used for PROP analysis. Aqueous solutions of Comite at 40.4 mg/mL permeated both Safeskin and Sol-Vex nitrile by 8h. Safeskin showed a mean PROP mass permeated of 176+/-27 microg after 8h compared with a mean mass permeated for Sol-Vex of 3.17+/-4.08 microg. Thus, Sol-Vex was about 56 times more protective than Safeskin for an 8-h exposure. However, the kinetics of the permeation revealed that Safeskin can be worn for at least 200 min before disposal. When undiluted Comite challenged both types of nitrile, much faster permeation was observed. Safeskin gloves showed two steady state periods. The first had lag times (t(l)) values of about 1h, although normalized breakthrough times (t(b)) were gloves exposed continuously to undiluted Comite permeated above the normalized breakthrough threshold beyond 2.7h. A risk assessment revealed that the PROP skin permeation rate of 7.1 ng cm(-2)h(-1) was much slower than the first steady state Safeskin glove P(s) of 62,000 ng cm(-2)h(-1). Infrared analysis showed that the glove surfaces were not degraded by the Comite challenge. The chemically protective Sol-Vex gloves protected adequately against undiluted formulation for about 2.7h, whereas they provided protection for nearly 8h when the formulation was diluted with water to the highest concentration for field application. In contrast, the disposable Safeskin gloves did not protect at all for the undiluted formulation, but did for 200 min when the formulation was diluted with water to the highest

  14. Replica Exchange Gaussian Accelerated Molecular Dynamics: Improved Enhanced Sampling and Free Energy Calculation.

    Science.gov (United States)

    Huang, Yu-Ming M; McCammon, J Andrew; Miao, Yinglong

    2018-04-10

    Through adding a harmonic boost potential to smooth the system potential energy surface, Gaussian accelerated molecular dynamics (GaMD) provides enhanced sampling and free energy calculation of biomolecules without the need of predefined reaction coordinates. This work continues to improve the acceleration power and energy reweighting of the GaMD by combining the GaMD with replica exchange algorithms. Two versions of replica exchange GaMD (rex-GaMD) are presented: force constant rex-GaMD and threshold energy rex-GaMD. During simulations of force constant rex-GaMD, the boost potential can be exchanged between replicas of different harmonic force constants with fixed threshold energy. However, the algorithm of threshold energy rex-GaMD tends to switch the threshold energy between lower and upper bounds for generating different levels of boost potential. Testing simulations on three model systems, including the alanine dipeptide, chignolin, and HIV protease, demonstrate that through continuous exchanges of the boost potential, the rex-GaMD simulations not only enhance the conformational transitions of the systems but also narrow down the distribution width of the applied boost potential for accurate energetic reweighting to recover biomolecular free energy profiles.

  15. Connecting free energy surfaces in implicit and explicit solvent: an efficient method to compute conformational and solvation free energies.

    Science.gov (United States)

    Deng, Nanjie; Zhang, Bin W; Levy, Ronald M

    2015-06-09

    The ability to accurately model solvent effects on free energy surfaces is important for understanding many biophysical processes including protein folding and misfolding, allosteric transitions, and protein–ligand binding. Although all-atom simulations in explicit solvent can provide an accurate model for biomolecules in solution, explicit solvent simulations are hampered by the slow equilibration on rugged landscapes containing multiple basins separated by barriers. In many cases, implicit solvent models can be used to significantly speed up the conformational sampling; however, implicit solvent simulations do not fully capture the effects of a molecular solvent, and this can lead to loss of accuracy in the estimated free energies. Here we introduce a new approach to compute free energy changes in which the molecular details of explicit solvent simulations are retained while also taking advantage of the speed of the implicit solvent simulations. In this approach, the slow equilibration in explicit solvent, due to the long waiting times before barrier crossing, is avoided by using a thermodynamic cycle which connects the free energy basins in implicit solvent and explicit solvent using a localized decoupling scheme. We test this method by computing conformational free energy differences and solvation free energies of the model system alanine dipeptide in water. The free energy changes between basins in explicit solvent calculated using fully explicit solvent paths agree with the corresponding free energy differences obtained using the implicit/explicit thermodynamic cycle to within 0.3 kcal/mol out of ∼3 kcal/mol at only ∼8% of the computational cost. We note that WHAM methods can be used to further improve the efficiency and accuracy of the implicit/explicit thermodynamic cycle.

  16. Three dimensional energy profile:

    International Nuclear Information System (INIS)

    Kowsari, Reza; Zerriffi, Hisham

    2011-01-01

    The provision of adequate, reliable, and affordable energy has been considered as a cornerstone of development. More than one-third of the world's population has a very limited access to modern energy services and suffers from its various negative consequences. Researchers have been exploring various dimensions of household energy use in order to design strategies to provide secure access to modern energy services. However, despite more than three decades of effort, our understanding of household energy use patterns is very limited, particularly in the context of rural regions of the developing world. Through this paper, the past and the current trends in the field of energy analysis are investigated. The literature on rural energy and energy transition in developing world has been explored and the factors affecting households' decisions on energy use are listed. The and the factors affecting households' decisions on energy use are listed. The gaps identified in the literature on rural household energy analysis provide a basis for developing an alternative model that can create a more realistic view of household energy use. The three dimensional energy profile is presented as a new conceptual model for assessment of household energy use. This framework acts as a basis for building new theoretical and empirical models of rural household energy use. - Highlights: ► Reviews literature on household energy, energy transitions and decision-making in developing countries. ► Identifies gaps in rural household energy analysis and develops a new conceptual framework. ► The 3-d energy profile provides a holistic view of household energy system characteristics. ► Illustrates the use of the framework for understanding household energy transitions.

  17. In-site coatings to reduce H and Tr permeation

    International Nuclear Information System (INIS)

    Stoever, D.; Buchkremer, H.P.; Hecker, R.; Jonas, H.; Schaefer, J.; Zink, U.; Forsyth, N.; Thiele, W.

    1982-01-01

    The main goal of this project is the development of protective coatings to reduce or prevent Tr and H permeation through the heat exchanger walls of HTR components. The tasks of the project are: Measurement of the permeation inhibition efficiency of oxidic coatings on the high-temperature- resistant heat exchanger walls; establishing the parameters influencing permeation by variation of the process gas and steam parameters, temperature and mechanical stress; characterisation of coatings and correlation of coating characteristics with permeation measurements; investigation of permeation and corrosion mechanisms; quantitative description of H and Tr permeation by means of mathematical/physical models. (orig./IHOE) [de

  18. Uncertainty Quantification in Alchemical Free Energy Methods.

    Science.gov (United States)

    Bhati, Agastya P; Wan, Shunzhou; Hu, Yuan; Sherborne, Brad; Coveney, Peter V

    2018-05-02

    Alchemical free energy methods have gained much importance recently from several reports of improved ligand-protein binding affinity predictions based on their implementation using molecular dynamics simulations. A large number of variants of such methods implementing different accelerated sampling techniques and free energy estimators are available, each claimed to be better than the others in its own way. However, the key features of reproducibility and quantification of associated uncertainties in such methods have barely been discussed. Here, we apply a systematic protocol for uncertainty quantification to a number of popular alchemical free energy methods, covering both absolute and relative free energy predictions. We show that a reliable measure of error estimation is provided by ensemble simulation-an ensemble of independent MD simulations-which applies irrespective of the free energy method. The need to use ensemble methods is fundamental and holds regardless of the duration of time of the molecular dynamics simulations performed.

  19. Permeation mechanisms of pulsed microwave plasma deposited silicon oxide films for food packaging applications

    International Nuclear Information System (INIS)

    Deilmann, Michael; Grabowski, Mirko; Theiss, Sebastian; Bibinov, Nikita; Awakowicz, Peter

    2008-01-01

    Silicon oxide barrier layers are deposited on polyethylene terephthalate as permeation barriers for food packaging applications by means of a low pressure microwave plasma. Hexamethyldisiloxane (HMDSO) and oxygen are used as process gases to deposit SiO x coatings via pulsed low pressure plasmas. The layer composition of the coating is investigated by Fourier transform infrared spectroscopy and energy dispersive x-ray spectroscopy to show correlations with barrier properties of the films. The oxygen permeation barrier is determined by the carrier gas method using an electrochemical detector. The transition from low to high barrier films is mapped by the transition from organic SiO x C y H z layers to quartz-like SiO 1.7 films containing silanol bound hydrogen. A residual permeation as low as J = 1 ± 0.3 cm 3 m -2 day -1 bar -1 is achieved, which is a good value for food packaging applications. Additionally, the activation energy E p of oxygen permeation is analysed and a strong increase from E p = 31.5 kJ mol -1 for SiO x C y H z -like coatings to E p = 53.7 kJ mol -1 for SiO 1.7 films is observed by increasing the oxygen dilution of HMDSO:O 2 plasma. The reason for the residual permeation of high barrier films is discussed and coating defects are visualized by capacitively coupled atomic oxygen plasma etching of coated substrates. A defect density of 3000 mm -2 is revealed

  20. Effect of maize, rumen-protected fat and whey permeate on energy utilisation and milk fat composition in lactating goats

    Directory of Open Access Journals (Sweden)

    Giovanna Battelli

    2010-01-01

    Full Text Available The efficiency of utilisation of diets with different proportions of energy sources (starch, fat, lactose was studied with three pairs of lactating Saanen goats; the animals were fed, in a Latin square design, 3 silage-based diets containing (on DM basis the following energy sources: 32% maize meal (diet M; 4.7% rumen-protected fat (Megalac® and 23.5% maize meal (diet F; 9.8% milk whey permeate powder and 22.3% maize meal (diet W. During each of the three experimental periods, 8 days of total collection balance trials were conducted during which goats were allocated for 72 h (three 24 h cycles in open circuit respiration chambers to determine methane and heat production and, hence, the energy balance. Diet F, in comparison with diets M and W, significantly increased the milk fat content (4.13 vs 3.11 and 3.14%, P<0.001 and the 4%-FCM yield (3367 vs 2927 and 3055 g/d, P<0.01 and P<0.05, respectively, while no relevant changes were observed for milk protein content and yield. Energy digestibility was equal in diets F and W. Megalac® did not decrease fibre digestibility. The partition of the gross energy intake (EI differed significantly between diets: diet M had lower DE (72.4 vs 74.3 and 74.3%; P<0.01 and ME (62.1 vs 64.7 and 63.5%; P<0.05 in comparison with diets F and W, respectively. Energy lost as methane was not significantly decreased by the inclusion of rumen- protected fat in the diet, although a trend for a reduction of methanogenesis was observed. Heat production deter- mined by treatment F was lower in comparison with the other treatments. This difference was almost significant (P=0.056 when expressed as a percentage of the ME. Milk energy output increased significantly (+12%, P<0.001 by including fat in the diet, as compared with treatments M and W: 21.4 vs 19.1 and 19.0% of the EI. The net ener- gy content of the protected fat was 27.94 MJ NEl/kg DM (+340% vs maize meal; its kl value resulted 0.77. The corresponding values for whey

  1. Effect of hygroscopic materials on water vapor permeation and dehumidification performance of poly(vinyl alcohol) membranes

    KAUST Repository

    Bui, T. D.; Wong, Y.; Thu, K.; Oh, S. J.; Kum Ja, M.; Ng, Kim Choon; Raisul, I.; Chua, K. J.

    2017-01-01

    increased with both added hygroscopic material and absorbed water. Water permeation energy varied from positive to negative with higher hygroscopic content. This observation is attributed to a lower diffusion energy and a relatively constant sorption energy

  2. Permeation of hydrogen through metal membranes

    International Nuclear Information System (INIS)

    Wienhold, P.; Rota, E.; Waelbroeck, F.; Winter, J.; Banno, Tatsuya.

    1986-08-01

    Experiments show that the permeant flux of hydrogen through a metal membrane at low driving pressures ( r is introduced into the model as a new material constant and the rate equations are given. After the description of the wall pump effect, a variety of different limiting cases are discussed for a symmetrical permeation membrane. This is modified to the asymmetric case and to the influence of particle implantation. The permeation number W turns out to be a dimensionless quantity which characterizes the permeation range and predicts the permeant flux in steady state. (orig.)

  3. 2004 energy balances and electricity profiles

    International Nuclear Information System (INIS)

    2007-02-01

    The Energy Balances and Electricity Profiles 2004 is the thirteenth issue in an internationally series of comparable energy data for selected developing countries. The data are arranged to show energy production, trade, conversion and consumption for each fuel used in the country. This publication is a source of overall consumption statistics of energy commodities in all sectors. Special electricity profiles for an additional group of countries are published to cover, exclusively, detailed information on production, trade and consumption of electricity, net installed capacity and thermal power plant input for selected developing countries

  4. Learning free energy landscapes using artificial neural networks.

    Science.gov (United States)

    Sidky, Hythem; Whitmer, Jonathan K

    2018-03-14

    Existing adaptive bias techniques, which seek to estimate free energies and physical properties from molecular simulations, are limited by their reliance on fixed kernels or basis sets which hinder their ability to efficiently conform to varied free energy landscapes. Further, user-specified parameters are in general non-intuitive yet significantly affect the convergence rate and accuracy of the free energy estimate. Here we propose a novel method, wherein artificial neural networks (ANNs) are used to develop an adaptive biasing potential which learns free energy landscapes. We demonstrate that this method is capable of rapidly adapting to complex free energy landscapes and is not prone to boundary or oscillation problems. The method is made robust to hyperparameters and overfitting through Bayesian regularization which penalizes network weights and auto-regulates the number of effective parameters in the network. ANN sampling represents a promising innovative approach which can resolve complex free energy landscapes in less time than conventional approaches while requiring minimal user input.

  5. Learning free energy landscapes using artificial neural networks

    Science.gov (United States)

    Sidky, Hythem; Whitmer, Jonathan K.

    2018-03-01

    Existing adaptive bias techniques, which seek to estimate free energies and physical properties from molecular simulations, are limited by their reliance on fixed kernels or basis sets which hinder their ability to efficiently conform to varied free energy landscapes. Further, user-specified parameters are in general non-intuitive yet significantly affect the convergence rate and accuracy of the free energy estimate. Here we propose a novel method, wherein artificial neural networks (ANNs) are used to develop an adaptive biasing potential which learns free energy landscapes. We demonstrate that this method is capable of rapidly adapting to complex free energy landscapes and is not prone to boundary or oscillation problems. The method is made robust to hyperparameters and overfitting through Bayesian regularization which penalizes network weights and auto-regulates the number of effective parameters in the network. ANN sampling represents a promising innovative approach which can resolve complex free energy landscapes in less time than conventional approaches while requiring minimal user input.

  6. Generalized formulation of free energy and application to photosynthesis

    Science.gov (United States)

    Zhang, Hwe Ik; Choi, M. Y.

    2018-03-01

    The origin of free energy on the earth is solar radiation. However, the amount of free energy it contains has seldom been investigated, because the free energy concept was believed to be inappropriate for a system of photons. Instead, the origin of free energy has been sought in the process of photosynthesis, imposing a limit of conversion given by the Carnot efficiency. Here we present a general formulation, capable of not only assessing accurately the available amount of free energy in the photon gas but also explaining the primary photosynthetic process more succinctly. In this formulation, the problem of "photosynthetic conversion of the internal energy of photons into the free energy of chlorophyll" is replaced by simple "free energy transduction" between the photons and chlorophyll. An analytic expression for the photosynthetic efficiency is derived and shown to deviate from the Carnot efficiency. Some predictions verifiable possibly by observation are also suggested.

  7. Evaluations of imidazolium ionic liquids as novel skin permeation enhancers for drug transdermal delivery.

    Science.gov (United States)

    Zhang, Ding; Wang, Huai-Ji; Cui, Xiu-Ming; Wang, Cheng-Xiao

    2017-06-01

    In this work, imidazolium ionic liquids (imidazolium ILs) were employed as the novel chemical permeation enhancers (CPEs) and their performances and mechanisms of action were deeply investigated. Testosterone was used as a model drug to investigate the transdermal delivery enhancement of twenty imdidazolium ILs. The results suggested that the promotion activity connected to the structure and composition of the ILs. The quantitative structure-activity relationship (QSAR) model revealed a good linearity between the electronic properties of ILs and their enhancements. Furthermore, the transepidermal water loss (TEWL) and scanning laser confocal microscope (CLSM) examinations showed the strong improvement of ILs on skin barrier permeability, which were well correlated with the drug penetration profiles. The total reflection-Fourier transform infrared spectroscopy (ATR-FTIR) and atomic force microscope (AFM) evaluations of skins indicated that the ILs can disrupt the regular and compact arrangements of the corneocytes, change the surface properties of stratum corneum, and make the skin structure more permeable. Our work demonstrated the significant skin permeation promotion profiles of the imidazolium ILs, which are of great potential in transdermal drug delivery systems.

  8. Enhanced skin permeation of naltrexone by pulsed electromagnetic fields in human skin in vitro.

    Science.gov (United States)

    Krishnan, Gayathri; Edwards, Jeffrey; Chen, Yan; Benson, Heather A E

    2010-06-01

    The aim of the present study was to evaluate the skin permeation of naltrexone (NTX) under the influence of a pulsed electromagnetic field (PEMF). The permeation of NTX across human epidermis and a silicone membrane in vitro was monitored during and after application of the PEMF and compared to passive application. Enhancement ratios of NTX human epidermis permeation by PEMF over passive diffusion, calculated based on the AUC of cumulative NTX permeation to the receptor compartment verses time for 0-4 h, 4-8 h, and over the entire experiment (0-8 h) were 6.52, 5.25, and 5.66, respectively. Observation of the curve indicated an initial enhancement of NTX permeation compared to passive delivery whilst the PEMF was active (0-4 h). This was followed by a secondary phase after termination of PEMF energy (4-8 h) in which there was a steady increase in NTX permeation. No significant enhancement of NTX penetration across silicone membrane occurred with PEMF application in comparison to passively applied NTX. In a preliminary experiment PEMF enhanced the penetration of 10 nm gold nanoparticles through the stratum corneum as visualized by multiphoton microscopy. This suggests that the channels through which the nanoparticles move must be larger than the 10 nm diameter of these rigid particles. (c) 2009 Wiley-Liss, Inc. and the American Pharmacists Association

  9. Permeation Tests on Polypropylene Fiber Materials

    Science.gov (United States)

    2018-03-16

    Permeation Tests on Polypropylene Fiber Materials Brandy J. White Martin H. Moore Brian J. Melde Laboratory for the Study of Molecular Interfacial...ABSTRACT Permeation Tests on Polypropylene Fiber Materials Brandy J. White, Martin H. Moore, Brian J. Melde Center for Bio/Molecular Science

  10. In situ measurement of tritium permeation through stainless steel

    Science.gov (United States)

    Luscher, Walter G.; Senor, David J.; Clayton, Kevin K.; Longhurst, Glen R.

    2013-06-01

    The TMIST-2 irradiation experiment was conducted in the Advanced Test Reactor at Idaho National Laboratory to evaluate tritium permeation through Type 316 stainless steel (316 SS). The interior of a 316 SS seamless tube specimen was exposed to a 4He carrier gas mixed with a specified quantity of tritium (T2) to yield partial pressures of 0.1, 5, and 50 Pa at 292 °C and 330 °C. In situ tritium permeation measurements were made by passing a He-Ne sweep gas over the outer surface of the specimen to carry the permeated tritium to a bubbler column for liquid scintillation counting. Results from in situ permeation measurements were compared with predictions based on an ex-reactor permeation correlation in the literature. In situ permeation data were also used to derive an in-reactor permeation correlation as a function of temperature and pressure over the ranges considered in this study. In addition, the triton recoil contribution to tritium permeation, which results from the transmutation of 3He to T, was also evaluated by introducing a 4He carrier gas mixed with 3He at a partial pressure of 1013 Pa at 330 °C. Less than 3% of the tritium resulting from 3He transmutation contributed to tritium permeation.

  11. Implanted-tritium permeation experiments

    International Nuclear Information System (INIS)

    Longhurst, G.R.; Holland, D.F.; Casper, L.A.; Hsu, P.Y.; Miller, L.G.; Schmunk, R.E.; Watts, K.D.; Wilson, C.J.; Kershner, C.J.; Rogers, M.L.

    1982-04-01

    In fusion reactors, charge exchange neutral atoms of tritium coming from the plasma will be implanted into the first wall and other interior structures. EG and G Idaho is conducting two experiments to determine the magnitude of permeation into the coolant streams and the retention of tritium in those structures. One experiment uses an ion gun to implant deuterium. The ion gun will permit measurements to be made for a variety of implantation energies and fluxes. The second experiment utilizes a fission reactor to generate a tritium implantation flux by the 3 He(n,p) 3 H reaction. This experiment will simulate the fusion reactor radiation environment. We also plan to verify a supporting analytical code development program, in progress, by these experiments

  12. In situ measurement of tritium permeation through stainless steel

    Energy Technology Data Exchange (ETDEWEB)

    Luscher, Walter G., E-mail: walter.luscher@pnnl.gov [Pacific Northwest National Laboratory, 902 Battelle Blvd, Richland, WA 99352 (United States); Senor, David J., E-mail: david.senor@pnnl.gov [Pacific Northwest National Laboratory, 902 Battelle Blvd, Richland, WA 99352 (United States); Clayton, Kevin K., E-mail: kevin.clayton@inl.gov [Idaho National Laboratory, 2525 Fremont Ave., Idaho Falls, ID 83415 (United States); Longhurst, Glen R., E-mail: glenlonghurst@suu.edu [Idaho National Laboratory, 2525 Fremont Ave., Idaho Falls, ID 83415 (United States)

    2013-06-15

    Highlights: ► In situ tritium permeation measurements collected over broad pressure range. ► Test conditions relevant to 316 SS in commercial light water reactors. ► Comparisons between in- and ex-reactor measurements provided. ► Correlation between tritium permeation, temperature, and pressure developed. -- Abstract: The TMIST-2 irradiation experiment was conducted in the Advanced Test Reactor at Idaho National Laboratory to evaluate tritium permeation through Type 316 stainless steel (316 SS). The interior of a 316 SS seamless tube specimen was exposed to a {sup 4}He carrier gas mixed with a specified quantity of tritium (T{sub 2}) to yield partial pressures of 0.1, 5, and 50 Pa at 292 °C and 330 °C. In situ tritium permeation measurements were made by passing a He–Ne sweep gas over the outer surface of the specimen to carry the permeated tritium to a bubbler column for liquid scintillation counting. Results from in situ permeation measurements were compared with predictions based on an ex-reactor permeation correlation in the literature. In situ permeation data were also used to derive an in-reactor permeation correlation as a function of temperature and pressure over the ranges considered in this study. In addition, the triton recoil contribution to tritium permeation, which results from the transmutation of {sup 3}He to T, was also evaluated by introducing a {sup 4}He carrier gas mixed with {sup 3}He at a partial pressure of 1013 Pa at 330 °C. Less than 3% of the tritium resulting from {sup 3}He transmutation contributed to tritium permeation.

  13. Cationic Au Nanoparticle Binding with Plasma Membrane-like Lipid Bilayers: Potential Mechanism for Spontaneous Permeation to Cells Revealed by Atomistic Simulations

    DEFF Research Database (Denmark)

    Heikkila, E.; Martinez-Seara, H.; Gurtovenko, A. A.

    2014-01-01

    Despite being chemically inert as a bulk material, nanoscale gold can pose harmful side effects to living organisms. In particular, cationic Au nanoparticles (AuNP+) of 2 nm diameter or less permeate readily through plasma membranes and induce cell death. We report atomistic simulations of cationic...... to be governed by cooperative effects where AuNP+, counterions, water, and the two membrane leaflets all contribute. On the extracellular side, we find that the nanoparticle has to cross a free energy barrier of about 5 k(B)T prior forming a stable contact with the membrane. This results in a rearrangement...

  14. Free Energy in Introductory Physics

    Science.gov (United States)

    Prentis, Jeffrey J.; Obsniuk, Michael J.

    2016-01-01

    Energy and entropy are two of the most important concepts in science. For all natural processes where a system exchanges energy with its environment, the energy of the system tends to decrease and the entropy of the system tends to increase. Free energy is the special concept that specifies how to balance the opposing tendencies to minimize energy…

  15. Binding free energy and counterion release for adsorption of the antimicrobial peptide lactoferricin B on a POPG membrane

    Science.gov (United States)

    Tolokh, Igor S.; Vivcharuk, Victor; Tomberli, Bruno; Gray, C. G.

    2009-09-01

    Molecular dynamics (MD) simulations are used to study the interaction of an anionic palmitoyl-oleoyl-phosphatidylglycerol (POPG) bilayer with the cationic antimicrobial peptide bovine lactoferricin (LFCinB) in a 100 mM NaCl solution at 310 K. The interaction of LFCinB with a POPG bilayer is employed as a model system for studying the details of membrane adsorption selectivity of cationic antimicrobial peptides. Seventy eight 4 ns MD production run trajectories of the equilibrated system, with six restrained orientations of LFCinB at 13 different separations from the POPG membrane, are generated to determine the free energy profile for the peptide as a function of the distance between LFCinB and the membrane surface. To calculate the profile for this relatively large system, a variant of constrained MD and thermodynamic integration is used. A simplified method for relating the free energy profile to the LFCinB-POPG membrane binding constant is employed to predict a free energy of adsorption of -5.4±1.3kcal/mol and a corresponding maximum adsorption binding force of about 58 pN. We analyze the results using Poisson-Boltzmann theory. We find the peptide-membrane attraction to be dominated by the entropy increase due to the release of counterions and polarized water from the region between the charged membrane and peptide, as the two approach each other. We contrast these results with those found earlier for adsorption of LFCinB on the mammalianlike palmitoyl-oleoyl-phosphatidylcholine membrane.

  16. Calculating solution redox free energies with ab initio quantum mechanical/molecular mechanical minimum free energy path method

    International Nuclear Information System (INIS)

    Zeng Xiancheng; Hu Hao; Hu Xiangqian; Yang Weitao

    2009-01-01

    A quantum mechanical/molecular mechanical minimum free energy path (QM/MM-MFEP) method was developed to calculate the redox free energies of large systems in solution with greatly enhanced efficiency for conformation sampling. The QM/MM-MFEP method describes the thermodynamics of a system on the potential of mean force surface of the solute degrees of freedom. The molecular dynamics (MD) sampling is only carried out with the QM subsystem fixed. It thus avoids 'on-the-fly' QM calculations and thus overcomes the high computational cost in the direct QM/MM MD sampling. In the applications to two metal complexes in aqueous solution, the new QM/MM-MFEP method yielded redox free energies in good agreement with those calculated from the direct QM/MM MD method. Two larger biologically important redox molecules, lumichrome and riboflavin, were further investigated to demonstrate the efficiency of the method. The enhanced efficiency and uncompromised accuracy are especially significant for biochemical systems. The QM/MM-MFEP method thus provides an efficient approach to free energy simulation of complex electron transfer reactions.

  17. Adsorption of atmospherically relevant gases at the air/water interface: Free energy profiles of aqueous solvation of N2, O2, O3, OH, H2O, HO2 and H2O2

    Czech Academy of Sciences Publication Activity Database

    Vácha, Robert; Slavíček, Petr; Mucha, Martin; Finlayson-Pitts, B. J.; Jungwirth, Pavel

    2004-01-01

    Roč. 108, - (2004), s. 11573-11579 ISSN 1089-5639 R&D Projects: GA MŠk ME 644 Grant - others:US-NSF(US) 0209719; US-NSF(US) 0431512 Institutional research plan: CEZ:AV0Z4055905 Keywords : atmospherically relevant gases * air /water interface * free energy profiles Subject RIV: CF - Physical ; Theoretical Chemistry Impact factor: 2.639, year: 2004

  18. Tritium permeation barriers for fusion technology

    International Nuclear Information System (INIS)

    Perujo, A.; Forcey, K.

    1994-01-01

    An important issue concerning the safety, feasibility and fueling (i.e., tritium breeding ratio and recovery from the breeding blanket) of a fusion reactor is the possible tritium leakages through the structural materials and in particular through those operating at high temperatures. The control of tritium permeation could be a critical factor in determining the viability of a future fusion power reactor. The formation of tritium permeation barriers to prevent the loss of tritium to the coolant by diffusion though the structural material seems to be the most practical method to minimize such losses. Many authors have discussed the formation of permeation barriers to reduce the leakage of hydrogen isotopes through proposed first wall and structural materials. In general, there are two routes for the formation of such a barrier, namely: the growth of oxide layers (e.g., Cr 2 O 3 , Al 2 O 3 , etc.) or the application of surface coatings. Non-metals are the most promising materials from the point of view of the formation of permeation barriers. Oxides such as Al 2 O 3 or Cr 2 O 3 or carbides such as SiC or TiC have been proposed. Amongst the metals only tungsten or gold are sufficiently less permeable than steel to warrant investigation as candidate materials for permeation barriers. It is of course possible to grow oxide layers on steel directly by heating in the atmosphere or under a variety of conditions (first route above). The direct oxidizing is normally done in an environment of open-quotes wet hydrogenclose quotes to promote the growth of chromia on, for example, nickel steels or ternary oxides on 316L to prevent corrosion. The application of surface layers (second route above), offers a greater range of materials for the formation of permeation barriers. In addition to reducing permeation, such layers should be adhesive, resistant to attack by corrosive breeder materials and should not crack during thermal cycling

  19. Effects of Carbopol® 934 proportion on nanoemulsion gel for topical and transdermal drug delivery: a skin permeation study.

    Science.gov (United States)

    Zheng, Yin; Ouyang, Wu-Qing; Wei, Yun-Peng; Syed, Shahid Faraz; Hao, Chao-Shuang; Wang, Bo-Zhen; Shang, Yan-Hong

    Nanoemulsions (NEs) are used as transdermal drug delivery systems for systematic therapeutic purposes. We hypothesized that the skin permeation profile of an NE could be modulated by incorporating it into a hydrogel containing differing proportions of thickening agent. The objectives of this study were as follows: 1) to determine the stability and skin irritability of NE gels (NGs) containing 1%, 2%, and 3% (w/w) Carbopol ® 934 (CP934) (termed NG1, NG2, and NG3, respectively); 2) to compare the skin permeation profiles and drug deposition patterns of the NGs; and 3) to visualize the drug delivery routes of the NGs. Terbinafine and citral were incorporated into the NGs as model drugs. Ex vivo skin permeation tests indicated that the percutaneous flux rates of terbinafine decreased in the order NE (215 μg/cm 2 ) > NG1 (213 μg/cm 2 ) > NG2 (123 μg/cm 2 ) > NG3 (74.3 μg/cm 2 ). The flux rates of citral decreased in the order NE (1,026 μg/cm 2 ) > NG1 (1,021 μg/cm 2 ) > NG2 (541 μg/cm 2 ) > NG3 (353 μg/cm 2 ). The NGs accumulated greater amounts of the drugs in the stratum corneum and less in the epidermis/dermis than did the NE ( P drug delivery routes from skin appendages to intercellular paths. Histological images suggested that perturbations to the skin structure, specifically the size of the epidermal intercellular spaces and the separation distance of dermal collagen bundles, could be significantly minimized by increasing the proportion of CP934. These results suggest that adjustments of the CP934 proportions can be used to modulate the skin permeation profiles of NGs for specific therapeutic purposes.

  20. The new view of hydrophobic free energy.

    Science.gov (United States)

    Baldwin, Robert L

    2013-04-17

    In the new view, hydrophobic free energy is measured by the work of solute transfer of hydrocarbon gases from vapor to aqueous solution. Reasons are given for believing that older values, measured by solute transfer from a reference solvent to water, are not quantitatively correct. The hydrophobic free energy from gas-liquid transfer is the sum of two opposing quantities, the cavity work (unfavorable) and the solute-solvent interaction energy (favorable). Values of the interaction energy have been found by simulation for linear alkanes and are used here to find the cavity work, which scales linearly with molar volume, not accessible surface area. The hydrophobic free energy is the dominant factor driving folding as judged by the heat capacity change for transfer, which agrees with values for solvating hydrocarbon gases. There is an apparent conflict with earlier values of hydrophobic free energy from studies of large-to-small mutations and an explanation is given. Copyright © 2013 Federation of European Biochemical Societies. Published by Elsevier B.V. All rights reserved.

  1. Hydrogen permeation properties of plasma-sprayed tungsten

    International Nuclear Information System (INIS)

    Anderl, R.A.; Pawelko, R.J.; Hankins, M.R.; Longhurst, G.R.; Neiser, R.A.

    1994-01-01

    Tungsten has been proposed as a plasma-facing component material for advanced fusion facilities. This paper reports on laboratory-scale studies that were done to assess the hydrogen permeation properties of plasma-sprayed tungsten for such applications. The work entailed deuterium permeation measurements for plasma-sprayed (PS) tungsten coatings, sputter-deposited (SP) tungsten coatings, and steel substrate material using a mass-analyzed, 3 keV D + 3 ion beam with fluxes of similar 6.5x10 19 D/m 2 s. Extensive characterization analyses for the plasma-sprayed tungsten coatings were made using Auger spectrometry and scanning electron microscopy (SEM). Observed permeation rates through composite PS-tungsten/steel specimens were several orders of magnitude below the permeation levels observed for SP-tungsten/steel composite specimens and pure steel specimens. Characterization analyses indicated that the plasma-sprayed tungsten coating had a nonhomogeneous microstructure that consisted of splats with columnar solidification, partially-melted particles with grain boundaries, and void regions. Reduced permeation levels can be attributed to the complex microstructure and a substantial surface-connected porosity. ((orig.))

  2. Hydrogen permeation properties of plasma-sprayed tungsten

    Energy Technology Data Exchange (ETDEWEB)

    Anderl, R.A. (Idaho National Engineering Lab., EG and G Idaho Inc., Idaho Falls, ID (United States)); Pawelko, R.J. (Idaho National Engineering Lab., EG and G Idaho Inc., Idaho Falls, ID (United States)); Hankins, M.R. (Idaho National Engineering Lab., EG and G Idaho Inc., Idaho Falls, ID (United States)); Longhurst, G.R. (Idaho National Engineering Lab., EG and G Idaho Inc., Idaho Falls, ID (United States)); Neiser, R.A. (Sandia National Laboratories, Albuquerque, NM 87185 (United States))

    1994-09-01

    Tungsten has been proposed as a plasma-facing component material for advanced fusion facilities. This paper reports on laboratory-scale studies that were done to assess the hydrogen permeation properties of plasma-sprayed tungsten for such applications. The work entailed deuterium permeation measurements for plasma-sprayed (PS) tungsten coatings, sputter-deposited (SP) tungsten coatings, and steel substrate material using a mass-analyzed, 3 keV D[sup +][sub 3] ion beam with fluxes of similar 6.5x10[sup 19] D/m[sup 2] s. Extensive characterization analyses for the plasma-sprayed tungsten coatings were made using Auger spectrometry and scanning electron microscopy (SEM). Observed permeation rates through composite PS-tungsten/steel specimens were several orders of magnitude below the permeation levels observed for SP-tungsten/steel composite specimens and pure steel specimens. Characterization analyses indicated that the plasma-sprayed tungsten coating had a nonhomogeneous microstructure that consisted of splats with columnar solidification, partially-melted particles with grain boundaries, and void regions. Reduced permeation levels can be attributed to the complex microstructure and a substantial surface-connected porosity. ((orig.))

  3. Steel Energy and Environmental Profile

    Energy Technology Data Exchange (ETDEWEB)

    none,

    2000-08-01

    Major steelmaking processes (from ironmaking through fabrication and forming) and their associated energy requirements have been profiled in this 2001 report (PDF 582 KB). This profile by Energetics, Inc. also describes the waste streams generated by each process and estimates annual emissions of CO2 and criteria pollutants.

  4. Tritium permeation characterization of Al{sub 2}O{sub 3}/FeAl coatings as tritium permeation barriers on 321 type stainless steel containers

    Energy Technology Data Exchange (ETDEWEB)

    Yang, Feilong; Xiang, Xin; Lu, Guangda; Zhang, Guikai, E-mail: zhangguikai@caep.cn; Tang, Tao; Shi, Yan; Wang, Xiaolin

    2016-09-15

    Accurate tritium transport properties of prospective tritium permeation barriers (TPBs) are essential to tritium systems in fusion reactors. By passing a temperature and rate-controlled sweeping gas over specimen surfaces to carry the permeated tritium to an ion chamber, the gas-driven permeation of tritium has been performed on 321 type stainless steel containers with Al{sub 2}O{sub 3}/FeAl barriers, to determine the T-permeation resistant performance and mechanism of the barrier. The tritium permeability of the Al{sub 2}O{sub 3}/FeAl coated container was reduced by 3 orders of magnitude at 500–700 °C by contrast with that of the bare one, which meets the requirement of the tritium permeation reduction factor (PRF) of TPBs for tritium operating components in the CN-HCCB TBM. The Al{sub 2}O{sub 3}/FeAl barrier resists the tritium permeation by the diffusion in the bulk substrate at a limited number of defect sites with an effective area and thickness, suggesting that the TPB quality is a very important factor for efficient T-permeation resistance. - Highlights: • T-permeation has been measured on bare and coated type 321 SS containers. • Al{sub 2}O{sub 3}/FeAl coating give a reduction of T-permeability of 3 orders of magnitude. • Mechanism of Al{sub 2}O{sub 3}/FeAl barrier resisting T-permeation has obtained. • Quality of TPB is a very important factor for efficient T-permeating reduction.

  5. Permeation of Ionic Liquids through the skin

    Directory of Open Access Journals (Sweden)

    Ana Júlio

    2017-12-01

    Full Text Available Alternative forms of drug delivery such as delivery through the skin, have been developed to explore other routes. However, the incorporation of poorly soluble or partially insoluble drugs into these delivery systems represents a major problem. Ionic liquids (ILs may be incorporated in aqueous, oily or hydroalcoholic solutions and thus, may be used as excipients in drug delivery systems to increase/improve the topical and transdermal drug delivery. However, it is fundamental to consider the cytotoxicity of these salts and it is also crucial to evaluate if these compounds permeate through the skin. Herein, three imidazole-based ILs: [C2mim][Br], [C4mim][Br] and [C6mim][Br], were synthesized and each IL was incorporated within caffeine saturated solutions. Permeation studies of the active (caffeine in these solutions were performed to evaluate the amount of IL that permeated through the porcine ear skin in the presence of the active. To achieve this, gravimetric studies of the receptor compartment were performed. Results showed that the more lipophilic IL [C6mim][Br] presented the highest permeation through the skin. The permeation is dependent upon the size of the alkyl chain of the IL, and as more than 60% of the ILs permeate is it vital to consider the cytotoxicity of these salts when considering their incorporation in topical systems.

  6. Comparative Serum Fatty Acid Profiles of Captive and Free-Ranging Cheetahs (Acinonyx jubatus) in Namibia.

    Science.gov (United States)

    Tordiffe, Adrian S W; Wachter, Bettina; Heinrich, Sonja K; Reyers, Fred; Mienie, Lodewyk J

    2016-01-01

    Cheetahs (Acinonyx jubatus) are highly specialised large felids, currently listed as vulnerable on the IUCN red data list. In captivity, they are known to suffer from a range of chronic non-infectious diseases. Although low heterozygosity and the stress of captivity have been suggested as possible causal factors, recent studies have started to focus on the contribution of potential dietary factors in the pathogenesis of these diseases. Fatty acids are an important component of the diet, not only providing a source of metabolisable energy, but serving other important functions in hormone production, cellular signalling as well as providing structural components in biological membranes. To develop a better understanding of lipid metabolism in cheetahs, we compared the total serum fatty acid profiles of 35 captive cheetahs to those of 43 free-ranging individuals in Namibia using gas chromatography-mass spectrometry. The unsaturated fatty acid concentrations differed most remarkably between the groups, with all of the polyunsaturated and monounsaturated fatty acids, except arachidonic acid and hypogeic acid, detected at significantly lower concentrations in the serum of the free-ranging animals. The influence of age and sex on the individual fatty acid concentrations was less notable. This study represents the first evaluation of the serum fatty acids of free-ranging cheetahs, providing critical information on the normal fatty acid profiles of free-living, healthy individuals of this species. The results raise several important questions about the potential impact of dietary fatty acid composition on the health of cheetahs in captivity.

  7. Free Magnetic Energy in Solar Active Regions above the Minimum-Energy Relaxed State

    OpenAIRE

    Regnier, S.; Priest, E. R.

    2008-01-01

    To understand the physics of solar flares, including the local reorganization of the magnetic field and the acceleration of energetic particles, we have first to estimate the free magnetic energy available for such phenomena, which can be converted into kinetic and thermal energy. The free magnetic energy is the excess energy of a magnetic configuration compared to the minimum-energy state, which is a linear force-free field if the magnetic helicity of the configuration is conserved. We inves...

  8. Hydrogen permeation resistant layers for liquid metal reactors

    International Nuclear Information System (INIS)

    McGuire, J.C.

    1980-03-01

    Reviewing the literature in the tritium diffusion field one can readily see a wide divergence in results for both the response of permeation rate to pressure, and the effect of oxide layers on total permeation rates. The basic mechanism of protective oxide layers is discussed. Two coatings which are less hydrogen permeable than the best naturally occurring oxide are described. The work described is part of an HEDL-ANL cooperative research program on Tritium Permeation in Liquid Metal Cooled Reactors. This includes permeation work on hydrogen, deuterium, and tritium with the hydrogen-deuterium research leading to the developments presented

  9. Physicochemical Characterization and Skin Permeation of Cationic Transfersomes Containing the Synthetic Peptide PnPP-19.

    Science.gov (United States)

    Almeida, Flavia De Marco; Silva, Carolina Nunes; de Araujo Lopes, Savia Caldeira; Santos, Daniel Moreira; Torres, Fernanda Silva; Cardoso, Felipe Lima; Martinelli, Patricia Massara; da Silva, Elizabeth Ribeiro; de Lima, Maria Elena; Miranda, Lucas Antonio Ferreira; Oliveira, Monica Cristina

    2018-01-08

    PnPP-19 is a 19-amino-acid synthetic peptide previously described as a novel drug for the treatment of erectile dysfunction. The aim of this work was to evaluate the physicochemical properties of cationic transfersomes containing PnPP-19 and the skin permeation of free PnPP-19 and PnPP-19-loaded transfersomes. Three different liposomal preparation methods were evaluated. Cationic transfersomes contained egg phosphatidyl choline: stearylamine (9:1 w/w) and Tween 20 (84.6:15.4 lipid:Tween, w/w). Lipid concentration varied from 20 to 40 mM. We evaluated the entrapment percentage, mean diameter, zeta potential and stability at 4 oC of the formulations. The skin permeation assays were performed with abdominal human skin using Franz diffusion cell with 3 cm2 diffusion area at 32 oC and a fluorescent derivative of the peptide, containing 5-TAMRA, bound to PnPP-19 C-terminal region, where an extra lysine was inserted. Our results showed variable entrapment efficiencies, from 6% to 30%, depending on the preparation method and the lipid concentration used. The reverse phase evaporation method using a total lipid concentration equal to 40 mM led to the best entrapment percentage (30.2 + 4.5%). Free PnPP-19 was able to permeate skin at a rate of 10.8 ng/cm2/h. However, PnPP-19 was specifically hydrolyzed by skin proteases, generating a fragment of 15 amino acid residues. Encapsulated PnPP-19 permeated the skin at a rate of 19.8 ng/cm2/h. The encapsulation of PnPP-19 in cationic transfersomes protected the peptide from degradation, favoring its topical administration. Copyright© Bentham Science Publishers; For any queries, please email at epub@benthamscience.org.

  10. Silicon Carbide as a tritium permeation barrier in tungsten plasma-facing components

    Science.gov (United States)

    Wright, G. M.; Durrett, M. G.; Hoover, K. W.; Kesler, L. A.; Whyte, D. G.

    2015-03-01

    The control of tritium inventory is of great importance in future fusion reactors, not only from a safety standpoint but also to maximize a reactor's efficiency. Due to the high mobility of hydrogenic species in tungsten (W) one concern is the loss of tritium from the system via permeation through the tungsten plasma-facing components (PFC). This can lead to loss of tritium through the cooling channels of the wall thereby mandating tritium monitoring and recovery methods for the cooling system of the first wall. The permeated tritium is then out of the fuel cycle and cannot contribute to energy production until it is recovered and recycled into the system.

  11. Guidelines for the analysis of free energy calculations.

    Science.gov (United States)

    Klimovich, Pavel V; Shirts, Michael R; Mobley, David L

    2015-05-01

    Free energy calculations based on molecular dynamics simulations show considerable promise for applications ranging from drug discovery to prediction of physical properties and structure-function studies. But these calculations are still difficult and tedious to analyze, and best practices for analysis are not well defined or propagated. Essentially, each group analyzing these calculations needs to decide how to conduct the analysis and, usually, develop its own analysis tools. Here, we review and recommend best practices for analysis yielding reliable free energies from molecular simulations. Additionally, we provide a Python tool, alchemical-analysis.py, freely available on GitHub as part of the pymbar package (located at http://github.com/choderalab/pymbar), that implements the analysis practices reviewed here for several reference simulation packages, which can be adapted to handle data from other packages. Both this review and the tool covers analysis of alchemical calculations generally, including free energy estimates via both thermodynamic integration and free energy perturbation-based estimators. Our Python tool also handles output from multiple types of free energy calculations, including expanded ensemble and Hamiltonian replica exchange, as well as standard fixed ensemble calculations. We also survey a range of statistical and graphical ways of assessing the quality of the data and free energy estimates, and provide prototypes of these in our tool. We hope this tool and discussion will serve as a foundation for more standardization of and agreement on best practices for analysis of free energy calculations.

  12. Effects of thin films on inventory, permeation and re-emission of energetic hydrogen

    International Nuclear Information System (INIS)

    Ohyabu, N.; Nakamura, Y.; Nakahara, Y.; Livshits, A.; Alimov, V.; Busnyuk, A.; Notkin, M.; Samartsev, A.; Doroshin, A.

    2000-01-01

    A non-metallic coating thicker than the implantation depth may protect a metal against tritium retention and permeation. However, a thinner film has quite the opposite effect: a dramatic increase of permeation and retention, and a corresponding suppression of re-emission. In view of the benefits expected from particle control with a superpermeable membrane placed right inside the divertor, the behavior of a Nb sample was investigated in a plasma-membrane device having a graphite target. Even polyatomic carbide coating was found not to hinder hydrogen absorption and permeation. Polyatomic non-carbide C films effectively inhibits it, but the formation of such films depends on H and C fluxes, H energy and metal temperature. A durable isolation of suprathermal hydrogen with the superpermeable membrane was observed at a high enough ratio between H and C fluxes, and the effects of carbon were found to have a non-monotonic temperature dependence

  13. Computing conformational free energy differences in explicit solvent: An efficient thermodynamic cycle using an auxiliary potential and a free energy functional constructed from the end points.

    Science.gov (United States)

    Harris, Robert C; Deng, Nanjie; Levy, Ronald M; Ishizuka, Ryosuke; Matubayasi, Nobuyuki

    2017-06-05

    Many biomolecules undergo conformational changes associated with allostery or ligand binding. Observing these changes in computer simulations is difficult if their timescales are long. These calculations can be accelerated by observing the transition on an auxiliary free energy surface with a simpler Hamiltonian and connecting this free energy surface to the target free energy surface with free energy calculations. Here, we show that the free energy legs of the cycle can be replaced with energy representation (ER) density functional approximations. We compute: (1) The conformational free energy changes for alanine dipeptide transitioning from the right-handed free energy basin to the left-handed basin and (2) the free energy difference between the open and closed conformations of β-cyclodextrin, a "host" molecule that serves as a model for molecular recognition in host-guest binding. β-cyclodextrin contains 147 atoms compared to 22 atoms for alanine dipeptide, making β-cyclodextrin a large molecule for which to compute solvation free energies by free energy perturbation or integration methods and the largest system for which the ER method has been compared to exact free energy methods. The ER method replaced the 28 simulations to compute each coupling free energy with two endpoint simulations, reducing the computational time for the alanine dipeptide calculation by about 70% and for the β-cyclodextrin by > 95%. The method works even when the distribution of conformations on the auxiliary free energy surface differs substantially from that on the target free energy surface, although some degree of overlap between the two surfaces is required. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

  14. Enrofloxacin Permeation Pathways across the Porin OmpC.

    Science.gov (United States)

    Prajapati, Jigneshkumar Dahyabhai; Solano, Carlos José Fernández; Winterhalter, Mathias; Kleinekathöfer, Ulrich

    2018-02-01

    In Gram-negative bacteria, the lack or quenching of antibiotic translocation across the outer membrane is one of the main factors for acquiring antibiotic resistance. An atomic-level comprehension of the key features governing the transport of drugs by outer-membrane protein channels would be very helpful in developing the next generation of antibiotics. In a previous study [ J. D. Prajapati et al. J. Chem. Theory Comput. 2017 , 13 , 4553 ], we characterized the diffusion pathway of a ciprofloxacin molecule through the outer membrane porin OmpC of Escherichia coli by combining metadynamics and a zero-temperature string method. Here, we evaluate the diffusion route through the OmpC porin for a similar fluoroquinolone, that is, the enrofloxacin molecule, using the previously developed protocol. As a result, it was found that the lowest-energy pathway was similar to that for ciprofloxacin; namely, a reorientation was required on the extracellular side with the carboxyl group ahead before enrofloxacin reached the constriction region. In turn, the free-energy basins for both antibiotics are located at similar positions in the space defined by selected reaction coordinates, and their affinity sites share a wide number of porin residues. However, there are some important deviations due to the chemical differences of these two drugs. On the one hand, a slower diffusion process is expected for enrofloxacin, as the permeation pathway exhibits higher overall energy barriers, mainly in the constriction region. On the other hand, enrofloxacin needs to replace some polar interactions in its affinity sites with nonpolar ones. This study demonstrates how minor chemical modifications can qualitatively affect the translocation mechanism of an antibiotic molecule.

  15. Tritium permeation losses in HYLIFE-II heat exchanger tubes

    International Nuclear Information System (INIS)

    Longhurst, G.R.; Dolan, T.J.

    1990-01-01

    Tritium permeation through the intermediate heat exchanger of the HYLIFE-II inertial fusion design concept is evaluated for routine operating conditions. The permeation process is modelled using the Lewis analogy combined with surface recombination. It is demonstrated that at very low driving potentials, permeation becomes proportional to the first power of the driving potential. The model predicts that under anticipated conditions the primary cooling loop will pass about 6% of the tritium entering it to the intermediate coolant. Possible approached to reducing tritium permeation are explored. Permeation is limited by turbulent diffusion transport through the molten salt. Hence, surface barriers with impendance factors typical of present technology can do very little to reduce permeation. Low Flibe viscosity is desirable. An efficient tritium removal system operating on the Flibe before it gets to the intermediate heat exchanger is required. Needs for further research are highlighted. 9 refs., 2 figs., 1 tab

  16. The free-energy principle: a unified brain theory?

    Science.gov (United States)

    Friston, Karl

    2010-02-01

    A free-energy principle has been proposed recently that accounts for action, perception and learning. This Review looks at some key brain theories in the biological (for example, neural Darwinism) and physical (for example, information theory and optimal control theory) sciences from the free-energy perspective. Crucially, one key theme runs through each of these theories - optimization. Furthermore, if we look closely at what is optimized, the same quantity keeps emerging, namely value (expected reward, expected utility) or its complement, surprise (prediction error, expected cost). This is the quantity that is optimized under the free-energy principle, which suggests that several global brain theories might be unified within a free-energy framework.

  17. Free energy and heat capacity

    International Nuclear Information System (INIS)

    Kurata, M.; Devanathan, R.

    2015-01-01

    Free energy and heat capacity of actinide elements and compounds are important properties for the evaluation of the safety and reliable performance of nuclear fuel. They are essential inputs for models that describe complex phenomena that govern the behaviour of actinide compounds during nuclear fuels fabrication and irradiation. This chapter introduces various experimental methods to measure free energy and heat capacity to serve as inputs for models and to validate computer simulations. This is followed by a discussion of computer simulation of these properties, and recent simulations of thermophysical properties of nuclear fuel are briefly reviewed. (authors)

  18. Determination of factor of hydrogen permeation reduction (PRF) for different protective coatings over vanadium

    International Nuclear Information System (INIS)

    Afanasyev, S.; Kulsartov, T.; Shestakov, V.; Chikhray, Y.; Smith, D.

    2002-01-01

    Selection of structural materials for liquid-metal system as well as for another system and constructions of nuclear energy plants must be carried out and based on specified demands depending on conditions of these materials functioning. Specific demand is its compatibility with liquid metals. Design of reactors with liquid-metal coolant (Li, PbLi 17 ) which reproduces tritium arise additional demand to structural materials. This demand is a creation of structural material or protective barrier with minimum acceptable value of tritium permeation through itself or with maximum permeation reduction factor (PRF). Vanadium and vanadium alloys are supposed to be use as a blanket structural material in such nuclear energy plants. Worked out at first stage of studies vanadium coatings should have stability of its characteristics at temperature 800 deg. C under influence of hydrogen. Given work shows the experimental results on testing of protective coatings over vanadium: glass-ceramic coating and CaO-base coating. PRF for every coating and its changes depending on thermo-capacity of vanadium sample with coating was determined by method of hydrogen permeation. The results of experiments would be used at the development of cooling loops of reactor core protection with liquid-metal coolant

  19. An unheated permeation device for calibrating atmospheric VOC measurements

    Directory of Open Access Journals (Sweden)

    J. Brito

    2011-10-01

    Full Text Available The development of an unpowered permeation device for continuous calibration of in-situ instruments measuring atmospheric volatile organic compounds (VOCs is described. Being lightweight and compact, and containing only negligible amounts of chemicals, the device is especially suited for field use such as on board aircraft. Its speciality is to maintain the permeation process in thermal equilibrium, so that the instantaneous permeation rate can be ascribed to a simple temperature measurement. This equilibrium state is maintained by a combination of three features: (i a thin PTFE membrane as permeation medium which guarantees short stabilization times, (ii a water bath as heat buffer, and (iii a vacuum-panel based insulation, in which features (ii and (iii minimize temperature drifts to ~30 mK h−1 per Kelvin temperature difference to the environment. The respective uncertainty of the permeation rate due to thermal non-equilibrium is kept below 1%. An extensive theory part details the major permeation processes of gases through porous polymers, being Fick's diffusion, Knudsen flow, and viscous flow. Both the measured stabilization time and the measured temperature dependence of the permeation rate independently indicate that the permeation can be described by a viscous flow model, where diffusion of the gas molecules in large pores (having a diameter of >0.05 μm dominates.

  20. Effect of Permeation Enhancers on the Release Behavior and ...

    African Journals Online (AJOL)

    Purpose: The aim of this research work was to formulate, characterize and evaluate the in vitro permeation behavior of tramadol lotion containing propylene glycol (PG) and polyethylene glycol (PEG) as permeation enhancers. Methods: The permeation experiments were conducted in vitro using full thickness rabbit skin in ...

  1. Efficient ethanol recovery from fermentation broths with integrated distillation-vapor permeation hybrid process

    Science.gov (United States)

    The energy demand of distillation-molecular sieve systems for ethanol recovery/dehydration can be significant, particularly for dilute solutions. An alternative hybrid process integrating vapor stripping (like a beer still) with vapor compression and a vapor permeation membrane s...

  2. Modeling and experiments on tritium permeation in fusion reactor blankets

    Science.gov (United States)

    Holland, D. F.; Longhurst, G. R.

    The determination of tritium loss from helium-cooled fusion breeding blankets are discussed. The issues are: (1) applicability of present models to permeation at low tritium pressures; (2) effectiveness of oxide layers in reducing permeation; (3) effectiveness of hydrogen addition as a means to lower tritium permeation; and (4) effectiveness of conversion to tritiated water and subsequent trapping to reduce permeation. Theoretical models applicable to these issues are discussed, and results of experiments in two areas are presented; permeation of mixtures of hydrogen isotopes and conversion to tritiated water.

  3. Modeling and experiments on tritium permeation in fusion reactor blankets

    International Nuclear Information System (INIS)

    Holland, D.F.; Longhurst, G.R.

    1985-01-01

    Issues are discussed that are critical in determining tritium loss from helium-cooled fusion breeding blankets. These issues are: (a) applicability of present models to permeation at low tritium pressures, (b) effectiveness of oxide layers in reducing permeation, (c) effectiveness of hydrogen addition as a means to lower tritium permeation, and (d) effectiveness of conversion to tritiated water and subsequent trapping as a means to reduce permeation. The paper discusses theoretical models applicable to these issues, and presents results of experiments in two areas: permeation of mixtures of hydrogen isotopes and conversion to tritiated water

  4. Measurement of blood-brain barrier permeation in rats during exposure to 2450-MHz microwaves

    International Nuclear Information System (INIS)

    Ward, T.R.; Elder, J.A.; Long, M.D.; Svendsgaard, D.

    1982-01-01

    Adult rats anesthesized with pentobarbital and injected intravenously with a mixture of [ 14 C] sucrose and [ 3 H] inulin were exposed for 30 min to an environment at an ambient temperature of 22, 30, or 40 degrees C, or were exposed at 22 degrees C to 2450-MHz CW microwave radiation at power densities of 0, 10, 20, or 30 mW/cm2. Following exposure, the brain was perfused and sectioned into eight regions, and the radioactivity in each region was counted. The data were analyzed by two methods. First, the data for each of the eight regions and for each of the two radioactive tracers were analyzed by regression analysis for a total of 16 analyses and Bonferroni's Inequality was applied to prevent false positive results from numerous analyses. By this conservative test, no statistically significant increase in permeation was found for either tracer in any brain region of rats exposed to microwaves. Second, a profile analysis was used for a general change in tracer uptake across all brain regions. Using this statistical method, a significant increase in permeation was found for sucrose but not for inulin. A correction factor was then derived from the warm-air experiments to correct for the increase in permeation of the brain associated with change in body temperature. This correction factor was applied to the data for the irradiated animals. After correcting the data for thermal effects of the microwave radiation, no significant increase in permeation was found

  5. Standard free energy of formation of iron iodide

    Science.gov (United States)

    Khandkar, A.; Tare, V. B.; Wagner, J. B., Jr.

    1983-01-01

    An experiment is reported where silver iodide is used to determine the standard free energy of formation of iron iodide. By using silver iodide as a solid electrolyte, a galvanic cell, Ag/AgI/Fe-FeI2, is formulated. The standard free energy of formation of AgI is known, and hence it is possible to estimate the standard free energy of formation of FeI2 by measuring the open-circuit emf of the above cell as a function of temperature. The free standard energy of formation of FeI2 determined by this method is -38784 + 24.165T cal/mol. It is estimated that the maximum error associated with this method is plus or minus 2500 cal/mol.

  6. Probing Free-Energy Surfaces with Differential Scanning Calorimetry

    Science.gov (United States)

    Sanchez-Ruiz, Jose M.

    2011-05-01

    Many aspects of protein folding can be understood in terms of projections of the highly dimensional energy landscape onto a few (or even only one) particularly relevant coordinates. These free-energy surfaces can be probed conveniently from experimental differential scanning calorimetry (DSC) thermograms, as DSC provides a direct relation with the protein partition function. Free-energy surfaces thus obtained are consistent with two fundamental scenarios predicted by the energy-landscape perspective: (a) well-defined macrostates separated by significant free-energy barriers, in some cases, and, in many other cases, (b) marginal or even vanishingly small barriers, which furthermore show a good correlation with kinetics for fast- and ultrafast-folding proteins. Overall, the potential of DSC to assess free-energy surfaces for a wide variety of proteins makes it possible to address fundamental issues, such as the molecular basis of the barrier modulations produced by natural selection in response to functional requirements or to ensure kinetic stability.

  7. Skin penetration and tissue permeation after topical administration of diclofenac.

    Science.gov (United States)

    Hagen, Martina; Baker, Mark

    2017-09-01

    Topical delivery of drugs is an alternative to oral administration, often with similar efficacy but potentially a more favorable tolerability profile. However, topical formulations need to be able to penetrate the skin and permeate to the target areas in quantities sufficient to exert a therapeutic effect. Many factors can affect this process, including the physicochemical properties of the drug, the formulation used, and the site and mode of application. It is believed that measurement of drug concentrations at the sites of action may be an indicator of their likely efficacy. This review addresses these issues, with reference to topically administered diclofenac in osteoarthritis. Articles relevant to this review were identified after a systematic search of Medline and Embase, using the key words "diclofenac", "topical administration" and "osteoarthritis" in the search strategy. The sparse data available indicate that topical diclofenac can penetrate and permeate to deeper tissues, with a lower plasma to tissue ratio than oral diclofenac. The tissue diclofenac levels after topical delivery are sustained over time (at least several hours). However, there is not enough data to establish how diclofenac levels in the joint compare with IC 50 levels (50% of the maximum inhibition of prostaglandin synthesis) established following oral administration. After topical application, diclofenac can penetrate the skin and permeate to deeper tissues, where it reaches a concentration that appears to be sufficient to exert a therapeutic effect. More robust methods are required for in vivo characterization to better estimate the clinical efficacy of topically applied drugs.

  8. Comparative Serum Fatty Acid Profiles of Captive and Free-Ranging Cheetahs (Acinonyx jubatus) in Namibia

    Science.gov (United States)

    Wachter, Bettina; Heinrich, Sonja K.; Reyers, Fred; Mienie, Lodewyk J.

    2016-01-01

    Cheetahs (Acinonyx jubatus) are highly specialised large felids, currently listed as vulnerable on the IUCN red data list. In captivity, they are known to suffer from a range of chronic non-infectious diseases. Although low heterozygosity and the stress of captivity have been suggested as possible causal factors, recent studies have started to focus on the contribution of potential dietary factors in the pathogenesis of these diseases. Fatty acids are an important component of the diet, not only providing a source of metabolisable energy, but serving other important functions in hormone production, cellular signalling as well as providing structural components in biological membranes. To develop a better understanding of lipid metabolism in cheetahs, we compared the total serum fatty acid profiles of 35 captive cheetahs to those of 43 free-ranging individuals in Namibia using gas chromatography-mass spectrometry. The unsaturated fatty acid concentrations differed most remarkably between the groups, with all of the polyunsaturated and monounsaturated fatty acids, except arachidonic acid and hypogeic acid, detected at significantly lower concentrations in the serum of the free-ranging animals. The influence of age and sex on the individual fatty acid concentrations was less notable. This study represents the first evaluation of the serum fatty acids of free-ranging cheetahs, providing critical information on the normal fatty acid profiles of free-living, healthy individuals of this species. The results raise several important questions about the potential impact of dietary fatty acid composition on the health of cheetahs in captivity. PMID:27992457

  9. Gas-driven permeation of deuterium through tungsten and tungsten alloys

    Energy Technology Data Exchange (ETDEWEB)

    Buchenauer, Dean A., E-mail: dabuche@sandia.gov [Sandia National Laboratories, Energy Innovation Department, Livermore, CA 94550 (United States); Karnesky, Richard A. [Sandia National Laboratories, Energy Innovation Department, Livermore, CA 94550 (United States); Fang, Zhigang Zak; Ren, Chai [University of Utah, Department of Metallurgical Engineering, Salt Lake City, UT 84112 (United States); Oya, Yasuhisa [Shizuoka University, Graduate School of Science, Shizuoka (Japan); Otsuka, Teppei [Kyushu University, Department of Advanced Energy Engineering Science, Fukuoka (Japan); Yamauchi, Yuji [Hokkaido University, Third Division of Quantum Science and Engineering, Faculty of Engineering, Sapporo (Japan); Whaley, Josh A. [Sandia National Laboratories, Energy Innovation Department, Livermore, CA 94550 (United States)

    2016-11-01

    Highlights: • We have designed and performed initial studies on a high temperature gas-driven permeation cell capable of operating at temperatures up to 1150 °C and at pressures between 0.1–1 atm. • Permeation measurements on ITER grade tungsten compare well with past studies by Frauenfelder and Zahkarov in the temperature range from 500 to 1000 °C. • First permeation measurements on Ti dispersoid-strengthened ultra-fine grained tungsten show higher permeation at 500 °C, but very similar permeation with ITER tungsten at 1000 °C. Diffusion along grain boundaries may be playing a role for this type of material. - Abstract: To address the transport and trapping of hydrogen isotopes, several permeation experiments are being pursued at both Sandia National Laboratories (deuterium gas-driven permeation) and Idaho National Laboratories (tritium gas- and plasma-driven tritium permeation). These experiments are in part a collaboration between the US and Japan to study the performance of tungsten at divertor relevant temperatures (PHENIX). Here we report on the development of a high temperature (≤1150 °C) gas-driven permeation cell and initial measurements of deuterium permeation in several types of tungsten: high purity tungsten foil, ITER-grade tungsten (grains oriented through the membrane), and dispersoid-strengthened ultra-fine grain (UFG) tungsten being developed in the US. Experiments were performed at 500–1000 °C and 0.1–1.0 atm D{sub 2} pressure. Permeation through ITER-grade tungsten was similar to earlier W experiments by Frauenfelder (1968–69) and Zaharakov (1973). Data from the UFG alloy indicates marginally higher permeability (< 10×) at lower temperatures, but the permeability converges to that of the ITER tungsten at 1000 °C. The permeation cell uses only ceramic and graphite materials in the hot zone to reduce the possibility for oxidation of the sample membrane. Sealing pressure is applied externally, thereby allowing for elevation

  10. Calculating zeros: Non-equilibrium free energy calculations

    International Nuclear Information System (INIS)

    Oostenbrink, Chris; Gunsteren, Wilfred F. van

    2006-01-01

    Free energy calculations on three model processes with theoretically known free energy changes have been performed using short simulation times. A comparison between equilibrium (thermodynamic integration) and non-equilibrium (fast growth) methods has been made in order to assess the accuracy and precision of these methods. The three processes have been chosen to represent processes often observed in biomolecular free energy calculations. They involve a redistribution of charges, the creation and annihilation of neutral particles and conformational changes. At very short overall simulation times, the thermodynamic integration approach using discrete steps is most accurate. More importantly, reasonable accuracy can be obtained using this method which seems independent of the overall simulation time. In cases where slow conformational changes play a role, fast growth simulations might have an advantage over discrete thermodynamic integration where sufficient sampling needs to be obtained at every λ-point, but only if the initial conformations do properly represent an equilibrium ensemble. From these three test cases practical lessons can be learned that will be applicable to biomolecular free energy calculations

  11. Permeation of aromatic solvent mixtures through nitrile protective gloves.

    Science.gov (United States)

    Chao, Keh-Ping; Hsu, Ya-Ping; Chen, Su-Yi

    2008-05-30

    The permeation of binary and ternary mixtures of benzene, toluene, ethyl benzene and p-xylene through nitrile gloves were investigated using the ASTM F739 test cell. The more slowly permeating component of a mixture was accelerated to have a shorter breakthrough time than its pure form. The larger differences in solubility parameter between a solvent mixture and glove resulted in a lower permeation rate. Solubility parameter theory provides a potential approach to interpret the changes of permeation properties for BTEX mixtures through nitrile gloves. Using a one-dimensional diffusion model based on Fick's law, the permeation concentrations of ASTM F739 experiments were appropriately simulated by the estimated diffusion coefficient and solubility. This study will be a fundamental work for the risk assessment of the potential dermal exposure of workers wearing protective gloves.

  12. The Bogoliubov free energy functional II

    DEFF Research Database (Denmark)

    Napiórkowski, Marcin; Reuvers, Robin; Solovej, Jan Philip

    2018-01-01

    We analyse the canonical Bogoliubov free energy functional at low temperatures in the dilute limit. We prove existence of a first order phase transition and, in the limit $a_0\\to a$, we determine the critical temperature to be $T_{\\rm{c}}=T_{\\rm{fc}}(1+1.49(\\rho^{1/3}a))$ to leading order. Here, $T......_{\\rm{fc}}$ is the critical temperature of the free Bose gas, $\\rho$ is the density of the gas, $a$ is the scattering length of the pair-interaction potential $V$, and $a_0=(8\\pi)^{-1}\\widehat{V}(0)$ its first order approximation. We also prove asymptotic expansions for the free energy. In particular, we recover the Lee...

  13. Free energy of activation. Definition, properties, and dependent variables with special reference to linear free energy relations

    International Nuclear Information System (INIS)

    Levine, R.D.

    1979-01-01

    The reaction rate constant is expressed as Z exp(-G/sub a//RT). Z is the binary collision frequency. G/sub a/, the free energy of activation, is shown to be the difference between the free energy of the reactive reactants and the free energy of all reactants. The results are derived from both a statistical mechanical and a collision theoretic point of view. While the later is more suitable for an ab-initio computation of the reaction rate, it is the former that lends itself to the search of systematics and of correlations and to compaction of data. Different thermodynamic-like routes to the characterization of G/sub a/ are thus explored. The two most promising ones appear to be the use of thermodynamic type cycles and the changes of dependent variables using the Legendre transform technique. The dependence of G/sub a/ on ΔG 0 , the standard free energy change in the reaction, is examined from the later point of view. It is shown that one can rigorously express this dependence as G/sub a/ = αΔG 0 + G/sub a/ 0 M(α). Here α is the Bronsted slope, α = -par. delta ln k(T)/par. delta(ΔG 0 /RT), G/sub a/ 0 is independent of ΔG 0 and M(α), the Legendre transform of G/sub a/, is a function only of α. For small changes in ΔG 0 , the general result reduces to the familiar ''linear'' free energy relation delta G/sub a/ = α delta ΔG 0 . It is concluded from general considerations that M(α) is a symmetric, convex function of α and hence that α is a monotonically increasing function of ΔG 0 . Experimental data appear to conform well to the form α = 1/[1 + exp(-ΔG 0 /G/sub s/ 0 )]. A simple interpretation of the ΔG 0 dependence of G/sub a/, based on an interpolation of the free energy from that of the reagents to that of the products, is offered. 4 figures, 69 references

  14. The free-energy cost of interaction between DNA loops.

    Science.gov (United States)

    Huang, Lifang; Liu, Peijiang; Yuan, Zhanjiang; Zhou, Tianshou; Yu, Jianshe

    2017-10-03

    From the viewpoint of thermodynamics, the formation of DNA loops and the interaction between them, which are all non-equilibrium processes, result in the change of free energy, affecting gene expression and further cell-to-cell variability as observed experimentally. However, how these processes dissipate free energy remains largely unclear. Here, by analyzing a mechanic model that maps three fundamental topologies of two interacting DNA loops into a 4-state model of gene transcription, we first show that a longer DNA loop needs more mean free energy consumption. Then, independent of the type of interacting two DNA loops (nested, side-by-side or alternating), the promotion between them always consumes less mean free energy whereas the suppression dissipates more mean free energy. More interestingly, we find that in contrast to the mechanism of direct looping between promoter and enhancer, the facilitated-tracking mechanism dissipates less mean free energy but enhances the mean mRNA expression, justifying the facilitated-tracking hypothesis, a long-standing debate in biology. Based on minimal energy principle, we thus speculate that organisms would utilize the mechanisms of loop-loop promotion and facilitated tracking to survive in complex environments. Our studies provide insights into the understanding of gene expression regulation mechanism from the view of energy consumption.

  15. Permeation of deuterium implanted into vanadium alloys

    International Nuclear Information System (INIS)

    Anderl, R.A.; Longhurst, G.R.; Struttmann, D.A.

    1986-05-01

    Permeation of deuterium through the vanadium alloy, V-15Cr-5Ti, was investigated using 3-keV, D 3 + ion beams from a small accelerator. The experiments consisted of measurements of the deuterium reemission and permeation rates as a function of implantation fluence for 0.5-mm thick specimens heated to tempertures from 623 to 823 0 K. Implantation-side surface characterization was made by simultaneous measurements of sputtered ions with a secondary ion mass spectrometer (SIMS). Analyses of these measurements indicate that for the experimental conditions used, the steady-state deuterium permeation flux in V-15Cr-5Ti is approximately 18% of the implantation flux. This corresponds to approximately 1000 times that seen in the ferritic steel, HT-9, under comparable conditions. Measurement of deuterium diffusivity in V-15Cr-5Ti using permeation break-through times indicates D = 1.4 x 10 -8 exp(-.11 eV/kT) (m 2 /s)

  16. Free energy of superfluid 3He

    International Nuclear Information System (INIS)

    Rainer, D.; Serene, J.W.

    1976-01-01

    A systematic scheme is presented for calculating the free energy of superfluid Fermi liquids by an asymptotic expansion in the small parameter T/subc//T/subF/. This scheme is used to evaluate the strong-coupling corrections to the free energy of superfluid 3 He. It is shown that the leading corrections can be expressed in terms of the normal-state quasiparticle scattering amplitude, and the strong-coupling results are discussed using the s-p approximation for the scattering amplitude

  17. Hydrogen permeation properties of plasma-sprayed tungsten*1

    Science.gov (United States)

    Anderl, R. A.; Pawelko, R. J.; Hankins, M. R.; Longhurst, G. R.; Neiser, R. A.

    1994-09-01

    Tungsten has been proposed as a plasma-facing component material for advanced fusion facilities. This paper reports on laboratory-scale studies that were done to assess the hydrogen permeation properties of plasma-sprayed tungsten for such applications. The work entailed deuterium permeation measurements for plasma-sprayed (PS) tungsten coatings, sputter-deposited (SP) tungsten coatings, and steel substrate material using a mass-analyzed, 3 keV D 3+ ion beam with fluxes of ˜6.5 × 10 19 D/m 2 s. Extensive characterization analyses for the plasma-sprayed tungsten coatings were made using Auger spectrometry and scanning electron microscopy (SEM). Observed permeation rates through composite PS-tungsten/steel specimens were several orders of magnitude below the permeation levels observed for SP-tungsten/steel composite specimens and pure steel specimens. Characterization analyses indicated that the plasma-sprayed tungsten coating had a nonhomogeneous microstructure that consisted of splats with columnar solidification, partially-melted particles with grain boundaries, and void regions. Reduced permeation levels can be attributed to the complex microstructure and a substantial surface-connected porosity.

  18. Impact of boiling on free and bound phenolic profile and antioxidant activity of commercial gluten-free pasta.

    Science.gov (United States)

    Rocchetti, Gabriele; Lucini, Luigi; Chiodelli, Giulia; Giuberti, Gianluca; Montesano, Domenico; Masoero, Francesco; Trevisan, Marco

    2017-10-01

    Cooking by boiling dry pasta could have varying degrees of influence on nutritional and functional components. In the present study, its effect on total phenolic content and antioxidant capacity, as well as on the comprehensive profile of free and bound phenolics, was investigated in six commercial gluten-free (GF) pasta products. Overall, the heat treatment caused a significant reduction (Pphenolic content as well as FRAP reducing power and ORAC radical scavenging, with significant differences among the pasta samples considered. The highest values were recorded in free phenolic fraction remaining in black rice (41mggallic acid equivalents100g -1 and 25mmolTrolox Equivalents100g -1 ) and quinoa (24mggallic acid equivalents100g -1 and 14mmolTrolox Equivalents100g -1 ) cooked GF pasta. Significant correlations (Pphenolics and both the antioxidant capacity assays performed. UHPLC-ESI/QTOF-MS mass profiling allowed confirming the spectrophotometric results, while identifying the amount of free and bound fractions. Among phenolic classes, lignans exhibited the highest decrease during the cooking process, followed by stilbenes and flavonoids. However, phenolic acids and other phenolics showed the highest stability. Furthermore, cooking by boiling strongly lowered the bound-to-free ratio of phenolic compounds, by an averaged factor ranging from 14-folds for flavonoids to 5-folds for other classes of phenolics. Copyright © 2017 Elsevier Ltd. All rights reserved.

  19. Hydrogen Permeation in Cold-Rolled High-Mn Twinning-Induced Plasticity Steels

    Science.gov (United States)

    Han, Do Kyeong; Hwang, A. In; Byeon, Woo Jun; Noh, Seung Jeong; Suh, Dong-Woo

    2017-11-01

    Hydrogen permeation is investigated in cold-rolled Fe-0.6C-18Mn-(1.5Al) alloys. The hydrogen mobility is lower in cold-rolled alloys compared with annealed alloys. Al-containing alloy shows less deceleration of hydrogen mobility compared with the Al-free alloy. This is attributed to the reduced formation of mechanical twins and dislocations. Mechanical twins trap hydrogen strongly but are vulnerable to crack initiation; suppression of these is thought to be a major favorable influence of Al on hydrogen-induced mechanical degradation.

  20. Information-to-free-energy conversion: Utilizing thermal fluctuations.

    Science.gov (United States)

    Toyabe, Shoichi; Muneyuki, Eiro

    2013-01-01

    Maxwell's demon is a hypothetical creature that can convert information to free energy. A debate that has lasted for more than 100 years has revealed that the demon's operation does not contradict the laws of thermodynamics; hence, the demon can be realized physically. We briefly review the first experimental demonstration of Maxwell's demon of Szilard's engine type that converts information to free energy. We pump heat from an isothermal environment by using the information about the thermal fluctuations of a Brownian particle and increase the particle's free energy.

  1. Effect of hygroscopic materials on water vapor permeation and dehumidification performance of poly(vinyl alcohol) membranes

    KAUST Repository

    Bui, T. D.

    2017-01-16

    In this study, two hygroscopic materials, inorganic lithium chloride (LiCl) and organic triethylene glycol (TEG) were separately added to poly(vinyl alcohol) (PVA) to form blend membranes for air dehumidification. Water vapor permeation, dehumidification performance and long-term durability of the membranes were studied systematically. Membrane hydrophilicity and water vapor sorbability increased significantly with higher the hygroscopic material contents. Water vapor permeance of the membranes increased with both added hygroscopic material and absorbed water. Water permeation energy varied from positive to negative with higher hygroscopic content. This observation is attributed to a lower diffusion energy and a relatively constant sorption energy when hygroscopic content increases. Comparatively, PVA/TEG has less corrosive problems and is more environmentally friendly than PVA/LiCl. A membrane with PVA/TEG is observed to be highly durable and is suitable for dehumidification applications.

  2. Hydrogen permeation preventive structural materials

    International Nuclear Information System (INIS)

    Fukushima, Kimichika; Nakahigashi, Shigeo; Imura, Masashi; Terasawa, Michitaka; Ebisawa, Katsuyuki.

    1986-01-01

    Purpose: To provide highly practical wall materials for use in thermonuclear reactors capable of effectively preventing the permeation of hydrogen isotopes such as tritium thereby preventing the contamination of coolants. Constitution: Helium gas is injected into or at the surface of base materials comprising stainless steel plates to form a helium gas region. Alternatively, boron, nitrogen or the compound thereof having a greater helium forming nuclear reaction cross section than that of the base materials is mixed or injected into the base material to form the helium gas region through (n,α) reaction under neutron irradiation. Since the helium gas region constitutes a diffusion barrier for the tritium as the hydrogen isotope, the permeation amount of tritium is significantly suppressed. Helium gas bubbles or lattice defects are formed in the helium gas region under the neutron irradiation, by which the hydrogen isotope capturing effect can also be effected. In this way, permeation of the hydrogen isotope, contamination of the coolants, etc. can be prevented to provide great practical effectives. (Kawakami, Y.)

  3. Heterogeneous free-surface profile of B4C polycrystal under shock compression

    International Nuclear Information System (INIS)

    Mashimo, T.; Uchino, M.

    1997-01-01

    Observations of the free-surface behavior under shock compression by the gapped-flat mirror method were performed on B 4 C and Si 3 N 4 ceramics to study their shock-yielding properties. Jagged profiles of the moving free-surface in the plastic region, with a special scale of about one mm and a maximum local displacement of a few 10s of μm, were observed for B 4 C polycrystals. Similar profiles for Si 3 N 4 polycrystals were smooth. Such profiles for B 4 C polycrystals were also observed in the elastic region. It is suggested that these observations reflect the heterogeneous nature of shock compression in solids, and further indicate that a macroscopic slip system plays an important role in the elastoplastic transition of B 4 C material under shock compression and decompression. copyright 1997 American Institute of Physics

  4. Calculating Free Energies Using Average Force

    Science.gov (United States)

    Darve, Eric; Pohorille, Andrew; DeVincenzi, Donald L. (Technical Monitor)

    2001-01-01

    A new, general formula that connects the derivatives of the free energy along the selected, generalized coordinates of the system with the instantaneous force acting on these coordinates is derived. The instantaneous force is defined as the force acting on the coordinate of interest so that when it is subtracted from the equations of motion the acceleration along this coordinate is zero. The formula applies to simulations in which the selected coordinates are either unconstrained or constrained to fixed values. It is shown that in the latter case the formula reduces to the expression previously derived by den Otter and Briels. If simulations are carried out without constraining the coordinates of interest, the formula leads to a new method for calculating the free energy changes along these coordinates. This method is tested in two examples - rotation around the C-C bond of 1,2-dichloroethane immersed in water and transfer of fluoromethane across the water-hexane interface. The calculated free energies are compared with those obtained by two commonly used methods. One of them relies on determining the probability density function of finding the system at different values of the selected coordinate and the other requires calculating the average force at discrete locations along this coordinate in a series of constrained simulations. The free energies calculated by these three methods are in excellent agreement. The relative advantages of each method are discussed.

  5. Reemission and permeation of deuterium implanted into metals

    International Nuclear Information System (INIS)

    Tanabe, T.; Furuyama, Y.; Imoto, S.

    1984-01-01

    Focusing on the marked depression of deuterium permeation rate during the deuteron bombardment, implantation experiments coupled with gaseous permeation experiments are performed on pure Ni and Ni with evaporated MnO. It is concluded that the reemission of implanted deuterium is initially depressed, but it soon becomes enhanced with increase of fluence leading to a rapid decrease of permeation rate at the intermediate temperatures 600-1000 K, which is attributed to the formation of short diffusion paths from the projected range to the front surface. (orig.)

  6. Comparison of Hexane Vapour Permeation in Two Different Polymeric Membranes via an Innovative In-line FID Detection Method

    Directory of Open Access Journals (Sweden)

    Z. Petrusová

    2017-07-01

    Full Text Available This manuscript presents a novel method for the analysis of vapour permeation through polymeric membranes based on in-line analysis of the permeate with an FID detector. The hexane vapour permeation was studied for two commercially available membranes, namely low-density polyethylene (LDPE and thin-film-composite polyamide (PA membrane. The hexane permeation was studied at temperatures of 25–45 °C, hexane vapour activity in the range of 0.2–0.8 and trans-membrane pressures of 5–50 kPa. Two fundamentally different membranes were chosen to demonstrate the potential and sensitivity of the permeation apparatus. Upon increasing the temperature from 25 to 45 °C, the flux in LDPE was found to increase almost fourfold over the whole activity range. The nonlinear increase of the flux with activity indicates plasticization of the polymer by hexane. Contrarily, the flux in the PA membrane increases almost linearly with activity, with only a minor upward curvature. Since the PA is far away from any phase transition, it is less temperature-dependent than LDPE. The activation energy for permeation demonstrates that the temperature dependence in the LDPE membrane is dominated by changes in diffusion, whereas it is dominated by changes in solubility in the PA membrane.

  7. Estimation of the dietary nutrient profile of free-roaming feral cats: possible implications for nutrition of domestic cats.

    Science.gov (United States)

    Plantinga, Esther A; Bosch, Guido; Hendriks, Wouter H

    2011-10-01

    Cats are strict carnivores and in the wild rely on a diet solely based on animal tissues to meet their specific and unique nutritional requirements. Although the feeding ecology of cats in the wild has been well documented in the literature, there is no information on the precise nutrient profile to which the cat's metabolism has adapted. The present study aimed to derive the dietary nutrient profile of free-living cats. Studies reporting the feeding habits of cats in the wild were reviewed and data on the nutrient composition of the consumed prey items obtained from the literature. Fifty-five studies reported feeding strategy data of cats in the wild. After specific exclusion criteria, twenty-seven studies were used to derive thirty individual dietary nutrient profiles. The results show that feral cats are obligatory carnivores, with their daily energy intake from crude protein being 52 %, from crude fat 46 % and from N-free extract only 2 %. Minerals and trace elements are consumed in relatively high concentrations compared with recommended allowances determined using empirical methods. The calculated nutrient profile may be considered the nutrient intake to which the cat's metabolic system has adapted. The present study provides insight into the nutritive, as well as possible non-nutritive aspects of a natural diet of whole prey for cats and provides novel ways to further improve feline diets to increase health and longevity.

  8. Surface free energy of alkali and transition metal nanoparticles

    International Nuclear Information System (INIS)

    Aqra, Fathi; Ayyad, Ahmed

    2014-01-01

    Graphical abstract: Size dependent surface free energy of spherical, cubic and disk Au nanoparticles. - Highlights: • A model to account for the surface free energy of metallic nanoparticles is described. • The model requires only the cohesive energy of the nanoparticle. • The surface free energy of a number of metallic nanoparticles has been calculated, and the obtained values agree well with existing data. • Surface energy falls down very fast when the number of atoms is less than hundred. • The model is applicable to any metallic nanoparticle. - Abstract: This paper addresses an interesting issue on the surface free energy of metallic nanoparticles as compared to the bulk material. Starting from a previously reported equation, a theoretical model, that involves a specific term for calculating the cohesive energy of nanoparticle, is established in a view to describe the behavior of surface free energy of metallic nanoparticles (using different shapes of particle: sphere, cube and disc). The results indicate that the behavior of surface energy is very appropriate for spherical nanoparticle, and thus, it is the most realistic shape of a nanoparticle. The surface energy of copper, silver, gold, platinum, tungsten, molybdenum, tantalum, paladium and alkali metallic nanoparticles is only prominent in the nanoscale size, and it decreases with the decrease of nanoparticle size. Thus, the surface free energy plays a more important role in determining the properties of nanoparticles than in bulk materials. It differs from shape to another, and falls down as the number of atoms (nanoparticle size) decreases. In the case of spherical nanoparticles, the onset of the sharp decrease in surface energy is observed at about 110 atom. A decrease of 16% and 45% in surface energy is found by moving from bulk to 110 atom and from bulk to 5 atom, respectively. The predictions are consistent with the reported data

  9. Renewable Energy Country Profiles. Latin America

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    2012-06-15

    The IRENA Renewable Energy Country Profiles combine elements of IRENA analysis with the latest information available from a vast array of sources in order to give a brief yet comprehensive and up-to-date picture of the situation of renewable energy that includes energy supply, electrical capacity, energy access, policies, targets, investment climate, projects and endowment in renewable energy resources. Because of the different timelines of these sources, data presented here refer to years between 2009 and 2012. Data availability also differs from country to country, which makes comparison with a wider regional group possible only for the year for which figures are available for all the members of the group; while this may not be the most recent year, the differences between countries, regions and the world remain striking. The current country profiles are just a starting point; they will be extended upon with new indicators to make them more informative, and maintained as a live product on the IRENA website as a key source of information on renewable energy.

  10. Implicit ligand theory for relative binding free energies

    Science.gov (United States)

    Nguyen, Trung Hai; Minh, David D. L.

    2018-03-01

    Implicit ligand theory enables noncovalent binding free energies to be calculated based on an exponential average of the binding potential of mean force (BPMF)—the binding free energy between a flexible ligand and rigid receptor—over a precomputed ensemble of receptor configurations. In the original formalism, receptor configurations were drawn from or reweighted to the apo ensemble. Here we show that BPMFs averaged over a holo ensemble yield binding free energies relative to the reference ligand that specifies the ensemble. When using receptor snapshots from an alchemical simulation with a single ligand, the new statistical estimator outperforms the original.

  11. Hydrogen permeation properties of Pd-coated V89.8Cr 10Y0.2 alloy membrane using WGS reaction gases

    KAUST Repository

    Jeon, Sungil

    2013-05-01

    The influence of co-existing gases on the hydrogen permeation was studied through a Pd-coated V89.8Cr10Y0.2 alloy membrane. Preliminary hydrogen permeation experiments have been confirmed that hydrogen flux was 6.26 ml/min/cm2 for a Pd-coated V 89.8Cr10Y0.2 alloy membrane (thick: 0.5 mm) using pure hydrogen as feed gas. Also, the hydrogen permeation flux decreased with decrease of hydrogen partial pressure at constant pressure when H 2/CO2 and H2/CO2/H2S mixture applied as feed gas respectively and permeation fluxes were satisfied with Sievert\\'s law in different feed conditions. It was found from XRD and SEM results after permeation test that the Pd-coated V89.8Cr 10Y0.2 alloy membrane had good stability and durability for various mixture feeding conditions. Copyright © 2013, Hydrogen Energy Publications, LLC. Published by Elsevier Ltd. All rights reserved.

  12. Hydrogen permeation properties of Pd-coated V89.8Cr 10Y0.2 alloy membrane using WGS reaction gases

    KAUST Repository

    Jeon, Sungil; Park, Junghoon

    2013-01-01

    The influence of co-existing gases on the hydrogen permeation was studied through a Pd-coated V89.8Cr10Y0.2 alloy membrane. Preliminary hydrogen permeation experiments have been confirmed that hydrogen flux was 6.26 ml/min/cm2 for a Pd-coated V 89.8Cr10Y0.2 alloy membrane (thick: 0.5 mm) using pure hydrogen as feed gas. Also, the hydrogen permeation flux decreased with decrease of hydrogen partial pressure at constant pressure when H 2/CO2 and H2/CO2/H2S mixture applied as feed gas respectively and permeation fluxes were satisfied with Sievert's law in different feed conditions. It was found from XRD and SEM results after permeation test that the Pd-coated V89.8Cr 10Y0.2 alloy membrane had good stability and durability for various mixture feeding conditions. Copyright © 2013, Hydrogen Energy Publications, LLC. Published by Elsevier Ltd. All rights reserved.

  13. Enhancement of skin permeation of flurbiprofen via its transdermal patches using isopulegol decanoate (ISO-C10) as an absorption enhancer: pharmacokinetic and pharmacodynamic evaluation.

    Science.gov (United States)

    Chen, Yang; Quan, Peng; Liu, Xiaochang; Guo, Wenjia; Song, Wenting; Cun, Dongmei; Wang, Zhongyan; Fang, Liang

    2015-09-01

    The study aimed to prepare a transdermal patch for flurbiprofen using isopulegol decanoate (ISO-C10) as a permeation enhancer, and to evaluate the in-vitro and in-vivo percutaneous permeation of the drug, as well as the pharmacodynamic efficacy of the formulation. The permeation experiments were conducted on rabbit skin, and the pharmacokinetic profiles and synovial fluid drug concentration were measured after in-vivo transdermal administration. A deconvolution approach was employed to analyse the correlation between the in-vitro and in-vivo drug permeation. The anti-inflammatory and analgesic effects were, respectively, assessed using the adjuvant arthritis model and the acetic acid induced pain model. ISO-C10 could increase the in-vitro permeation of flurbiprofen from 46.22 ± 5.65 μg/cm(2) to 101.07 ± 10.85 μg/cm(2) . The in-vivo absorption of the drug was also improved by the enhancer, and a good linear correlation was observed between the in-vitro and in-vivo drug permeation. Meanwhile, the ISO-C10 contained patches increased the drug disposition in synovial fluid and enhanced the pharmacodynamic efficacy of the formulation. ISO-C10 would be a promising permeation enhancer for improving the in-vitro and in-vivo delivery of flurbiprofen from its transdermal patches. © 2015 Royal Pharmaceutical Society.

  14. QM/MM free energy simulations: recent progress and challenges

    Science.gov (United States)

    Lu, Xiya; Fang, Dong; Ito, Shingo; Okamoto, Yuko; Ovchinnikov, Victor

    2016-01-01

    Due to the higher computational cost relative to pure molecular mechanical (MM) simulations, hybrid quantum mechanical/molecular mechanical (QM/MM) free energy simulations particularly require a careful consideration of balancing computational cost and accuracy. Here we review several recent developments in free energy methods most relevant to QM/MM simulations and discuss several topics motivated by these developments using simple but informative examples that involve processes in water. For chemical reactions, we highlight the value of invoking enhanced sampling technique (e.g., replica-exchange) in umbrella sampling calculations and the value of including collective environmental variables (e.g., hydration level) in metadynamics simulations; we also illustrate the sensitivity of string calculations, especially free energy along the path, to various parameters in the computation. Alchemical free energy simulations with a specific thermodynamic cycle are used to probe the effect of including the first solvation shell into the QM region when computing solvation free energies. For cases where high-level QM/MM potential functions are needed, we analyze two different approaches: the QM/MM-MFEP method of Yang and co-workers and perturbative correction to low-level QM/MM free energy results. For the examples analyzed here, both approaches seem productive although care needs to be exercised when analyzing the perturbative corrections. PMID:27563170

  15. Improved free-energy landscape reconstruction of bacteriorhodopsin highlights local variations in unfolding energy.

    Science.gov (United States)

    Heenan, Patrick R; Yu, Hao; Siewny, Matthew G W; Perkins, Thomas T

    2018-03-28

    Precisely quantifying the energetics that drive the folding of membrane proteins into a lipid bilayer remains challenging. More than 15 years ago, atomic force microscopy (AFM) emerged as a powerful tool to mechanically extract individual membrane proteins from a lipid bilayer. Concurrently, fluctuation theorems, such as the Jarzynski equality, were applied to deduce equilibrium free energies (ΔG 0 ) from non-equilibrium single-molecule force spectroscopy records. The combination of these two advances in single-molecule studies deduced the free-energy of the model membrane protein bacteriorhodopsin in its native lipid bilayer. To elucidate this free-energy landscape at a higher resolution, we applied two recent developments. First, as an input to the reconstruction, we used force-extension curves acquired with a 100-fold higher time resolution and 10-fold higher force precision than traditional AFM studies of membrane proteins. Next, by using an inverse Weierstrass transform and the Jarzynski equality, we removed the free energy associated with the force probe and determined the molecular free-energy landscape of the molecule under study, bacteriorhodopsin. The resulting landscape yielded an average unfolding free energy per amino acid (aa) of 1.0 ± 0.1 kcal/mol, in agreement with past single-molecule studies. Moreover, on a smaller spatial scale, this high-resolution landscape also agreed with an equilibrium measurement of a particular three-aa transition in bacteriorhodopsin that yielded 2.7 kcal/mol/aa, an unexpectedly high value. Hence, while average unfolding ΔG 0 per aa is a useful metric, the derived high-resolution landscape details significant local variation from the mean. More generally, we demonstrated that, as anticipated, the inverse Weierstrass transform is an efficient means to reconstruct free-energy landscapes from AFM data.

  16. Development of a Contact Permeation Test Fixture and Method

    Science.gov (United States)

    2013-04-01

    Permeation and Analytical Solutions Team Quality System documentation and the guidance found in the ISO 17025 standard. All permeation and...annular ring (left) and no pressure (right). 2.2.4 Quality Controls Analytical permeation testing was conducted in accordance with ISO 17025 quality...internal standard. This mixture was vortexed for 20–30 s then centrifuged at 15,000 rpm for 5 min in a Micromax microcentrifuge (Thermo IEC ; Needham

  17. Molecular weight profiles of proanthocyanidin polymers

    Science.gov (United States)

    Vincent M. Williams; Lawrence J. Porter; Richard W. Hemingway

    1983-01-01

    The MW profiles of proanthocyanidin polymers (condensed tannins) from 32 samples representing a wide range of plant tissues of many different species have been obtained by gel permeation chromatography of the peracetate derivatives. The tannins vary widely in MW, with M values for the peracetates in the range 1600-5500. The MW profiles vary greatly from those with...

  18. Holographic free energy and thermodynamic geometry

    Science.gov (United States)

    Ghorai, Debabrata; Gangopadhyay, Sunandan

    2016-12-01

    We obtain the free energy and thermodynamic geometry of holographic superconductors in 2+1 dimensions. The gravitational theory in the bulk dual to this 2+1-dimensional strongly coupled theory lives in the 3+1 dimensions and is that of a charged AdS black hole together with a massive charged scalar field. The matching method is applied to obtain the nature of the fields near the horizon using which the holographic free energy is computed through the gauge/gravity duality. The critical temperature is obtained for a set of values of the matching point of the near horizon and the boundary behaviour of the fields in the probe limit approximation which neglects the back reaction of the matter fields on the background spacetime geometry. The thermodynamic geometry is then computed from the free energy of the boundary theory. From the divergence of the thermodynamic scalar curvature, the critical temperature is obtained once again. We then compare this result for the critical temperature with that obtained from the matching method.

  19. Holographic free energy and thermodynamic geometry

    International Nuclear Information System (INIS)

    Ghorai, Debabrata; Gangopadhyay, Sunandan

    2016-01-01

    We obtain the free energy and thermodynamic geometry of holographic superconductors in 2 + 1 dimensions. The gravitational theory in the bulk dual to this 2 + 1-dimensional strongly coupled theory lives in the 3 + 1 dimensions and is that of a charged AdS black hole together with a massive charged scalar field. The matching method is applied to obtain the nature of the fields near the horizon using which the holographic free energy is computed through the gauge/gravity duality. The critical temperature is obtained for a set of values of the matching point of the near horizon and the boundary behaviour of the fields in the probe limit approximation which neglects the back reaction of the matter fields on the background spacetime geometry. The thermodynamic geometry is then computed from the free energy of the boundary theory. From the divergence of the thermodynamic scalar curvature, the critical temperature is obtained once again. We then compare this result for the critical temperature with that obtained from the matching method. (orig.)

  20. Holographic free energy and thermodynamic geometry

    Energy Technology Data Exchange (ETDEWEB)

    Ghorai, Debabrata [S.N. Bose National Centre for Basic Sciences, Kolkata (India); Gangopadhyay, Sunandan [Indian Institute of Science Education and Research, Kolkata, Nadia (India); West Bengal State University, Department of Physics, Barasat (India); Inter University Centre for Astronomy and Astrophysics, Pune (India)

    2016-12-15

    We obtain the free energy and thermodynamic geometry of holographic superconductors in 2 + 1 dimensions. The gravitational theory in the bulk dual to this 2 + 1-dimensional strongly coupled theory lives in the 3 + 1 dimensions and is that of a charged AdS black hole together with a massive charged scalar field. The matching method is applied to obtain the nature of the fields near the horizon using which the holographic free energy is computed through the gauge/gravity duality. The critical temperature is obtained for a set of values of the matching point of the near horizon and the boundary behaviour of the fields in the probe limit approximation which neglects the back reaction of the matter fields on the background spacetime geometry. The thermodynamic geometry is then computed from the free energy of the boundary theory. From the divergence of the thermodynamic scalar curvature, the critical temperature is obtained once again. We then compare this result for the critical temperature with that obtained from the matching method. (orig.)

  1. Modeling kinetics and equilibrium of membranes with fields: Milestoning analysis and implication to permeation

    Energy Technology Data Exchange (ETDEWEB)

    Cardenas, Alfredo E. [Institute for Computational Engineering and Sciences, University of Texas at Austin, Austin, Texas 78712 (United States); Elber, Ron [Institute for Computational Engineering and Sciences, University of Texas at Austin, Austin, Texas 78712 (United States); Department of Chemistry, University of Texas at Austin, Austin, Texas 78712 (United States)

    2014-08-07

    Coarse graining of membrane simulations by translating atomistic dynamics to densities and fields with Milestoning is discussed. The space of the membrane system is divided into cells and the different cells are characterized by order parameters presenting the number densities. The dynamics of the order parameters are probed with Milestoning. The methodology is illustrated here for a phospholipid membrane system (a hydrated bilayer of DOPC (1,2-dioleoyl-sn-glycero-3-phosphocholine) lipid molecules). Significant inhomogeneity in membrane internal number density leads to complex free energy landscape and local maps of transition times. Dynamics and distributions of cavities within the membrane assist the permeation of nonpolar solutes such as xenon atoms. It is illustrated that quantitative and detailed dynamics of water transport through DOPC membrane can be analyzed using Milestoning with fields. The reaction space for water transport includes at least two slow variables: the normal to the membrane plane, and the water density.

  2. Modeling kinetics and equilibrium of membranes with fields: Milestoning analysis and implication to permeation

    International Nuclear Information System (INIS)

    Cardenas, Alfredo E.; Elber, Ron

    2014-01-01

    Coarse graining of membrane simulations by translating atomistic dynamics to densities and fields with Milestoning is discussed. The space of the membrane system is divided into cells and the different cells are characterized by order parameters presenting the number densities. The dynamics of the order parameters are probed with Milestoning. The methodology is illustrated here for a phospholipid membrane system (a hydrated bilayer of DOPC (1,2-dioleoyl-sn-glycero-3-phosphocholine) lipid molecules). Significant inhomogeneity in membrane internal number density leads to complex free energy landscape and local maps of transition times. Dynamics and distributions of cavities within the membrane assist the permeation of nonpolar solutes such as xenon atoms. It is illustrated that quantitative and detailed dynamics of water transport through DOPC membrane can be analyzed using Milestoning with fields. The reaction space for water transport includes at least two slow variables: the normal to the membrane plane, and the water density

  3. On the TAP Free Energy in the Mixed p-Spin Models

    Science.gov (United States)

    Chen, Wei-Kuo; Panchenko, Dmitry

    2018-05-01

    Thouless et al. (Phys Mag 35(3):593-601, 1977), derived a representation for the free energy of the Sherrington-Kirkpatrick model, called the TAP free energy, written as the difference of the energy and entropy on the extended configuration space of local magnetizations with an Onsager correction term. In the setting of mixed p-spin models with Ising spins, we prove that the free energy can indeed be written as the supremum of the TAP free energy over the space of local magnetizations whose Edwards-Anderson order parameter (self-overlap) is to the right of the support of the Parisi measure. Furthermore, for generic mixed p-spin models, we prove that the free energy is equal to the TAP free energy evaluated on the local magnetization of any pure state.

  4. A distribution-free multi-factorial profiler for harvesting information from high-density screenings.

    Science.gov (United States)

    Besseris, George J

    2013-01-01

    Data screening is an indispensable phase in initiating the scientific discovery process. Fractional factorial designs offer quick and economical options for engineering highly-dense structured datasets. Maximum information content is harvested when a selected fractional factorial scheme is driven to saturation while data gathering is suppressed to no replication. A novel multi-factorial profiler is presented that allows screening of saturated-unreplicated designs by decomposing the examined response to its constituent contributions. Partial effects are sliced off systematically from the investigated response to form individual contrasts using simple robust measures. By isolating each time the disturbance attributed solely to a single controlling factor, the Wilcoxon-Mann-Whitney rank stochastics are employed to assign significance. We demonstrate that the proposed profiler possesses its own self-checking mechanism for detecting a potential influence due to fluctuations attributed to the remaining unexplainable error. Main benefits of the method are: 1) easy to grasp, 2) well-explained test-power properties, 3) distribution-free, 4) sparsity-free, 5) calibration-free, 6) simulation-free, 7) easy to implement, and 8) expanded usability to any type and size of multi-factorial screening designs. The method is elucidated with a benchmarked profiling effort for a water filtration process.

  5. A distribution-free multi-factorial profiler for harvesting information from high-density screenings.

    Directory of Open Access Journals (Sweden)

    George J Besseris

    Full Text Available Data screening is an indispensable phase in initiating the scientific discovery process. Fractional factorial designs offer quick and economical options for engineering highly-dense structured datasets. Maximum information content is harvested when a selected fractional factorial scheme is driven to saturation while data gathering is suppressed to no replication. A novel multi-factorial profiler is presented that allows screening of saturated-unreplicated designs by decomposing the examined response to its constituent contributions. Partial effects are sliced off systematically from the investigated response to form individual contrasts using simple robust measures. By isolating each time the disturbance attributed solely to a single controlling factor, the Wilcoxon-Mann-Whitney rank stochastics are employed to assign significance. We demonstrate that the proposed profiler possesses its own self-checking mechanism for detecting a potential influence due to fluctuations attributed to the remaining unexplainable error. Main benefits of the method are: 1 easy to grasp, 2 well-explained test-power properties, 3 distribution-free, 4 sparsity-free, 5 calibration-free, 6 simulation-free, 7 easy to implement, and 8 expanded usability to any type and size of multi-factorial screening designs. The method is elucidated with a benchmarked profiling effort for a water filtration process.

  6. Free energy from molecular dynamics with multiple constraints

    NARCIS (Netherlands)

    den Otter, Wouter K.; Briels, Willem J.

    2000-01-01

    In molecular dynamics simulations of reacting systems, the key step to determining the equilibrium constant and the reaction rate is the calculation of the free energy as a function of the reaction coordinate. Intuitively the derivative of the free energy is equal to the average force needed to

  7. Free energy distribution function of a random Ising ferromagnet

    International Nuclear Information System (INIS)

    Dotsenko, Victor; Klumov, Boris

    2012-01-01

    We study the free energy distribution function of a weakly disordered Ising ferromagnet in terms of the D-dimensional random temperature Ginzburg–Landau Hamiltonian. It is shown that besides the usual Gaussian 'body' this distribution function exhibits non-Gaussian tails both in the paramagnetic and in the ferromagnetic phases. Explicit asymptotic expressions for these tails are derived. It is demonstrated that the tails are strongly asymmetric: the left tail (for large negative values of the free energy) is much slower than the right one (for large positive values of the free energy). It is argued that at the critical point the free energy of the random Ising ferromagnet in dimensions D < 4 is described by a non-trivial universal distribution function which is non-self-averaging

  8. Measuring excess free energies of self-assembled membrane structures.

    Science.gov (United States)

    Norizoe, Yuki; Daoulas, Kostas Ch; Müller, Marcus

    2010-01-01

    Using computer simulation of a solvent-free, coarse-grained model for amphiphilic membranes, we study the excess free energy of hourglass-shaped connections (i.e., stalks) between two apposed bilayer membranes. In order to calculate the free energy by simulation in the canonical ensemble, we reversibly transfer two apposed bilayers into a configuration with a stalk in three steps. First, we gradually replace the intermolecular interactions by an external, ordering field. The latter is chosen such that the structure of the non-interacting system in this field closely resembles the structure of the original, interacting system in the absence of the external field. The absence of structural changes along this path suggests that it is reversible; a fact which is confirmed by expanded-ensemble simulations. Second, the external, ordering field is changed as to transform the non-interacting system from the apposed bilayer structure to two-bilayers connected by a stalk. The final external field is chosen such that the structure of the non-interacting system resembles the structure of the stalk in the interacting system without a field. On the third branch of the transformation path, we reversibly replace the external, ordering field by non-bonded interactions. Using expanded-ensemble techniques, the free energy change along this reversible path can be obtained with an accuracy of 10(-3)k(B)T per molecule in the n VT-ensemble. Calculating the chemical potential, we obtain the free energy of a stalk in the grandcanonical ensemble, and employing semi-grandcanonical techniques, we calculate the change of the excess free energy upon altering the molecular architecture. This computational strategy can be applied to compute the free energy of self-assembled phases in lipid and copolymer systems, and the excess free energy of defects or interfaces.

  9. Use of linear free energy relationship to predict Gibbs free energies of formation of pyrochlore phases (CaMTi2O7)

    International Nuclear Information System (INIS)

    Xu, H.; Wang, Y.

    1999-01-01

    In this letter, a linear free energy relationship is used to predict the Gibbs free energies of formation of crystalline phases of pyrochlore and zirconolite families with stoichiometry of MCaTi 2 O 7 (or, CaMTi 2 O 7 ,) from the known thermodynamic properties of aqueous tetravalent cations (M 4+ ). The linear free energy relationship for tetravalent cations is expressed as ΔG f,M v X 0 =a M v X ΔG n,M 4+ 0 +b M v X +β M v X r M 4+ , where the coefficients a M v X , b M v X , and β M v X characterize a particular structural family of M v X, r M 4+ is the ionic radius of M 4+ cation, ΔG f,M v X 0 is the standard Gibbs free energy of formation of M v X, and ΔG n,M 4+ 0 is the standard non-solvation energy of cation M 4+ . The coefficients for the structural family of zirconolite with the stoichiometry of M 4+ CaTi 2 O 7 are estimated to be: a M v X =0.5717, b M v X =-4284.67 (kJ/mol), and β M v X =27.2 (kJ/mol nm). The coefficients for the structural family of pyrochlore with the stoichiometry of M 4+ CaTi 2 O 7 are estimated to be: a M v X =0.5717, b M v X =-4174.25 (kJ/mol), and β M v X =13.4 (kJ/mol nm). Using the linear free energy relationship, the Gibbs free energies of formation of various zirconolite and pyrochlore phases are calculated. (orig.)

  10. Ultraviolet laser transverse profile shaping for improving x-ray free electron laser performance

    International Nuclear Information System (INIS)

    Li, S.; Alverson, S.; Bohler, D.; Egger, A.; Fry, A.

    2017-01-01

    The photocathode rf gun is one of the most critical components in x-ray free electron lasers. The drive laser strikes the photocathode surface, which emits electrons with properties that depend on the shape of the drive laser. Most free electron lasers use photocathodes with work function in the ultraviolet, a wavelength where direct laser manipulation becomes challenging. In this paper, we present a novel application of a digital micromirror device (DMD) for the 253 nm drive laser at the Linear Coherent Light Source. Laser profile shaping is accomplished through an iterative algorithm that takes into account shaping error and efficiency. Next, we use laser shaping to control the X-ray laser output via an online optimizer, which shows improvement in FEL pulse energy. Lastly, as a preparation for electron beam shaping, we use the DMD to measure the photocathode quantum efficiency across cathode surface with an averaged laser rms spot size of 59 μm. In conclusion, our experiments demonstrate promising outlook of using DMD to shape ultraviolet lasers for photocathode rf guns with various applications.

  11. Ultraviolet laser transverse profile shaping for improving x-ray free electron laser performance

    Science.gov (United States)

    Li, S.; Alverson, S.; Bohler, D.; Egger, A.; Fry, A.; Gilevich, S.; Huang, Z.; Miahnahri, A.; Ratner, D.; Robinson, J.; Zhou, F.

    2017-08-01

    The photocathode rf gun is one of the most critical components in x-ray free electron lasers. The drive laser strikes the photocathode surface, which emits electrons with properties that depend on the shape of the drive laser. Most free electron lasers use photocathodes with work function in the ultraviolet, a wavelength where direct laser manipulation becomes challenging. In this paper, we present a novel application of a digital micromirror device (DMD) for the 253 nm drive laser at the Linear Coherent Light Source. Laser profile shaping is accomplished through an iterative algorithm that takes into account shaping error and efficiency. Next, we use laser shaping to control the X-ray laser output via an online optimizer, which shows improvement in FEL pulse energy. Lastly, as a preparation for electron beam shaping, we use the DMD to measure the photocathode quantum efficiency across cathode surface with an averaged laser rms spot size of 59 μ m . Our experiments demonstrate promising outlook of using DMD to shape ultraviolet lasers for photocathode rf guns with various applications.

  12. S-protected thiolated chitosan for oral delivery of hydrophilic macromolecules: evaluation of permeation enhancing and efflux pump inhibitory properties.

    Science.gov (United States)

    Dünnhaupt, Sarah; Barthelmes, Jan; Rahmat, Deni; Leithner, Katharina; Thurner, Clemens C; Friedl, Heike; Bernkop-Schnürch, Andreas

    2012-05-07

    The objective of this study was the investigation of permeation enhancing and P-glycoprotein (P-gp) inhibition effects of a novel thiolated chitosan, the so-named S-protected thiolated chitosan. Mediated by a carbodiimide, increasing amounts of thioglycolic acid (TGA) were covalently bound to chitosan (CS) in the first step of modification. In the second step, these thiol groups of thiolated chitosan were protected by disulfide bond formation with the thiolated aromatic residue 6-mercaptonicotinamide (6-MNA). Mucoadhesive properties of all conjugates were evaluated in vitro on porcine intestinal mucosa based on tensile strength investigations. Permeation enhancing effects were evaluated ex vivo using rat intestinal mucosa and in vitro via Caco-2 cells using the hydrophilic macromolecule FD(4) as the model drug. Caco-2 cells were further used to show P-gp inhibition effects by using Rho-123 as P-gp substrate. Apparent permeability coefficients (P(app)) were calculated and compared to values obtained from each buffer control. Three different thiolated chitosans were generated in the first step of modification, which displayed increasing amounts of covalently attached free thiol groups on the polymer backbone. In the second modification step, more than 50% of these free thiol groups were covalently linked with 6-MNA. Within 3 h of permeation studies on excised rat intestine, P(app) values of all S-protected chitosans were at least 1.3-fold higher compared to those of corresponding thiomers and more than twice as high as that of unmodified chitosan. Additional permeation studies on Caco-2 cells confirmed these results. Because of the chemical modification and higher amount of reactive thiol groups, all S-protected thiolated chitosans exhibit at least 1.4-fold pronounced P-gp inhibition effects in contrast to their corresponding thiomers. These features approve S-protected thiolated chitosan as a promising excipient for various drug delivery systems providing improved

  13. From free energy to expected energy: Improving energy-based value function approximation in reinforcement learning.

    Science.gov (United States)

    Elfwing, Stefan; Uchibe, Eiji; Doya, Kenji

    2016-12-01

    Free-energy based reinforcement learning (FERL) was proposed for learning in high-dimensional state and action spaces. However, the FERL method does only really work well with binary, or close to binary, state input, where the number of active states is fewer than the number of non-active states. In the FERL method, the value function is approximated by the negative free energy of a restricted Boltzmann machine (RBM). In our earlier study, we demonstrated that the performance and the robustness of the FERL method can be improved by scaling the free energy by a constant that is related to the size of network. In this study, we propose that RBM function approximation can be further improved by approximating the value function by the negative expected energy (EERL), instead of the negative free energy, as well as being able to handle continuous state input. We validate our proposed method by demonstrating that EERL: (1) outperforms FERL, as well as standard neural network and linear function approximation, for three versions of a gridworld task with high-dimensional image state input; (2) achieves new state-of-the-art results in stochastic SZ-Tetris in both model-free and model-based learning settings; and (3) significantly outperforms FERL and standard neural network function approximation for a robot navigation task with raw and noisy RGB images as state input and a large number of actions. Copyright © 2016 The Author(s). Published by Elsevier Ltd.. All rights reserved.

  14. Qgui: A high-throughput interface for automated setup and analysis of free energy calculations and empirical valence bond simulations in biological systems.

    Science.gov (United States)

    Isaksen, Geir Villy; Andberg, Tor Arne Heim; Åqvist, Johan; Brandsdal, Bjørn Olav

    2015-07-01

    Structural information and activity data has increased rapidly for many protein targets during the last decades. In this paper, we present a high-throughput interface (Qgui) for automated free energy and empirical valence bond (EVB) calculations that use molecular dynamics (MD) simulations for conformational sampling. Applications to ligand binding using both the linear interaction energy (LIE) method and the free energy perturbation (FEP) technique are given using the estrogen receptor (ERα) as a model system. Examples of free energy profiles obtained using the EVB method for the rate-limiting step of the enzymatic reaction catalyzed by trypsin are also shown. In addition, we present calculation of high-precision Arrhenius plots to obtain the thermodynamic activation enthalpy and entropy with Qgui from running a large number of EVB simulations. Copyright © 2015 Elsevier Inc. All rights reserved.

  15. Hierarchical Protein Free Energy Landscapes from Variationally Enhanced Sampling.

    Science.gov (United States)

    Shaffer, Patrick; Valsson, Omar; Parrinello, Michele

    2016-12-13

    In recent work, we demonstrated that it is possible to obtain approximate representations of high-dimensional free energy surfaces with variationally enhanced sampling ( Shaffer, P.; Valsson, O.; Parrinello, M. Proc. Natl. Acad. Sci. , 2016 , 113 , 17 ). The high-dimensional spaces considered in that work were the set of backbone dihedral angles of a small peptide, Chignolin, and the high-dimensional free energy surface was approximated as the sum of many two-dimensional terms plus an additional term which represents an initial estimate. In this paper, we build on that work and demonstrate that we can calculate high-dimensional free energy surfaces of very high accuracy by incorporating additional terms. The additional terms apply to a set of collective variables which are more coarse than the base set of collective variables. In this way, it is possible to build hierarchical free energy surfaces, which are composed of terms that act on different length scales. We test the accuracy of these free energy landscapes for the proteins Chignolin and Trp-cage by constructing simple coarse-grained models and comparing results from the coarse-grained model to results from atomistic simulations. The approach described in this paper is ideally suited for problems in which the free energy surface has important features on different length scales or in which there is some natural hierarchy.

  16. Effect of residual stresses on hydrogen permeation in iron

    International Nuclear Information System (INIS)

    Mouanga, M.; Bercot, P.; Takadoum, J.

    2010-01-01

    The effect of residual stresses on electrochemical permeation in iron membrane was investigated. Four thermal and mechanical treatments were chosen to obtain different surface states in relation to the residual stresses. Residual stresses were determined by X-ray diffraction (XRD) using the Macherauch and Mueller method. The results were completed by the microhardness measurements. For all iron membranes, compressive residual stresses were obtained. Electrochemical permeation experiments using a Devanathan and Stachurski cell were employed to determine the hydrogen permeation behaviour of the various iron membranes. The latter was charged with hydrogen by galvanostatic cathodic polarization in 0.1 M NaOH at 25 deg. C. The experimental results revealed that hydrogen permeation rate increases with increasing residual stresses introduced in iron membranes.

  17. Regeneralized London free energy for high-Tc vortex lattices

    Directory of Open Access Journals (Sweden)

    M. A. Shahzamanian

    2006-09-01

    Full Text Available   The London free-energy is regeneralized by the Ginsburg-Landau free-energy density in the presence of both d and s order parameters. We have shown that the strength of the s-d coupling, makes an important rule to determine the form of the lattice vortex. Appearance of the ratios of the coherence length to penetration depth in the higher order corrections of the free-energy density will truncate these corrections for even large values of .

  18. Design and tritium permeation analysis of China HCCB TBM port cell

    International Nuclear Information System (INIS)

    Jiangfeng, S.; Guoqiang, H.; Zhiyong, H.; Chang'an, C.; Deli, L.

    2015-01-01

    China is planning to develop a helium-cooled ceramic breeder (HCCB) test blanket module (TBM) on ITER to test key blanket technologies. In this paper, the design and tritium permeation analysis of China HCCB TBM port cell are introduced. A theoretical model has been developed to estimate tritium permeation rates and leak rates from the components and pipes which China has scheduled to house in the port cell. It is shown that on normal working conditions, the permeation and leak rate of the systems in the port cell will be no higher than 1.58 Ci/d without the use of tritium permeation barriers, and 0.10 Ci/d with the use of tritium permeation barriers. It also appears that tritium permeation barriers are necessary for high temperature components such as the reduction bed and the heater

  19. Design and tritium permeation analysis of China HCCB TBM port cell

    Energy Technology Data Exchange (ETDEWEB)

    Jiangfeng, S.; Guoqiang, H.; Zhiyong, H.; Chang' an, C.; Deli, L. [China Academy of Engineering Physics, Mianyang, Sichuan (China)

    2015-03-15

    China is planning to develop a helium-cooled ceramic breeder (HCCB) test blanket module (TBM) on ITER to test key blanket technologies. In this paper, the design and tritium permeation analysis of China HCCB TBM port cell are introduced. A theoretical model has been developed to estimate tritium permeation rates and leak rates from the components and pipes which China has scheduled to house in the port cell. It is shown that on normal working conditions, the permeation and leak rate of the systems in the port cell will be no higher than 1.58 Ci/d without the use of tritium permeation barriers, and 0.10 Ci/d with the use of tritium permeation barriers. It also appears that tritium permeation barriers are necessary for high temperature components such as the reduction bed and the heater.

  20. Permeation barrier properties of thin oxide films on flexible polymer substrates

    International Nuclear Information System (INIS)

    Fahlteich, John; Fahland, Matthias; Schoenberger, Waldemar; Schiller, Nicolas

    2009-01-01

    Solar cells and organic electronic devices require an encapsulation to ensure sufficient lifetime. Key parameters of the encapsulation are permeation barrier, UV stability, temperature stability, optical transmission spectra and mechanical stability. The requirements depend very much on the specific application. Many work groups suggest multilayer stacks to meet the permeation requirements. In this paper the permeation barrier properties of the different constituents of such a multilayer stack are characterized. Different layer materials are compared regarding their water vapour and oxygen permeability as well as the influence of process parameters is examined. Finally temperature dependent permeation measurements are used to characterize the permeation mechanisms in the different constituents of the multilayer barrier

  1. Levy-free part in energy tax is not wanted

    International Nuclear Information System (INIS)

    Gilijamse, W.

    1995-01-01

    The Dutch government proposed to implement an energy levy for small-scale consumers in 1996. The yields will be reimbursed by means of a reduction of the tax burden. By applying a levy-free tax allowance the tax reduction can be limited. However, it appears that this allowance does not work: it reduces the energy saving impact of the energy levy, because it does not stimulate investments in energy saving housing construction and energy saving heat supply. It also interferes with a just compensation of income. It is recommended to cancel the levy-free tax allowance and to realize compensation by raising the tax free allowance in the income tax. 2 figs., 1 tab., 6 refs

  2. Separation of aromatics by vapor permeation through solvent swollen membrane

    Energy Technology Data Exchange (ETDEWEB)

    Ito, A.; Adachi, K.; Feng, Y. [Niigata University, Niigata (Japan)

    1995-12-20

    A vapor permeation process for aromatics separation from a hydrocarbon mixture was studied by means of the simultaneous permeation of dimethylsulfoxide vapor as an agent for membrane swelling and preferential permeation of aromatics. The separation performance of the process was demonstrated by a polyvinylalcohol membrane for mixed vapors of benzene/cyclohexane, xylene/octane and a model gasoline. The aromatic vapors preferentially permeated from these mixed vapor feeds. The separation factor was over 10. The separation mechanism of the process mainly depends on the relative salability of the vapors between aromatics and other hydrocarbons in dimethylsulfoxide. 14 refs., 9 figs., 1 tab.

  3. Free-energy coarse-grained potential for C60

    International Nuclear Information System (INIS)

    Edmunds, D. M.; Tangney, P.; Vvedensky, D. D.; Foulkes, W. M. C.

    2015-01-01

    We propose a new deformable free energy method for generating a free-energy coarse-graining potential for C 60 . Potentials generated from this approach exhibit a strong temperature dependence and produce excellent agreement with benchmark fully atomistic molecular dynamics simulations. Parameter sets for analytical fits to this potential are provided at four different temperatures

  4. Funnel metadynamics as accurate binding free-energy method

    Science.gov (United States)

    Limongelli, Vittorio; Bonomi, Massimiliano; Parrinello, Michele

    2013-01-01

    A detailed description of the events ruling ligand/protein interaction and an accurate estimation of the drug affinity to its target is of great help in speeding drug discovery strategies. We have developed a metadynamics-based approach, named funnel metadynamics, that allows the ligand to enhance the sampling of the target binding sites and its solvated states. This method leads to an efficient characterization of the binding free-energy surface and an accurate calculation of the absolute protein–ligand binding free energy. We illustrate our protocol in two systems, benzamidine/trypsin and SC-558/cyclooxygenase 2. In both cases, the X-ray conformation has been found as the lowest free-energy pose, and the computed protein–ligand binding free energy in good agreement with experiments. Furthermore, funnel metadynamics unveils important information about the binding process, such as the presence of alternative binding modes and the role of waters. The results achieved at an affordable computational cost make funnel metadynamics a valuable method for drug discovery and for dealing with a variety of problems in chemistry, physics, and material science. PMID:23553839

  5. Rapid descriptive sensory methods – Comparison of Free Multiple Sorting, Partial Napping, Napping, Flash Profiling and conventional profiling

    DEFF Research Database (Denmark)

    Dehlholm, Christian; Brockhoff, Per B.; Meinert, Lene

    2012-01-01

    is a modal restriction of Napping to specific sensory modalities, directing sensation and still allowing a holistic approach to products. The new methods are compared to Flash Profiling, Napping and conventional descriptive sensory profiling. Evaluations are performed by several panels of expert assessors......Two new rapid descriptive sensory evaluation methods are introduced to the field of food sensory evaluation. The first method, free multiple sorting, allows subjects to perform ad libitum free sortings, until they feel that no more relevant dissimilarities among products remain. The second method...... are applied for the graphical validation and comparisons. This allows similar comparisons and is applicable to single-block evaluation designs such as Napping. The partial Napping allows repetitions on multiple sensory modalities, e.g. appearance, taste and mouthfeel, and shows the average...

  6. Simplified tritium permeation model

    International Nuclear Information System (INIS)

    Longhurst, G.R.

    1993-01-01

    In this model I seek to provide a simplified approach to solving permeation problems addressed by TMAP4. I will assume that there are m one-dimensional segments with thickness L i , i = 1, 2, hor-ellipsis, m, joined in series with an implantation flux, J i , implanting at the single depth, δ, in the first segment. From material properties and heat transfer considerations, I calculate temperatures at each face of each segment, and from those temperatures I find local diffusivities and solubilities. I assume recombination coefficients K r1 and K r2 are known at the upstream and downstream faces, respectively, but the model will generate Baskes recombination coefficient values on demand. Here I first develop the steady-state concentration equations and then show how trapping considerations can lead to good estimates of permeation transient times

  7. Surface free energy for systems with integrable boundary conditions

    International Nuclear Information System (INIS)

    Goehmann, Frank; Bortz, Michael; Frahm, Holger

    2005-01-01

    The surface free energy is the difference between the free energies for a system with open boundary conditions and the same system with periodic boundary conditions. We use the quantum transfer matrix formalism to express the surface free energy in the thermodynamic limit of systems with integrable boundary conditions as a matrix element of certain projection operators. Specializing to the XXZ spin-1/2 chain we introduce a novel 'finite temperature boundary operator' which characterizes the thermodynamical properties of surfaces related to integrable boundary conditions

  8. Comparative exploration of hydrogen sulfide and water transmembrane free energy surfaces via orthogonal space tempering free energy sampling.

    Science.gov (United States)

    Lv, Chao; Aitchison, Erick W; Wu, Dongsheng; Zheng, Lianqing; Cheng, Xiaolin; Yang, Wei

    2016-03-05

    Hydrogen sulfide (H2 S), a commonly known toxic gas compound, possesses unique chemical features that allow this small solute molecule to quickly diffuse through cell membranes. Taking advantage of the recent orthogonal space tempering (OST) method, we comparatively mapped the transmembrane free energy landscapes of H2 S and its structural analogue, water (H2 O), seeking to decipher the molecular determinants that govern their drastically different permeabilities. As revealed by our OST sampling results, in contrast to the highly polar water solute, hydrogen sulfide is evidently amphipathic, and thus inside membrane is favorably localized at the interfacial region, that is, the interface between the polar head-group and nonpolar acyl chain regions. Because the membrane binding affinity of H2 S is mainly governed by its small hydrophobic moiety and the barrier height inbetween the interfacial region and the membrane center is largely determined by its moderate polarity, the transmembrane free energy barriers to encounter by this toxic molecule are very small. Moreover when H2 S diffuses from the bulk solution to the membrane center, the above two effects nearly cancel each other, so as to lead to a negligible free energy difference. This study not only explains why H2 S can quickly pass through cell membranes but also provides a practical illustration on how to use the OST free energy sampling method to conveniently analyze complex molecular processes. © 2015 Wiley Periodicals, Inc. © 2015 Wiley Periodicals, Inc.

  9. Estimating Atomic Contributions to Hydration and Binding Using Free Energy Perturbation.

    Science.gov (United States)

    Irwin, Benedict W J; Huggins, David J

    2018-05-08

    We present a general method called atom-wise free energy perturbation (AFEP), which extends a conventional molecular dynamics free energy perturbation (FEP) simulation to give the contribution to a free energy change from each atom. AFEP is derived from an expansion of the Zwanzig equation used in the exponential averaging method by defining that the system total energy can be partitioned into contributions from each atom. A partitioning method is assumed and used to group terms in the expansion to correspond to individual atoms. AFEP is applied to six example free energy changes to demonstrate the method. Firstly, the hydration free energies of methane, methanol, methylamine, methanethiol, and caffeine in water. AFEP highlights the atoms in the molecules that interact favorably or unfavorably with water. Finally AFEP is applied to the binding free energy of human immunodeficiency virus type 1 protease to lopinavir, and AFEP reveals the contribution of each atom to the binding free energy, indicating candidate areas of the molecule to improve to produce a more strongly binding inhibitor. FEP gives a single value for the free energy change and is already a very useful method. AFEP gives a free energy change for each "part" of the system being simulated, where part can mean individual atoms, chemical groups, amino acids, or larger partitions depending on what the user is trying to measure. This method should have various applications in molecular dynamics studies of physical, chemical, or biochemical phenomena, specifically in the field of computational drug discovery.

  10. Development of Novel Formulations to Enhance in Vivo Transdermal Permeation of Tocopherol

    Directory of Open Access Journals (Sweden)

    Nada Aly H.

    2014-09-01

    Full Text Available Tocopherol represents a big challenge for transdermal permeation owing to its extreme hydrophobicity and large molecular mass. The aim of the present study was to develop alpha-tocopherol (T topical formulations and evaluate their ex vivo and in vivo permeation. Franz diffusion cells were used for ex vivo permeation, and neonatal rats were used for in vivo permeation. Seven gel formulations and 21 liquid formulations were investigated for physical stability, viscosity and permeation of T. Analysis of T was performed by a validated HPLC method using a UV detector. The ex vivo permeation from gel and emulsion formulations was very poor (0.001-0.015 %. Highest permeation was observed from monophasic liquid formulations containing dimethyl sulfoxide (DMSO, tocopheryl polyethylene glycols (TPGs, propylene glycol, ethanol and 9.5 % T. The in vivo results demonstrated higher retention in the epidermis compared to subcutaneous tissues, 1377 and 1.13 μg g-1, respectively. Increasing T concentration from 4.8 to 9.5 % did not increase the amount permeated or % of T retained. It was concluded that simple solutions of T in the presence of DMSO and TPGs were more promising systems for effective transdermal permeation compared to gel, emulsion or oleaginous systems.

  11. Modeling benzene permeation through drinking water high density polyethylene (HDPE) pipes.

    Science.gov (United States)

    Mao, Feng; Ong, Say Kee; Gaunt, James A

    2015-09-01

    Organic compounds such as benzene, toluene, ethyl benzene and o-, m-, and p-xylene from contaminated soil and groundwater may permeate through thermoplastic pipes which are used for the conveyance of drinking water in water distribution systems. In this study, permeation parameters of benzene in 25 mm (1 inch) standard inside dimension ratio (SIDR) 9 high density polyethylene (HDPE) pipes were estimated by fitting the measured data to a permeation model based on a combination of equilibrium partitioning and Fick's diffusion. For bulk concentrations between 6.0 and 67.5 mg/L in soil pore water, the concentration-dependent diffusion coefficients of benzene were found to range from 2.0×10(-9) to 2.8×10(-9) cm2/s while the solubility coefficient was determined to be 23.7. The simulated permeation curves of benzene for SIDR 9 and SIDR 7 series of HDPE pipes indicated that small diameter pipes were more vulnerable to permeation of benzene than large diameter pipes, and the breakthrough of benzene into the HDPE pipe was retarded and the corresponding permeation flux decreased with an increase of the pipe thickness. HDPE pipes exposed to an instantaneous plume exhibited distinguishable permeation characteristics from those exposed to a continuous source with a constant input. The properties of aquifer such as dispersion coefficients (DL) also influenced the permeation behavior of benzene through HDPE pipes.

  12. Calculation of the surface free energy of fcc copper nanoparticles

    International Nuclear Information System (INIS)

    Jia Ming; Lai Yanqing; Tian Zhongliang; Liu Yexiang

    2009-01-01

    Using molecular dynamics simulations with the modified analytic embedded-atom method we calculate the Gibbs free energy and surface free energy for fcc Cu bulk, and further obtain the Gibbs free energy of nanoparticles. Based on the Gibbs free energy of nanoparticles, we have investigated the heat capacity of copper nanoparticles. Calculation results indicate that the Gibbs free energy and the heat capacity of nanoparticles can be divided into two parts: bulk quantity and surface quantity. The molar heat capacity of the bulk sample is lower compared with the molar heat capacity of nanoparticles, and this difference increases with the decrease in the particle size. It is also observed that the size effect on the thermodynamic properties of Cu nanoparticles is not really significant until the particle is less than about 20 nm. It is the surface atoms that decide the size effect on the thermodynamic properties of nanoparticles

  13. Exocellular extract of Fusarium oxysporum, fungus free, is able to permeate and act selectively in skin.

    Science.gov (United States)

    Sibin Melo, Katia C; Correia, Marcelo H; Svidzinski, Terezinha I E; Hernandes, Luzmarina

    2018-05-01

    The skin is an important gateway for Fusarium infection in humans. Our hypothesis is that metabolites produced by Fusarium oxysporum should change the barrier structure to permeate the skin. Male Wistar rats received a topical application of a solution (0.05 mg/mL) of Fusarium metabolites. The animals were euthanized 3, 6, 12, 24 h after and the skin was processed for immunostaining by laminin and E-cadherin to investigate whether the Fusarium metabolites can break the barrier of healthy skin. Other techniques were employed: H&E to study the morphology; metalloproteinase-9 (MMP-9), TUNEL, and PCNA immunostaining to evaluate the inflammation, cell death, and proliferation, respectively. There was an inflammatory response mainly centered in the dermis. Qualitatively, the skin of the experimental group showed reduced E-cadherin and laminin immunostaining at 3, 12, and 24 h. Higher intensity staining by TUNEL at 3 h, and PCNA at 6, 12, and 24 h. There was intense MMP-9 activity at 6, 12, and 24 h. None of analyses revealed any changes in the epidermis. It was concluded that the fraction was able to permeate the skin and act selectively in dermis, inducing inflammatory response, increasing MMP-9 immunostaining, inducing apoptosis, and reducing E-cadherin and laminin immunostaining. © 2018 APMIS. Published by John Wiley & Sons Ltd.

  14. Synthesis of conjugated chitosan and its effect on drug permeation from transdermal patches.

    Science.gov (United States)

    Satheeshababu, B K; Shivakumar, K L

    2013-03-01

    The aim of this study was to synthesis the conjugated chitosan by covalent attachment of thiol moieties to the cationic polymer, mediated by a carbodiimide to improve permeation properties of chitosan. Thioglycolic acid was covalently attached to chitosan by the formation of amide bonds between the primary amino groups of the polymer and the carboxylic acid groups of thioglycolic acid. Hence, these polymers are called as thiomers or thiolated polymers. Conjugation of chitosan was confirmed by Fourier transform-infrared and differential scanning calorimetric analysis. Matrix type transdermal patches of carvedilol were prepared using the different proportions of chitosan and chitosan-thioglycolic acid conjugates (2:0, 1.7:0.3, 1.4:0.6, 1:1, 0.6:1.4 and 0.3:1.7) by solvent casting technique. Prepared matrix type patches were evaluated for their physicochemical characterization followed by in vitro evaluation. Selected formulations were subjected for their ex vivo studies on Wistar albino rat skin and human cadaver skin using the modified Franz diffusion cell. As the proportion of conjugated chitosan increased, the transdermal patches showed increased drug permeation. The mechanism of drug release was found to be nonFickian profiles. The present study concludes that the transdermal patches of carvedilol using conjugated chitosan with different proportions of chitosan were successfully developed to provide improved drug permeation. The transdermal patches can be a good approach to improve drug bioavailability by bypassing the extensive hepatic first-pass metabolism of the drug.

  15. Exploration, Sampling, And Reconstruction of Free Energy Surfaces with Gaussian Process Regression.

    Science.gov (United States)

    Mones, Letif; Bernstein, Noam; Csányi, Gábor

    2016-10-11

    Practical free energy reconstruction algorithms involve three separate tasks: biasing, measuring some observable, and finally reconstructing the free energy surface from those measurements. In more than one dimension, adaptive schemes make it possible to explore only relatively low lying regions of the landscape by progressively building up the bias toward the negative of the free energy surface so that free energy barriers are eliminated. Most schemes use the final bias as their best estimate of the free energy surface. We show that large gains in computational efficiency, as measured by the reduction of time to solution, can be obtained by separating the bias used for dynamics from the final free energy reconstruction itself. We find that biasing with metadynamics, measuring a free energy gradient estimator, and reconstructing using Gaussian process regression can give an order of magnitude reduction in computational cost.

  16. Cosmological constant versus free energy for heterotic strings

    International Nuclear Information System (INIS)

    Alvarez, E.; Osorio, M.A.R.

    1988-01-01

    A detailed analysis is made of the modular-invariant formulation of the free energy of heterotic strings. Several instances are pointed out in which a duality formula can be obtained, and its physical implications are discussed. The interplay between the free energy of a given heterotic string and the cosmological constant of the toroidal compactification of another heterotic string is emphasized. (orig.)

  17. Thermodynamic and energy efficiency analysis of power generation from natural salinity gradients by pressure retarded osmosis.

    Science.gov (United States)

    Yip, Ngai Yin; Elimelech, Menachem

    2012-05-01

    The Gibbs free energy of mixing dissipated when fresh river water flows into the sea can be harnessed for sustainable power generation. Pressure retarded osmosis (PRO) is one of the methods proposed to generate power from natural salinity gradients. In this study, we carry out a thermodynamic and energy efficiency analysis of PRO work extraction. First, we present a reversible thermodynamic model for PRO and verify that the theoretical maximum extractable work in a reversible PRO process is identical to the Gibbs free energy of mixing. Work extraction in an irreversible constant-pressure PRO process is then examined. We derive an expression for the maximum extractable work in a constant-pressure PRO process and show that it is less than the ideal work (i.e., Gibbs free energy of mixing) due to inefficiencies intrinsic to the process. These inherent inefficiencies are attributed to (i) frictional losses required to overcome hydraulic resistance and drive water permeation and (ii) unutilized energy due to the discontinuation of water permeation when the osmotic pressure difference becomes equal to the applied hydraulic pressure. The highest extractable work in constant-pressure PRO with a seawater draw solution and river water feed solution is 0.75 kWh/m(3) while the free energy of mixing is 0.81 kWh/m(3)-a thermodynamic extraction efficiency of 91.1%. Our analysis further reveals that the operational objective to achieve high power density in a practical PRO process is inconsistent with the goal of maximum energy extraction. This study demonstrates thermodynamic and energetic approaches for PRO and offers insights on actual energy accessible for utilization in PRO power generation through salinity gradients. © 2012 American Chemical Society

  18. World Energy Data System (WENDS). Volume VI. International agreement profiles

    Energy Technology Data Exchange (ETDEWEB)

    None

    1979-06-01

    The World Energy Data System contains organized data on those countries and international organizations that may have critical impact on world energy. The international agreement profiles in WENDS are all energy-related and are organized by energy technology. These are: coal; conservation; fusion; geothermal; nuclear fission; oil, gas, and shale; solar, wind, and ocean thermal; and other (cooperation in electrical power equipment acquisition, energy, energy research, etc.). The agreement profiles are accessible by energy technology and alphabetically by country.

  19. Relationship between wave energy and free energy from pickup ions in the Comet Halley environment

    Science.gov (United States)

    Huddleston, D. E.; Johnstone, A. D.

    1992-01-01

    The free energy available from the implanted heavy ion population at Comet Halley is calculated by assuming that the initial unstable velocity space ring distribution of the ions evolves toward a bispherical shell. Ultimately this free energy adds to the turbulence in the solar wind. Upstream and downstream free energies are obtained separately for the conditions observed along the Giotto spacecraft trajectory. The results indicate that the waves are mostly upstream propagating in the solar wind frame. The total free energy density always exceeds the measured wave energy density because, as expected in the nonlinear process of ion scattering, the available energy is not all immediately released. An estimate of the amount which has been released can be obtained from the measured oxygen ion distributions and again it exceeds that observed. The theoretical analysis is extended to calculate the k spectrum of the cometary-ion-generated turbulence.

  20. Heavy quark free energies for three quark systems at finite temperature

    International Nuclear Information System (INIS)

    Huebner, Kay; Karsch, Frithjof; Kaczmarek, Olaf; Vogt, Oliver

    2008-01-01

    We study the free energy of static three quark systems in singlet, octet, decuplet, and average color channels in the quenched approximation and in 2-flavor QCD at finite temperature. We show that in the high temperature phase singlet and decuplet free energies of three quark systems are well described by the sum of the free energies of three diquark systems plus self-energy contributions of the three quarks. In the confining low temperature phase we find evidence for a Y-shaped flux tube in SU(3) pure gauge theory, which is less evident in 2-flavor QCD due to the onset of string breaking. We also compare the short distance behavior of octet and decuplet free energies to the free energies of single static quarks in the corresponding color representations.

  1. The elastic free energy of a tandem modular protein under force.

    Science.gov (United States)

    Valle-Orero, Jessica; Eckels, Edward C; Stirnemann, Guillaume; Popa, Ionel; Berkovich, Ronen; Fernandez, Julio M

    2015-05-01

    Recent studies have provided a theoretical framework for including entropic elasticity in the free energy landscape of proteins under mechanical force. Accounting for entropic elasticity using polymer physics models has helped explain the hopping behavior seen in single molecule experiments in the low force regime. Here, we expand on the construction of the free energy of a single protein domain under force proposed by Berkovich et al. to provide a free energy landscape for N tandem domains along a continuous polypeptide. Calculation of the free energy of individual domains followed by their concatenation provides a continuous free energy landscape whose curvature is dominated by the worm-like chain at forces below 20 pN. We have validated our free energy model using Brownian dynamics and reproduce key features of protein folding. This free energy model can predict the effects of changes in the elastic properties of a multidomain protein as a consequence of biological modifications such as phosphorylation or the formation of disulfide bonds. This work lays the foundations for the modeling of tissue elasticity, which is largely determined by the properties of tandem polyproteins. Copyright © 2015. Published by Elsevier Inc.

  2. Fatty acid profile and cholesterol content of M. longissimus of free ...

    African Journals Online (AJOL)

    South African Journal of Animal Science ... Abstract. This study investigated the effects of different feeding systems (free-range versus conventional rearing) on carcass characteristics, chemical composition, fatty acid profile and cholesterol content of the musculus longissimus lumborum et thoracis (MLLT) of Mangalitsa pigs.

  3. Oxygen- and hydrogen-permeation measurements on-mixed conducting SrFeCo{sub 0.5}O{sub y} ceramic membrane material

    Energy Technology Data Exchange (ETDEWEB)

    Serra, E.; Casagrande, E.; La Barbera, A. [ENEA UTS MAT, CR Casaccia, 00060 S.M. di Galeria, Roma (Italy); Alvisi, M. [ENEA UTS MAT, CR Brindisi, 72100 Brindisi (Italy); Bezzi, G.; Mingazzini, C. [ENEA UTS MAT, CR Faenza, 48018 Faenza (Italy)

    2008-02-15

    The SrFeCo{sub 0.5}O{sub y} system combines high electronic/ionic conductivity with appreciable oxygen permeability at elevated temperatures. This system has potential use in high-temperature electrochemical applications such as solid oxide fuel cells, batteries, sensors, and oxygen separation membranes. Dense ceramic membranes of SrFeCo{sub 0.5}O{sub y} are prepared by pressing a ceramic powder prepared by using a sol-gel combustion technique. Oxygen and hydrogen permeation at high temperature on this material are studied. Measurements are conducted using a time-dependent permeation method at the temperature in the range of 1073-1273 K with oxygen- and hydrogen-driving pressures in the range (3 x 10{sup 2})-(1 x 10{sup 5}) Pa (300-1000 mbar). The maximum oxygen-permeated flux at 1273 K is 6.5 x 10{sup -3} mol m{sup -2} s{sup -1}. The activation energies for the O{sub 2}-permeation fluxes and diffusivities are 240 and 194 kJ/mol, respectively. Due to the high fragility, the high temperature for the measurements and the high oxygen permeation through such material, a special membrane holder, and compression sealing system have been designed and realized for the permeation apparatus. (author)

  4. Permeation of limonene through disposable nitrile gloves using a dextrous robot hand.

    Science.gov (United States)

    Banaee, Sean; S Que Hee, Shane

    2017-03-28

    The purpose of this study was to investigate the permeation of the low-volatile solvent limonene through different disposable, unlined, unsupported, nitrile exam whole gloves (blue, purple, sterling, and lavender, from Kimberly-Clark). This study utilized a moving and static dextrous robot hand as part of a novel dynamic permeation system that allowed sampling at specific times. Quantitation of limonene in samples was based on capillary gas chromatography-mass spectrometry and the internal standard method (4-bromophenol). The average post-permeation thicknesses (before reconditioning) for all gloves for both the moving and static hand were more than 10% of the pre-permeation ones (P≤0.05), although this was not so on reconditioning. The standardized breakthrough times and steady-state permeation periods were similar for the blue, purple, and sterling gloves. Both methods had similar sensitivity. The lavender glove showed a higher permeation rate (0.490±0.031 μg/cm 2 /min) for the moving robotic hand compared to the non-moving hand (P≤0.05), this being ascribed to a thickness threshold. Permeation parameters for the static and dynamic robot hand models indicate that both methods have similar sensitivity in detecting the analyte during permeation and the blue, purple, and sterling gloves behave similarly during the permeation process whether moving or non-moving.

  5. Permeation of limonene through disposable nitrile gloves using a dextrous robot hand

    Science.gov (United States)

    Banaee, Sean; S Que Hee, Shane

    2017-01-01

    Objectives: The purpose of this study was to investigate the permeation of the low-volatile solvent limonene through different disposable, unlined, unsupported, nitrile exam whole gloves (blue, purple, sterling, and lavender, from Kimberly-Clark). Methods: This study utilized a moving and static dextrous robot hand as part of a novel dynamic permeation system that allowed sampling at specific times. Quantitation of limonene in samples was based on capillary gas chromatography-mass spectrometry and the internal standard method (4-bromophenol). Results: The average post-permeation thicknesses (before reconditioning) for all gloves for both the moving and static hand were more than 10% of the pre-permeation ones (P≤0.05), although this was not so on reconditioning. The standardized breakthrough times and steady-state permeation periods were similar for the blue, purple, and sterling gloves. Both methods had similar sensitivity. The lavender glove showed a higher permeation rate (0.490±0.031 μg/cm2/min) for the moving robotic hand compared to the non-moving hand (P≤0.05), this being ascribed to a thickness threshold. Conclusions: Permeation parameters for the static and dynamic robot hand models indicate that both methods have similar sensitivity in detecting the analyte during permeation and the blue, purple, and sterling gloves behave similarly during the permeation process whether moving or non-moving. PMID:28111415

  6. Properties of membranes to permeation to radon 222. New development for the measurement of radon 222 in water and water-saturated soils

    International Nuclear Information System (INIS)

    Labed, V.; Robe, M.C.

    1992-01-01

    Membranes that exclude water but are permeable to radon can extend the range of environments in which many radon detection systems could operate. We have studied the permeation of 222 Rn through membranes separating air and water phases. The permeation coefficients and the activation energy were calculated for various conditions. Potential applications such as in situ detection of radon in water are discussed

  7. Experimental Evaluation of Hybrid Distillation-Vapor Permeation Process for Efficient Ethanol Recovery from Ethanol-Water Mixtures

    Science.gov (United States)

    The energy demand of distillation-based systems for ethanol recovery and dehydration can be significant, particularly for dilute solutions [1]. An alternative separation process integrating vapor stripping with a vapor compression step and a vapor permeation membrane separation ...

  8. Virtual substitution scan via single-step free energy perturbation.

    Science.gov (United States)

    Chiang, Ying-Chih; Wang, Yi

    2016-02-05

    With the rapid expansion of our computing power, molecular dynamics (MD) simulations ranging from hundreds of nanoseconds to microseconds or even milliseconds have become increasingly common. The majority of these long trajectories are obtained from plain (vanilla) MD simulations, where no enhanced sampling or free energy calculation method is employed. To promote the 'recycling' of these trajectories, we developed the Virtual Substitution Scan (VSS) toolkit as a plugin of the open-source visualization and analysis software VMD. Based on the single-step free energy perturbation (sFEP) method, VSS enables the user to post-process a vanilla MD trajectory for a fast free energy scan of substituting aryl hydrogens by small functional groups. Dihedrals of the functional groups are sampled explicitly in VSS, which improves the performance of the calculation and is found particularly important for certain groups. As a proof-of-concept demonstration, we employ VSS to compute the solvation free energy change upon substituting the hydrogen of a benzene molecule by 12 small functional groups frequently considered in lead optimization. Additionally, VSS is used to compute the relative binding free energy of four selected ligands of the T4 lysozyme. Overall, the computational cost of VSS is only a fraction of the corresponding multi-step FEP (mFEP) calculation, while its results agree reasonably well with those of mFEP, indicating that VSS offers a promising tool for rapid free energy scan of small functional group substitutions. This article is protected by copyright. All rights reserved. © 2016 Wiley Periodicals, Inc.

  9. Accelerated weight histogram method for exploring free energy landscapes

    Energy Technology Data Exchange (ETDEWEB)

    Lindahl, V.; Lidmar, J.; Hess, B. [Department of Theoretical Physics and Swedish e-Science Research Center, KTH Royal Institute of Technology, 10691 Stockholm (Sweden)

    2014-07-28

    Calculating free energies is an important and notoriously difficult task for molecular simulations. The rapid increase in computational power has made it possible to probe increasingly complex systems, yet extracting accurate free energies from these simulations remains a major challenge. Fully exploring the free energy landscape of, say, a biological macromolecule typically requires sampling large conformational changes and slow transitions. Often, the only feasible way to study such a system is to simulate it using an enhanced sampling method. The accelerated weight histogram (AWH) method is a new, efficient extended ensemble sampling technique which adaptively biases the simulation to promote exploration of the free energy landscape. The AWH method uses a probability weight histogram which allows for efficient free energy updates and results in an easy discretization procedure. A major advantage of the method is its general formulation, making it a powerful platform for developing further extensions and analyzing its relation to already existing methods. Here, we demonstrate its efficiency and general applicability by calculating the potential of mean force along a reaction coordinate for both a single dimension and multiple dimensions. We make use of a non-uniform, free energy dependent target distribution in reaction coordinate space so that computational efforts are not wasted on physically irrelevant regions. We present numerical results for molecular dynamics simulations of lithium acetate in solution and chignolin, a 10-residue long peptide that folds into a β-hairpin. We further present practical guidelines for setting up and running an AWH simulation.

  10. 1994 energy balances and electricity profiles

    International Nuclear Information System (INIS)

    1996-01-01

    This is the eighth issue of Energy Balances and Electricity Profiles published by the Statistics Division of the United Nations Secretariat. Like previous issues, this volume presents energy data for selected countries and areas in a format which shows the overall picture of energy production, conversion and consumption for each fuel utilized in the country. Such a publication is useful in assessing and analyzing production and consumption patterns in detail on an internationally comparable basis

  11. Free amino acid profile of Bubalus bubalis L. meat from the Campania region

    Directory of Open Access Journals (Sweden)

    Nicola Landi

    Full Text Available ABSTRACT In this study, we determined the amount of carnosine and anserine in water buffalo meat without hanging treatment and the free amino acid profile by using amino acid analyser with post-column ninhydrin derivatization procedure. The main free amino acids present in samples were glutamic acid (>60 mg/100 g, followed by alanine, glycine, and arginine. Other protein amino acids were detected in minor amounts (less than 2 mg/100 g. Among the non-protein amine-containing compounds, taurine and urea were the most abundant. The analysis showed that 50% of the total free amino acids was represented by dipeptides carnosine (average ~130.3 mg/100 g and anserine (average ~17.9 mg/100 g. Thus, this study for the first time reports the free amino acids profile of water buffalo meat and the content of carnosine and anserine, potentially involved in the darkening meat process and their ratio, that could be used to estimate the water buffalo meat portion in mixed meat products.

  12. Deuterium permeation and diffusion in high-purity beryllium

    International Nuclear Information System (INIS)

    Abramov, E.; Riehm, M.P.; Thompson, D.A.; Smeltzer, W.W.

    1990-01-01

    The permeation rate of deuterium through high-purity beryllium membranes was measured using the gas-driven permeation technique. The time-dependent and the steady-state deuterium flux data were analyzed and the effective diffusivities of the samples were determined. Using multilayer permeation theory the effects of surface oxide were eliminated and the diffusion coefficients of the bulk beryllium determined. The diffusion parameters obtained for the extra-grade beryllium samples (99.8%) are D 0 =6.7x10 -9 m 2 /s and E D =28.4 kJ/mol. For the high-grade beryllium samples (99%) the parameters are D 0 =8.0x10 -9 m 2 /s and E D =35.1 kJ/mol. (orig.)

  13. Recent results on implantation and permeation into fusion reactor materials

    Science.gov (United States)

    Anderl, R. A.; Holland, D. F.; Longhurst, G. R.; Struttman, D. A.

    This paper reports on implantation-driven permeation experiments that have been made for primary candidate alloy (PCA) and the ferritic steel HT-9 using deuterium ion beams from an accelerator. The results include measurements of the implantation flux and fluence dependence of the deuterium reemission and permeation for specimens heated to approximately 430(0)C. Simultaneous measurements of the ions sputtered from the specimen front surface with a secondary ion mass spectrometer provided some characterization of the surface condition throughout an experiment. For both materials, the permeation rate was lowered by the implantation process. However, the steady state permeation rate for HT-9 was found to be at least a factor of 5 greater than that for PCA.

  14. Free energy surfaces in the superconducting mixed state

    Science.gov (United States)

    Finnemore, D. K.; Fang, M. M.; Bansal, N. P.; Farrell, D. E.

    1989-01-01

    The free energy surface for Tl2Ba2Ca2Cu3O1O has been measured as a function of temperature and magnetic field to determine the fundamental thermodynamic properties of the mixed state. The change in free energy, G(H)-G(O), is found to be linear in temperature over a wide range indicating that the specific heat is independent of field.

  15. Towards a unified model of passive drug permeation I: origins of the unstirred water layer with applications to ionic permeation.

    Science.gov (United States)

    Ghosh, Avijit; Scott, Dennis O; Maurer, Tristan S

    2014-02-14

    In this work, we provide a unified theoretical framework describing how drug molecules can permeate across membranes in neutral and ionized forms for unstirred in vitro systems. The analysis provides a self-consistent basis for the origin of the unstirred water layer (UWL) within the Nernst-Planck framework in the fully unstirred limit and further provides an accounting mechanism based simply on the bulk aqueous solvent diffusion constant of the drug molecule. Our framework makes no new assumptions about the underlying physics of molecular permeation. We hold simply that Nernst-Planck is a reasonable approximation at low concentrations and all physical systems must conserve mass. The applicability of the derived framework has been examined both with respect to the effect of stirring and externally applied voltages to measured permeability. The analysis contains data for 9 compounds extracted from the literature representing a range of permeabilities and aqueous diffusion coefficients. Applicability with respect to ionized permeation is examined using literature data for the permanently charged cation, crystal violet, providing a basis for the underlying mechanism for ionized drug permeation for this molecule as being due to mobile counter-current flow. Copyright © 2013 Elsevier B.V. All rights reserved.

  16. Free neutron-proton analyzing power at medium energies

    International Nuclear Information System (INIS)

    Newsom, C.R.

    1980-01-01

    In recent years, increasing efforts have been made to measure the nucleon-nucleon polarization parameters. To date, no free neutron-proton spin correlated parameters have been published in the energy range 500 to 800 MeV. Existing analyzing power data is of low precision and in most cases was obtained by quasi-free proton scattering. As a first step in determining the neutron-proton scattering matrix, the free neutron-proton analyzing power has been measured at the Los Alamos Physics Facility as a function of energy and angle. The experiment was performed by scattering a neutron beam from a polarized proton target. The neutron beam was generated by scattering 800 MeV protons from a Beryllium target and using the neutrons produced at 0 degrees. The incident energy ranged from 300 MeV to 800 MeV. The energy spread of the neutron beam made it possible to measure the analyzing power at different energies simultaneously. Angular distributions were taken from 60 to 170 degrees in the center of mass system (c.m.)

  17. Free Sugar Profile in Cycads

    Directory of Open Access Journals (Sweden)

    Thomas Edward Marler

    2014-10-01

    Full Text Available The sugars fructose, glucose, maltose, and sucrose were quantified in seven tissues of Zamia muricata Willd. to determine their distribution throughout various organs of a model cycad species, and in lateral structural roots of 18 cycad species to determine the variation in sugar concentration and composition among species representing every cycad genus. Taproot and lateral structural roots contained more sugars than leaf, stem, female strobilus, or coralloid roots. For example, taproot sugar concentration was 6.4-fold greater than stem sugar concentration. The dominant root sugars were glucose and fructose, and the only detected stem sugar was sucrose. Sucrose also dominated the sugar profile for leaflet and coralloid root tissue, and fructose was the dominant sugar in female strobilus tissue. Maltose was a minor constituent of taproot, leaflet, and female strobilus tissue, but absent in other tissues. The concentration of total free sugars and each of the four sugars did not differ among genera or families. Stoichiometric relationships among the sugars, such as the quotient hexoses/disaccharides, differed among organs and families. Although anecdotal reports on cycad starch have been abundant due to its historical use as human food and the voluminous medical research invested into cycad neurotoxins, this is the first report on the sugar component of the non-structural carbohydrate profile of cycads. Fructose, glucose, and sucrose are abundant in cycad tissues, with their relative abundance highly contrasting among organs. Their importance as forms of carbon storage, messengers of information, or regulators of cycad metabolism have not been determined to date.

  18. Evaluation of a Silicone Membrane as an Alternative to Human Skin for Determining Skin Permeation Parameters of Chemical Compounds.

    Science.gov (United States)

    Uchida, Takashi; Yakumaru, Masafumi; Nishioka, Keisuke; Higashi, Yoshihiro; Sano, Tomohiko; Todo, Hiroaki; Sugibayashi, Kenji

    2016-01-01

    We evaluated the effectiveness of a silicone membrane as an alternative to human skin using the skin permeation parameters of chemical compounds. An in vitro permeation study using 15 model compounds was conducted, and permeation parameters comprising permeability coefficient (P), diffusion parameter (DL(-2)), and partition parameter (KL) were calculated from each permeation profile. Significant correlations were obtained in log P, log DL(-2), and log KL values between the silicone membrane and human skin. DL(-2) values of model compounds, except flurbiprofen, in the silicone membrane were independent of the lipophilicity of the model compounds and were 100-fold higher than those in human skin. For antipyrine and caffeine, which are hydrophilic, KL values in the silicone membrane were 100-fold lower than those in human skin, and P values, calculated as the product of a DL(-2) and KL, were similar. For lipophilic compounds, such as n-butyl paraben and flurbiprofen, KL values for silicone were similar to or 10-fold higher than those in human skin, and P values for silicone were 100-fold higher than those in human skin. Furthermore, for amphiphilic compounds with log Ko/w values from 0.5 to 3.5, KL values in the silicone membrane were 10-fold lower than those in human skin, and P values for silicone were 10-fold higher than those in human skin. The silicone membrane was useful as a human skin alternative in an in vitro skin permeation study. However, depending on the lipophilicity of the model compounds, some parameters may be over- or underestimated.

  19. Free energy landscape of dissociative adsorption of methane on ideal and defected graphene from ab initio simulations

    Science.gov (United States)

    Wlazło, M.; Majewski, J. A.

    2018-03-01

    We study the dissociative adsorption of methane at the surface of graphene. Free energy profiles, which include activation energies for different steps of the reaction, are computed from constrained ab initio molecular dynamics. At 300 K, the reaction barriers are much lower than experimental bond dissociation energies of gaseous methane, strongly indicating that the graphene surface acts as a catalyst of methane decomposition. On the other hand, the barriers are still much higher than on the nickel surface. Methane dissociation therefore occurs at a higher rate on nickel than on graphene. This reaction is a prerequisite for graphene growth from a precursor gas. Thus, the growth of the first monolayer should be a fast and efficient process while subsequent layers grow at a diminished rate and in a more controllable manner. Defects may also influence reaction energetics. This is evident from our results, in which simple defects (Stone-Wales defect and nitrogen substitution) lead to different free energy landscapes at both dissociation and adsorption steps of the process.

  20. Electrochemical measurement of tritium and hydrogen permeation through iron membranes

    International Nuclear Information System (INIS)

    Hagi, Hideki; Hayashi, Yasunori

    1987-01-01

    Permeation rates of tritium and hydrogen through iron were measured by the electro-chemical method in which an aqueous solution containing 3.7 x 10 12 Bq/m 3 tritium was used as a cathodic electrolyte. Tritium and hydrogen were introduced from one side of a specimen by cathodic polarization with a constant current density, while at the other side of the specimen the permeated tritium and hydrogen were extracted by potentiostatical ionization. Nearly all of the potentiostatic current on the extraction side is produced by the ionization of hydrogen, because the concentration of tritium in the cathodic electrolyte is very small. The amount of permeated hydrogen was obtained by integrating the potentiostatic current, and that of permeated tritium was determined by measuring the radioactivity of the electrolyte sampled from the anodic side. The separation factor for permeation obtained under steady state conditions (the ratio of permeation rates of hydrogen to tritium divided by the ratio of the concentration of hydrogen to tritium in the cathodic electrolyte) is 12 at 288 K. This value is independent of cathodic current density. Diffusion coefficients of tritium (D T ) and hydrogen (D H ) in iron were determined from the tritium and hydrogen permeation by using time lag technique. For annealed iron at 286 K, D T = 9 x 10 -10 m 2 /s and D H = 4 x 10 -9 m 2 /s, and for 9 % cold-worked iron at 284 K, D T = 3 x 10 -10 m 2 /s and D H = 4 x 10 -10 m 2 /s. (author)

  1. 1992 energy balances and electricity profiles

    International Nuclear Information System (INIS)

    1994-01-01

    This is the seventh issue of Energy Balances and Electricity Profiles published by the Statistical Division of the United Nations Secretariat. Like previous issues, this volume presents energy data for selected developing countries and areas in a format which shows the overall picture of energy production, conversion and consumption for each fuel utilised in the country. Such a publication is useful in assessing and analyzing production and consumption patterns in detail on an internationally comparable basis

  2. First Use of Synoptic Vector Magnetograms for Global Nonlinear, Force-Free Coronal Magnetic Field Models

    Science.gov (United States)

    Tadesse, T.; Wiegelmann, T.; Gosain, S.; MacNeice, P.; Pevtsov, A. A.

    2014-01-01

    Context. The magnetic field permeating the solar atmosphere is generally thought to provide the energy for much of the activity seen in the solar corona, such as flares, coronal mass ejections (CMEs), etc. To overcome the unavailability of coronal magnetic field measurements, photospheric magnetic field vector data can be used to reconstruct the coronal field. Currently, there are several modelling techniques being used to calculate three-dimensional field lines into the solar atmosphere. Aims. For the first time, synoptic maps of a photospheric-vector magnetic field synthesized from the vector spectromagnetograph (VSM) on Synoptic Optical Long-term Investigations of the Sun (SOLIS) are used to model the coronal magnetic field and estimate free magnetic energy in the global scale. The free energy (i.e., the energy in excess of the potential field energy) is one of the main indicators used in space weather forecasts to predict the eruptivity of active regions. Methods. We solve the nonlinear force-free field equations using an optimization principle in spherical geometry. The resulting threedimensional magnetic fields are used to estimate the magnetic free energy content E(sub free) = E(sub nlfff) - E(sub pot), which is the difference of the magnetic energies between the nonpotential field and the potential field in the global solar corona. For comparison, we overlay the extrapolated magnetic field lines with the extreme ultraviolet (EUV) observations by the atmospheric imaging assembly (AIA) on board the Solar Dynamics Observatory (SDO). Results. For a single Carrington rotation 2121, we find that the global nonlinear force-free field (NLFFF) magnetic energy density is 10.3% higher than the potential one. Most of this free energy is located in active regions.

  3. Finite-size corrections to the free energies of crystalline solids

    NARCIS (Netherlands)

    Polson, J.M.; Trizac, E.; Pronk, S.; Frenkel, D.

    2000-01-01

    We analyze the finite-size corrections to the free energy of crystals with a fixed center of mass. When we explicitly correct for the leading (ln N/N) corrections, the remaining free energy is found to depend linearly on 1/N. Extrapolating to the thermodynamic limit (N → ∞), we estimate the free

  4. Temperature dependence of grain boundary free energy and elastic constants

    International Nuclear Information System (INIS)

    Foiles, Stephen M.

    2010-01-01

    This work explores the suggestion that the temperature dependence of the grain boundary free energy can be estimated from the temperature dependence of the elastic constants. The temperature-dependent elastic constants and free energy of a symmetric Σ79 tilt boundary are computed for an embedded atom method model of Ni. The grain boundary free energy scales with the product of the shear modulus times the lattice constant for temperatures up to about 0.75 the melting temperature.

  5. Oxidative stress and lung function profiles of male smokers free from ...

    African Journals Online (AJOL)

    Oxidative stress and lung function profiles of male smokers free from COPD compared to those with COPD: A case-control study. ... However, conclusions about the role of blood or lung oxidative stress markers were disparate. Aims: To ... Keywords: inflammation; lung disease; spirometry; tobacco; sedentarily; stress oxidant ...

  6. Hydrogen gas driven permeation through tungsten deposition layer formed by hydrogen plasma sputtering

    International Nuclear Information System (INIS)

    Uehara, Keiichiro; Katayama, Kazunari; Date, Hiroyuki; Fukada, Satoshi

    2015-01-01

    Highlights: • H permeation tests for W layer formed by H plasma sputtering are performed. • H permeation flux through W layer is larger than that through W bulk. • H diffusivity in W layer is smaller than that in W bulk. • The equilibrium H concentration in W layer is larger than that in W bulk. - Abstract: It is important to evaluate the influence of deposition layers formed on plasma facing wall on tritium permeation and tritium retention in the vessel of a fusion reactor from a viewpoint of safety. In this work, tungsten deposition layers having different thickness and porosity were formed on circular nickel plates by hydrogen RF plasma sputtering. Hydrogen permeation experiment was carried out at the temperature range from 250 °C to 500 °C and at hydrogen pressure range from 1013 Pa to 101,300 Pa. The hydrogen permeation flux through the nickel plate with tungsten deposition layer was significantly smaller than that through a bare nickel plate. This indicates that a rate-controlling step in hydrogen permeation was not permeation through the nickel plate but permeation though the deposition layer. The pressure dependence on the permeation flux differed by temperature. Hydrogen permeation flux through tungsten deposition layer is larger than that through tungsten bulk. From analysis of the permeation curves, it was indicated that hydrogen diffusivity in tungsten deposition layer is smaller than that in tungsten bulk and the equilibrium hydrogen concentration in tungsten deposition layer is enormously larger than that in tungsten bulk at same hydrogen pressure.

  7. Multiscale Free Energy Simulations: An Efficient Method for Connecting Classical MD Simulations to QM or QM/MM Free Energies Using Non-Boltzmann Bennett Reweighting Schemes

    Science.gov (United States)

    2015-01-01

    The reliability of free energy simulations (FES) is limited by two factors: (a) the need for correct sampling and (b) the accuracy of the computational method employed. Classical methods (e.g., force fields) are typically used for FES and present a myriad of challenges, with parametrization being a principle one. On the other hand, parameter-free quantum mechanical (QM) methods tend to be too computationally expensive for adequate sampling. One widely used approach is a combination of methods, where the free energy difference between the two end states is computed by, e.g., molecular mechanics (MM), and the end states are corrected by more accurate methods, such as QM or hybrid QM/MM techniques. Here we report two new approaches that significantly improve the aforementioned scheme; with a focus on how to compute corrections between, e.g., the MM and the more accurate QM calculations. First, a molecular dynamics trajectory that properly samples relevant conformational degrees of freedom is generated. Next, potential energies of each trajectory frame are generated with a QM or QM/MM Hamiltonian. Free energy differences are then calculated based on the QM or QM/MM energies using either a non-Boltzmann Bennett approach (QM-NBB) or non-Boltzmann free energy perturbation (NB-FEP). Both approaches are applied to calculate relative and absolute solvation free energies in explicit and implicit solvent environments. Solvation free energy differences (relative and absolute) between ethane and methanol in explicit solvent are used as the initial test case for QM-NBB. Next, implicit solvent methods are employed in conjunction with both QM-NBB and NB-FEP to compute absolute solvation free energies for 21 compounds. These compounds range from small molecules such as ethane and methanol to fairly large, flexible solutes, such as triacetyl glycerol. Several technical aspects were investigated. Ultimately some best practices are suggested for improving methods that seek to connect

  8. Net energy levels on the lipid profile of pork

    Directory of Open Access Journals (Sweden)

    Stephan Alexander da Silva Alencar

    2017-09-01

    Full Text Available ABSTRACT: This study was conducted to evaluate the effects of net energy levels on the lipid profile of adipose tissue and muscle of swines. A total of 90 animals, with initial weight of 71.94±4.43kg, were used, and distributed in a randomized block design in five net energy levels (2,300, 2,425, 2,550, 2,675, and 2,800Kcal kg-1 feed, with nine replicates and two animals per experimental unit. Lipid profiles of adipose tissue and muscle were analyzed using gas chromatography. Increasing the levels of net energy using soybean oil, improved the lipid profile of adipose tissue and muscle, increased linearly (P<0.05 the concentrations of polyunsaturated fatty acids, especially linoleic and α-linolenic acid, reduced linearly (P<0.05 the monounsaturated and saturated fatty acids and omega 6: omega 3. In adipose tissue was observed linear reduction (P<0.05 of atherogenic and thrombogenic indexes. In conclusion, increasing the level of net energy of the diet using soybean oil improved the lipid profile of adipose tissue and muscle.

  9. Deuterium permeation and diffusion in high purity beryllium

    International Nuclear Information System (INIS)

    Abramov, E.

    1990-05-01

    The permeation rate of deuterium through high-purity beryllium membranes was measured using the gas-driven permeation technique. The time-dependent and the steady-state deuterium flux data were analyzed and the effective diffusivities of the samples were determined. A multilayer permeation theory was used in order to eliminate the surface oxide effects and the diffusion coefficients of the bulk beryllium were determined. The diffusion parameters obtained for the extra-grade beryllium samples (99.8%) are D 0 = 6.7 x 10 -9 [m 2 /s] and E D = 28.4 [KJ/mol]; and for the high-grade beryllium samples (99%) the parameters are D 0 = 8.0 x 10 -9 [m 2 /s] and E D = 35.1 [KJ/mol

  10. 2000 energy balances and electricity profiles

    International Nuclear Information System (INIS)

    2004-01-01

    This is the eleventh issue of Energy Balances and Electricity Profiles published by the Statistics Division of the United Nations Secretariat. Like previous issues, this volume presents energy data for selected countries in a format which shows the overall picture of energy production, conversion and consumption for fuels utilised in the country. Such a publication is useful in assessing and analysing production and consumption patterns in detail on an internationally comparable basis. Since it began publishing energy balances, the Statistics Division has adopted the matrix type of overall energy balance that shows energy sources in the columns and energy flows in the rows. The format is described in detail in the technical report entitled Concepts and Methods in Energy Statistics, with Special Reference to Energy Accounts and Balances and is also discussed in the publication, Energy Statistics: A Manual for Developing Countries. The level of detail of this matrix structure takes into account the need for disaggregation of the energy sector and final demand, while at the same time, owing to the limitations in the quantity and quality of the currently available energy information, coverage has to be restricted to the main sectors only. Furthermore, it should be recognized that unlike national energy balances designed for individual countries' various specific needs, the energy balance format of the Statistics Division has to accommodate the whole spectrum of national energy data which it receives from national statistical offices and through official national publications. Inasmuch as information on electricity is generally available in greater detail than that for other energy forms, the Statistics Division decided to present special electricity profiles for an additional group of countries and areas, thereby covering at least part of their energy conversion and consumption activities. World energy data is published by the Statistics Division in the Energy

  11. 2002 energy balances and electricity profiles

    International Nuclear Information System (INIS)

    2005-01-01

    This is the twelfth issue of Energy Balances and Electricity Profiles published by the Statistics Division of the United Nations Secretariat. Like previous issues, this volume presents energy data for selected countries in a format which shows the overall picture of energy production, conversion and consumption for fuels utilised in the country. Such a publication is useful in assessing and analysing production and consumption patterns in detail on an internationally comparable basis. Since it began publishing energy balances, the Statistics Division has adopted the matrix type of overall energy balance that shows energy sources in the columns and energy flows in the rows. The format is described in detail in the technical report entitled Concepts and Methods in Energy Statistics, with Special Reference to Energy Accounts and Balances and is also discussed in the publication, Energy Statistics: A Manual for Developing Countries. The level of detail of this matrix structure takes into account the need for disaggregation of the energy sector and final demand, while at the same time, owing to the limitations in the quantity and quality of the currently available energy information, coverage has to be restricted to the main sectors only. Furthermore, it should be recognized that unlike national energy balances designed for individual countries' various specific needs, the energy balance format of the Statistics Division has to accommodate the whole spectrum of national energy data which it receives from national statistical offices and through official national publications. Inasmuch as information on electricity is generally available in greater detail than that for other energy forms, the Statistics Division decided to present special electricity profiles for an additional group of countries and areas, thereby covering at least part of their energy conversion and consumption activities. World energy data is published by the Statistics Division in the Energy

  12. 1998 energy balances and electricity profiles

    International Nuclear Information System (INIS)

    2001-01-01

    This is the tenth issue of Energy Balances and Electricity Profiles published by the Statistics Division of the United Nations Secretariat. Like previous issues, this volume presents energy data for selected countries in a format which shows the overall picture of energy production, conversion and consumption for fuels utilised in the country. Such a publication is useful in assessing and analysing production and consumption patterns in detail on an internationally comparable basis. Since it began publishing energy balances, the Statistics Division has adopted the matrix type of overall energy balance that shows energy sources in the columns and energy flows in the rows. The format is described in detail in the technical report entitled Concepts and Methods in Energy Statistics, with Special Reference to Energy Accounts and Balances and is also discussed in the publication, Energy Statistics: A Manual for Developing Countries. The level of detail of this matrix structure takes into account the need for disaggregation of the energy sector and final demand, while at the same time, owing to the limitations in the quantity and quality of the currently available energy information, coverage has to be restricted to the main sectors only. Furthermore, it should be recognized that unlike national energy balances designed for individual countries' various specific needs, the energy balance format of the Statistics Division has to accommodate the whole spectrum of national energy data which it receives from national statistical offices and through official national publications. Inasmuch as information on electricity is generally available in greater detail than that for other energy forms, the Statistics Division decided to present special electricity profiles for an additional group of countries and areas, thereby covering at least part of their energy conversion and consumption activities. World energy data is published by the Statistics Division in the Energy Statistics

  13. Conformational Transitions and Convergence of Absolute Binding Free Energy Calculations

    Science.gov (United States)

    Lapelosa, Mauro; Gallicchio, Emilio; Levy, Ronald M.

    2011-01-01

    The Binding Energy Distribution Analysis Method (BEDAM) is employed to compute the standard binding free energies of a series of ligands to a FK506 binding protein (FKBP12) with implicit solvation. Binding free energy estimates are in reasonably good agreement with experimental affinities. The conformations of the complexes identified by the simulations are in good agreement with crystallographic data, which was not used to restrain ligand orientations. The BEDAM method is based on λ -hopping Hamiltonian parallel Replica Exchange (HREM) molecular dynamics conformational sampling, the OPLS-AA/AGBNP2 effective potential, and multi-state free energy estimators (MBAR). Achieving converged and accurate results depends on all of these elements of the calculation. Convergence of the binding free energy is tied to the level of convergence of binding energy distributions at critical intermediate states where bound and unbound states are at equilibrium, and where the rate of binding/unbinding conformational transitions is maximal. This finding mirrors similar observations in the context of order/disorder transitions as for example in protein folding. Insights concerning the physical mechanism of ligand binding and unbinding are obtained. Convergence for the largest FK506 ligand is achieved only after imposing strict conformational restraints, which however require accurate prior structural knowledge of the structure of the complex. The analytical AGBNP2 model is found to underestimate the magnitude of the hydrophobic driving force towards binding in these systems characterized by loosely packed protein-ligand binding interfaces. Rescoring of the binding energies using a numerical surface area model corrects this deficiency. This study illustrates the complex interplay between energy models, exploration of conformational space, and free energy estimators needed to obtain robust estimates from binding free energy calculations. PMID:22368530

  14. Computational Approach to Explore the B/A Junction Free Energy in DNA.

    Science.gov (United States)

    Kulkarni, Mandar; Mukherjee, Arnab

    2016-01-04

    Protein-DNA interactions induce conformational changes in DNA such as B- to A-form transitions at a local level. Such transitions are associated with a junction free energy cost at the boundary of two different conformations in a DNA molecule. In this study, we performed umbrella sampling simulations to find the free energy values of the B-A transition at the dinucleotide and trinucleotide level of DNA. Using a combination of dinucleotide and trinucleotide free energy costs obtained from simulations, we calculated the B/A junction free energy. Our study shows that the B/A junction free energy is 0.52 kcal mol(-1) for the A-philic GG step and 1.59 kcal mol(-1) for the B-philic AA step. This observation is in agreement with experimentally derived values. After excluding junction effects, we obtained an absolute free energy cost for the B- to A-form conversion for all the dinucleotide steps. These absolute free energies may be used for predicting the propensity of structural transitions in DNA. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  15. Penetration of radionuclides across the skin. Rat age dependent promethium permeation through skin in vitro

    International Nuclear Information System (INIS)

    Kassai, Z.; Kassai, A.; Bauerova, K.; Koprda, V.; Harangozo, M.; Bendova, P.; Bujnova, A.

    2003-01-01

    The composition and the permeation properties of the skin are dependent on age. In the animal models for permation studies, age affects the mechanical as well as the permeation properties significantly. The time dependence of permeation of 147 Pm 3+ from aqueous solution was established by the animal skin model and the age dependence of promethium permeation through the skin was examined. The aim was to find the optimum rat skin age model for radionuclide permeation studies and to assess the relative importance of the main permeation pathways: transepidermal and transfollicular permeation. The skin from 5-day-old rats (5DR) was found to represent the optimum animal model to study transepidermal permeation of ions. The skin from 9-day-old rats (9DR) was selected to study transfollicular permeation of ions. Comparison of the permeated amounts of promethium through the skin without hairs (3 DR to 6 DR) and with hairs (7DR to 12DR) showed that the additional permation mode via follicles significantly contributed to the permeation rate and extent. (author)

  16. Current Design of the Flange Type Hydrogen Permeation Sensor in Liquid Breeder

    International Nuclear Information System (INIS)

    Lee, E. H.; Jin, H. G.; Yoon, J. S.; Kim, S. K.; Lee, D. W.; Lee, H. G.

    2015-01-01

    In 2004, A. Ciampichetti et al. proposed a hollow capsule shape permeation sensor and they theoretically and experimentally evaluated the performance of the sensor made of Nb membrane at test condition of 500 .deg. C. However, the evaluation result showed the measured hydrogen permeation flux in the sensor much lower than the predicted one and they concluded that, the result is due to the formation of an oxide layer on the sensor membrane surface. Three years later, A. Ciampichetti et al. observed that a hollow capsule shape permeation sensor has too long response time to measure hydrogen concentration in liquid breeder. However, they suggested optimizing the sensor geometry with the reduction of the ratio 'total sensor volume/permeation surface' to overcome the low hydrogen permeating flux. For development of the liquid breeding technologies in nuclear fusion, the permeation sensor to measure tritium concentration in liquid metal breeder has been developed. Lee et al. proposed a flange type permeation sensor to dramatically reduce the ratio sensor 'inside volume/permeation surface' and to remove membrane welding during sensor manufacture process. However, the flange type sensor has problem with sealing. In present study, the modified flange sensor design with a metallic C-ring spring gasket is introduced. The modified sensor will be verified and evaluated under high temperature conditions by end of 2015

  17. Current Design of the Flange Type Hydrogen Permeation Sensor in Liquid Breeder

    Energy Technology Data Exchange (ETDEWEB)

    Lee, E. H.; Jin, H. G.; Yoon, J. S.; Kim, S. K.; Lee, D. W. [Korea Atomic Energy Research Institute, Daejeon (Korea, Republic of); Lee, H. G. [National Fusion Research Institute, Daejeon (Korea, Republic of)

    2015-10-15

    In 2004, A. Ciampichetti et al. proposed a hollow capsule shape permeation sensor and they theoretically and experimentally evaluated the performance of the sensor made of Nb membrane at test condition of 500 .deg. C. However, the evaluation result showed the measured hydrogen permeation flux in the sensor much lower than the predicted one and they concluded that, the result is due to the formation of an oxide layer on the sensor membrane surface. Three years later, A. Ciampichetti et al. observed that a hollow capsule shape permeation sensor has too long response time to measure hydrogen concentration in liquid breeder. However, they suggested optimizing the sensor geometry with the reduction of the ratio 'total sensor volume/permeation surface' to overcome the low hydrogen permeating flux. For development of the liquid breeding technologies in nuclear fusion, the permeation sensor to measure tritium concentration in liquid metal breeder has been developed. Lee et al. proposed a flange type permeation sensor to dramatically reduce the ratio sensor 'inside volume/permeation surface' and to remove membrane welding during sensor manufacture process. However, the flange type sensor has problem with sealing. In present study, the modified flange sensor design with a metallic C-ring spring gasket is introduced. The modified sensor will be verified and evaluated under high temperature conditions by end of 2015.

  18. Energy in Mexico: a profile of solar energy activity in its national context

    Energy Technology Data Exchange (ETDEWEB)

    Hawkins, D.

    1980-04-01

    The geopolitical, economic, and cultural aspects of the United States of Mexico are presented. Mexico's energy profile includes the following: energy policy objectives, government energy structure, organizations for implementation, indigeneous energy sources, imported energy sources, solar energy research and development, solar energy organizations and solar energy related legislation and administrative policies. International agreements, contacts, manufacturers, and projects are listed. (MRH)

  19. Free energy functionals for polarization fluctuations: Pekar factor revisited.

    Science.gov (United States)

    Dinpajooh, Mohammadhasan; Newton, Marshall D; Matyushov, Dmitry V

    2017-02-14

    The separation of slow nuclear and fast electronic polarization in problems related to electron mobility in polarizable media was considered by Pekar 70 years ago. Within dielectric continuum models, this separation leads to the Pekar factor in the free energy of solvation by the nuclear degrees of freedom. The main qualitative prediction of Pekar's perspective is a significant, by about a factor of two, drop of the nuclear solvation free energy compared to the total (electronic plus nuclear) free energy of solvation. The Pekar factor enters the solvent reorganization energy of electron transfer reactions and is a significant mechanistic parameter accounting for the solvent effect on electron transfer. Here, we study the separation of the fast and slow polarization modes in polar molecular liquids (polarizable dipolar liquids and polarizable water force fields) without relying on the continuum approximation. We derive the nonlocal free energy functional and use atomistic numerical simulations to obtain nonlocal, reciprocal space electronic and nuclear susceptibilities. A consistent transition to the continuum limit is introduced by extrapolating the results of finite-size numerical simulation to zero wavevector. The continuum nuclear susceptibility extracted from the simulations is numerically close to the Pekar factor. However, we derive a new functionality involving the static and high-frequency dielectric constants. The main distinction of our approach from the traditional theories is found in the solvation free energy due to the nuclear polarization: the anticipated significant drop of its magnitude with increasing liquid polarizability does not occur. The reorganization energy of electron transfer is either nearly constant with increasing the solvent polarizability and the corresponding high-frequency dielectric constant (polarizable dipolar liquids) or actually noticeably increases (polarizable force fields of water).

  20. Free energy functionals for polarization fluctuations: Pekar factor revisited

    International Nuclear Information System (INIS)

    Dinpajooh, Mohammadhasan; Newton, Marshall D.; Matyushov, Dmitry V.

    2017-01-01

    The separation of slow nuclear and fast electronic polarization in problems related to electron mobility in polarizable media was considered by Pekar 70 years ago. This separation leads to the Pekar factor in the free energy of solvation by the nuclear degrees of freedom, within dielectric continuum models. The main qualitative prediction of Pekar’s perspective is a significant, by about a factor of two, drop of the nuclear solvation free energy compared to the total (electronic plus nuclear) free energy of solvation. The Pekar factor enters the solvent reorganization energy of electron transfer reactions and is a significant mechanistic parameter accounting for the solvent effect on electron transfer. We study the separation of the fast and slow polarization modes in polar molecular liquids (polarizable dipolar liquids and polarizable water force fields) without relying on the continuum approximation. We derive the nonlocal free energy functional and use atomistic numerical simulations to obtain nonlocal, reciprocal space electronic and nuclear susceptibilities. A consistent transition to the continuum limit is introduced by extrapolating the results of finite-size numerical simulation to zero wavevector. The continuum nuclear susceptibility extracted from the simulations is numerically close to the Pekar factor. But, we derive a new functionality involving the static and high-frequency dielectric constants. The main distinction of our approach from the traditional theories is found in the solvation free energy due to the nuclear polarization: the anticipated significant drop of its magnitude with increasing liquid polarizability does not occur. The reorganization energy of electron transfer is either nearly constant with increasing the solvent polarizability and the corresponding high-frequency dielectric constant (polarizable dipolar liquids) or actually noticeably increases (polarizable force fields of water).

  1. Comparison on implantation-driven permeation characteristics of fusion reactor structural materials

    Energy Technology Data Exchange (ETDEWEB)

    Longhurst, G.R.; Anderl, R.A.; Struttmann, D.A. (Idaho National Engineering Lab., Idaho Falls)

    Implantation-driven permeation experiments have been conducted on samples of the ferritic steel HT-9, the austenitic Primary Candidate Alloy (PCA) and the vanadium alloy V-15Cr-5Ti using D{sub 3}{sup +} ions under conditions that simulate charge-exchange neutral loading on a fusion reactor first wall. The steels all exhibited an initially intense permeation spike followed by an exponential decrease to low steady-state values. That spike was not evident in the V-15Cr-5Ti experiments. Steady-state permeation was highest in the vanadium alloy and lowest in the austenitic steel. Though permeation rates in the HT-9 were lower than those in V-15Cr-5Ti, permeation transients were much faster in HT-9 than in other materials tested. Sputtering of the steel surface resulted in enhanced reemission, whereas in the vanadium tests, recombination and diffusivity both appeared to diminish as the deuterium concentration rose. We conclude that for conditions comparable to those of these experiments, tritium retention and permeation loss in first wall structures made of steels will be less than in structures made of V-15Cr-5Ti.

  2. Gibbs free energy of formation of liquid lanthanide-bismuth alloys

    International Nuclear Information System (INIS)

    Sheng Jiawei; Yamana, Hajimu; Moriyama, Hirotake

    2001-01-01

    The linear free energy relationship developed by Sverjensky and Molling provides a way to predict Gibbs free energies of liquid Ln-Bi alloys formation from the known thermodynamic properties of aqueous trivalent lanthanides (Ln 3(5(6+ ). The Ln-Bi alloys are divided into two isostructural families named as the LnBi 2 (Ln=La, Ce, Pr, Nd and Pm) and LnBi (Ln=Sm, Eu, Gd, Tb, Dy, Ho, Er, Tm and Yb). The calculated Gibbs free energy values are well agreed with experimental data

  3. Free energy of the Lennard-Jones solid

    NARCIS (Netherlands)

    Hoef, van der M.A.

    2000-01-01

    We have determined a simple expression for the absolute Helmholtz free energy of the fcc Lennard-Jones solid from molecular dynamics simulations. The pressure and energy data from these simulations have been fitted to a simple functional form (18 parameters) for densities ranging from around

  4. Assignment of Side-Chain Conformation Using Adiabatic Energy Mapping, Free Energy Perturbation, and Molecular Dynamic Simulations

    DEFF Research Database (Denmark)

    Frimurer, Thomas M.; Günther, Peter H.; Sørensen, Morten Dahl

    1999-01-01

    adiabatic mapping, conformational change, essentialdynamics, free energy simulations, Kunitz type inhibitor *ga3(VI)......adiabatic mapping, conformational change, essentialdynamics, free energy simulations, Kunitz type inhibitor *ga3(VI)...

  5. The formation of tritium permeation barriers by CVD

    International Nuclear Information System (INIS)

    Forcey, K.S.; Perujo, A.; Reiter, F.; Lolli-Ceroni, P.L.

    1993-01-01

    The effectiveness as permeation barriers of the following CVD coatings have been investigated: TiC (1 to 2 μm in thickness); a bi-layer of TiN on TiC (3 μm total thickness) and CVD Al 2 O 3 on a TiN/TiC bi-layer. The substrate materials were TZM (a Mo alloy) and 316L stainless steel in the form of discs of diameter 48 mm and thickness 0.1 or 1 mm. Permeation measurements were performed in the temperature range 515-742 K using deuterium at pressures in the range 1-50 kPa. CVD layers were shown to form reasonably effective permeation barriers. At a temperature of 673 K TiC is around 6000 times less permeable to deuterium than 316L stainless steel. (orig.)

  6. A Short Essay on the Uses of Free Energy

    Science.gov (United States)

    Koutandos, Spyridon

    2013-01-01

    In this article we examine cases of more classical and less classical nature compared to results found by quantum mechanics and attribute a form of Free Energy discontinuity for each case within a boundary layer. The concept of a boundary layer is broadened as to include areas of first or second variations of the Gibbs free energy. It is…

  7. Linear free energy relationships between aqueous phase hydroxyl radical reaction rate constants and free energy of activation.

    Science.gov (United States)

    Minakata, Daisuke; Crittenden, John

    2011-04-15

    The hydroxyl radical (HO(•)) is a strong oxidant that reacts with electron-rich sites on organic compounds and initiates complex radical chain reactions in aqueous phase advanced oxidation processes (AOPs). Computer based kinetic modeling requires a reaction pathway generator and predictions of associated reaction rate constants. Previously, we reported a reaction pathway generator that can enumerate the most important elementary reactions for aliphatic compounds. For the reaction rate constant predictor, we develop linear free energy relationships (LFERs) between aqueous phase literature-reported HO(•) reaction rate constants and theoretically calculated free energies of activation for H-atom abstraction from a C-H bond and HO(•) addition to alkenes. The theoretical method uses ab initio quantum mechanical calculations, Gaussian 1-3, for gas phase reactions and a solvation method, COSMO-RS theory, to estimate the impact of water. Theoretically calculated free energies of activation are found to be within approximately ±3 kcal/mol of experimental values. Considering errors that arise from quantum mechanical calculations and experiments, this should be within the acceptable errors. The established LFERs are used to predict the HO(•) reaction rate constants within a factor of 5 from the experimental values. This approach may be applied to other reaction mechanisms to establish a library of rate constant predictions for kinetic modeling of AOPs.

  8. Solar energy in Italy: a profile of renewable energy activity in its national context

    Energy Technology Data Exchange (ETDEWEB)

    Shea, C.A.

    1980-12-01

    The following are included: country overview; energy summary; Italian Republic-geopolitical, economic, and cultural aspects; the energy profile; imported energy sources; solar energy research and development; solar energy organizations; solar energy related legislation and administration policies; and international agreements, contacts, manufacturers, and projects. (MHR)

  9. Prediction of Human Pharmacokinetic Profile After Transdermal Drug Application Using Excised Human Skin.

    Science.gov (United States)

    Yamamoto, Syunsuke; Karashima, Masatoshi; Arai, Yuta; Tohyama, Kimio; Amano, Nobuyuki

    2017-09-01

    Although several mathematical models have been reported for the estimation of human plasma concentration profiles of drug substances after dermal application, the successful cases that can predict human pharmacokinetic profiles are limited. Therefore, the aim of this study is to investigate the prediction of human plasma concentrations after dermal application using in vitro permeation parameters obtained from excised human skin. The in vitro skin permeability of 7 marketed drug products was evaluated. The plasma concentration-time profiles of the drug substances in humans after their dermal application were simulated using compartment models and the clinical pharmacokinetic parameters. The transdermal process was simulated using the in vitro skin permeation rate and lag time assuming a zero-order absorption. These simulated plasma concentration profiles were compared with the clinical data. The result revealed that the steady-state plasma concentration of diclofenac and the maximum concentrations of nicotine, bisoprolol, rivastigmine, and lidocaine after topical application were within 2-fold of the clinical data. Furthermore, the simulated concentration profiles of bisoprolol, nicotine, and rivastigmine reproduced the decrease in absorption due to drug depletion from the formulation. In conclusion, this simple compartment model using in vitro human skin permeation parameters as zero-order absorption predicted the human plasma concentrations accurately. Copyright © 2017 American Pharmacists Association®. Published by Elsevier Inc. All rights reserved.

  10. Purification Simulation With Vapor Permeation and Distillation-Adsorption In Bioethanol Plant

    Directory of Open Access Journals (Sweden)

    Misri Gozan

    2017-04-01

    Full Text Available High purity of Bioethanol is required in biofuel mixing with gasoline (EXX. In bioethanol production line, the azeotropic property of ethanol-water becomes the barrier for purification process. This study examined two bioethanol separation processes by support of simulation tools, Superpro Designer 9.0 software. Ethanol purity and a low costeconomical process were the major considerations. Purification method of vapor permeation membrane technology was compared with distillation-adsorption method. Data from previous lab experiments and some literatures were used. The results showed that distillation-adsorption method is more economical compared to vapor permeation technology. Payback period of the simulation is 3.9 years and 4.3 years to distillation adsorption and vapor permeation respectively with each IRR value is 20.23% and 17.89%. Initial investment value of vapor permeation is 9.6% higher than distillation method. Significant difference observed in operating costs, since more units involved in vapor permeation require more labors to operate.

  11. Recent developments in skin mimic systems to predict transdermal permeation.

    Science.gov (United States)

    Waters, Laura J

    2015-01-01

    In recent years there has been a drive to create experimental techniques that can facilitate the accurate and precise prediction of transdermal permeation without the use of in vivo studies. This review considers why permeation data is essential, provides a brief summary as to how skin acts as a natural barrier to permeation and discusses why in vivo studies are undesirable. This is followed by an in-depth discussion on the extensive range of alternative methods that have been developed in recent years. All of the major 'skin mimic systems' are considered including: in vitro models using synthetic membranes, mathematical models including quantitative structure-permeability relationships (QSPRs), human skin equivalents and chromatographic based methods. All of these model based systems are ideally trying to achieve the same end-point, namely a reliable in vitro-in vivo correlation, i.e. matching non-in vivo obtained data with that from human clinical trials. It is only by achieving this aim, that any new method of obtaining permeation data can be acknowledged as a potential replacement for animal studies, for the determination of transdermal permeation. In this review, the relevance and potential applicability of the various models systems will also be discussed.

  12. Direct measurement of the free energy of aging hard sphere colloidal glasses.

    Science.gov (United States)

    Zargar, Rojman; Nienhuis, Bernard; Schall, Peter; Bonn, Daniel

    2013-06-21

    The nature of the glass transition is one of the most important unsolved problems in condensed matter physics. The difference between glasses and liquids is believed to be caused by very large free energy barriers for particle rearrangements; however, so far it has not been possible to confirm this experimentally. We provide the first quantitative determination of the free energy for an aging hard sphere colloidal glass. The determination of the free energy allows for a number of new insights in the glass transition, notably the quantification of the strong spatial and temporal heterogeneity in the free energy. A study of the local minima of the free energy reveals that the observed variations are directly related to the rearrangements of the particles. Our main finding is that the probability of particle rearrangements shows a power law dependence on the free energy changes associated with the rearrangements similar to the Gutenberg-Richter law in seismology.

  13. Illustrating Enzyme Inhibition Using Gibbs Energy Profiles

    Science.gov (United States)

    Bearne, Stephen L.

    2012-01-01

    Gibbs energy profiles have great utility as teaching and learning tools because they present students with a visual representation of the energy changes that occur during enzyme catalysis. Unfortunately, most textbooks divorce discussions of traditional kinetic topics, such as enzyme inhibition, from discussions of these same topics in terms of…

  14. Tritium inventory and permeation in the ITER breeding blanket

    International Nuclear Information System (INIS)

    Violante, V.; Tosti, S.; Sibilia, C.; Felli, F.; Casadio, S.; Alvani, C.

    2000-01-01

    A model has allowed us to perform the analysis of the tritium inventory and permeation in the international thermonuclear experimental reactor (ITER) breeding blanket under the hypothesis of steady state conditions. Li 2 ZrO 3 (reference) and Li 2 TiO 3 (alternative) have been studied as breeding materials. The total breeder inventory assessed is 7.64 g for the Li 2 ZrO 3 at reference temperature. The model has also been used for a parametric analysis of the tritium permeation. At reference temperature and purge helium velocity of 0.01 m/s, the HT partial pressure is ranging from 10 to 30 Pa in the breeder and 1.5x10 -3 Pa in the beryllium. At 0.1 m/s of purge helium velocity, the HT partial pressure is reduced of one order by magnitude in the breeder and becomes 5x10 -5 Pa in the beryllium. The tritium permeation into the coolant for the whole blanket is ranging from 100 to 250 mCi per day for purge helium velocity of 0.01 m/s. The analysis of the tritium inventory and permeation for the alternative Li 2 TiO 3 breeding material has been carried out too. The tritium inventory in the breeder is in the range from 6 to 375 g larger than in Li 2 ZrO 3 by about a factor 5; the tritium permeation into coolant is comparable to the Li 2 ZrO 3 one. This analysis provides indications on the influence of the operating parameters on the tritium control in the ITER breeding blanket; particularly the control of the tritium inventory by the temperature and the tritium permeation by the purge gas velocity

  15. Simulations of skin barrier function: free energies of hydrophobic and hydrophilic transmembrane pores in ceramide bilayers.

    Science.gov (United States)

    Notman, Rebecca; Anwar, Jamshed; Briels, W J; Noro, Massimo G; den Otter, Wouter K

    2008-11-15

    Transmembrane pore formation is central to many biological processes such as ion transport, cell fusion, and viral infection. Furthermore, pore formation in the ceramide bilayers of the stratum corneum may be an important mechanism by which penetration enhancers such as dimethylsulfoxide (DMSO) weaken the barrier function of the skin. We have used the potential of mean constraint force (PMCF) method to calculate the free energy of pore formation in ceramide bilayers in both the innate gel phase and in the DMSO-induced fluidized state. Our simulations show that the fluid phase bilayers form archetypal water-filled hydrophilic pores similar to those observed in phospholipid bilayers. In contrast, the rigid gel-phase bilayers develop hydrophobic pores. At the relatively small pore diameters studied here, the hydrophobic pores are empty rather than filled with bulk water, suggesting that they do not compromise the barrier function of ceramide membranes. A phenomenological analysis suggests that these vapor pores are stable, below a critical radius, because the penalty of creating water-vapor and tail-vapor interfaces is lower than that of directly exposing the strongly hydrophobic tails to water. The PMCF free energy profile of the vapor pore supports this analysis. The simulations indicate that high DMSO concentrations drastically impair the barrier function of the skin by strongly reducing the free energy required for pore opening.

  16. Constructing a multidimensional free energy surface like a spider weaving a web.

    Science.gov (United States)

    Chen, Changjun

    2017-10-15

    Complete free energy surface in the collective variable space provides important information of the reaction mechanisms of the molecules. But, sufficient sampling in the collective variable space is not easy. The space expands quickly with the number of the collective variables. To solve the problem, many methods utilize artificial biasing potentials to flatten out the original free energy surface of the molecule in the simulation. Their performances are sensitive to the definitions of the biasing potentials. Fast-growing biasing potential accelerates the sampling speed but decreases the accuracy of the free energy result. Slow-growing biasing potential gives an optimized result but needs more simulation time. In this article, we propose an alternative method. It adds the biasing potential to a representative point of the molecule in the collective variable space to improve the conformational sampling. And the free energy surface is calculated from the free energy gradient in the constrained simulation, not given by the negative of the biasing potential as previous methods. So the presented method does not require the biasing potential to remove all the barriers and basins on the free energy surface exactly. Practical applications show that the method in this work is able to produce the accurate free energy surfaces for different molecules in a short time period. The free energy errors are small in the cases of various biasing potentials. © 2017 Wiley Periodicals, Inc. © 2017 Wiley Periodicals, Inc.

  17. Changes on iron electrode surface during hydrogen permeation in borate buffer solution

    International Nuclear Information System (INIS)

    Modiano, S.; Carreno, J.A.V.; Fugivara, C.S.; Torresi, R.M.; Vivier, V.; Benedetti, A.V.; Mattos, O.R.

    2008-01-01

    Hydrogen interaction with oxide films grown on iron electrodes at open circuit potential (E oc ) and in the passive region (+0.30 V ECS ) was studied by chronopotentiometry, chronoamperometry and electrochemical impedance spectroscopy techniques. The results were obtained in deaerated 0.3 mol L -1 H 3 BO 3 + 0.075 mol L -1 Na 2 B 4 O 7 (BB, pH 8.4) solution before, during and after hydrogen permeation. The iron oxide film modification was also investigated by means of in situ X-ray absorption near-edge spectroscopy (XANES) and scanning electrochemical microscopy (SECM) before and during hydrogen permeation. The main conclusion was that the passive film is reduced during the hydrogen diffusion. The hydrogen permeation stabilizes the iron surface at a potential close to the thermodynamic water stability line where hydrogen evolution can occur. The stationary condition required for the determination of the permeation parameters cannot be easily attained on iron surface during hydrogen permeation. Moreover, additional attention must be paid when obtaining the transport parameters using the classical permeation cell

  18. Chromatographic profiles of blood plasma free oligosaccharides in patients with cardiovascular disease

    Directory of Open Access Journals (Sweden)

    I. U. Pismenetskaya

    2015-03-01

    Full Text Available Free oligosaccharides (FOS are unbound structural analogs of glycans of glycoconjugates. There are several sources of them inside the cell: 1 multistep pathways of N-glycosylation, 2 the cell quality control and endoplastic reticulum-associated degradation of mis-glycosylated and/or misfolded glycoproteins, 3 lysosomal degradation of mature glycoconjugates. Some of these FOS are the earliest indicators of potential glycosylation alterations that would be revealed in the course of the cell quality control and the endoplastic reticulum-associated degradation. Ischemia and hypertension cause stress of intracellular organelles leading to disruption of their functions. The main objective of the work was the characterization of free oligosaccharides (FOS in plasma obtained from patients with cardiovascular diseases compared to those from healthy subjects to evaluate the potential of these compounds for diagnostics. Chromatographic profiles of FOS composed of 4–12 monosaccharides were obtained and analyzed for quantitative and qualitative differences between the samples. After plasma deproteinization and FOS purification the oligosaccharides were labelled with anthranilic acid (2-AA, separated into the neutral and charged with QAE Sephadex (Q25-120 chromatography and analysed using high-performance liquid chromatography (HPLC. Glucose unit values were determined following comparison with a 2-AA-labelled glucose oligomer ladder derived from a partial hydrolysate of dextran as an external standard. The data were collected and processed using Empower software. The charged FOS were digested with the sialidase from Arthrobacter ureafaciens. 2-AA – labelled free oligosaccharides from transferrin were used as an external standard for the structure decoding. The profiles obtained were compared with intracellular free oligosaccharides of known structures and with the glycan structures and their descriptions in the databases GlycoBase and EUROCarbDB. These

  19. Enzymatic hydrolysis of lactose of whey permeate

    Directory of Open Access Journals (Sweden)

    Karina Nascimento de Almeida

    2015-09-01

    Full Text Available The whey permeate is the residual of the concentration process of the whey proteins by ultrafiltration method. It contains important nutrients such as lactose, minerals and some proteins and lipids. It is without an ending industrial waste that causes serious damage to the environment. For its full use the lactose must be hydrolyzed to enable its consumption by intolerant people. The enzymatic hydrolysis by lactase (β-galactosidase of Kluyveromyces lactis yeast is a safe method that does not compromise the integrity of other nutrients, enabling further use of the permeate as a raw material. This study aimed to perform tests of enzymatic hydrolysis of lactose in whey permeate formulations in a concentration of 0.2%, 0.7% and 1% at 30, 60 and 90 minutes with pH 6.3 medium and 37 °C. The reactions were monitored by high performance liquid chromatography which showed that the enzyme concentration of 0.7% at time 30 minutes formulations became safe for consumption by lactose intolerant people, according to minimum levels established by law.

  20. Production of flat KrF laser focal profiles with echelon free-induced spatial incoherence

    International Nuclear Information System (INIS)

    Deniz, A.V.; Obenschain, S.P.; Pronko, M.; Lehmberg, R.H.

    1990-01-01

    High gain direct-drive laser fusion requires a uniform spherical pellet implosion. This in turn requires that the focal profile of each driving beam be sufficiently uniform and controlled. Several methods for producing uniform beams have been proposed. One promising technique, echelon free-induced spatial incoherence (ISI), consists of propagating a broadband spatially incoherent beam through an entire laser system. This technique will be used in the Nike laser, which is a twenty-four- to forty-eight-beam multikilojoule KrF system currently under construction at the Naval Research Laboratory (NRL). This paper presents measurements of focal profiles of laser light smoothed by echelon free ISI from a KrF oscillator and amplifier. The initial implementation is shown

  1. Electrochemical measurement of tritium and hydrogen permeation through iron membranes

    International Nuclear Information System (INIS)

    Hagi, Hideki; Hayashi, Yasunori

    1988-01-01

    Permeation rates of tritium and hydrogen through iron were measured by the electrochemical method in which an aqueous solution containing 3.7 x 10 12 Bq/m 3 tritium was used as a cathodic electrolyte. Tritium and hydrogen were introduced from one side of a specimen by cathodic polarization with a constant current density, while at the other side of the specimen the permeated tritium and hydrogen were extracted by potentiostatical ionization. Nearly all of the potentiostatic current of the extraction side stands for the ionization of hydrogen, because the concentration of tritium in the cathodic electrolyte is very small. The amount of permeated hydrogen was obtained by integrating the anodic current, and that of tritium was determined by measuring the radioactivity of the electrolyte sampled from the extraction side. The separation factor for permeation obtained under steady state conditions (the ratio of permeation rates of hydrogen to tritium divided by the ratio of the concentration of hydrogen to tritium in the charging electrolyte) is 12 at 288 K. This value is independent of cathodic current density. Diffusion coefficients of tritium (D T ) and hydrogen (D H ) in iron were determined from the time lag of tritium and hydrogen permeation. For annealed specimens at 286 K, D T = 9 x 10 -10 m 2 /s and D H = 4 x 10 -9 m 2 /s, and for 9% cold-worked specimens at 284 K, D T = 3 x 10 -10 m 2 /s and D H = 4 x 10 -10 m 2 /s. (author)

  2. Re-evaluation of SiC permeation coefficients at high temperatures

    Energy Technology Data Exchange (ETDEWEB)

    Yamamoto, Yasushi, E-mail: yama3707@kansai-u.ac.jp [Faculty of Engineering Science, Kansai Univ., Yamate-cho, Suita, Osaka 564-8680 (Japan); Murakami, Yuichiro; Yamaguchi, Hirosato; Yamamoto, Takehiro; Yonetsu, Daigo [Faculty of Engineering Science, Kansai Univ., Yamate-cho, Suita, Osaka 564-8680 (Japan); Noborio, Kazuyuki [Hydrogen Isotope Research Center, Univ. of Toyama, Toyama, Toyama 930-8555 (Japan); Konishi, Satoshi [Institute of Advanced Energy, Kyoto Univ., Gokasho, Uji, Kyoto 611-0011 (Japan)

    2016-11-01

    Highlights: • The deuterium permeation coefficients of CVD-SiC at 600–950 °C were evaluated. • The wraparound flow was reduced to less than 1/100th of the permeation flow. • CVD-SiC materials are very effective as hydrogen isotope permeation barriers. - Abstract: Since 2007, our group has studied the deuterium permeation and diffusion coefficients for SiC materials at temperatures above 600 °C as a means of evaluating the tritium inventory and permeation in fusion blankets. During such measurements, control and evaluation of the wraparound flow through the sample holder are important, and so the heated sample holder is enclosed by a glass tube and kept under vacuum during experimental trials. However, detailed studies regarding the required degree of vacuum based on model calculations have shown that the wraparound flow is much larger than expected, and so can affect measurements at high temperatures. We therefore modified the measurement apparatus based on calculations involving reduced pressure in the glass tube, and are now confident that the measurement error is only several percent, even at 950 °C. In this paper, recent experimental results obtained with a chemical vapor deposition (CVD)-SiC sample over the temperature range of 600–950 °C are presented, showing that the permeation coefficient for CVD-SiC is more than three orders of magnitude smaller than that for stainless steel (SS316) at 600 °C, and that at 950 °C, the coefficient for CVD-SiC is almost equal to that for SUS316 at 550 °C.

  3. The coupling effect of gas-phase chemistry and surface reactions on oxygen permeation and fuel conversion in ITM reactors

    KAUST Repository

    Hong, Jongsup

    2015-08-01

    © 2015 Elsevier B.V. The effect of the coupling between heterogeneous catalytic reactions supported by an ion transport membrane (ITM) and gas-phase chemistry on fuel conversion and oxygen permeation in ITM reactors is examined. In ITM reactors, thermochemical reactions take place in the gas-phase and on the membrane surface, both of which interact with oxygen permeation. However, this coupling between gas-phase and surface chemistry has not been examined in detail. In this study, a parametric analysis using numerical simulations is conducted to investigate this coupling and its impact on fuel conversion and oxygen permeation rates. A thermochemical model that incorporates heterogeneous chemistry on the membrane surface and detailed chemical kinetics in the gas-phase is used. Results show that fuel conversion and oxygen permeation are strongly influenced by the simultaneous action of both chemistries. It is shown that the coupling somewhat suppresses the gas-phase kinetics and reduces fuel conversion, both attributed to extensive thermal energy transfer towards the membrane which conducts it to the air side and radiates to the reactor walls. The reaction pathway and products, in the form of syngas and C2 hydrocarbons, are also affected. In addition, the operating regimes of ITM reactors in which heterogeneous- or/and homogeneous-phase reactions predominantly contribute to fuel conversion and oxygen permeation are elucidated.

  4. Alteration of skin hydration and its barrier function by vehicle and permeation enhancers: a study using TGA, FTIR, TEWL and drug permeation as markers.

    Science.gov (United States)

    Shah, D K; Khandavilli, S; Panchagnula, R

    2008-09-01

    Vehicles and permeation enhancers (PEs) used in transdermal drug delivery (TDD) of a drug can affect skin hydration, integrity and permeation of the solute administered. This investigation was designed to study the effect of the most commonly used vehicles and PEs on rat skin hydration, barrier function and permeation of an amphiphilic drug, imipramine hydrochloride (IMH). An array of well-established techniques were used to confirm the findings of the study. Thermogravimetric analysis (TGA) and Fourier transform infrared (FTIR) spectroscopy were used to determine changes in skin hydration. Alteration of the stratum corneum (SC) structure was investigated using FTIR studies. To monitor the barrier function alteration, transepidermal water loss (TEWL) measurement and permeation studies were performed. Our findings indicate that with hydration, there was an increase in the bound water content of the skin, and pseudoequilibrium of hydration (a drastic decrease in hydration rate) was achieved at around 12 h. Hydration increased the ratio between amide-I and amide-II peaks in FTIR and reduced the C-H stretching peak area. Both propylene glycol (PG) and ethanol (EtOH) dehydrated skin, with the latter showing a predominant effect. Furthermore, it was confirmed that PG and EtOH decreased the bound water content due to alteration in the protein domains and extraction of SC lipids, respectively. The effect of hydration on the SC was found to be similar to that reported for temperature. Permeation studies revealed that the dehydration caused by vehicles decreased IMH flux, whereas the flux was enhanced by PEs. The role of partition was predominant for the permeation of IMH through dehydrated skin. A synergistic effect was observed for PG and menthol in the enhancement of IMH. Further findings provided strong evidence that PG affects protein domains and EtOH extracts lipids from the bilayer. Both PG and EtOH, with or without PEs, increased TEWL. Initial TEWL was well

  5. Free energies of binding from large-scale first-principles quantum mechanical calculations: application to ligand hydration energies.

    Science.gov (United States)

    Fox, Stephen J; Pittock, Chris; Tautermann, Christofer S; Fox, Thomas; Christ, Clara; Malcolm, N O J; Essex, Jonathan W; Skylaris, Chris-Kriton

    2013-08-15

    Schemes of increasing sophistication for obtaining free energies of binding have been developed over the years, where configurational sampling is used to include the all-important entropic contributions to the free energies. However, the quality of the results will also depend on the accuracy with which the intermolecular interactions are computed at each molecular configuration. In this context, the energy change associated with the rearrangement of electrons (electronic polarization and charge transfer) upon binding is a very important effect. Classical molecular mechanics force fields do not take this effect into account explicitly, and polarizable force fields and semiempirical quantum or hybrid quantum-classical (QM/MM) calculations are increasingly employed (at higher computational cost) to compute intermolecular interactions in free-energy schemes. In this work, we investigate the use of large-scale quantum mechanical calculations from first-principles as a way of fully taking into account electronic effects in free-energy calculations. We employ a one-step free-energy perturbation (FEP) scheme from a molecular mechanical (MM) potential to a quantum mechanical (QM) potential as a correction to thermodynamic integration calculations within the MM potential. We use this approach to calculate relative free energies of hydration of small aromatic molecules. Our quantum calculations are performed on multiple configurations from classical molecular dynamics simulations. The quantum energy of each configuration is obtained from density functional theory calculations with a near-complete psinc basis set on over 600 atoms using the ONETEP program.

  6. Uses and evaluation methods of potential hydrogen permeation barriers for nuclear reactor materials

    International Nuclear Information System (INIS)

    Noga, J.O.; Piercy, G.R.; Bowker, J.T.

    1985-07-01

    This report summarizes results on the use of coatings as hydrogen permeation barriers on nuclear reactor component materials. Two classes of base materials were considered, exothermic hydrogen absorbers and endothermic hydrogen absorbers. The results of the tests indicate that substantial reductions in the amount of hydrogen absorbed by a metal can be achieved through the use of hydrogen permeation barrier coatings. Gold was determined to provide an effective hydrogen permeation barrier on Zr-2-1/2 Nb pressure tube material. Tin was determined to be a suitable hydrogen permeation barrier when applied on AISI 410 stainless steel and iron. Both gas phase and electrochemical permeation techniques were used to determine hydrogen permeabilities through coatings and base materials

  7. Drug Release and Skin Permeation from Lipid Liquid Crystalline Phases

    Science.gov (United States)

    Costa-Balogh, F. O.; Sparr, E.; Sousa, J. J. S.; Pais, A. A. C. C.

    We have studied drug release and skin permeation from several different liquid crystalline lipid formulations that may be used to control the respective release rates. We have studied the release and permeation through human skin of a water-soluble and amphiphilic drug, propranolol hydrochloride, from several formulations prepared with monoolein and phytantriol as permeation enhancers and controlled release excipients. Diolein and cineol were added to selected formulations. We observed that viscosity decreases with drug load, wich is compatible with the occurrence of phase changes. Diolein stabilizes the bicontinuous cubic phases leading to an increase in viscosity and sustained release of the drug. The slowest release was found for the cubic phases with higher viscosity. Studies on skin permeation showed that these latter formulations also presented lower permeability than the less viscous monoolein lamellar phases. Formulations containing cineol originated higher permeability with higher enhancement ratios. Thus, the various formulations are adapted to different circumstances and delivery routes. While a slow release is usually desired for drug sustained delivery, the transdermal route may require a faster release. Lamellar phases, which are less viscous, are more adapted to transdermal applications. Thus, systems involving lamellar phases of monoolein and cineol are good candidates to be used as skin permeation enhancers for propranolol hydrochloride.

  8. Implications of recent implantation-driven permeation experiments for fusion reactor safety

    International Nuclear Information System (INIS)

    Longhurst, G.R.; Anderl, R.A.; Struttmann, D.A.

    1986-01-01

    Metal structures exposed to the plasma in tritium-burning fusion reactors will be subject to implantation-driven permeation (IDP) of tritium. Permeation rates for IDP in fusion structural materials are usually high because the tritium atoms enter the material without having to go through the dissociation and solution steps required of tritium-bearing gas molecules. These surface processes, which may be rate limiting in PDP, actually enhance permeation in IDP by inhibiting the return of tritium to the plasma side of the structure. Experiments have been conducted at the Idaho National Engineering Laboratory (INEL) to investigate the nature of IDP by simulating conditions experienced by structures exposed to the plasma. These experiments have shown that surface conditions are important to tritium permeation in materials endothermic to hydrogen solution such as austenitic and ferritic steels. In reactive metals such as vanadium, surface processes appear to totally control the permeation. The purpose of this paper is to review the progress of those experiments and to discuss the implications that the results have regarding the tritium-related safety concerns of fusion reactors

  9. A Python tool to set up relative free energy calculations in GROMACS.

    Science.gov (United States)

    Klimovich, Pavel V; Mobley, David L

    2015-11-01

    Free energy calculations based on molecular dynamics (MD) simulations have seen a tremendous growth in the last decade. However, it is still difficult and tedious to set them up in an automated manner, as the majority of the present-day MD simulation packages lack that functionality. Relative free energy calculations are a particular challenge for several reasons, including the problem of finding a common substructure and mapping the transformation to be applied. Here we present a tool, alchemical-setup.py, that automatically generates all the input files needed to perform relative solvation and binding free energy calculations with the MD package GROMACS. When combined with Lead Optimization Mapper (LOMAP; Liu et al. in J Comput Aided Mol Des 27(9):755-770, 2013), recently developed in our group, alchemical-setup.py allows fully automated setup of relative free energy calculations in GROMACS. Taking a graph of the planned calculations and a mapping, both computed by LOMAP, our tool generates the topology and coordinate files needed to perform relative free energy calculations for a given set of molecules, and provides a set of simulation input parameters. The tool was validated by performing relative hydration free energy calculations for a handful of molecules from the SAMPL4 challenge (Mobley et al. in J Comput Aided Mol Des 28(4):135-150, 2014). Good agreement with previously published results and the straightforward way in which free energy calculations can be conducted make alchemical-setup.py a promising tool for automated setup of relative solvation and binding free energy calculations.

  10. SC lipid model membranes designed for studying impact of ceramide species on drug diffusion and permeation--part II: diffusion and permeation of model drugs.

    Science.gov (United States)

    Ochalek, M; Podhaisky, H; Ruettinger, H-H; Wohlrab, J; Neubert, R H H

    2012-10-01

    The barrier function of two quaternary stratum corneum (SC) lipid model membranes, which were previously characterized with regard to the lipid organization, was investigated based on diffusion studies of model drugs with varying lipophilicities. Diffusion experiments of a hydrophilic drug, urea, and more lipophilic drugs than urea (i.e. caffeine, diclofenac sodium) were conducted using Franz-type diffusion cells. The amount of permeated drug was analyzed using either HPLC or CE technique. The subjects of interest in the present study were the investigation of the influence of physicochemical properties of model drugs on their diffusion and permeation through SC lipid model membranes, as well as the study of the impact of the constituents of these artificial systems (particularly ceramide species) on their barrier properties. The diffusion through both SC lipid model membranes and the human SC of the most hydrophilic model drug, urea, was faster than the permeation of the more lipophilic drugs. The slowest rate of permeation through SC lipid systems occurred in the case of caffeine. The composition of SC lipid model membranes has a significant impact on their barrier function. Model drugs diffused and permeated faster through Membrane II (presence of Cer [EOS]). In terms of the barrier properties, Membrane II is much more similar to the human SC than Membrane I. Copyright © 2012 Elsevier B.V. All rights reserved.

  11. Effect of permeation enhancers on the penetration mechanism of transfersomal gel of ketoconazole

    Directory of Open Access Journals (Sweden)

    Reshmy Rajan

    2012-01-01

    Full Text Available The aim of the present research work was to investigate the potential of transfersome formulations for transdermal delivery of Ketoconazole (KTZ. KTZ is a broad-spectrum antifungal agent that is active against a wide variety of fungi and yeasts. It is readily but incompletely absorbed after oral dosing and is highly variable. The transfersomes were formulated by lipid film hydration technique using Rotary vacuum Evaporator. The prepared transfersomes were converted into suitable gel formulation and is evaluated for their gel characteristics like pH, viscosity, spreadability, extrudability, homogeneity, drug content, etc. Suitable essential oils acting as natural permeation enhancers were added to the transfersomal formulation of KTZ for their release studies. Studies proved that addition of suitable permeation enhancers to the transfersomal formulation improved the release and permeation of KTZ, which showed that the permeation enhancers modify the barrier to penetration present in skin without itself undergoing any change. From the various essential oils which are used as permeation enhancers, the formulation containing Eucalyptus oil showed better in vitro release and permeation as compared with other formulations containing different permeation enhancers.

  12. Minimum free-energy paths for the self-organization of polymer brushes.

    Science.gov (United States)

    Gleria, Ignacio; Mocskos, Esteban; Tagliazucchi, Mario

    2017-03-22

    A methodology to calculate minimum free-energy paths based on the combination of a molecular theory and the improved string method is introduced and applied to study the self-organization of polymer brushes under poor solvent conditions. Polymer brushes in a poor solvent cannot undergo macroscopic phase separation due to the physical constraint imposed by the grafting points; therefore, they microphase separate forming aggregates. Under some conditions, the theory predicts that the homogeneous brush and the aggregates can exist as two different minima of the free energy. The theoretical methodology introduced in this work allows us to predict the minimum free-energy path connecting these two minima as well as the morphology of the system along the path. It is shown that the transition between the homogeneous brush and the aggregates may involve a free-energy barrier or be barrierless depending on the relative stability of the two morphologies and the chain length and grafting density of the polymer. In the case where a free-energy barrier exists, one of the morphologies is a metastable structure and, therefore, the properties of the brush as the quality of the solvent is cycled are expected to display hysteresis. The theory is also applied to study the adhesion/deadhesion transition between two opposing surfaces modified by identical polymer brushes and it is shown that this process may also require surpassing a free-energy barrier.

  13. Practical experience of backwashing with SWRO permeate for UF fouling control

    KAUST Repository

    Li, Sheng; Heijman, Sebastiaan G J; Verberk, J. Q J C; Amy, Gary L.; Van Dijk, Johannis C.

    2013-01-01

    Effectiveness of seawater reverse osmosis (SWRO) permeate backwash on fouling control of seawater ultrafiltration was investigated at a pilot scale. A standard membrane module was used in this pilot to represent full-scale desalination plants. Results of the pilot show a good reproducibility. When the UF permeate was used for backwash, the frequency of chemically enhanced backwash (CEB) was around once per day. However, results of the pilot show that SWRO permeate backwashing could significantly reduce the CEB frequency. © 2013 Desalination Publications.

  14. A comparison of implantation-driven permeation characteristics of fusion reactor structural materials

    Science.gov (United States)

    Longhurst, G. R.; Anderl, R. A.; Struttmann, D. A.

    1986-11-01

    Implantation-driven permeation experiments have been conducted on samples of the ferritic steel HT-9, the austenitic Primary Candidate Alloy (PCA) and the vanadium alloy V-15Cr-5Ti using D 3+ ions under conditions that simulate charge-exchange neutral loading on a fusion reactor first wall. The steels all exhibited an initially intense permeation "spike" followed by an exponential decrease to low steady-state values. That spike was not evident in the V-15Cr-5Ti experiments. Steady-state permeation was highest in the vanadium alloy and lowest in the austenitic steel. Though permeation rates in the HT-9 were lower than those in V-15Cr-5Ti, permeation transients were much faster in HT-9 than in other materials tested. Sputtering of the steel surface resulted in enhanced reemission, whereas in the vanadium tests, recombination and diffusivity both appeared to diminish as the deuterium concentration rose. We conclude that for conditions comparable to those of these experiments, tritium retention and permeation loss in first wall structures made of steels will be less than in structures made of V-15Cr-5Ti.

  15. Performance profiles of major energy producers, 1991

    International Nuclear Information System (INIS)

    1992-01-01

    Performance Profiles of Major Energy Producers 1991 is the fifteenth annual report of the Energy Information Administration's (EIA) Financial Reporting System (FRS). The report examines financial and operating developments, with particular reference to the 23 major energy companies (the FRS companies) required to report annually on Form EIA-28. It also traces key developments affecting the financial performance of major energy companies in 1991, as well as reviews important trends. Financial information is reported by major lines of business including oil and gas production, petroleum refining and marketing, and other energy operations. Domestic and international operations are examined separately in this report

  16. Hydrogen permeation inhibition by zinc-nickel alloy plating on steel XC68

    International Nuclear Information System (INIS)

    El Hajjami, A.; Gigandet, M.P.; De Petris-Wery, M.; Catonne, J.C.; Duprat, J.J.; Thiery, L.; Raulin, F.; Starck, B.; Remy, P.

    2008-01-01

    The inhibition of hydrogen permeation and barrier effect by zinc-nickel plating was investigated using the Devanathan-Stachurski permeation technique. The hydrogen permeation and hydrogen diffusion for the zinc-nickel (12-15%) plating on steel XC68 is compared with zinc and nickel. Hydrogen permeation and hydrogen diffusion were followed as functions of time at current density applied (cathodic side) and potential permanent (anodic side). The hydrogen permeation inhibition for zinc-nickel is intermediate to that of nickel and zinc. This inhibition was due to nickel-rich layer effects at the Zn-Ni alloy/substrate interface, is shown by GDOES. Zinc-nickel plating inhibited the hydrogen diffusion greater as compared to zinc. This diffusion resistance was due to the barrier effect caused by the nickel which is present at the interface and transformed the hydrogen atomic to Ni 2 H compound, as shown by GIXRD.

  17. Hydrogen permeation inhibition by zinc-nickel alloy plating on steel XC68

    Energy Technology Data Exchange (ETDEWEB)

    El Hajjami, A. [Institut UTINAM, UMR CNRS 6213, Sonochimie et Reactivite des Surfaces, Universite de Franche-Comte, 16 route de Gray, 25030 Besancon Cedex (France); Coventya S.A.S., 51 rue Pierre, 92588 Clichy Cedex (France); Gigandet, M.P. [Institut UTINAM, UMR CNRS 6213, Sonochimie et Reactivite des Surfaces, Universite de Franche-Comte, 16 route de Gray, 25030 Besancon Cedex (France)], E-mail: marie-pierre.gigandet@univ-fcomte.fr; De Petris-Wery, M. [Institut Universitaire de Technologie d' Orsay, Universite Paris XI, Plateau de Moulon, 91400 Orsay (France); Catonne, J.C. [Professeur Honoraire du Conservatoire national des arts et metiers (CNAM), Paris (France); Duprat, J.J.; Thiery, L.; Raulin, F. [Coventya S.A.S., 51 rue Pierre, 92588 Clichy Cedex (France); Starck, B.; Remy, P. [Lisi Automotive, 28 faubourg de Belfort, BP 19, 90101 Delle Cedex (France)

    2008-12-30

    The inhibition of hydrogen permeation and barrier effect by zinc-nickel plating was investigated using the Devanathan-Stachurski permeation technique. The hydrogen permeation and hydrogen diffusion for the zinc-nickel (12-15%) plating on steel XC68 is compared with zinc and nickel. Hydrogen permeation and hydrogen diffusion were followed as functions of time at current density applied (cathodic side) and potential permanent (anodic side). The hydrogen permeation inhibition for zinc-nickel is intermediate to that of nickel and zinc. This inhibition was due to nickel-rich layer effects at the Zn-Ni alloy/substrate interface, is shown by GDOES. Zinc-nickel plating inhibited the hydrogen diffusion greater as compared to zinc. This diffusion resistance was due to the barrier effect caused by the nickel which is present at the interface and transformed the hydrogen atomic to Ni{sub 2}H compound, as shown by GIXRD.

  18. A novel method for furfural recovery via gas stripping assisted vapor permeation by a polydimethylsiloxane membrane

    Science.gov (United States)

    Hu, Song; Guan, Yu; Cai, Di; Li, Shufeng; Qin, Peiyong; Karim, M. Nazmul; Tan, Tianwei

    2015-03-01

    Furfural is an important platform chemical with a wide range of applications. However, due to the low concentration of furfural in the hydrolysate, the conventional methods for furfural recovery are energy-intensive and environmentally unfriendly. Considering the disadvantages of pervaporation (PV) and distillation in furfural separation, a novel energy-efficient `green technique', gas stripping assisted vapor permeation (GSVP), was introduced in this work. In this process, the polydimethylsiloxane (PDMS) membrane was prepared by employing water as solvent. Coking in pipe and membrane fouling was virtually non-existent in this new process. In addition, GSVP was found to achieve the highest pervaporation separation index of 216200 (permeate concentration of 71.1 wt% and furfural flux of 4.09 kgm-2h-1) so far, which was approximately 2.5 times higher than that found in pervaporation at 95°C for recovering 6.0 wt% furfural from water. Moreover, the evaporation energy required for GSVP decreased by 35% to 44% relative to that of PV process. Finally, GSVP also displayed more promising potential in industrial application than PV, especially when coupled with the hydrolysis process or fermentation in biorefinery industry.

  19. Performance profiles of major energy producers 1994

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1996-02-01

    Performance Profiles of Major Energy Producers 1994 is the eighteenth annual report of the Energy Information Administration`s (EIA) Financial Reporting System (FRS). The report examines financial and operating developments in energy markets, with particular reference to the 24 major U.S. energy companies required to report annually on Form EIA-28. Financial information is reported by major lines of business, including oil and gas production, petroleum refining and marketing, other energy operations, and nonenergy businesses. Financial and operating results are presented in the context of energy market developments with a view toward identifying changing corporate strategies and measuring the performance of ongoing operations both in the United States and abroad.

  20. Permeated defect detecting test method and device in reactor

    International Nuclear Information System (INIS)

    Sakurai, Yoshishige.

    1996-01-01

    The present invention provides a method of and a device capable of performing a test for entire inner surfaces of the reactor upon periodical inspection of a BWR type reactor while sufficiently taking countermeasures for radiation rays into consideration. Namely, the present invention comprises following steps. (1) A provisional step for taking a shroud head of a reactor core shroud and incore structural components above and below the shroud out of the reactor, discharging reactor water and water tightly closing openings such as reactor wall perforation holes, (2) a pretreatment step for washing exposed inner surfaces of the reactor and peeling deteriorated materials, (3) a first drying step for drying portions washed and peeled in the step (2), (4) a permeation step for applying a permeation liquid of a defect detecting medium on the exposed inner surfaces of the reactor, (5) a permeation liquid removing step for removing the an excess permeation liquid in the step (4), (6) a second drying step for drying corresponding portions after performing the step (5), and (7) a flaw detecting step for optically observing the corresponding portions after performing the step (6) and detecting flaws. (I.S.)

  1. Solar energy in Australia: a profile of renewable energy activity in its national context

    Energy Technology Data Exchange (ETDEWEB)

    Case, G.L.

    1980-08-01

    The following topics are included: country overview; energy summary; geopolitical, economic, and cultural aspects of Australia; the energy profile; and international agreements, contacts, manufacturers, and projects. (MHR)

  2. Free energy option and its relevance to improve domestic energy demands in southern Nigeria

    Directory of Open Access Journals (Sweden)

    Moses Eterigho Emetere

    2016-11-01

    Full Text Available The aim of this paper is to seek an energy option that would benefit the growing energy demands. Domestic energy demands in southern Nigeria had increased greatly due to failing power programs and seasonal migrations. The fossil fuel option is gradually fading away due to environmental pollution and recent dynamic cost. The renewable energy option had been celebrated with little success in the coastal area of southern Nigeria. At the moment, the renewable energy option is very expensive with little guarantee on its efficiency with time. The data set used for this study was obtained from the Davis weather installation in Covenant University. The free energy option was considered. The cost and its environmental implication for domestic use were comparatively discussed alongside other energy options — using the Life cycle cost analysis. It was found out that free energy option is more affordable and efficient for domestic use.

  3. A study on reverse osmosis permeating treatment for yarn dyeing ...

    African Journals Online (AJOL)

    This paper presents a fuzzy linear regression model for estimation of reverse osmosis permeating parameters conditions. The proposed model can effectively take on non-crisp, fuzzy and crisp data. This study model used for estimation of reverse osmosis permeating parameters data from Tirupur examines the variables that ...

  4. Effect of Nutrient Formulations on Permeation of Proteins and Lipids ...

    African Journals Online (AJOL)

    Purpose: To investigate the effect of nutrient formulations on the permeation of proteins and lipids through porcine intestine in vitro. Method: In vitro permeation studies of proteins and lipids of two peptide-based formulations, composed of various compounds and sources of hydrolyzed protein was carried out, and compared ...

  5. Heavy-quark free energies, internal-energy and entropy contributions

    International Nuclear Information System (INIS)

    Kaczmarek, O.

    2009-01-01

    We present lattice QCD results on heavy-quark free energies, extract from its temperature dependence the entropy and internal-energy contributions, and discuss the onset of medium effects that lead to screening of static quark-antiquark sources in a thermal medium. The detailed analysis of the temperature and distance dependence of the different contributions indicate the complex non-perturbative nature of strongly interacting matter. We shall discuss the necessity to include those effects in studies on the behavior of heavy quarks, heavy-quark bound states and their dissociation in the quark-gluon plasma phase. (orig.)

  6. Oxygen permeation in thin, dense Ce0.9Gd0.1O 1.95- membranes I. Model study

    DEFF Research Database (Denmark)

    Chatzichristodoulou, Christodoulos; Søgaard, Martin; Hendriksen, Peter Vang

    2011-01-01

    at the feed and permeate side of the membrane, related to the gaseous oxygen reduction and fuel oxidation, respectively, as well as the gas conversion and gas diffusion resistances in the porous support structure at the permeate side. The temperature and oxygen activity dependence of the oxide ionic...... was analyzed by a separation of the various losses. The chemical expansion of Ce 0.9Gd0.1O1.95-δ under operation was estimated from the calculated oxygen activity and nonstoichiometry profiles inside the membrane. © 2011 The Electrochemical Society.......A model of a supported planar Ce0.9Gd0.1O 1.95-δ oxygen membrane in a plug-flow setup was constructed and a sensitivity analysis of its performance under varying operating conditions and membrane parameters was performed. The model takes into account the driving force losses at the catalysts...

  7. Free energy calculations, enhanced by a Gaussian ansatz, for the "chemical work" distribution.

    Science.gov (United States)

    Boulougouris, Georgios C

    2014-05-15

    The evaluation of the free energy is essential in molecular simulation because it is intimately related with the existence of multiphase equilibrium. Recently, it was demonstrated that it is possible to evaluate the Helmholtz free energy using a single statistical ensemble along an entire isotherm by accounting for the "chemical work" of transforming each molecule, from an interacting one, to an ideal gas. In this work, we show that it is possible to perform such a free energy perturbation over a liquid vapor phase transition. Furthermore, we investigate the link between a general free energy perturbation scheme and the novel nonequilibrium theories of Crook's and Jarzinsky. We find that for finite systems away from the thermodynamic limit the second law of thermodynamics will always be an inequality for isothermal free energy perturbations, resulting always to a dissipated work that may tend to zero only in the thermodynamic limit. The work, the heat, and the entropy produced during a thermodynamic free energy perturbation can be viewed in the context of the Crooks and Jarzinsky formalism, revealing that for a given value of the ensemble average of the "irreversible" work, the minimum entropy production corresponded to a Gaussian distribution for the histogram of the work. We propose the evaluation of the free energy difference in any free energy perturbation based scheme on the average irreversible "chemical work" minus the dissipated work that can be calculated from the variance of the distribution of the logarithm of the work histogram, within the Gaussian approximation. As a consequence, using the Gaussian ansatz for the distribution of the "chemical work," accurate estimates for the chemical potential and the free energy of the system can be performed using much shorter simulations and avoiding the necessity of sampling the computational costly tails of the "chemical work." For a more general free energy perturbation scheme that the Gaussian ansatz may not be

  8. Mass and free energy of Lovelock black holes

    International Nuclear Information System (INIS)

    Kastor, David; Traschen, Jennie; Ray, Sourya

    2011-01-01

    An explicit formula for the ADM mass of an asymptotically AdS black hole in a generic Lovelock gravity theory is presented, identical in form to that in Einstein gravity, but multiplied by a function of the Lovelock coupling constants and the AdS curvature radius. A Gauss' law-type formula relates the mass, which is an integral at infinity, to an expression depending instead on the horizon radius. This and other thermodynamic quantities, such as the free energy, are then analyzed in the limits of small and large horizon radius, yielding results that are independent of the detailed choice of Lovelock couplings. In even dimensions, the temperature diverges in both limits, implying the existence of a minimum temperature for black holes. The negative free energy of sufficiently large black holes implies the existence of a Hawking-Page transition. In odd dimensions, the temperature still diverges for large black holes, which again have negative free energy. However, the temperature vanishes as the horizon radius tends to zero and sufficiently small black holes have positive specific heat.

  9. Free-Energy Calculations. A Mathematical Perspective

    Science.gov (United States)

    Pohorille, Andrzej

    2015-01-01

    conductance, defined as the ratio of ionic current through the channel to applied voltage, can be calculated in MD simulations by way of applying an external electric field to the system and counting the number of ions that traverse the channel per unit time. If the current is small, a voltage significantly higher than the experimental one needs to be applied to collect sufficient statistics of ion crossing events. Then, the calculated conductance has to be extrapolated to the experimental voltage using procedures of unknown accuracy. Instead, we propose an alternative approach that applies if ion transport through channels can be described with sufficient accuracy by the one-dimensional diffusion equation in the potential given by the free energy profile and applied voltage. Then, it is possible to test the assumptions of the equation, recover the full voltage/current dependence, determine the reliability of the calculated conductance and reconstruct the underlying (equilibrium) free energy profile, all from MD simulations at a single voltage. We will present the underlying theory, model calculations that test this theory and simulations on ion conductance through a channel that has been extensively studied experimentally. To our knowledge this is the first case in which the complete, experimentally measured dependence of the current on applied voltage has been reconstructed from MD simulations.

  10. Studies on Tasar Cocoon Cooking Using Permeation Method

    Science.gov (United States)

    Javali, Uday C.; Malali, Kiran B.; Ramya, H. G.; Naik, Subhas V.; Padaki, Naveen V.

    2018-02-01

    Cocoon cooking is an important process before reeling of tasar silk yarn. Cooking ensures loosening of the filaments in the tasar cocoons thereby easing the process of yarn withdrawal during reeling process. Tasar cocoons have very hard shell and hence these cocoons need chemical cooking process to loosen the silk filaments. Attempt has been made in this article to study the effect of using vacuum permeation chamber for tasar cocoon cooking in order to reduce the cooking time and improve the quality of tasar silk yarn. Vacuum assisted permeation cooking method has been studied in this article on tasar daba cocoons for cooking efficiency, deflossing and reelability. Its efficiency has been evaluated with respect to different cooking methods viz, traditional and open pan cooking methods. The tasar silk produced after reeling process has been tested for fineness, strength and cohesion properties. Results indicate that permeation method of tasar cooking ensures uniform cooking with higher efficiency along with better reeling performance and improved yarn properties.

  11. Preservation of human ovarian follicles within tissue frozen by vitrification in a xeno-free closed system using only ethylene glycol as a permeating cryoprotectant.

    Science.gov (United States)

    Sheikhi, Mona; Hultenby, Kjell; Niklasson, Boel; Lundqvist, Monalill; Hovatta, Outi

    2013-07-01

    To study the preservation of follicles within ovarian tissue vitrified using only one or a combination of three permeating cryoprotectants. Experimental study. University hospital. Ovarian tissue was donated by consenting women undergoing elective cesarean section. Ovarian tissue was vitrified in closed sealed vials using either a combination of dimethyl sulfoxide, 1,2-propanediol, and ethylene glycol (EG), or only EG as permeating cryoprotectants. Ovarian tissue was vitrified with the use of two vitrification methods. Tissue from the same donor was used for comparison of two different solutions. The morphology of the follicles was evaluated after vitrification, warming, and culture by light microscopy and transmission electron microscopy. Apoptosis was assessed by immunohistochemistry for active caspase-3 in fresh and vitrified tissue. Light and electron microscopic analysis showed equally well preserved morphology of oocytes, granulosa cells, and ovarian stroma when either of the vitrification solutions was used. No apoptosis was observed in primordial and primary follicles. Using only EG as a permeating cryoprotectant in a closed tube gives as good ultrastructural preservation of ovarian follicles as a more complicated system using several cryoprotectants. Copyright © 2013 American Society for Reproductive Medicine. Published by Elsevier Inc. All rights reserved.

  12. Development of tritium permeation barriers on Al base in Europe

    Science.gov (United States)

    Benamati, G.; Chabrol, C.; Perujo, A.; Rigal, E.; Glasbrenner, H.

    The development of the water cooled lithium lead (WCLL) DEMO fusion reactor requires the production of a material capable of acting as a tritium permeation barrier (TPB). In the DEMO blanket reactor permeation barriers on the structural material are required to reduce the tritium permeation from the Pb-17Li or the plasma into the cooling water to acceptable levels (HIP) technology and spray (this one developed also for repair) deposition techniques. The final goal is to select a reference technique to be used in the blanket of the DEMO reactor and in the ITER test module fabrication. The activities performed in four European laboratories are summarised here.

  13. Tritium permeation in stainless-steel structures exposed to plasma ions

    International Nuclear Information System (INIS)

    Anderl, R.A.; Holland, D.F.; Struttmann, D.A.; Longhurst, G.R.; Merrill, B.J.

    1985-01-01

    This paper presents a comparison of the hydrogen permeation properties of the austenitic primary candidate alloy, PCA, and of the advanced ferritic alloy, HT-9. The comparison is based on experimental measurements of the permeation and reemission of deuterium from specimens undergoing implantation with 3-keV, D 3 + ions produced by an accelerator. Characterization of the specimen surface facing the ion beam is provided by secondary ion mass spectrometer (SIMS) analysis of the species sputtered from the surface during the implantation. Recombination and diffusivity data for PCA and HT-9 were derived from an analysis in which model calculations were applied to the reemission and permeation measurements

  14. Overview of direct air free cooling and thermal energy storage potential energy savings in data centres

    International Nuclear Information System (INIS)

    Oró, Eduard; Depoorter, Victor; Pflugradt, Noah; Salom, Jaume

    2015-01-01

    In the last years the total energy demand of data centres has experienced a dramatic increase which is expected to continue. This is why data centres industry and researchers are working on implementing energy efficiency measures and integrating renewable energy to overcome energy dependence and to reduce operational costs and CO 2 emissions. The cooling system of these unique infrastructures can account for 40% of the total energy consumption. To reduce the energy consumption, free cooling strategies are used more and more, but so far there has been little research about the potential of thermal energy storage (TES) solutions to match energy demand and energy availability. Hence, this work intends to provide an overview of the potential of the integration of direct air free cooling strategy and TES systems into data centres located at different European locations. For each location, the benefit of using direct air free cooling is evaluated energetically and economically for a data centre of 1250 kW. The use of direct air free cooling is shown to be feasible. This does not apply the TES systems by itself. But when using TES in combination with an off-peak electricity tariff the operational cooling cost can be drastically reduced. - Highlights: • The total annual hours for direct air free cooling in data centres are calculated. • The potential of TES integration in data centres is evaluated. • The implementation of TES to store the ambient air cold is not recommended. • TES is feasible if combined with redundant chillers and off-peak electricity price. • The cooling electricity cost is being reduced up to 51%, depending on the location

  15. Free Energy Self-Averaging in Protein-Sized Random Heteropolymers

    International Nuclear Information System (INIS)

    Chuang, Jeffrey; Grosberg, Alexander Yu.; Kardar, Mehran

    2001-01-01

    Current theories of heteropolymers are inherently macroscopic, but are applied to mesoscopic proteins. To compute the free energy over sequences, one assumes self-averaging -- a property established only in the macroscopic limit. By enumerating the states and energies of compact 18, 27, and 36mers on a lattice with an ensemble of random sequences, we test the self-averaging approximation. We find that fluctuations in the free energy between sequences are weak, and that self-averaging is valid at the scale of real proteins. The results validate sequence design methods which exponentially speed up computational design and simplify experimental realizations

  16. Calculation of free-energy differences from computer simulations of initial and final states

    International Nuclear Information System (INIS)

    Hummer, G.; Szabo, A.

    1996-01-01

    A class of simple expressions of increasing accuracy for the free-energy difference between two states is derived based on numerical thermodynamic integration. The implementation of these formulas requires simulations of the initial and final (and possibly a few intermediate) states. They involve higher free-energy derivatives at these states which are related to the moments of the probability distribution of the perturbation. Given a specified number of such derivatives, these integration formulas are optimal in the sense that they are exact to the highest possible order of free-energy perturbation theory. The utility of this approach is illustrated for the hydration free energy of water. This problem provides a quite stringent test because the free energy is a highly nonlinear function of the charge so that even fourth order perturbation theory gives a very poor estimate of the free-energy change. Our results should prove most useful for complex, computationally demanding problems where free-energy differences arise primarily from changes in the electrostatic interactions (e.g., electron transfer, charging of ions, protonation of amino acids in proteins). copyright 1996 American Institute of Physics

  17. Tritium permeation and recovery for the Flibe/He blanket design

    International Nuclear Information System (INIS)

    Moir, R.

    1984-10-01

    This study assumes tritium to be a gas dissolved in molten salt, with TF formation suppressed. Tritium permeates readily through the hot steel tubes of the reactor and steam generator and will leak into the steam system at the rate of about one gram per day in the absence of special permeation barriers, assuming that 1% of the helium coolant flow rate is processed for tritium recovery at 90% efficiency per pass. Tritiated water in the steam system is a personnel hazard at concentration levels well below one part per million and this level would soon be reached without costly isotopic processing. Alternatively, including a combination of permeation barriers on reactor and steam generator tubes and molten salt processing is estimated to reduce the leak rate into the steam system by over two orders of magnitude. For the option with the lowest estimated leak rate, 55 Ci/d, it may be possible to purge the steam system continuously to prevent tritiated water buildup. At best, isotopic separation of dilute tritiated water may not be necessary and for higher leak-rate options the isotopic processing rate can be reduced. The proposed permeation barrier for the reactor tubes is a 10 μm layer of tungsten which, in principle, will reduce tritium blanket permeation by a factor of about 300 below the bare-steel rate

  18. Permeation of cytotoxic formulations through swatches from selected medical gloves.

    Science.gov (United States)

    Klein, Michael; Lambov, Nikolai; Samev, Nikola; Carstens, Gerhard

    2003-05-15

    The permeability of selected medical glove materials to various cytotoxic agents is described. Fifteen cytotoxic agents were prepared at the highest concentrations normally encountered by hospital personnel. Four single-layer and two double-layer glove systems made of two materials--latex and neoprene--were exposed to the drugs for 30, 60, 90, 120, 150, and 180 minutes. Circular sections of the glove material were cut from the cuff and evaluated without any pretreatment. Permeability tests were conducted in an apparatus consisting of a donor chamber containing the cytotoxic solution and a collection chamber filled with water (the acceptor medium). The two sections were separated by the glove material. Permeating portions, collected in water as the acceptor medium, were analyzed by either ultraviolet-visible light spectrophotometry or high-performance liquid chromatography (HPLC). Permeation rates were calculated on the basis of the concentration of the cytotoxic agent in the acceptor medium. Spectrophotometric measurements were taken every 30 minutes, and HPLC analysis was performed at the end of the three-hour period. Average permeation rates for 14 drugs were low (materials. All glove materials tested were impermeable to most of the cytotoxic agents over a period of three hours. Carmustine was the only agent that substantially permeated single-layer latex glove materials. Permeation of most tested cytotoxic formulations was low through swatches of material from various medical gloves.

  19. Evaluation of the accuracy of the free-energy-minimization method

    International Nuclear Information System (INIS)

    Najafabadi, R.; Srolovitz, D.J.

    1995-01-01

    We have made a detailed comparison between three competing methods for determining the free energies of solids and their defects: the thermodynamic integration of Monte Carlo (TIMC) data, the quasiharmonic (QH) model, and the free-energy-minimization (FEM) method. The accuracy of these methods decreases from the TIMC to QH to FEM method, while the computational efficiency improves in that order. All three methods yield perfect crystal lattice parameters and free energies at finite temperatures which are in good agreement for three different Cu interatomic potentials [embedded atom method (EAM), Morse and Lennard-Jones]. The FEM error (relative to the TIMC) in the (001) surface free energy and in the vacancy formation energy were found to be much larger for the EAM potential than for the other two potentials. Part of the errors in the FEM determination of the free energies are associated with anharmonicities in the interatomic potentials, with the remainder attributed to decoupling of the atomic vibrations. The anharmonicity of the EAM potential was found to be unphysically large compared with experimental vacancy formation entropy determinations. Based upon these results, we show that the FEM method provides a reasonable compromise between accuracy and computational demands. However, the accuracy of this approach is sensitive to the choice of interatomic potential and the nature of the defect to which it is being applied. The accuracy of the FEM is best in high-symmetry environments (perfect crystal, high-symmetry defects, etc.) and when used to describe materials where the anharmonicity is not too large

  20. Expansion of thermodynamic model of solute permeation through reverse osmosis membrane

    International Nuclear Information System (INIS)

    Nishimaki, Kenzo; Koyama, Akio

    1994-01-01

    Many studies have been performed on permeation mechanism of solute and solvent in membrane separation process like reverse osmosis or ultrafiltration, and several models of solute/solvent permeation through membrane are proposed. Among these models, Kedem and Katchalsky, based on the theory of thermodynamics of irreversible processes, formulated the one-solute permeation process in their mathematical model, which treats membrane as a black box, not giving consideration to membrane structure and to interaction between membrane material and permeates, viz. solute and solvent. According to this theory, the driving force of solute/solvent permeation through membrane is the difference of their chemical potential between both sides of membrane, and the linear phenomenological equation is applied to describing the relation between driving force and flux of solute/solvent. This equation can be applied to the irreversible process only when the process is almost in equilibrium. This condition is supposed to be satisfied in the solute/solvent permeation process through compact membrane with fine pores like reverse osmosis membrane. When reverse osmosis is applied to treatment process for liquid waste, which usually contains a lot of solutes as contaminants, we can not predict the behavior of contaminants by the above one-solute process model. In the case of multi-solutes permeation process for liquid waste, the number of parameter in thermodynamic model increases rapidly with the number of solute, because of coupling phenomenon among solutes. In this study, we expanded the above thermodynamic model to multi-solute process applying operational calculus to the differential equations which describe the irreversible process of the system, and expressed concisely solute concentration vector as a matrix product. In this way, we predict the behavior of solutes in multi-solutes process, using values of parameters obtained in two-solutes process. (author)

  1. A fast tomographic method for searching the minimum free energy path

    International Nuclear Information System (INIS)

    Chen, Changjun; Huang, Yanzhao; Xiao, Yi; Jiang, Xuewei

    2014-01-01

    Minimum Free Energy Path (MFEP) provides a lot of important information about the chemical reactions, like the free energy barrier, the location of the transition state, and the relative stability between reactant and product. With MFEP, one can study the mechanisms of the reaction in an efficient way. Due to a large number of degrees of freedom, searching the MFEP is a very time-consuming process. Here, we present a fast tomographic method to perform the search. Our approach first calculates the free energy surfaces in a sequence of hyperplanes perpendicular to a transition path. Based on an objective function and the free energy gradient, the transition path is optimized in the collective variable space iteratively. Applications of the present method to model systems show that our method is practical. It can be an alternative approach for finding the state-to-state MFEP

  2. Oxygen permeation through oxygen ion oxide-noble metal dual phase composites

    NARCIS (Netherlands)

    Chen, C.S.; Chen, C.S.; Kruidhof, H.; Bouwmeester, Henricus J.M.; Verweij, H.; Burggraaf, Anthonie; Burggraaf, A.J.

    1996-01-01

    Oxygen permeation behaviour of three composites, yttria-stabilized zirconia-palladium, erbia-stabilized bismuth oxidenoble metal (silver, gold) was studied. Oxygen permeation measurements were performed under controlled oxygen pressure gradients at elevated temperatures. Air was supplied at one side

  3. Role of free fatty acid receptors in the regulation of energy metabolism.

    Science.gov (United States)

    Hara, Takafumi; Kashihara, Daiji; Ichimura, Atsuhiko; Kimura, Ikuo; Tsujimoto, Gozoh; Hirasawa, Akira

    2014-09-01

    Free fatty acids (FFAs) are energy-generating nutrients that act as signaling molecules in various cellular processes. Several orphan G protein-coupled receptors (GPCRs) that act as FFA receptors (FFARs) have been identified and play important physiological roles in various diseases. FFA ligands are obtained from food sources and metabolites produced during digestion and lipase degradation of triglyceride stores. FFARs can be grouped according to ligand profiles, depending on the length of carbon chains of the FFAs. Medium- and long-chain FFAs activate FFA1/GPR40 and FFA4/GPR120. Short-chain FFAs activate FFA2/GPR43 and FFA3/GPR41. However, only medium-chain FFAs, and not long-chain FFAs, activate GPR84 receptor. A number of pharmacological and physiological studies have shown that these receptors are expressed in various tissues and are primarily involved in energy metabolism. Because an impairment of these processes is a part of the pathology of obesity and type 2 diabetes, FFARs are considered as key therapeutic targets. Here, we reviewed recently published studies on the physiological functions of these receptors, primarily focusing on energy homeostasis. Copyright © 2014 Elsevier B.V. All rights reserved.

  4. Metadyn View: Fast web-based viewer of free energy surfaces calculated by metadynamics

    Science.gov (United States)

    Hošek, Petr; Spiwok, Vojtěch

    2016-01-01

    Metadynamics is a highly successful enhanced sampling technique for simulation of molecular processes and prediction of their free energy surfaces. An in-depth analysis of data obtained by this method is as important as the simulation itself. Although there are several tools to compute free energy surfaces from metadynamics data, they usually lack user friendliness and a build-in visualization part. Here we introduce Metadyn View as a fast and user friendly viewer of bias potential/free energy surfaces calculated by metadynamics in Plumed package. It is based on modern web technologies including HTML5, JavaScript and Cascade Style Sheets (CSS). It can be used by visiting the web site and uploading a HILLS file. It calculates the bias potential/free energy surface on the client-side, so it can run online or offline without necessity to install additional web engines. Moreover, it includes tools for measurement of free energies and free energy differences and data/image export.

  5. Formation of permeation barriers on ceramic SiC/SiC composites

    International Nuclear Information System (INIS)

    Racault, C.; Fenici, P.

    1996-01-01

    The effectiveness as permeation barriers of the following CVD and PVD (sputtering) coatings has been investigated: TiC+Al 2 O 3 (CVD), SiC(CVD), SiO 2 (CVD), TiN(CVD), TiN(CVD)+TiN(PVD) and SiC(CVD)+Al 2 O 3 (PVD). The substrate material was a SiC/SiC composite, proposed as low activation structural material for fusion applications. Permeation measurements were performed in the temperature range 300-750 K using deuterium at pressures in the range 0.5-150 kPa. A linear dependence of permeation rate on pressure was measured. The efficiency of the coatings as deuterium permeation barriers is discussed in terms of coating microstructure. The best result was obtained with a bilayer of TiN(CVD) (15 μm) +TiN(PVD) (8 μm). (orig.)

  6. Using the fast fourier transform in binding free energy calculations.

    Science.gov (United States)

    Nguyen, Trung Hai; Zhou, Huan-Xiang; Minh, David D L

    2018-04-30

    According to implicit ligand theory, the standard binding free energy is an exponential average of the binding potential of mean force (BPMF), an exponential average of the interaction energy between the unbound ligand ensemble and a rigid receptor. Here, we use the fast Fourier transform (FFT) to efficiently evaluate BPMFs by calculating interaction energies when rigid ligand configurations from the unbound ensemble are discretely translated across rigid receptor conformations. Results for standard binding free energies between T4 lysozyme and 141 small organic molecules are in good agreement with previous alchemical calculations based on (1) a flexible complex ( R≈0.9 for 24 systems) and (2) flexible ligand with multiple rigid receptor configurations ( R≈0.8 for 141 systems). While the FFT is routinely used for molecular docking, to our knowledge this is the first time that the algorithm has been used for rigorous binding free energy calculations. © 2017 Wiley Periodicals, Inc. © 2017 Wiley Periodicals, Inc.

  7. Lidocaine self-sacrificially improves the skin permeation of the acidic and poorly water-soluble drug etodolac via its transformation into an ionic liquid.

    Science.gov (United States)

    Miwa, Yasushi; Hamamoto, Hidetoshi; Ishida, Tatsuhiro

    2016-05-01

    Poor transdermal penetration of active pharmaceutical ingredients (APIs) impairs both bioavailability and therapeutic benefits and is a major challenge in the development of transdermal drug delivery systems. Here, we transformed a poorly water-soluble drug, etodolac, into an ionic liquid in order to improve its hydrophobicity, hydrophilicity and skin permeability. The ionic liquid was prepared by mixing etodolac with lidocaine (1:1, mol/mol). Both the free drug and the transformed ionic liquid were characterized by differential scanning colorimetry (DSC), infrared spectroscopy (IR), and saturation concentration measurements. In addition, in vitro skin-permeation testing was carried out via an ionic liquid-containing patch (Etoreat patch). The lidocaine and etodolac in ionic liquid form led to a relatively lower melting point than either lidocaine or etodolac alone, and this improved the lipophilicity/hydrophilicity of etodolac. In vitro skin-permeation testing demonstrated that the Etoreat patch significantly increased the skin permeation of etodolac (9.3-fold) compared with an etodolac alone patch, although an Etoreat patch did not increase the skin permeation of lidocaine, which was consistent with the results when using a lidocaine alone patch. Lidocaine appeared to self-sacrificially improve the skin permeation of etodolac via its transformation into an ionic liquid. The data suggest that ionic liquids composed of approved drugs may substantially expand the formulation preparation method to meet the challenges of drugs which are characterized by poor rates of transdermal absorption. Copyright © 2016 The Authors. Published by Elsevier B.V. All rights reserved.

  8. Implantation profile of low-energy positrons in solids

    International Nuclear Information System (INIS)

    Asoka-Kumar, P.; Lynn, K.G.

    1990-01-01

    A simple form for an implantation profile of monoenergetic, low-energy (1--10 keV) positrons in solids is presented. Materials studied include aluminum, copper, molybdenum, palladium, and gold with atomic number ranging from 13 to 79. A simple set of parameters can describe the currently used Makhov profile in slow positron studies of solids. We provide curves and tables for the parameters that can be used to describe the implantation profiles of positrons in any material with atomic number in between 13 and 79

  9. Solar energy in Argentina: A profile of renewable energy activity in its national context

    Science.gov (United States)

    Hawkins, D.

    1981-01-01

    The following subjects are covered: The country overview; the energy summary; the geopolitical, economic, and cultural aspects of the Republic of Argentina; the energy profile; and international contacts, manufacturers, and projects.

  10. Performance profiles of major energy producers 1989

    Energy Technology Data Exchange (ETDEWEB)

    1991-01-23

    Performance Profiles of Major Energy Producers 1989 is the thirteenth annual report of the Energy Information Administration's (EIA) Financial Reporting System (FRS). The report examines financial and operating developments, with particular reference to the 23 major energy companies (the FRS companies'') required to report annually on Form EIA-28. Financial information is reported by major lines of business including oil and gas production, petroleum refining and marketing, and other energy operations. Domestic and international operations are examined separately in this report. It also traces key developments affecting the financial performance of major energy companies in 1989, as well as review of important trends.

  11. Alternative Energy: A Guide to Free Information for Educators.

    Science.gov (United States)

    White, Janet A.

    This guide was compiled to help teachers and students locate free educational materials (both lessons and nontechnical background references) on renewable energy resources and energy conservation. The 214 entries are arranged by these topic areas: (1) energy efficiency and renewables; (2) biomass; (3) hydropower; (4) solar thermal energy; (5)…

  12. Solar energy in Argentina: a profile of renewable energy activity in its national context

    Energy Technology Data Exchange (ETDEWEB)

    Hawkins, D.

    1981-01-01

    The following subjects are included: the country overview; the energy summary; the geopolitical, economic, and cultural aspects of the Republic of Argentina; the energy profile; and international contacts, manufacturers, and projects. (MHR)

  13. Cascades for natural water enrichment in deuterium and oxygen-18 using membrane permeation

    International Nuclear Information System (INIS)

    Chmielewski, A.G.; Matuszak, A.; Zakrzewska-Trznadel, G.; Van Hook, A.

    1991-01-01

    The enrichment of water in heavy isotopes by permeation through a hydrophobic membrane is described. Simple counter - current cascades are of no practical interest because of their high energy demand. A better solution is to employ a double counter - current cascade re-utilizing part of the heat of condensation. Currently employed methods of natural water enrichment in heavy isotopes are compared to the proposed membrane process. (author). 18 refs, 14 tabs, 21 figs

  14. 40 CFR 1060.521 - How do I test fuel caps for permeation emissions?

    Science.gov (United States)

    2010-07-01

    ... 40 Protection of Environment 32 2010-07-01 2010-07-01 false How do I test fuel caps for permeation... EQUIPMENT Test Procedures § 1060.521 How do I test fuel caps for permeation emissions? If you measure a fuel tank's permeation emissions with a nonpermeable covering in place of the fuel cap under § 1060.520(b)(5...

  15. Permeation of deuterium implanted into V-15Cr-5Ti

    International Nuclear Information System (INIS)

    Anderl, R.A.; Longhurst, G.R.; Struttmann, D.A.

    1987-01-01

    Permeation and reemission of deuterium for the vanadium alloy, V-15Cr-5Ti, was investigated using 3 keV, D 3 + ion beams from a small accelerator. The experiments consisted of measurement of the deuterium reemission and permeation rates as a function of implantation fluence for 0.5 mm thick specimens heated to temperatures from 623 K to 823 K. Implantation-side surface characterization was made by simultaneous measurements of sputtered ions with a secondary ion mass spectrometer (SIMS). For the experimental conditions used, the steady-state deuterium permeation flux in V-15Cr-5Ti is approximately 18% of the implantation flux. This is approximately 1000 times that seen in the austenitic stainless steel, PCA, and 200 times that seen in the ferritic steel, HT-9, under comparable conditions. Measurement of deuterium diffusivity in V-15Cr-5Ti using permeation break-through times indicates that D = 1.4x10 -8 exp(-0.11 eV/kT)(m 2 /s), over the temperature range 723 K to 823 K. (orig.)

  16. Permeation of deuterium implanted into V-15Cr-5Ti

    Science.gov (United States)

    Anderl, R. A.; Longhurst, G. R.; Struttmann, D. A.

    1987-02-01

    Permeation and reemission of deuterium for the vanadium alloy, V-15Cr-5Ti, was investigated using 3 keV, D 3+ ion beams from a small accelerator. The experiments consisted of measurement of the deuterium reemission and permeation rates as a function of implantation fluence for 0.5 mm thick specimens heated to temperatures from 623 K to 823 K. Implantation-side surface characterization was made by simultaneous measurements of sputtered ions with a secondary ion mass spectrometer (SIMS). For the experimental conditions used, the steady-state deuterium permeation flux in V-15Cr-5Ti is approximately 18% of the implantation flux. This is approximately 1000 times that seen in the austenitic stainless steel, PCA, and 200 times that seen in the ferritic steel, HT-9, under comparable conditions. Measurement of deuterium diffusivity in V-15Cr-5Ti using permeation break-through times indicates that D = 1.4 × 10 -8 exp( -0.11 eV/ kT) (m 2/s), over the temperature range 723 K to 823 K.

  17. Permeation of deuterium implanted into V-15Cr-5Ti

    Energy Technology Data Exchange (ETDEWEB)

    Anderl, R.A.; Longhurst, G.R.; Struttmann, D.A.

    1987-02-01

    Permeation and reemission of deuterium for the vanadium alloy, V-15Cr-5Ti, was investigated using 3 keV, D/sub 3//sup +/ ion beams from a small accelerator. The experiments consisted of measurement of the deuterium reemission and permeation rates as a function of implantation fluence for 0.5 mm thick specimens heated to temperatures from 623 K to 823 K. Implantation-side surface characterization was made by simultaneous measurements of sputtered ions with a secondary ion mass spectrometer (SIMS). For the experimental conditions used, the steady-state deuterium permeation flux in V-15Cr-5Ti is approximately 18% of the implantation flux. This is approximately 1000 times that seen in the austenitic stainless steel, PCA, and 200 times that seen in the ferritic steel, HT-9, under comparable conditions. Measurement of deuterium diffusivity in V-15Cr-5Ti using permeation break-through times indicates that D = 1.4x10/sup -8/ exp(-0.11 eVkT)(m/sup 2/s), over the temperature range 723 K to 823 K.

  18. The formation of hydrogen permeation barriers on steels by aluminising

    Science.gov (United States)

    Forcey, K. S.; Ross, D. K.; Wu, C. H.

    1991-06-01

    An extensive investigation has been carried out into the effectiveness of aluminised layers as permeation barriers on AISI 316L stainless and DIN 1.4914 martensitic steels. The study involved measurement of the hydrogen permeation rate through commercially aluminised steel discs of thicknesses in the range 1-1.6 mm, at temperatures between 250 and 600 °C and for an upstream hydrogen pressure of 10 5 Pa. The composition and structure of the aluminide layers were investigated by a number of techniques such as SEM, electron beam microprobe and X-ray diffraction. Accelerator based techniques such as RBS and NRA were employed to study the top micron or so of the surfaces of the samples. By these techniques it was found that the effectiveness of the permeation barrier depended on the formation of a thin surface oxide layer consisting of Al 2O 3. It was found that the permeation rate through the aluminised steels could be reduced by 3-4 orders of magnitude by forming a surface oxide layer up to a micron or so in thickness.

  19. Mechanisms of oxygen permeation through plastic films and barrier coatings

    Science.gov (United States)

    Wilski, Stefan; Wipperfürth, Jens; Jaritz, Montgomery; Kirchheim, Dennis; Mitschker, Felix; Awakowicz, Peter; Dahlmann, Rainer; Hopmann, Christian

    2017-10-01

    Oxygen and water vapour permeation through plastic films in food packaging or other applications with high demands on permeation are prevented by inorganic barrier films. Most of the permeation occurs through small defects (visualized by etching with reactive oxygen in a capacitively coupled plasma and subsequent SEM imaging. In this work, defects in SiO x -coatings deposited by plasma-enhanced chemical vapour deposition on polyethylene terephthalate (PET) are investigated and the mass transport through the polymer is simulated in a 3D approach. Calculations of single defects showed that there is no linear correlation between the defect area and the resulting permeability. The influence of adjacent defects in different distances was observed and led to flow reduction functions depending on the defect spacing and defect area. A critical defect spacing where no interaction between defects occurs was found and compared to other findings. According to the superposition principle, the permeability of single defects was added up and compared to experimentally determined oxygen permeation. The results showed the same trend of decreasing permeability with decreasing defect densities.

  20. Preventing method and device for underground permeation of hazardous material

    International Nuclear Information System (INIS)

    Funabashi, Kiyomi; Kurokawa, Hideaki; Fukazawa, Tetsuo; Yamazaki, Tadashi.

    1996-01-01

    In a method of preventing hazardous materials from permeating into ground by burying adsorbing materials underground, a plurality of adsorbing layers are laminated being spaced apart from each other, the concentration of the hazardous materials between each of the adsorbent layers is measured. When the concentration reaches a predetermined value, the adsorbent layers are regenerated. A suppression means for preventing hazardous materials from permeating into the ground are formed by an upper adsorbent layer and a lower adsorbent layer, and a means for measuring the concentration of hazardous materials passing through the upper adsorbent layer and a means for charging and discharging regenerated liquid are disposed. When it is detected that the poisonous materials can not be eliminated, the poisonous materials are already permeated to the adsorbent layer, and they start to inflow into underground water. In order to prevent it, an adsorbent layer is additionally disposed at the lower side of the place of detection to eliminate the poisonous materials completely thereby enabling to prevent poisonous materials from permeating into underground for a long period of time. (T.M.)

  1. Deuterium permeation measurements on tungsten using ion-beam-based detection

    Energy Technology Data Exchange (ETDEWEB)

    Kapser, Stefan [Max-Planck-Institut fuer Plasmaphysik, Boltzmannstr. 2, 85748 Garching (Germany); Physik-Department, Technische Universitaet Muenchen, James-Franck-Str. 1, 85748 Garching (Germany); Manhard, Armin; Toussaint, Udo von [Max-Planck-Institut fuer Plasmaphysik, Boltzmannstr. 2, 85748 Garching (Germany)

    2016-07-01

    Tungsten (W) is promising for the inner wall of a future fusion reactor, where it will be exposed to high fluxes of hydrogen (H) isotopes. Knowledge of their diffusion in W is important for safety and economic considerations, particularly concerning tritium. A common method to investigate H diffusion in metals are permeation experiments. Typically, gas loading and mass-spectrometric detection are used. Information about the diffusion can be gained from the temporal evolution of the permeation flux, whose magnitude is determined by the permeability (product of diffusivity and solubility). However, for low-permeability metals, the permeation flux can be unmeasurably small. For W this is the case near room temperature. We present a method that circumvents this problem. It is an improved version of experiments on nickel and stainless steel. The W is exposed to deuterium (D) plasma on one side and the permeating D is accumulated in a getter on the other side. A cover prevents D gettering from the gas phase. The amount in the getter is analysed by the nuclear reaction D({sup 3}He,p){sup 4}He.

  2. Chemical Denaturants Smoothen Ruggedness on the Free Energy Landscape of Protein Folding.

    Science.gov (United States)

    Malhotra, Pooja; Jethva, Prashant N; Udgaonkar, Jayant B

    2017-08-08

    To characterize experimentally the ruggedness of the free energy landscape of protein folding is challenging, because the distributed small free energy barriers are usually dominated by one, or a few, large activation free energy barriers. This study delineates changes in the roughness of the free energy landscape by making use of the observation that a decrease in ruggedness is accompanied invariably by an increase in folding cooperativity. Hydrogen exchange (HX) coupled to mass spectrometry was used to detect transient sampling of local energy minima and the global unfolded state on the free energy landscape of the small protein single-chain monellin. Under native conditions, local noncooperative openings result in interconversions between Boltzmann-distributed intermediate states, populated on an extremely rugged "uphill" energy landscape. The cooperativity of these interconversions was increased by selectively destabilizing the native state via mutations, and further by the addition of a chemical denaturant. The perturbation of stability alone resulted in seven backbone amide sites exchanging cooperatively. The size of the cooperatively exchanging and/or unfolding unit did not depend on the extent of protein destabilization. Only upon the addition of a denaturant to a destabilized mutant variant did seven additional backbone amide sites exchange cooperatively. Segmentwise analysis of the HX kinetics of the mutant variants further confirmed that the observed increase in cooperativity was due to the smoothing of the ruggedness of the free energy landscape of folding of the protein by the chemical denaturant.

  3. Effects of Carbopol® 934 proportion on nanoemulsion gel for topical and transdermal drug delivery: a skin permeation study

    Directory of Open Access Journals (Sweden)

    Zheng Y

    2016-11-01

    Full Text Available Yin Zheng,1 Wu-Qing Ouyang,1 Yun-Peng Wei,1 Shahid Faraz Syed,2,3 Chao-Shuang Hao,1 Bo-Zhen Wang,4 Yan-Hong Shang1,5 1Department of Basic Veterinary Sciences, College of Veterinary Medicine, 2Department of Preventive Veterinary Medicine, College of Veterinary Medicine, Northwest A&F University, Yangling, Shaanxi; 3Faculty of Veterinary and Animal Sciences, Lasbella University of Agriculture Water and Marine Sciences, Uthal Baluchistan, Pakistan; 4College of Animal Science and Technology, Shihezi University, Shihezi, Xinjiang, 5College of Animal Science and Veterinary Medicine, Henan Agricultural University, Zhengzhou, Henan, China Abstract: Nanoemulsions (NEs are used as transdermal drug delivery systems for systematic therapeutic purposes. We hypothesized that the skin permeation profile of an NE could be modulated by incorporating it into a hydrogel containing differing proportions of thickening agent. The objectives of this study were as follows: 1 to determine the stability and skin irritability of NE gels (NGs containing 1%, 2%, and 3% (w/w Carbopol® 934 (CP934 (termed NG1, NG2, and NG3, respectively; 2 to compare the skin permeation profiles and drug deposition patterns of the NGs; and 3 to visualize the drug delivery routes of the NGs. Terbinafine and citral were incorporated into the NGs as model drugs. Ex vivo skin permeation tests indicated that the percutaneous flux rates of terbinafine decreased in the order NE (215 µg/cm2 > NG1 (213 µg/cm2 > NG2 (123 µg/cm2 > NG3 (74.3 µg/cm2. The flux rates of citral decreased in the order NE (1,026 µg/cm2 > NG1 (1,021 µg/cm2 > NG2 (541 µg/cm2 > NG3 (353 µg/cm2. The NGs accumulated greater amounts of the drugs in the stratum corneum and less in the epidermis/dermis than did the NE (P<0.05 over a period of 12 h. Laser scanning confocal microscopy indicated that the NGs altered the main drug delivery routes from skin appendages to intercellular paths. Histological images suggested

  4. Designed azurins show lower reorganization free energies for intraprotein electron transfer

    DEFF Research Database (Denmark)

    Farver, Ole; Marshall, Nicholas M; Wherland, Scot

    2013-01-01

    Low reorganization free energies are necessary for fast electron transfer (ET) reactions. Hence, rational design of redox proteins with lower reorganization free energies has been a long-standing challenge, promising to yield a deeper understanding of the underlying principles of ET reactivity...

  5. Permeation Barrier Coatings for the Helical Heat Exchanger

    International Nuclear Information System (INIS)

    Korinko, P.S.

    1999-01-01

    A permeation barrier coating was specified for the Helical Heat Exchanger (HHE) to minimize contamination through emissions and/or permeation into the nitrogen system for ALARA reasons. Due to the geometry of the HHE, a special coating practice was needed since the conventional method of high temperature pack aluminization was intractable. A survey of many coating companies was undertaken; their coating capabilities and technologies were assessed and compared to WSRC needs. The processes and limitations to coating the HHE are described. Slurry coating appears to be the most technically sound approach for coating the HHE

  6. Free Energy, Enthalpy and Entropy from Implicit Solvent End-Point Simulations.

    Science.gov (United States)

    Fogolari, Federico; Corazza, Alessandra; Esposito, Gennaro

    2018-01-01

    Free energy is the key quantity to describe the thermodynamics of biological systems. In this perspective we consider the calculation of free energy, enthalpy and entropy from end-point molecular dynamics simulations. Since the enthalpy may be calculated as the ensemble average over equilibrated simulation snapshots the difficulties related to free energy calculation are ultimately related to the calculation of the entropy of the system and in particular of the solvent entropy. In the last two decades implicit solvent models have been used to circumvent the problem and to take into account solvent entropy implicitly in the solvation terms. More recently outstanding advancement in both implicit solvent models and in entropy calculations are making the goal of free energy estimation from end-point simulations more feasible than ever before. We review briefly the basic theory and discuss the advancements in light of practical applications.

  7. Free Energy, Enthalpy and Entropy from Implicit Solvent End-Point Simulations

    Directory of Open Access Journals (Sweden)

    Federico Fogolari

    2018-02-01

    Full Text Available Free energy is the key quantity to describe the thermodynamics of biological systems. In this perspective we consider the calculation of free energy, enthalpy and entropy from end-point molecular dynamics simulations. Since the enthalpy may be calculated as the ensemble average over equilibrated simulation snapshots the difficulties related to free energy calculation are ultimately related to the calculation of the entropy of the system and in particular of the solvent entropy. In the last two decades implicit solvent models have been used to circumvent the problem and to take into account solvent entropy implicitly in the solvation terms. More recently outstanding advancement in both implicit solvent models and in entropy calculations are making the goal of free energy estimation from end-point simulations more feasible than ever before. We review briefly the basic theory and discuss the advancements in light of practical applications.

  8. Permeation of "Hydromer" Film: An Elastomeric Hydrogen-Capturing Biopolymer.

    Energy Technology Data Exchange (ETDEWEB)

    Karnesky, Richard A. [Sandia National Lab. (SNL-CA), Livermore, CA (United States); Friddle, Raymond William [Sandia National Lab. (SNL-CA), Livermore, CA (United States); Whaley, Josh A. [Sandia National Lab. (SNL-CA), Livermore, CA (United States); Smith, Geoffrey [New Mexico State Univ., Las Cruces, NM (United States)

    2015-12-01

    This report analyzes the permeation resistance of a novel and proprietary polymer coating for hydrogen isotope resistance that was developed by New Mexico State University. Thermal gravimetric analysis and thermal desoprtion spectroscopy show the polymer is stable thermally to approximately 250 deg C. Deuterium gas-driven permeation experiments were conducted at Sandia to explore early evidence (obtained using Brunauer - Emmett - Teller) of the polymer's strong resistance to hydrogen. With a relatively small amount of the polymer in solution (0.15%), a decrease in diffusion by a factor of 2 is observed at 100 and 150 deg C. While there was very little reduction in permeability, the preliminary findings reported here are meant to demonstrate the sensitivity of Sandia's permeation measurements and are intended to motivate the future exploration of thicker barriers with greater polymer coverage.

  9. Free energy change of off-eutectic binary alloys on solidification

    Science.gov (United States)

    Ohsaka, K.; Trinh, E. H.; Lin, J.-C.; Perepezko, J. H.

    1991-01-01

    A formula for the free energy difference between the undercooled liquid phase and the stable solid phase is derived for off-eutectic binary alloys in which the equilibrium solid/liquid transition takes place over a certain temperature range. The free energy change is then evaluated numerically for a Bi-25 at. pct Cd alloy modeled as a sub-subregular solution.

  10. Computational investigation of the effects of barrier layers on the permeation of hydrogen through metals

    International Nuclear Information System (INIS)

    Perkins, W.G.

    1975-01-01

    Results of a computational investigation of the permeation behavior of oxide-coated metal membranes are presented. A steady-state permeation model was developed which promises to be useful in evaluation of oxide layers on metals as hydrogen permeation barriers. The pressure and thickness dependence of steady state permeation through oxide-coated metal membranes is described using plots of logarithmic functions. (U.S.)

  11. Increased albumin permeation in eyes, aorta, and kidney of hypertensive rats fed galactose

    International Nuclear Information System (INIS)

    Tilton, R.G.; LaRose, L.; Chang, K.; Weigel, C.J.; Williamson, J.R.

    1986-01-01

    These experiments were undertaken to determine whether ingestion of galactose increases albumin permeation in the vasculature of hypertensive rats. 50% dextrin (control) or 50% galactose diets were fed to unilaterally nephrectomized, male Sprague-Dawley rats weighing 200 g. Hypertension (systolic pressure >175 mmHg) was induced by weekly IM injections of 25 mg/kg DOCA and 1% saline drinking water; 3 months later 125 I-albumin permeation was assessed in whole eyes, aorta and kidneys. 125 I-albumin permeation was significantly increased in all 3 tissues of hypertensive rats (n = 9) vs controls (n = 9): aorta (3.30 +/- 0.19 (SD) vs 2.87 +/- 0.14), eye (3.15 +/- 0.14 vs 2.59 +/- 0.11), and kidney (6.58 +/- 0.63 vs 3.85 +/- 0.50). Albumin permeation was increased still further in hypertensive rats fed the galactose diet (n = 8): aorta (3.75 +/- 0.38), eye (3.82 +/- 0.17), and kidney (10.74 +/- 3.13). Hypertension +/- galactose feeding had no effect on albumin permeation in lung, skin, or brain. These findings indicate that: (1) hypertension increases albumin permeation in vessels affected by diabetic vascular diseases, and 2) hypertension-induced increases in albumin permeation are increased still further by galactose ingestion, presumably mediated by imbalances in polyol/insitol metabolism (analogous to those induced by diabetes) independent of hyperglycemia and/or insulinopenia

  12. A study of radon 222 permeation through plastic membranes. Application to a method of radon measurement in water and saturated soils

    International Nuclear Information System (INIS)

    Labed, V.

    1991-04-01

    In order to improve the BARASOL R device and to use it in water-saturated soils and in pressure constraint conditions, we have studied radon 222 permeation through plastic membranes. While the permeation process usually takes place between two media being in the same state, most often gaseous, the present study describes the transfer of radon 222 from the water to the air via a membrane. Polypropylene membranes have been tested with an experimental set-up by monitoring the evolution of radon concentrations in water and in air. The permeation coefficient and the activation energy were calculated in various conditions. With a second experimental set-up, we have tested the polyethylene membrane which has been adapted on the BARASOL. In these conditions, we have shown that it is possible to measure radon in water at concentrations around 10 3 Bq.m -3 [fr

  13. Ultrathin graphene-based membrane with precise molecular sieving and ultrafast solvent permeation

    Science.gov (United States)

    Yang, Q.; Su, Y.; Chi, C.; Cherian, C. T.; Huang, K.; Kravets, V. G.; Wang, F. C.; Zhang, J. C.; Pratt, A.; Grigorenko, A. N.; Guinea, F.; Geim, A. K.; Nair, R. R.

    2017-12-01

    Graphene oxide (GO) membranes continue to attract intense interest due to their unique molecular sieving properties combined with fast permeation. However, their use is limited to aqueous solutions because GO membranes appear impermeable to organic solvents, a phenomenon not yet fully understood. Here, we report efficient and fast filtration of organic solutions through GO laminates containing smooth two-dimensional (2D) capillaries made from large (10-20 μm) flakes. Without modification of sieving characteristics, these membranes can be made exceptionally thin, down to ~10 nm, which translates into fast water and organic solvent permeation. We attribute organic solvent permeation and sieving properties to randomly distributed pinholes interconnected by short graphene channels with a width of 1 nm. With increasing membrane thickness, organic solvent permeation rates decay exponentially but water continues to permeate quickly, in agreement with previous reports. The potential of ultrathin GO laminates for organic solvent nanofiltration is demonstrated by showing >99.9% rejection of small molecular weight organic dyes dissolved in methanol. Our work significantly expands possibilities for the use of GO membranes in purification and filtration technologies.

  14. Determination of solvents permeating through chemical protective clothing with a microsensor array.

    Science.gov (United States)

    Park, J; Zellers, E T

    2000-08-01

    The performance of a novel prototype instrument in determining solvents and solvent mixtures permeating through samples of chemical protective clothing (CPC) materials was evaluated. The instrument contains a mini-preconcentrator and an array of three polymer-coated surface-acoustic-wave (SAW) microsensors whose collective response patterns are used to discriminate among multiple permeants. Permeation tests were performed with a 2.54 cm diameter test cell in an open-loop configuration on samples of common glove materials challenged with four individual solvents, three binary mixtures, and two ternary mixtures. Breakthrough times, defined as the times required for the permeation rate to reach a value of 1 microg cm(-2) min(-1), determined by the instrument were within 3 min of those determined in parallel by manual sampling and gas chromatographic analysis. Permeating solvents were recognized (identified) from their response patterns in 59 out of 64 measurements (92%) and their vapor concentrations were quantified to an accuracy of +/- 31% (typically +/- 10%). These results demonstrate the potential for such instrumentation to provide semi-automated field or bench-top screening of CPC permeation resistance.

  15. Variational Approach to Enhanced Sampling and Free Energy Calculations

    Science.gov (United States)

    Valsson, Omar; Parrinello, Michele

    2014-08-01

    The ability of widely used sampling methods, such as molecular dynamics or Monte Carlo simulations, to explore complex free energy landscapes is severely hampered by the presence of kinetic bottlenecks. A large number of solutions have been proposed to alleviate this problem. Many are based on the introduction of a bias potential which is a function of a small number of collective variables. However constructing such a bias is not simple. Here we introduce a functional of the bias potential and an associated variational principle. The bias that minimizes the functional relates in a simple way to the free energy surface. This variational principle can be turned into a practical, efficient, and flexible sampling method. A number of numerical examples are presented which include the determination of a three-dimensional free energy surface. We argue that, beside being numerically advantageous, our variational approach provides a convenient and novel standpoint for looking at the sampling problem.

  16. Knot soliton in DNA and geometric structure of its free-energy density.

    Science.gov (United States)

    Wang, Ying; Shi, Xuguang

    2018-03-01

    In general, the geometric structure of DNA is characterized using an elastic rod model. The Landau model provides us a new theory to study the geometric structure of DNA. By using the decomposition of the arc unit in the helical axis of DNA, we find that the free-energy density of DNA is similar to the free-energy density of a two-condensate superconductor. By using the φ-mapping topological current theory, the torus knot soliton hidden in DNA is demonstrated. We show the relation between the geometric structure and free-energy density of DNA and the Frenet equations in differential geometry theory are considered. Therefore, the free-energy density of DNA can be expressed by the curvature and torsion of the helical axis.

  17. Free energy barriers to evaporation of water in hydrophobic confinement.

    Science.gov (United States)

    Sharma, Sumit; Debenedetti, Pablo G

    2012-11-08

    We use umbrella sampling Monte Carlo and forward and reverse forward flux sampling (FFS) simulation techniques to compute the free energy barriers to evaporation of water confined between two hydrophobic surfaces separated by nanoscopic gaps, as a function of the gap width, at 1 bar and 298 K. The evaporation mechanism for small (1 × 1 nm(2)) surfaces is found to be fundamentally different from that for large (3 × 3 nm(2)) surfaces. In the latter case, the evaporation proceeds via the formation of a gap-spanning tubular cavity. The 1 × 1 nm(2) surfaces, in contrast, are too small to accommodate a stable vapor cavity. Accordingly, the associated free energy barriers correspond to the formation of a critical-sized cavity for sufficiently large confining surfaces, and to complete emptying of the gap region for small confining surfaces. The free energy barriers to evaporation were found to be of O(20kT) for 14 Å gaps, and to increase by approximately ~5kT with every 1 Å increase in the gap width. The entropy contribution to the free energy of evaporation was found to be independent of the gap width.

  18. Adaptive Sampling based 3D Profile Measuring Method for Free-Form Surface

    Science.gov (United States)

    Duan, Xianyin; Zou, Yu; Gao, Qiang; Peng, Fangyu; Zhou, Min; Jiang, Guozhang

    2018-03-01

    In order to solve the problem of adaptability and scanning efficiency of the current surface profile detection device, a high precision and high efficiency detection approach is proposed for surface contour of free-form surface parts based on self- adaptability. The contact mechanical probe and the non-contact laser probe are synthetically integrated according to the sampling approach of adaptive front-end path detection. First, the front-end path is measured by the non-contact laser probe, and the detection path is planned by the internal algorithm of the measuring instrument. Then a reasonable measurement sampling is completed according to the planned path by the contact mechanical probe. The detection approach can effectively improve the measurement efficiency of the free-form surface contours and can simultaneously detect the surface contours of unknown free-form surfaces with different curvatures and even different rate of curvature. The detection approach proposed in this paper also has important reference value for free-form surface contour detection.

  19. Impacts of chemical enhancers on skin permeation and deposition of terbinafine.

    Science.gov (United States)

    Erdal, Meryem Sedef; Peköz, Ayca Yıldız; Aksu, Buket; Araman, Ahmet

    2014-08-01

    The addition of chemical enhancers into formulations is the most commonly employed approach to overcome the skin barrier. The objective of this work was to evaluate the effect of vehicle and chemical enhancers on the skin permeation and accumulation of terbinafine, an allylamine antifungal drug. Terbinafine (1% w/w) was formulated as a Carbopol 934 P gel formulation in presence and absence of three chemical enhancers, nerolidol, dl-limonene and urea. Terbinafine distribution and deposition in stratum corneum (SC) and skin following 8-h ex vivo permeation study was determined using a sequential tape stripping procedure. The conformational order of SC lipids was investigated by ATR-FTIR spectroscopy. Nerolidol containing gel formulation produced significantly higher enhancement in terbinafine permeation through skin and its skin accumulation was increased. ATR-FTIR results showed enhancer induced lipid bilayer disruption in SC. Urea resulted in enhanced permeation of terbinafine across the skin and a balanced distribution to the SC was achieved. But, dl-limonene could not minimize the accumulation of terbinafine in the upper SC. Nerolidol dramatically improved the skin permeation and deposition of terbinafine in the skin that might help to optimize targeting of the drug to the epidermal sites as required for both of superficial and deep cutaneous fungal infections.

  20. Comparison of implantation-driven permeation characteristics of fusion reactor structural materials

    International Nuclear Information System (INIS)

    Longhurst, G.R.; Anderl, R.A.; Struttmann, D.A.

    1986-01-01

    Implantation-driven permeation experiments have been conducted on samples of the ferritic steel HT-9, the austenitic Primary Candidate Alloy (PCA) and the vanadium alloy V-15Cr-5Ti using D 3 + ions under conditions that simulate charge-exchange neutral loading on a fusion reactor first wall. The steels all exhibited an initially intense permeation ''spike'' followed by an exponential decrease to low steady-state values. That spike was not evident in the V-15Cr-5Ti experiments. Steady-state permeation was highest in the vanadium alloy and lowest in the austenitic steel. Though permeation rates in the HT-9 were lower than those in V-15Cr-5Ti, permeation transients were much faster in HT-9 than in other materials tested. Ion-beam sputtering of the surface in the steel experiments resulted in enhanced remission at the front surface, whereas in the vanadium tests, recombination and diffusivity both appeared to diminish as the deuterium concentration rose. This may be due to a phase change in the material. We conclude that for conditions comparable to those of these experiments, tritium retention and loss in first wall structures made of steels will be less than in structures made of V-15Cr-5Ti

  1. Performance profiles of major energy producers 1992

    Energy Technology Data Exchange (ETDEWEB)

    1994-01-13

    Performance Profiles of Major Energy Producers 1992 is the sixteenth annual report of the Energy Information Administration`s (EIA) Financial Reporting System (FRS). The report examines financial and operating developments, with particular reference to the 25 major energy companies (the FRS companies) required to report annually on Form EIA-28. Financial information is reported by major lines of business, including oil and gas production, petroleum refining and marketing, and other energy operations. Domestic and international operations are examined separately in this report. The data are presented in the context of key energy market developments with a view toward identifying changing strategies of corporate development and measuring the apparent success of current ongoing operations.

  2. Performance profiles of major energy producers 1992

    International Nuclear Information System (INIS)

    1994-01-01

    Performance Profiles of Major Energy Producers 1992 is the sixteenth annual report of the Energy Information Administration's (EIA) Financial Reporting System (FRS). The report examines financial and operating developments, with particular reference to the 25 major energy companies (the FRS companies) required to report annually on Form EIA-28. Financial information is reported by major lines of business, including oil and gas production, petroleum refining and marketing, and other energy operations. Domestic and international operations are examined separately in this report. The data are presented in the context of key energy market developments with a view toward identifying changing strategies of corporate development and measuring the apparent success of current ongoing operations

  3. Hydrogen permeation modification of 4140 steel by ion nitriding with pulsed plasmas

    Energy Technology Data Exchange (ETDEWEB)

    Bruzzoni, P.; Ortiz, M. [Comision Nacional de Energia Atomica, Buenos Aires (Argentina); Bruehl, S.P.; Gomez, B.J.A.; Feugeas, J.N. [Inst. de Fisica Rosario (UNR-CONICET), Rosario (Argentina); Nosei, L. [Inst. de Mecanica Aplicada y Estructuras (UNR), Rosario (Argentina)

    1998-11-10

    It is widely known that the hydrogen in steel produces embrittlement. This effect may cause the failure of the elements (confining walls, mechanical parts, etc.) whose surfaces are in contact with this gas or with processes in which hydrogen is continuously generated. In this work it is shown that the ion nitriding of the surface of AISI 4140 is a good mechanism to act as a barrier against hydrogen permeation in its bulk. The ion nitriding was performed using a square wave DC glow discharge. The development of a compound layer of iron nitrides was observed as the cause of the hydrogen permeation reduction. For equal duration of treatment, thicker compound layers were developed in higher discharge/post-discharge ratios in the square wave of the applied voltage onto the sample (cathode), with a greater reduction of hydrogen permeation coefficient as a consequence. Nevertheless, the permeation was not reduced to zero in any of the treatment conditions used. The results of the analysis of the permeation tests and the image of the photomicrographs showed that the existence of cracks, fractures, failures, etc. in the compound layer (pre-existing in the AISI 4140 steel) could be the cause of the residual hydrogen permeation. This can be attributed to the movement of the hydrogen through these defects diffusing through the original {alpha}-Fe phase of the non-treated steel. (orig.) 11 refs.

  4. Converging ligand‐binding free energies obtained with free‐energy perturbations at the quantum mechanical level

    Science.gov (United States)

    Olsson, Martin A.; Söderhjelm, Pär

    2016-01-01

    In this article, the convergence of quantum mechanical (QM) free‐energy simulations based on molecular dynamics simulations at the molecular mechanics (MM) level has been investigated. We have estimated relative free energies for the binding of nine cyclic carboxylate ligands to the octa‐acid deep‐cavity host, including the host, the ligand, and all water molecules within 4.5 Å of the ligand in the QM calculations (158–224 atoms). We use single‐step exponential averaging (ssEA) and the non‐Boltzmann Bennett acceptance ratio (NBB) methods to estimate QM/MM free energy with the semi‐empirical PM6‐DH2X method, both based on interaction energies. We show that ssEA with cumulant expansion gives a better convergence and uses half as many QM calculations as NBB, although the two methods give consistent results. With 720,000 QM calculations per transformation, QM/MM free‐energy estimates with a precision of 1 kJ/mol can be obtained for all eight relative energies with ssEA, showing that this approach can be used to calculate converged QM/MM binding free energies for realistic systems and large QM partitions. © 2016 The Authors. Journal of Computational Chemistry Published by Wiley Periodicals, Inc. PMID:27117350

  5. Free energy change of a dislocation due to a Cottrell atmosphere

    Science.gov (United States)

    Sills, R. B.; Cai, W.

    2018-06-01

    The free energy reduction of a dislocation due to a Cottrell atmosphere of solutes is computed using a continuum model. We show that the free energy change is composed of near-core and far-field components. The far-field component can be computed analytically using the linearized theory of solid solutions. Near the core the linearized theory is inaccurate, and the near-core component must be computed numerically. The influence of interactions between solutes in neighbouring lattice sites is also examined using the continuum model. We show that this model is able to reproduce atomistic calculations of the nickel-hydrogen system, predicting hydride formation on dislocations. The formation of these hydrides leads to dramatic reductions in the free energy. Finally, the influence of the free energy change on a dislocation's line tension is examined by computing the equilibrium shape of a dislocation shear loop and the activation stress for a Frank-Read source using discrete dislocation dynamics.

  6. A Short Essay on the Uses of Free Energy

    OpenAIRE

    Koutandos, Spyridon

    2013-01-01

    In this article we examine cases of more classical and less classical nature compared to results found by quantum mechanics and attribute a form of Free Energy discontinuity for each case within a boundary layer. The concept of a boundary layer is broadened as to include areas of first or second variations of the Gibbs free energy. It is constructive to think not only of implosions like boundary layers but also of explosion like ones. Situations such as boiling and the passage of electric cur...

  7. Breaking the polar-nonpolar division in solvation free energy prediction.

    Science.gov (United States)

    Wang, Bao; Wang, Chengzhang; Wu, Kedi; Wei, Guo-Wei

    2018-02-05

    Implicit solvent models divide solvation free energies into polar and nonpolar additive contributions, whereas polar and nonpolar interactions are inseparable and nonadditive. We present a feature functional theory (FFT) framework to break this ad hoc division. The essential ideas of FFT are as follows: (i) representability assumption: there exists a microscopic feature vector that can uniquely characterize and distinguish one molecule from another; (ii) feature-function relationship assumption: the macroscopic features, including solvation free energy, of a molecule is a functional of microscopic feature vectors; and (iii) similarity assumption: molecules with similar microscopic features have similar macroscopic properties, such as solvation free energies. Based on these assumptions, solvation free energy prediction is carried out in the following protocol. First, we construct a molecular microscopic feature vector that is efficient in characterizing the solvation process using quantum mechanics and Poisson-Boltzmann theory. Microscopic feature vectors are combined with macroscopic features, that is, physical observable, to form extended feature vectors. Additionally, we partition a solvation dataset into queries according to molecular compositions. Moreover, for each target molecule, we adopt a machine learning algorithm for its nearest neighbor search, based on the selected microscopic feature vectors. Finally, from the extended feature vectors of obtained nearest neighbors, we construct a functional of solvation free energy, which is employed to predict the solvation free energy of the target molecule. The proposed FFT model has been extensively validated via a large dataset of 668 molecules. The leave-one-out test gives an optimal root-mean-square error (RMSE) of 1.05 kcal/mol. FFT predictions of SAMPL0, SAMPL1, SAMPL2, SAMPL3, and SAMPL4 challenge sets deliver the RMSEs of 0.61, 1.86, 1.64, 0.86, and 1.14 kcal/mol, respectively. Using a test set of 94

  8. Energy efficiency and appliance purchases in Europe: Consumer profiles and choice determinants

    International Nuclear Information System (INIS)

    Gaspar, Rui; Antunes, Dalila

    2011-01-01

    This study seeks to the following: (1) understand the factors/characteristics typically considered when purchasing electrical appliances, (2) analyse the differences between consumer profiles regarding these and (3) understand the factors driving the consideration of energy efficiency class by purchasers. Results indicate a preference for first considering cost, followed by quality and energy consumption considerations. These are correlated positively with the consideration of energy efficiency class in consumer choices. Also, regression analysis shows environmental attitudes to be negative predictors of energy efficiency class consideration, while specific environmental behaviours were positive predictors. Finally, consumer profiles were identified based on gender, age and whether or not the purchaser was accompanied when decisions were made. Implications for retail employee training and the development of persuasive messages for consumers based on established profiles are discussed. - Highlights: → We assessed factors typically considered by consumers in electrical appliances choice. → Characteristics identified as most important for choice were as follows: cost, quality and energy consumption. → These correlated positively with the consideration of energy efficiency class. → Differences between consumer profiles regarding the characteristics consideration were identified. → Differences imply persuasive messages adaption to these, to increase energy class consideration.

  9. In vitro-in vivo correlation in skin permeation.

    Science.gov (United States)

    Mohammed, D; Matts, P J; Hadgraft, J; Lane, M E

    2014-02-01

    In vitro skin permeation studies have been used extensively in the development and optimisation of delivery of actives in vivo. However, there are few reported correlations of such in vitro studies with in vivo data. The aim of this study was to investigate the skin permeation of a model active, niacinamide, both in vitro and in vivo. Conventional diffusion cell studies were conducted in human skin to determine niacinamide permeation from a range of vehicles which included dimethyl isosorbide (DMI), propylene glycol (PG), propylene glycol monolaurate (PGML), N-methyl 2-pyrrolidone (NMP), Miglyol 812N® (MG), and mineral oil (MO). Single, binary or ternary systems were examined. The same vehicles were subsequently examined to investigate niacinamide delivery in vivo. For this proof-of-concept study one donor was used for the in vitro studies and one volunteer for the in vivo investigations to minimise biovariability. Analysis of in vitro samples was conducted using HPLC and in vivo uptake of niacinamide was evaluated using Confocal Raman spectroscopy (CRS). The amount of niacinamide permeated through skin in vitro was linearly proportional to the intensity of the niacinamide signal determined in the stratum corneum in vivo. A good correlation was observed between the signal intensities of selected vehicles and niacinamide signal intensity. The findings provide further support for the use of CRS to monitor drug delivery into and across the skin. In addition, the results highlight the critical role of the vehicle and its disposition in skin for effective dermal delivery.

  10. Development of a plasma driven permeation experiment for TPE

    Energy Technology Data Exchange (ETDEWEB)

    Buchenauer, Dean, E-mail: dabuche@sandia.gov [Sandia National Laboratories, Livermore, CA (United States); Kolasinski, Robert [Sandia National Laboratories, Livermore, CA (United States); Shimada, Masa [Idaho National Laboratory, Idaho Falls, ID (United States); Donovan, David [Sandia National Laboratories, Livermore, CA (United States); Youchison, Dennis [Sandia National Laboratories, Albuquerque, NM (United States); Merrill, Brad [Idaho National Laboratory, Idaho Falls, ID (United States)

    2014-10-15

    Highlights: • We have designed and fabricated a novel tritium permeation membrane holder for use in the Tritium Plasma Experiment (TPE). • The membrane temperature is controlled by varying the cooling flow rate and proximity of a spiral cooling channel. • Sealing tests have demonstrated adequate helium leak rates up to temperatures of 1000 °C. • Flow modeling indicates a minimal helium pressure drop across the membrane holder (<700 Pa). • Thermal modeling shows good heat removal and minimal membrane temperature variation (±2%) even up to peak TPE ion fluxes. - Abstract: Experiments on retention of hydrogen isotopes (including tritium) at temperatures less than 800 °C have been carried out in the Tritium Plasma Experiment (TPE) at Idaho National Laboratory [1,2]. To provide a direct measurement of plasma driven permeation in plasma facing materials at temperatures reaching 1000 °C, a new TPE membrane holder has been built to hold test specimens (≤1 mm in thickness) at high temperature while measuring tritium permeating through the membrane from the plasma facing side. This measurement is accomplished by employing a carrier gas that transports the permeating tritium from the backside of the membrane to ion chambers giving a direct measurement of the plasma driven tritium permeation rate. Isolation of the membrane cooling and sweep gases from TPE's vacuum chamber has been demonstrated by sealing tests performed up to 1000 °C of a membrane holder design that provides easy change out of membrane specimens between tests. Simulations of the helium carrier gas which transports tritium to the ion chamber indicate a very small pressure drop (∼700 Pa) with good flow uniformity (at 1000 sccm). Thermal transport simulations indicate that temperatures up to 1000 °C are expected at the highest TPE fluxes.

  11. Development of a plasma driven permeation experiment for TPE

    International Nuclear Information System (INIS)

    Buchenauer, Dean; Kolasinski, Robert; Shimada, Masa; Donovan, David; Youchison, Dennis; Merrill, Brad

    2014-01-01

    Highlights: • We have designed and fabricated a novel tritium permeation membrane holder for use in the Tritium Plasma Experiment (TPE). • The membrane temperature is controlled by varying the cooling flow rate and proximity of a spiral cooling channel. • Sealing tests have demonstrated adequate helium leak rates up to temperatures of 1000 °C. • Flow modeling indicates a minimal helium pressure drop across the membrane holder (<700 Pa). • Thermal modeling shows good heat removal and minimal membrane temperature variation (±2%) even up to peak TPE ion fluxes. - Abstract: Experiments on retention of hydrogen isotopes (including tritium) at temperatures less than 800 °C have been carried out in the Tritium Plasma Experiment (TPE) at Idaho National Laboratory [1,2]. To provide a direct measurement of plasma driven permeation in plasma facing materials at temperatures reaching 1000 °C, a new TPE membrane holder has been built to hold test specimens (≤1 mm in thickness) at high temperature while measuring tritium permeating through the membrane from the plasma facing side. This measurement is accomplished by employing a carrier gas that transports the permeating tritium from the backside of the membrane to ion chambers giving a direct measurement of the plasma driven tritium permeation rate. Isolation of the membrane cooling and sweep gases from TPE's vacuum chamber has been demonstrated by sealing tests performed up to 1000 °C of a membrane holder design that provides easy change out of membrane specimens between tests. Simulations of the helium carrier gas which transports tritium to the ion chamber indicate a very small pressure drop (∼700 Pa) with good flow uniformity (at 1000 sccm). Thermal transport simulations indicate that temperatures up to 1000 °C are expected at the highest TPE fluxes

  12. Computation of Hemagglutinin Free Energy Difference by the Confinement Method

    Science.gov (United States)

    2017-01-01

    Hemagglutinin (HA) mediates membrane fusion, a crucial step during influenza virus cell entry. How many HAs are needed for this process is still subject to debate. To aid in this discussion, the confinement free energy method was used to calculate the conformational free energy difference between the extended intermediate and postfusion state of HA. Special care was taken to comply with the general guidelines for free energy calculations, thereby obtaining convergence and demonstrating reliability of the results. The energy that one HA trimer contributes to fusion was found to be 34.2 ± 3.4kBT, similar to the known contributions from other fusion proteins. Although computationally expensive, the technique used is a promising tool for the further energetic characterization of fusion protein mechanisms. Knowledge of the energetic contributions per protein, and of conserved residues that are crucial for fusion, aids in the development of fusion inhibitors for antiviral drugs. PMID:29151344

  13. Testing of Disposable Protective Garments Against Isocyanate Permeation From Spray Polyurethane Foam Insulation.

    Science.gov (United States)

    Mellette, Michael P; Bello, Dhimiter; Xue, Yalong; Yost, Michael; Bello, Anila; Woskie, Susan

    2018-05-12

    Diisocyanates (isocyanates), including methylene diphenyl diisocyanate (MDI), are the primary reactive components of spray polyurethane foam (SPF) insulation. They are potent immune sensitizers and a leading cause of occupational asthma. Skin exposure to isocyanates may lead to both irritant and allergic contact dermatitis and possibly contribute to systemic sensitization. More than sufficient evidence exists to justify the use of protective garments to minimize skin contact with aerosolized and raw isocyanate containing materials during SPF applications. Studies evaluating the permeation of protective garments following exposure to SPF insulation do not currently exist. To conduct permeation testing under controlled conditions to assess the effectiveness of common protective gloves and coveralls during SPF applications using realistic SPF product formulations. Five common disposable garment materials [disposable latex gloves (0.07 mm thickness), nitrile gloves (0.07 mm), vinyl gloves (0.07 mm), polypropylene coveralls (0.13 mm) and Tyvek coveralls (0.13 mm)] were selected for testing. These materials were cut into small pieces and assembled into a permeation test cell system and coated with a two-part slow-rise spray polyurethane foam insulation. Glass fiber filters (GFF) pretreated with 1-(9-anthracenylmethyl)piperazine) (MAP) were used underneath the garment to collect permeating isocyanates. GFF filters were collected at predetermined test intervals between 0.75 and 20.00 min and subsequently analyzed using liquid chromatography-tandem mass spectrometry. For each garment material, we assessed (i) the cumulative concentration of total isocyanate, including phenyl isocyanate and three MDI isomers, that effectively permeated the material over the test time; (ii) estimated breakthrough detection time, average permeation rate, and standardized breakthrough time; from which (iii) recommendations were developed for the use of similar protective garments following

  14. Microbiological diagnosis and antimicrobial sensitivity profiles in diseased free-living raptors.

    Science.gov (United States)

    Vidal, Anna; Baldomà, Laia; Molina-López, Rafael A; Martin, Marga; Darwich, Laila

    2017-08-01

    Free-living raptors (birds of prey) can act as reservoirs of potentially zoonotic agents, but they also can be affected by microorganisms as target hosts. In this retrospective study, microbiological results (n = 663) and antibiotic sensitivity profiles (n = 108) of bacterial isolates were analysed from diseased free-living raptors. Sixty-nine percent of cases (n = 457) yielded bacteria: 58% were in pure culture and 42% were of different species. Remarkably, samples from necropsies (47%) had higher percentage of pure isolations than those obtained from clinical (31%) samples (P raptors (P 3 antimicrobials. Detection in wildlife of antimicrobial-resistant pathogens that might be significant at the animal-human-ecosystem interface is of great relevance under the 'One Health' approach.

  15. Low energy quasi free scattering on nuclear surface

    Energy Technology Data Exchange (ETDEWEB)

    Shiyuan, S.

    1983-05-01

    The result of RGM calculation of low energy /sup 3/He(n, n)/sup 3/ He total elastic cross section does not agree well with experimental data for E/sub n/<1 MeV. This discrepancy can be improved by assuming lwo energy quasi-free scattering of particles beyond the nuclear surface.

  16. Mechanisms of oxygen permeation through plastic films and barrier coatings

    International Nuclear Information System (INIS)

    Wilski, Stefan; Wipperfürth, Jens; Jaritz, Montgomery; Kirchheim, Dennis; Dahlmann, Rainer; Hopmann, Christian; Mitschker, Felix; Awakowicz, Peter

    2017-01-01

    Oxygen and water vapour permeation through plastic films in food packaging or other applications with high demands on permeation are prevented by inorganic barrier films. Most of the permeation occurs through small defects (<3 µ m) in the barrier coating. The defects were visualized by etching with reactive oxygen in a capacitively coupled plasma and subsequent SEM imaging. In this work, defects in SiO x -coatings deposited by plasma-enhanced chemical vapour deposition on polyethylene terephthalate (PET) are investigated and the mass transport through the polymer is simulated in a 3D approach. Calculations of single defects showed that there is no linear correlation between the defect area and the resulting permeability. The influence of adjacent defects in different distances was observed and led to flow reduction functions depending on the defect spacing and defect area. A critical defect spacing where no interaction between defects occurs was found and compared to other findings. According to the superposition principle, the permeability of single defects was added up and compared to experimentally determined oxygen permeation. The results showed the same trend of decreasing permeability with decreasing defect densities. (paper)

  17. In vitro permeation of platinum and rhodium through Caucasian skin.

    Science.gov (United States)

    Franken, A; Eloff, F C; Du Plessis, J; Badenhorst, C J; Jordaan, A; Du Plessis, J L

    2014-12-01

    During platinum group metals (PGMs) refining the possibility exists for dermal exposure to PGM salts. The dermal route has been questioned as an alternative route of exposure that could contribute to employee sensitisation, even though literature has been focused on respiratory exposure. This study aimed to investigate the in vitro permeation of platinum and rhodium through intact Caucasian skin. A donor solution of 0.3mg/ml of metal, K2PtCl4 and RhCl3 respectively, was applied to the vertical Franz diffusion cells with full thickness abdominal skin. The receptor solution was removed at various intervals during the 24h experiment, and analysed with high resolution ICP-MS. Skin was digested and analysed by ICP-OES. Results indicated cumulative permeation with prolonged exposure, with a significantly higher mass of platinum permeating after 24h when compared to rhodium. The mass of platinum retained inside the skin and the flux of platinum across the skin was significantly higher than that of rhodium. Permeated and skin retained platinum and rhodium may therefore contribute to sensitisation and indicates a health risk associated with dermal exposure in the workplace. Copyright © 2014 Elsevier Ltd. All rights reserved.

  18. Free Energy and Internal Combustion Engine Cycles

    OpenAIRE

    Harris, William D.

    2012-01-01

    The performance of one type (Carnot) of Internal Combustion Engine (ICE) cycle is analyzed within the framework of thermodynamic free energies. ICE performance is different from that of an External Combustion Engine (ECE) which is dictated by Carnot's rule.

  19. Assessment of permeation of lipoproteins in human carotid tissue

    Science.gov (United States)

    Ghosn, Mohamad G.; Syed, Saba H.; Leba, Michael; Morrisett, Joel D.; Tuchin, Valery V.; Larin, Kirill V.

    2010-02-01

    Cardiovascular disease is among the leading causes of death in the United States. Specifically, atherosclerosis is an increasingly devastating contributor to the tally and has been found to be a byproduct of arterial permeability irregularities in regards to lipoprotein penetration. To further explore arterial physiology and molecular transport, the imaging technique of Optical Coherence Tomography (OCT) was employed. With OCT, the permeation of glucose (MW = 180 Da), low density lipoprotein (LDL; MW = 2.1 × 106 Da), and high density lipoprotein (HDL; MW = 2.5 × 105 Da) in human carotid tissue was studied to determine the effect of different molecular characteristics on permeation in atherosclerotic tissues. The permeability rates calculated from the diffusion of the molecular agents into the abnormal carotid tissue samples is compared to those of normal, healthy tissue. The results show that in the abnormal tissue, the permeation of agents correlate to the size constraints. The larger molecules of LDL diffuse the slowest, while the smallest molecules of glucose diffuse the fastest. However, in normal tissue, LDL permeates at a faster rate than the other two agents, implying the existence of a transport mechanism that facilitates the passage of LDL molecules. These results highlight the capability of OCT as a sensitive and specific imaging technique as well as provide significant information to the understanding of atherosclerosis and its effect on tissue properties.

  20. Whey permeate fermented with kefir grains shows antifungal effect against Fusarium graminearum.

    Science.gov (United States)

    Gamba, Raúl Ricardo; De Antoni, Graciela; Peláez, Angela León

    2016-05-01

    The objective of the work reported here was to study the antifungal capability of cell-free supernatants obtained from whey permeates after fermentation by the kefir grains CIDCA AGK1 against Fusarium graminearum growth and zearalenone (ZEA) production. The assays were performed in order to study the conidial germination inhibition -in liquid media- and the effect on fungal growth rate and the Latency phase -in solid media. We observed that fermented supernatants of pH 3·5 produced the highest percentages of inhibition of conidial germination. The dilution and, particularly, alkalinisation of them led to the gradual loss of antifungal activity. In the fungal inhibition assays on plates we found that only the highest proportion of supernatant within solid medium had significant antifungal activity, which was determined as fungicidal. There was no ZEA biosynthesis in the medium with the highest proportion of supernatant, whereas at lower concentrations, the mycotoxin production was strain-dependent. From the results obtained we concluded that kefir supernatants had antifungal activity on the F. graminearum strains investigated and inhibited mycotoxin production as well, but in a strain-dependent fashion. The present work constitutes the first report of the effect of the products obtained from the kefir-grain fermentation of whey permeates - a readily available by-product of the dairy industry - on F. graminearum germination, growth, and toxin production.

  1. Free energy surfaces from nonequilibrium processes without work measurement

    Science.gov (United States)

    Adib, Artur B.

    2006-04-01

    Recent developments in statistical mechanics have allowed the estimation of equilibrium free energies from the statistics of work measurements during processes that drive the system out of equilibrium. Here a different class of processes is considered, wherein the system is prepared and released from a nonequilibrium state, and no external work is involved during its observation. For such "clamp-and-release" processes, a simple strategy for the estimation of equilibrium free energies is offered. The method is illustrated with numerical simulations and analyzed in the context of tethered single-molecule experiments.

  2. Inquiries into the Nature of Free Energy and Entropy in Respect to Biochemical Thermodynamics

    Directory of Open Access Journals (Sweden)

    Clinton D. Stoner

    2000-08-01

    Full Text Available Free energy and entropy are examined in detail from the standpoint of classical thermodynamics. The approach is logically based on the fact that thermodynamic work is mediated by thermal energy through the tendency for nonthermal energy to convert spontaneously into thermal energy and for thermal energy to distribute spontaneously and uniformly within the accessible space. The fact that free energy is a Second-Law, expendable energy that makes it possible for thermodynamic work to be done at finite rates is emphasized. Entropy, as originally defined, is pointed out to be the capacity factor for thermal energy that is hidden with respect to temperature; it serves to evaluate the practical quality of thermal energy and to account for changes in the amounts of latent thermal energies in systems maintained at constant temperature. With entropy thus operationally defined, it is possible to see that TDS° of the Gibbs standard free energy relation DG°= DH°-TDS° serves to account for differences or changes in nonthermal energies that do not contribute to DG° and that, since DH° serves to account for differences or changes in total energy, complete enthalpy-entropy (DH° - TDS° compensation must invariably occur in isothermal processes for which TDS° is finite. A major objective was to clarify the means by which free energy is transferred and conserved in sequences of biological reactions coupled by freely diffusible intermediates. In achieving this objective it was found necessary to distinguish between a 'characteristic free energy' possessed by all First-Law energies in amounts equivalent to the amounts of the energies themselves and a 'free energy of concentration' that is intrinsically mechanical and relatively elusive in that it can appear to be free of First-Law energy. The findings in this regard serve to clarify the fact that the transfer of chemical potential energy from one

  3. Prediction of binding free energy for adsorption of antimicrobial peptide lactoferricin B on a POPC membrane

    Science.gov (United States)

    Vivcharuk, Victor; Tomberli, Bruno; Tolokh, Igor S.; Gray, C. G.

    2008-03-01

    Molecular dynamics (MD) simulations are used to study the interaction of a zwitterionic palmitoyl-oleoyl-phosphatidylcholine (POPC) bilayer with the cationic antimicrobial peptide bovine lactoferricin (LFCinB) in a 100 mM NaCl solution at 310 K. The interaction of LFCinB with POPC is used as a model system for studying the details of membrane-peptide interactions, with the peptide selected because of its antimicrobial nature. Seventy-two 3 ns MD simulations, with six orientations of LFCinB at 12 different distances from a POPC membrane, are carried out to determine the potential of mean force (PMF) or free energy profile for the peptide as a function of the distance between LFCinB and the membrane surface. To calculate the PMF for this relatively large system a new variant of constrained MD and thermodynamic integration is developed. A simplified method for relating the PMF to the LFCinB-membrane binding free energy is described and used to predict a free energy of adsorption (or binding) of -1.05±0.39kcal/mol , and corresponding maximum binding force of about 20 pN, for LFCinB-POPC. The contributions of the ions-LFCinB and the water-LFCinB interactions to the PMF are discussed. The method developed will be a useful starting point for future work simulating peptides interacting with charged membranes and interactions involved in the penetration of membranes, features necessary to understand in order to rationally design peptides as potential alternatives to traditional antibiotics.

  4. Coarse-grained versus atomistic simulations : realistic interaction free energies for real proteins

    NARCIS (Netherlands)

    May, Ali; Pool, René; van Dijk, Erik; Bijlard, Jochem; Abeln, Sanne; Heringa, Jaap; Feenstra, K Anton

    2014-01-01

    MOTIVATION: To assess whether two proteins will interact under physiological conditions, information on the interaction free energy is needed. Statistical learning techniques and docking methods for predicting protein-protein interactions cannot quantitatively estimate binding free energies. Full

  5. Free energy minimization and information gain: The devil is in the details

    NARCIS (Netherlands)

    Kwisthout, J.H.P.; Rooij, I.J.E.I. van

    2015-01-01

    Contrary to Friston's previous work, this paper describes free energy minimization using categorical probability distributions over discrete states. This alternative mathematical framework exposes a fundamental, yet unnoticed challenge for the free energy principle. When considering discrete state

  6. Coarse-grained versus atomistic simulations: realistic interaction free energies for real proteins

    NARCIS (Netherlands)

    May, A.; Pool, R.; van Dijk, E.; Bijlard, J.; Abeln, S.; Heringa, J.; Feenstra, K.A.

    2014-01-01

    MOTIVATION: To assess whether two proteins will interact under physiological conditions, information on the interaction free energy is needed. Statistical learning techniques and docking methods for predicting protein-protein interactions cannot quantitatively estimate binding free energies. Full

  7. A Free Energy Model for Hysteresis Ferroelectric Materials

    National Research Council Canada - National Science Library

    Smith, Ralph C; Ounaies, Zoubeida; Seelecke, Stefan; Smith, Joshua

    2003-01-01

    This paper provides a theory for quantifying the hysteresis and constitutive nonlinearities inherent to piezoceramic compounds through a combination of free energy analysis and stochastic homogenization techniques...

  8. Arbitrage-free valuation of energy derivatives

    International Nuclear Information System (INIS)

    Amin, K.; Ng, V.; Pirrong, C.

    1999-01-01

    This chapter focuses on techniques available for valuing energy-contingent claims and develops an arbitrage-free framework to value energy derivatives. The relationship between the spot, forward and futures prices is explained. Option valuation with deterministic convenience yields is discussed using an extension of the Black (1976) framework, and details of the risk-neutral valuation of European options, and valuation of American and European-style options are given. Option valuations with stochastic convenience yields, the evolution of the term structure of convenience yield, and a tree approach to valuing American and other options are discussed. Applications and limitations of the models for pricing energy derivative products are considered. The stochastic differential equation for the futures prices when the convenience yields are stochastic is presented in an appendix

  9. Control of tritium permeation through fusion reactor strucural materials

    International Nuclear Information System (INIS)

    Maroni, V.A.

    1978-01-01

    The intention of this paper is to provide a brief synopsis of the status of understanding and technology pertaining to the dissolution and permeation of tritium in fusion reactor materials. The following sections of this paper attempt to develop a simple perspective for understanding the consequences of these phenomena and the nature of the technical methodology being contemplated to control their impact on fusion reactor operation. Considered in order are: (1) the occurrence of tritium in the fusion fuel cycle, (2) a set of tentative criteria to guide the analysis of tritium containment and control strategies, (3) the basic mechanisms by which tritium may be released from a fusion plant, and (4) the methods currently under development to control the permeation-related release mechanisms. To provide background and support for these considerations, existing solubility and permeation data for the hydrogen isotopes are compared and correlated under conditions to be expected in fusion reactor systems

  10. RF plasma-driven hydrogen permeation through a biased iron membrane

    International Nuclear Information System (INIS)

    Banno, T.; Waelbroeck, F.; Winter, J.

    1984-01-01

    The steady-state RF plasma-driven hydrogen permeation through an electrically biased iron membrane has been investigated as a function of the bias potential Vsub(M) for membrane temperatures in the range of 150-400 0 C. Vsub(M) has been gradually increased positively from the floating potential of the membrane. The permeation flux decreases when Vsub(M) increases at low voltages: positive hydrogen ions are repelled. The membrane temperature does not influence this effect measurably. The permeation flux starts to increase when Vsub(M) is raised higher, i.e. when energetic electrons strike the surface. This phenomenon shows a pronounced temperature dependence - the enhancement is largest for the lowest temperatures. The effect is interpreted in terms of an electron-induced dissociation of hydrogen molecules on the membrane surface. (orig.)

  11. Advancing Drug Discovery through Enhanced Free Energy Calculations.

    Science.gov (United States)

    Abel, Robert; Wang, Lingle; Harder, Edward D; Berne, B J; Friesner, Richard A

    2017-07-18

    A principal goal of drug discovery project is to design molecules that can tightly and selectively bind to the target protein receptor. Accurate prediction of protein-ligand binding free energies is therefore of central importance in computational chemistry and computer aided drug design. Multiple recent improvements in computing power, classical force field accuracy, enhanced sampling methods, and simulation setup have enabled accurate and reliable calculations of protein-ligands binding free energies, and position free energy calculations to play a guiding role in small molecule drug discovery. In this Account, we outline the relevant methodological advances, including the REST2 (Replica Exchange with Solute Temperting) enhanced sampling, the incorporation of REST2 sampling with convential FEP (Free Energy Perturbation) through FEP/REST, the OPLS3 force field, and the advanced simulation setup that constitute our FEP+ approach, followed by the presentation of extensive comparisons with experiment, demonstrating sufficient accuracy in potency prediction (better than 1 kcal/mol) to substantially impact lead optimization campaigns. The limitations of the current FEP+ implementation and best practices in drug discovery applications are also discussed followed by the future methodology development plans to address those limitations. We then report results from a recent drug discovery project, in which several thousand FEP+ calculations were successfully deployed to simultaneously optimize potency, selectivity, and solubility, illustrating the power of the approach to solve challenging drug design problems. The capabilities of free energy calculations to accurately predict potency and selectivity have led to the advance of ongoing drug discovery projects, in challenging situations where alternative approaches would have great difficulties. The ability to effectively carry out projects evaluating tens of thousands, or hundreds of thousands, of proposed drug candidates

  12. The influence of surface roughness on the hydrogen permeation of type API 5L-X52 steel

    International Nuclear Information System (INIS)

    Requiz, R.; Vera, N.; Camero, S.

    2004-01-01

    The influence of surface roughness on the corrosion and hydrogen permeation behaviour was evaluated on a type API 5L-52 steel in dearated 0.1M NaSO 4 at pH=2. Potentiodynamic polarization curves were employed to determine the electrochemical behaviour of the steel, while the Devanathan-Stachurski technique was used to estimate the hydrogen permeation rate. Additionally, the surface roughness profiles were obtained in order to correlate the changes in the hydrogen perkeation rate with different metal surface finishings. The obtained results clearly demonstrate that when the roughness parameters have larger values, the cathodic current of hydrogen evolution increases while the hydrogen entry rate decreases. This effect can be attributed to the microstructural defects induced at the steel surface, such as dislocations, which increase the catalytic activity of the atomic hydrogen favouring its recombination. Also, these defects could allow the atomic hydrogen to remain adsorbed on the steel surface. Both effects could hinder the hydrogen diffusion into the metal since the possibility for this atom of becoming absorbed has been reduced. (Author) 16 refs

  13. Is the Free Vacuum Energy Infinite?

    International Nuclear Information System (INIS)

    Shirazi, S. M.; Razmi, H.

    2015-01-01

    Considering the fundamental cutoff applied by the uncertainty relations’ limit on virtual particles’ frequency in the quantum vacuum, it is shown that the vacuum energy density is proportional to the inverse of the fourth power of the dimensional distance of the space under consideration and thus the corresponding vacuum energy automatically regularized to zero value for an infinitely large free space. This can be used in regularizing a number of unwanted infinities that happen in the Casimir effect, the cosmological constant problem, and so on without using already known mathematical (not so reasonable) techniques and tricks

  14. Permeation of macromolecules into the renal glomerular basement membrane and capture by the tubules

    Science.gov (United States)

    Lawrence, Marlon G.; Altenburg, Michael K.; Sanford, Ryan; Willett, Julian D.; Bleasdale, Benjamin; Ballou, Byron; Wilder, Jennifer; Li, Feng; Miner, Jeffrey H.; Berg, Ulla B.; Smithies, Oliver

    2017-01-01

    How the kidney prevents urinary excretion of plasma proteins continues to be debated. Here, using unfixed whole-mount mouse kidneys, we show that fluorescent-tagged proteins and neutral dextrans permeate into the glomerular basement membrane (GBM), in general agreement with Ogston's 1958 equation describing how permeation into gels is related to molecular size. Electron-microscopic analyses of kidneys fixed seconds to hours after injecting gold-tagged albumin, negatively charged gold nanoparticles, and stable oligoclusters of gold nanoparticles show that permeation into the lamina densa of the GBM is size-sensitive. Nanoparticles comparable in size with IgG dimers do not permeate into it. IgG monomer-sized particles permeate to some extent. Albumin-sized particles permeate extensively into the lamina densa. Particles traversing the lamina densa tend to accumulate upstream of the podocyte glycocalyx that spans the slit, but none are observed upstream of the slit diaphragm. At low concentrations, ovalbumin-sized nanoparticles reach the primary filtrate, are captured by proximal tubule cells, and are endocytosed. At higher concentrations, tubular capture is saturated, and they reach the urine. In mouse models of Pierson’s or Alport’s proteinuric syndromes resulting from defects in GBM structural proteins (laminin β2 or collagen α3 IV), the GBM is irregularly swollen, the lamina densa is absent, and permeation is increased. Our observations indicate that size-dependent permeation into the lamina densa of the GBM and the podocyte glycocalyx, together with saturable tubular capture, determines which macromolecules reach the urine without the need to invoke direct size selection by the slit diaphragm. PMID:28246329

  15. Tritium permeation evaluation through vertical target of divertor based on recent tritium transport properties

    International Nuclear Information System (INIS)

    Nakamura, Hirofumi; Nishi, Masataka

    2003-11-01

    Re-evaluation of tritium permeation through vertical target of divertor under the ITER operation condition was carried out using tritium properties in the candidate materials such as the diffusion coefficient and the trapping factors in tungsten for armor, and the surface recombination coefficient on copper for the heat sink obtained by authours' recent investigation (authors' data), which simulated the plasma-facing conditions of ITER. Evaluation with the data set of previous evaluation was also carried out for comparison (previous data). The permeation analysis was carried out individually by classifying into the armor region (Carbon Fiber Composites and tungsten) and the slit region without armor (3% of armor surface area) assuming the incident flux and temperature for each region. As the results of the permeation analysis, estimated permeation amount with the authors' data was one order less than that with the previous data at the end of lifetime of the divertor due to authors' small diffusion coefficient of tritium in tungsten. It also indicated the possibility that permeation through the slit region of the armor tiles could dominate total permeation through the vertical target, since tritium permeation amount through tungsten armor with the authors' data was estimated to be reduced drastically smaller than that with the previous evaluation data. The result of a little tritium permeation amount through the vertical target with the authors' data ensured the conservatism of the current evaluation of tritium concentration in the primary cooling water in ITER divertor, as it indicated the possibility of direct drainage of the divertor primary cooling water. (author)

  16. Free-market approach to energy proposed in new study

    International Nuclear Information System (INIS)

    Anon.

    1992-01-01

    This paper reports that a free-market approach to energy use, intensified R and D and an emphasis on conservation and clean fuels such as natural gas can result in significant reductions in emissions of greenhouse gases, without any major new federal policy initiatives, according to a new study, An Alternative Energy Future, sponsored by Alliance to Save Energy, AGA and Solar Energy Industries Assn

  17. Evaluation of energy absorption performance of steel square profiles with circular discontinuities

    Directory of Open Access Journals (Sweden)

    Dariusz Szwedowicz

    Full Text Available This article details the experimental and numerical results on the energy absorption performance of square tubular profile with circular discontinuities drilled at lengthwise in the structure. A straight profile pattern was utilized to compare the absorption of energy between the ones with discontinuities under quasi-static loads. The collapse mode and energy absorption conditions were modified by circular holes. The holes were drilled symmetrically in two walls and located in three different positions along of profile length. The results showed a better performance on energy absorption for the circular discontinuities located in middle height. With respect to a profile without holes, a maximum increase of 7% in energy absorption capacity was obtained experimentally. Also, the numerical simulation confirmed that the implementation of circular discontinuities can reduce the peak load (Pmax by 10%. A present analysis has been conducted to compare numerical results obtained by means of the finite element method with the experimental data captured by using the testing machine. Finally the discrete model of the tube with and without geometrical discontinuities presents very good agreements with the experimental results.

  18. Free energy minimization to predict RNA secondary structures and computational RNA design.

    Science.gov (United States)

    Churkin, Alexander; Weinbrand, Lina; Barash, Danny

    2015-01-01

    Determining the RNA secondary structure from sequence data by computational predictions is a long-standing problem. Its solution has been approached in two distinctive ways. If a multiple sequence alignment of a collection of homologous sequences is available, the comparative method uses phylogeny to determine conserved base pairs that are more likely to form as a result of billions of years of evolution than by chance. In the case of single sequences, recursive algorithms that compute free energy structures by using empirically derived energy parameters have been developed. This latter approach of RNA folding prediction by energy minimization is widely used to predict RNA secondary structure from sequence. For a significant number of RNA molecules, the secondary structure of the RNA molecule is indicative of its function and its computational prediction by minimizing its free energy is important for its functional analysis. A general method for free energy minimization to predict RNA secondary structures is dynamic programming, although other optimization methods have been developed as well along with empirically derived energy parameters. In this chapter, we introduce and illustrate by examples the approach of free energy minimization to predict RNA secondary structures.

  19. Production of high energy, uniform focal profiles with the Nike laser

    Science.gov (United States)

    Lehecka, T.; Lehmberg, R. H.; Deniz, A. V.; Gerber, K. A.; Obenschain, S. P.; Pawley, C. J.; Pronko, M. S.; Sullivan, C. A.

    1995-02-01

    Nike, a KrF laser facility at the Naval Research Laboratory, is designed to produce high intensity, ultra-uniform focal profiles for experiments relating to direct drive inertial confinement fusion. We present measurements of focal profiles through the next-to-last amplifier, a 20 × 20 cm 2 aperture electron beam pumped amplifier capable of producing more than 120 J of output in a 120 ns pulse. Using echelon free induced spatial incoherence beam smoothing this system has produced focal profiles with less than 2% tilt and curvature and less than 2% rms variation from a flat top distribution.

  20. Analysis of the Bogoliubov free energy functional

    DEFF Research Database (Denmark)

    Reuvers, Robin

    In this thesis, we analyse a variational reformulation of the Bogoliubov approximation that is used to describe weakly-interacting translationally-invariant Bose gases. For the resulting model, the `Bogoliubov free energy functional', we demonstrate existence of minimizers as well as the presence...

  1. Advanced Graphene-Based Binder-Free Electrodes for High-Performance Energy Storage.

    Science.gov (United States)

    Ji, Junyi; Li, Yang; Peng, Wenchao; Zhang, Guoliang; Zhang, Fengbao; Fan, Xiaobin

    2015-09-23

    The increasing demand for energy has triggered tremendous research effort for the development of high-performance and durable energy-storage devices. Advanced graphene-based electrodes with high electrical conductivity and ion accessibility can exhibit superior electrochemical performance in energy-storage devices. Among them, binder-free configurations can enhance the electron conductivity of the electrode, which leads to a higher capacity by avoiding the addition of non-conductive and inactive binders. Graphene, a 2D material, can be fabricated into a porous and flexible structure with an interconnected conductive network. Such a conductive structure is favorable for both electron and ion transport to the entire electrode surface. In this review, the main processes used to prepare binder-free graphene-based hybrids with high porosity and well-designed electron conductive networks are summarized. Then, the applications of free-standing binder-free graphene-based electrodes in energy-storage devices are discussed. Future research aspects with regard to overcoming the technological bottlenecks are also proposed. © 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  2. Free energy of formation of lanthanum nickelate

    International Nuclear Information System (INIS)

    Sreedharan, O.M.; Chandrasekharaiah, M.S.; Karkhanavala, M.D.

    1976-01-01

    The ΔG 0 /sub f/ of La 2 NiO 4 (s) was determined from the measured emf in the range 1123 to 1373 0 K of the solid oxide electrolyte galvanic cell. The emf data were fitted to a linear equation by the method of least squares. From these data, the standard free-energy change, ΔG 0 , for the reaction NiO(s) + La 2 O 3 (s) = La 2 NiO 4 (s) was calculated. Combining these emf data with the best available free energy of formation data for NiO(s) and La 2 O 3 (s), the following expression for ΔG 0 /sub f/(La 2 NiO 4 (s)) was derived as ΔG 0 /sub f/(La 2 NiO 4 (s)/kJ mole -1 = -2057.0 + 322.8 x 10 -3 T +- 17.30

  3. Binding free energy analysis of protein-protein docking model structures by evERdock.

    Science.gov (United States)

    Takemura, Kazuhiro; Matubayasi, Nobuyuki; Kitao, Akio

    2018-03-14

    To aid the evaluation of protein-protein complex model structures generated by protein docking prediction (decoys), we previously developed a method to calculate the binding free energies for complexes. The method combines a short (2 ns) all-atom molecular dynamics simulation with explicit solvent and solution theory in the energy representation (ER). We showed that this method successfully selected structures similar to the native complex structure (near-native decoys) as the lowest binding free energy structures. In our current work, we applied this method (evERdock) to 100 or 300 model structures of four protein-protein complexes. The crystal structures and the near-native decoys showed the lowest binding free energy of all the examined structures, indicating that evERdock can successfully evaluate decoys. Several decoys that show low interface root-mean-square distance but relatively high binding free energy were also identified. Analysis of the fraction of native contacts, hydrogen bonds, and salt bridges at the protein-protein interface indicated that these decoys were insufficiently optimized at the interface. After optimizing the interactions around the interface by including interfacial water molecules, the binding free energies of these decoys were improved. We also investigated the effect of solute entropy on binding free energy and found that consideration of the entropy term does not necessarily improve the evaluations of decoys using the normal model analysis for entropy calculation.

  4. Gibbs Sampler-Based λ-Dynamics and Rao-Blackwell Estimator for Alchemical Free Energy Calculation.

    Science.gov (United States)

    Ding, Xinqiang; Vilseck, Jonah Z; Hayes, Ryan L; Brooks, Charles L

    2017-06-13

    λ-dynamics is a generalized ensemble method for alchemical free energy calculations. In traditional λ-dynamics, the alchemical switch variable λ is treated as a continuous variable ranging from 0 to 1 and an empirical estimator is utilized to approximate the free energy. In the present article, we describe an alternative formulation of λ-dynamics that utilizes the Gibbs sampler framework, which we call Gibbs sampler-based λ-dynamics (GSLD). GSLD, like traditional λ-dynamics, can be readily extended to calculate free energy differences between multiple ligands in one simulation. We also introduce a new free energy estimator, the Rao-Blackwell estimator (RBE), for use in conjunction with GSLD. Compared with the current empirical estimator, the advantage of RBE is that RBE is an unbiased estimator and its variance is usually smaller than the current empirical estimator. We also show that the multistate Bennett acceptance ratio equation or the unbinned weighted histogram analysis method equation can be derived using the RBE. We illustrate the use and performance of this new free energy computational framework by application to a simple harmonic system as well as relevant calculations of small molecule relative free energies of solvation and binding to a protein receptor. Our findings demonstrate consistent and improved performance compared with conventional alchemical free energy methods.

  5. The inverted free energy landscape of an intrinsically disordered peptide by simulations and experiments.

    Science.gov (United States)

    Granata, Daniele; Baftizadeh, Fahimeh; Habchi, Johnny; Galvagnion, Celine; De Simone, Alfonso; Camilloni, Carlo; Laio, Alessandro; Vendruscolo, Michele

    2015-10-26

    The free energy landscape theory has been very successful in rationalizing the folding behaviour of globular proteins, as this representation provides intuitive information on the number of states involved in the folding process, their populations and pathways of interconversion. We extend here this formalism to the case of the Aβ40 peptide, a 40-residue intrinsically disordered protein fragment associated with Alzheimer's disease. By using an advanced sampling technique that enables free energy calculations to reach convergence also in the case of highly disordered states of proteins, we provide a precise structural characterization of the free energy landscape of this peptide. We find that such landscape has inverted features with respect to those typical of folded proteins. While the global free energy minimum consists of highly disordered structures, higher free energy regions correspond to a large variety of transiently structured conformations with secondary structure elements arranged in several different manners, and are not separated from each other by sizeable free energy barriers. From this peculiar structure of the free energy landscape we predict that this peptide should become more structured and not only more compact, with increasing temperatures, and we show that this is the case through a series of biophysical measurements.

  6. Use of linear free energy relationship to predict Gibbs free energies of formation of zirconolite phases (MZrTi2O7 and MHfTi2O7)

    International Nuclear Information System (INIS)

    Xu, H.

    1999-01-01

    In this letter, the Sverjensky-Molling equation derived from a linear free energy relationship is used to calculate the Gibbs free energies of formation of zirconolite crystalline phases (MZrTi 2 O 7 and MHfTi 2 O 7 ) from the known thermodynamic properties of the corresponding aqueous divalent cations (M 2+ ). Sverjensky-Molling equation is expressed as ΔG 0 f,M v X =a M v X ΔG 0 n,M 2+ +b M v X +β M v X r M 2+ , where the coefficients a M v X , b M v X , and β M v X characterize a particular structural family of M v X, r M 2+ is the ionic radius of M 2+ cation, ΔG f,M v X 0 is the standard Gibbs free energy of formation of M v X, and ΔG 0 n,M 2+ is the standard non-solvation energy of cation M 2+ . This relationship can be used to predict the Gibbs free energies of formation of various fictive phases (such as BaZrTi 2 O 7 , SrZrTi 2 O 7 , PbZrTi 2 O 7 , etc.) that may form solid solution with CaZrTi 2 O 7 in actual Synroc-based nuclear waste forms. Based on obtained linear free energy relationships, it is predicted that large cations (e.g., Ba and Ra) prefer to be in perovskite structure, and small cations (e.g., Ca, Zn, and Cd) prefer to be in zirconolite structure. (orig.)

  7. Free-Free Transitions in the Presence of Laser Fields at Very Low Incident Electron Energy

    Science.gov (United States)

    Bhatia, A. K.; Sinha, Chandana

    2010-01-01

    We study the free-free transition in electron-hydrogenic systems in ground state in presence of an external laser field at very loud incident energies. The laser field is treated classically while the collision dynamics is treated quantum mechanically. The laser field is chosen to be monochromatic, linearly polarized and homogeneous. The incident electron is considered to be dressed by the laser in a nonperturbative manner by choosing a Volkov wave function for it. The scattering weave function for the electron is solved numerically by taking into account the effect of the electron exchange, short-range as well as of the long-range interactions to get the S and P wave phase shifts while for the higher angular momentum phase shifts the exchange approximation has only been considered. We calculate the laser assisted differential cross sections (LADCS) for the aforesaid free-free transition process for single photon absorption/emission. The laser intensity is chosen to be much less than the atomic field intensity. A strong suppression is noted in the LADCS as compared to the field free (FF) cross sections. Unlike the FF ones, the LADCS exhibit some oscillations having a distinct maximum at a low value of the scattering angle depending on the laser parameters as well as on the incident energies.

  8. Profiles of foreign direct investment in US energy, 1991

    International Nuclear Information System (INIS)

    1993-01-01

    Profiles of Foreign Direct Investment in US Energy 1991 describes the role of foreign ownership in US energy enterprises, with respect to investment, energy operations, and financial performance. Additionally, since energy investments are made in a global context, outward investment in energy is reviewed trough an examination of US-based companies' patterns of investment in foreign petroleum. The data used in this report come from the Energy Information Administration (EIA), the US Department of Commerce, company annual reports, and public disclosures of investment transactions

  9. Profiles of foreign direct investment in US energy, 1990

    International Nuclear Information System (INIS)

    1992-01-01

    Profiles of Foreign Direct Investment in US Energy 1990 describes the role of foreign ownership in US energy enterprises, with respect to investment, energy operations, and financial performance. Additionally, since energy investments are made in a global context, outward investment in energy is reviewed through an examination of US-based companies' patterns of investment in foreign petroleum. The data used in this report come from the Energy Information Administration (EIA), the US Department of Commerce, company annual reports, and public disclosures of investment transactions

  10. Free-energy landscape of a hyperstable RNA tetraloop.

    Science.gov (United States)

    Miner, Jacob C; Chen, Alan A; García, Angel E

    2016-06-14

    We report the characterization of the energy landscape and the folding/unfolding thermodynamics of a hyperstable RNA tetraloop obtained through high-performance molecular dynamics simulations at microsecond timescales. Sampling of the configurational landscape is conducted using temperature replica exchange molecular dynamics over three isochores at high, ambient, and negative pressures to determine the thermodynamic stability and the free-energy landscape of the tetraloop. The simulations reveal reversible folding/unfolding transitions of the tetraloop into the canonical A-RNA conformation and the presence of two alternative configurations, including a left-handed Z-RNA conformation and a compact purine Triplet. Increasing hydrostatic pressure shows a stabilizing effect on the A-RNA conformation and a destabilization of the left-handed Z-RNA. Our results provide a comprehensive description of the folded free-energy landscape of a hyperstable RNA tetraloop and highlight the significant advances of all-atom molecular dynamics in describing the unbiased folding of a simple RNA secondary structure motif.

  11. In Vitro Skin Permeation Enhancement of Sumatriptan by Microneedle Application.

    Science.gov (United States)

    Nalluri, Buchi N; Anusha, Sai Sri V; Bramhini, Sri R; Amulya, J; Sultana, Ashraf S K; Teja, Chandra U; Das, Diganta B

    2015-01-01

    Different dimensions of commercially available microneedle devices, namely, Admin- Patch(®) microneedle arrays (MN) (0.6, 0.9, 1.2 and 1.5 mm lengths) and Dermaroller(®) microneedle rollers (DR) (0.5 and 1mm lengths) were evaluated for their relative efficiency in enhancement of transdermal permeation of Sumatriptan (SMT). Solubility assessment of SMT was carried out using propylene glycol (PG), polyethylene glycol (PEG) in combination with saline (S) at different ratios and the order of solubility was found to be 70:30 > 80:20 > 90:10 %v/v in both PG:S and PEG:S. In vitro skin permeation studies were performed using PG:S (70:30 %v/v) as donor vehicle. A significant increase in cumulative amount of SMT permeated, steady state flux, permeability coefficient and diffusion coefficient values were observed after microneedle treatment, and the values were in the order of 1.5mm MN >1.2mm MN >0.9mm MN >1mm DR >0.6mm MN >0.5mm DR > passive permeation. Lag times were significantly shorter after longer microneedle application (0.24h for 1.5mm MN). Arrays were found to be superior to rollers with similar microneedle lengths in enhancing SMT permeation and may be attributed to higher density of microneedles and force of application onto skin. The in vitro flux values revealed that 2.5cm(2) area patch is sufficient for effective therapy after treatment of skin with 1.5mm MN. It may be inferred that microneedle application significantly enhances the transdermal penetration of SMT and that it may be feasible to deliver clinically relevant therapeutic levels of SMT using microneedle assisted transdermal delivery systems.

  12. Seawater ultrafiltration fouling control: Backwashing with demineralized water/SWRO permeate

    KAUST Repository

    Li, Sheng; Heijman, Sebastiaan G J; Verberk, J. Q J C; Amy, Gary L.; Van Dijk, Johannis C.

    2012-01-01

    In this study, the effect of demineralized water backwashing on fouling control of seawater ultrafiltration was investigated. Seawater from Scheveningen beach in The Hague and a desalination plant of Evides Company at Zeeland in the Netherlands was used as feed water, while demineralized water and UF permeate were used as backwash water for a fouling control efficiency comparison under different fluxes and backwash durations. Furthermore, demineralized waters with 5 or 50 mmol/l NaCl were applied for backwashing as well, to check the influence of monovalent cations on UF fouling control. Additionally, SWRO permeate was used for backwashes in long-term experiments to check the possibility of it replacing demineralized water. Results show that seawater UF fouling control is substantially improved by demineralized water backwashing. However, due to the high salinity of seawater, more water was required to dilute the cation concentration and limit the dispersion effect near the membrane surface than was needed for surface water. A 2-min demineralized water backwash showed better fouling control efficiency than a 1-min backwash. Furthermore, the presence of monovalent cations in the backwash water deteriorated the fouling control efficiency of the backwash, indicating the existence of a charge screening effect. The demineralized water with 5 and 50 mmol/l NaCl both showed a similar fouling control efficiency which is better than the UF permeate backwash. The calcium ions in UF permeate probably deteriorates the fouling control efficiency by maintaining a Ca-bridging effect between the membranes and NOM. SWRO permeate backwashing successfully controls membrane fouling as well. © 2012 Elsevier B.V. All rights reserved.

  13. Seawater ultrafiltration fouling control: Backwashing with demineralized water/SWRO permeate

    KAUST Repository

    Li, Sheng

    2012-09-01

    In this study, the effect of demineralized water backwashing on fouling control of seawater ultrafiltration was investigated. Seawater from Scheveningen beach in The Hague and a desalination plant of Evides Company at Zeeland in the Netherlands was used as feed water, while demineralized water and UF permeate were used as backwash water for a fouling control efficiency comparison under different fluxes and backwash durations. Furthermore, demineralized waters with 5 or 50 mmol/l NaCl were applied for backwashing as well, to check the influence of monovalent cations on UF fouling control. Additionally, SWRO permeate was used for backwashes in long-term experiments to check the possibility of it replacing demineralized water. Results show that seawater UF fouling control is substantially improved by demineralized water backwashing. However, due to the high salinity of seawater, more water was required to dilute the cation concentration and limit the dispersion effect near the membrane surface than was needed for surface water. A 2-min demineralized water backwash showed better fouling control efficiency than a 1-min backwash. Furthermore, the presence of monovalent cations in the backwash water deteriorated the fouling control efficiency of the backwash, indicating the existence of a charge screening effect. The demineralized water with 5 and 50 mmol/l NaCl both showed a similar fouling control efficiency which is better than the UF permeate backwash. The calcium ions in UF permeate probably deteriorates the fouling control efficiency by maintaining a Ca-bridging effect between the membranes and NOM. SWRO permeate backwashing successfully controls membrane fouling as well. © 2012 Elsevier B.V. All rights reserved.

  14. Permeation of iodide from iodine-enriched yeast through porcine intestine.

    Science.gov (United States)

    Ryszka, Florian; Dolińska, Barbara; Zieliński, Michał; Chyra, Dagmara; Dobrzański, Zbigniew

    2013-01-01

    Iodine deficiency is a common phenomenon, threatening the whole global human population. Recommended daily intake of iodine is 150 μg for adults and 250 μg for pregnant and breastfeeding women. About 50% of human population can be at risk of moderate iodine deficiency. Due to this fact, increased iodine supplementation is recommended, through intake of iodized mineral water and salt iodization. The aim of this study was to investigate permeation and absorption of iodide from iodine bioplex (experimental group) in comparison with potassium iodide (controls). Permeation and absorption processes were investigated in vitro using a porcine intestine. The experimental model was based on a standard Franz diffusion cell (FD-Cell). The iodine bioplex was produced using Saccharomyces cerevisiae yeast and whey powder: iodine content - 388 μg/g, total protein - 28.5%, total fat - 0.9%., glutamic acid - 41.2%, asparaginic acid - 29.4%, lysine - 24.8%; purchased from: F.Z.N.P. Biochefa, Sosnowiec, Poland. Potassium iodide was used as controls, at 388 μg iodine concentration, which was the same as in iodine-enriched yeast bioplex. A statistically significant increase in iodide permeation was observed for iodine-enriched yeast bioplex in comparison with controls - potassium iodide. After 5h the total amount of permeated iodide from iodine-enriched yeast bioplex was 85%, which is ~ 2-fold higher than controls - 37%. Iodide absorption was by contrast statistically significantly higher in controls - 7.3%, in comparison with 4.5% in experimental group with iodine-enriched yeast bioplex. Presented results show that iodide permeation process dominates over absorption in case of iodine-enriched yeast bioplex.

  15. The calculation of surface free energy based on embedded atom method for solid nickel

    International Nuclear Information System (INIS)

    Luo Wenhua; Hu Wangyu; Su Kalin; Liu Fusheng

    2013-01-01

    Highlights: ► A new solution for accurate prediction of surface free energy based on embedded atom method was proposed. ► The temperature dependent anisotropic surface energy of solid nickel was obtained. ► In isotropic environment, the approach does not change most predictions of bulk material properties. - Abstract: Accurate prediction of surface free energy of crystalline metals is a challenging task. The theory calculations based on embedded atom method potentials often underestimate surface free energy of metals. With an analytical charge density correction to the argument of the embedding energy of embedded atom method, an approach to improve the prediction for surface free energy is presented. This approach is applied to calculate the temperature dependent anisotropic surface energy of bulk nickel and surface energies of nickel nanoparticles, and the obtained results are in good agreement with available experimental data.

  16. In vitro permeation of platinum through African and Caucasian skin.

    Science.gov (United States)

    Franken, A; Eloff, F C; du Plessis, J; Badenhorst, C J; Du Plessis, J L

    2015-02-03

    The majority of the South African workforce are Africans, therefore potential racial differences should be considered in risk and exposure assessments in the workplace. Literature suggests African skin to be a superior barrier against permeation and irritants. Previous in vitro studies on metals only included skin from Caucasian donors, whereas this study compared the permeation of platinum through African and Caucasian skin. A donor solution of 0.3 mg/ml of potassium tetrachloroplatinate (K₂PtCl₄) dissolved in synthetic sweat was applied to the vertical Franz diffusion cells with full thickness abdominal skin. Skin from three female African and three female Caucasian donors were included (n=21). The receptor solution was removed at various intervals during the 24 h experiment, and analysed with high resolution inductively coupled plasma-mass spectrometry (ICP-MS). Skin was digested and analysed by inductively coupled plasma-optical emission spectrometry (ICP-OES). Significantly higher permeation of platinum through intact African skin (p=0.044), as well as a significantly higher mass of platinum retention in African skin in comparison with Caucasian skin (p=0.002) occurred. Significant inter-donor variation was found in both racial groups (pskin and further investigation is necessary to explain the higher permeation through African skin. Copyright © 2014 Elsevier Ireland Ltd. All rights reserved.

  17. Hydrogen permeation through sol-gel-coated iron during galvanostatic charging

    International Nuclear Information System (INIS)

    Zakorchemna, I.; Carmona, N.; Zakroczymski, T.

    2008-01-01

    One-layer sol-gel silica-zirconia and two-layer silica-zirconia and zirconia coatings were deposited on one side of iron membranes by spin-coating, densified in air and annealed up to 800 deg. C in vacuum. Hydrogen permeation through the membranes, coated and uncoated, polarised cathodically under galvanostatic control in 0.1 M NaOH solution was studied using the electrochemical permeation technique. During the initial period, the effect of the sol-gel coatings was insignificant. However, the coatings quite efficiently prevented the iron surface become more active to hydrogen entry during a long-lasting cathodic polarisation. In addition, the electrochemical-corrosion behaviour of the coated iron and the effect of the sol-gel coatings on the effective diffusivity of hydrogen in the coated membranes were studied. On the basis of the polarisation curves and the hydrogen permeation data it was proved that the sol-gel coatings blocked the iron surface for the hydrogen evolution reaction and, consequently, for the hydrogen entry into iron. The effective coating coverage was determined by comparison of the hydrogen fluxes permeating the coated and uncoated membranes. Finally the real concentration of hydrogen beneath the uncoated iron sites and the amount of hydrogen stored in a membrane were evaluated

  18. Unsupervised Calculation of Free Energy Barriers in Large Crystalline Systems

    Science.gov (United States)

    Swinburne, Thomas D.; Marinica, Mihai-Cosmin

    2018-03-01

    The calculation of free energy differences for thermally activated mechanisms in the solid state are routinely hindered by the inability to define a set of collective variable functions that accurately describe the mechanism under study. Even when possible, the requirement of descriptors for each mechanism under study prevents implementation of free energy calculations in the growing range of automated material simulation schemes. We provide a solution, deriving a path-based, exact expression for free energy differences in the solid state which does not require a converged reaction pathway, collective variable functions, Gram matrix evaluations, or probability flux-based estimators. The generality and efficiency of our method is demonstrated on a complex transformation of C 15 interstitial defects in iron and double kink nucleation on a screw dislocation in tungsten, the latter system consisting of more than 120 000 atoms. Both cases exhibit significant anharmonicity under experimentally relevant temperatures.

  19. Dissolution and permeation characteristics of artemether tablets ...

    African Journals Online (AJOL)

    characterized by delayed drug release but enhanced permeation of the released drug. Keywords: ... and prosopis gum as binders and to consider the relationship between ..... higher tensile strength and higher brittle fracture index compared ...

  20. Towards accurate free energy calculations in ligand protein-binding studies.

    Science.gov (United States)

    Steinbrecher, Thomas; Labahn, Andreas

    2010-01-01

    Cells contain a multitude of different chemical reaction paths running simultaneously and quite independently next to each other. This amazing feat is enabled by molecular recognition, the ability of biomolecules to form stable and specific complexes with each other and with their substrates. A better understanding of this process, i.e. of the kinetics, structures and thermodynamic properties of biomolecule binding, would be invaluable in the study of biological systems. In addition, as the mode of action of many pharmaceuticals is based upon their inhibition or activation of biomolecule targets, predictive models of small molecule receptor binding are very helpful tools in rational drug design. Since the goal here is normally to design a new compound with a high inhibition strength, one of the most important thermodynamic properties is the binding free energy DeltaG(0). The prediction of binding constants has always been one of the major goals in the field of computational chemistry, because the ability to reliably assess a hypothetical compound's binding properties without having to synthesize it first would save a tremendous amount of work. The different approaches to this question range from fast and simple empirical descriptor methods to elaborate simulation protocols aimed at putting the computation of free energies onto a solid foundation of statistical thermodynamics. While the later methods are still not suited for the screenings of thousands of compounds that are routinely performed in computational drug design studies, they are increasingly put to use for the detailed study of protein ligand interactions. This review will focus on molecular mechanics force field based free energy calculations and their application to the study of protein ligand interactions. After a brief overview of other popular methods for the calculation of free energies, we will describe recent advances in methodology and a variety of exemplary studies of molecular dynamics

  1. Interaction Free Energies of Eight Sodium Salts and a Phosphatidylcholine Membrane

    DEFF Research Database (Denmark)

    Wang, C. H.; Ge, Y.; Mortensen, J.

    2011-01-01

    Many recent reports have discussed specific effects of anions on the properties of lipid membranes and possible roles of such effects within biochemistry. One key parameter in both theoretical and experimental treatments of membrane-salt interactions is the net affinity, that is, the free energy...... salts by dialysis equilibrium measurements. This method provides model free thermodynamic data and allows investigations in the dilute concentration range where solution nonideality and perturbation of membrane structure is limited. The transfer free energy of DMPC from water to salt solutions, Delta mu...

  2. Crystallization and deuterium permeation behaviors of yttrium oxide coating prepared by metal organic decomposition

    Directory of Open Access Journals (Sweden)

    Takumi Chikada

    2016-12-01

    Full Text Available Yttrium oxide coatings were fabricated on reduced activation ferritic/martensitic steels by metal organic decomposition with a dip-coating technique, and their deuterium permeation behaviors were investigated. The microstructure of the coatings varied with heat-treatment temperature: amorphous at 670ºC (amorphous coating and crystallized at 700ºC (crystallized coating. Deuterium permeation flux of the amorphous coating was lower than the uncoated steel by a factor of 5 at 500ºC, while that of the crystallized coating was lower by a factor of around 100 at 400‒550ºC. The permeation fluxes of both coatings were drastically decreased during the measurements at higher temperatures by a factor of up to 790 for the amorphous coating and 1000 for the crystallized one, indicating a microstructure modification occurred by an effect of test temperature with hydrogen flux. Temperature dependence of deuterium diffusivity in the coatings suggests that the decrease of the permeation flux has been derived from a decrease of the diffusivity. Characteristic permeation behaviors were observed with different annealing conditions; however, they can be interpreted using the permeation mechanism clarified in the previous erbium oxide coating studies.

  3. Improved permeation barriers for tritiated waste packaging

    International Nuclear Information System (INIS)

    Vassallo, G.; Van Den Bergh, R.; Forcey, K.S.; Perujo, A.

    1994-01-01

    High-density polyethylene (HDPE) is extensively used as flexible bagging or packaging for soft tritiated waste in the tritium community because of its low permeability to the more radiotoxic form of tritium, i.e., tritiated water (HTO). However, HDPE does not represent a perfect barrier to HTO nor does it effectively hinder the permeation of elemental tritium, i.e, HT. This latter drawback is particularly important considering that the elemental form may readily convert to HTO outside of the waste package. The possible use of a multilayer film as packing material for the conditioning of tritiated waste is assessed, and its capability to hinder the permeation of elemental tritium is measured and compared with that of bare HDPE. The material investigated is readily available from the food industry. 5 refs., 1 tab

  4. Correcting for the free energy costs of bond or angle constraints in molecular dynamics simulations.

    Science.gov (United States)

    König, Gerhard; Brooks, Bernard R

    2015-05-01

    Free energy simulations are an important tool in the arsenal of computational biophysics, allowing the calculation of thermodynamic properties of binding or enzymatic reactions. This paper introduces methods to increase the accuracy and precision of free energy calculations by calculating the free energy costs of constraints during post-processing. The primary purpose of employing constraints for these free energy methods is to increase the phase space overlap between ensembles, which is required for accuracy and convergence. The free energy costs of applying or removing constraints are calculated as additional explicit steps in the free energy cycle. The new techniques focus on hard degrees of freedom and use both gradients and Hessian estimation. Enthalpy, vibrational entropy, and Jacobian free energy terms are considered. We demonstrate the utility of this method with simple classical systems involving harmonic and anharmonic oscillators, four-atomic benchmark systems, an alchemical mutation of ethane to methanol, and free energy simulations between alanine and serine. The errors for the analytical test cases are all below 0.0007kcal/mol, and the accuracy of the free energy results of ethane to methanol is improved from 0.15 to 0.04kcal/mol. For the alanine to serine case, the phase space overlaps of the unconstrained simulations range between 0.15 and 0.9%. The introduction of constraints increases the overlap up to 2.05%. On average, the overlap increases by 94% relative to the unconstrained value and precision is doubled. The approach reduces errors arising from constraints by about an order of magnitude. Free energy simulations benefit from the use of constraints through enhanced convergence and higher precision. The primary utility of this approach is to calculate free energies for systems with disparate energy surfaces and bonded terms, especially in multi-scale molecular mechanics/quantum mechanics simulations. This article is part of a Special Issue

  5. Differential permeation of piroxicam-loaded PLGA micro/nanoparticles and their in vitro enhancement

    International Nuclear Information System (INIS)

    Shankarayan, Raju; Kumar, Sumit; Mishra, Prashant

    2013-01-01

    Piroxicam is a non-steroidal anti-inflammatory drug used for the treatment of musculoskeletal pain. The main problem encountered when piroxicam is administered orally is its gastric side-effect (ulcer, bleeding and holes in the stomach). Transmucosal delivery and encapsulation of piroxicam in biodegradable particles offer potential advantages over conventional oral delivery. The present study was aimed to develop an alternative to piroxicam-delivery which could overcome the direct contact of the drug at the mucosal membrane and its permeation through the mucosal membrane was studied. To achieve this, the piroxicam was encapsulated in Poly (lactide-co-glycolide) (PLGA) microparticles (size 1–4 μm, encapsulation efficiency 80–85 %) and nanoparticles (size 151.6 ± 28.6 nm, encapsulation efficiency 92.17 ± 3.08 %). Various formulation process parameters were optimised for the preparation of piroxicam-loaded PLGA nanoparticles of optimal size and encapsulation efficiency. Transmucosal permeability of piroxicam-loaded PLGA micro- and nanoparticles through the porcine oesophageal mucosa was studied. Using fluorescently labelled PLGA micro- and nanoparticles, size-dependent permeation was demonstrated. Furthermore, the effect of different permeation enhancers on the flux rate and permeability coefficient for the permeation of nanoparticles was investigated. The results suggested that amongst the permeation enhancers used the most efficient enhancement of permeation was observed with 10 mM sodium dodecyl sulphate.

  6. Differential permeation of piroxicam-loaded PLGA micro/nanoparticles and their in vitro enhancement

    Energy Technology Data Exchange (ETDEWEB)

    Shankarayan, Raju; Kumar, Sumit; Mishra, Prashant, E-mail: pmishra@dbeb.iitd.ac.in [Indian Institute of Technology Delhi, Department of Biochemical Engineering and Biotechnology (India)

    2013-03-15

    Piroxicam is a non-steroidal anti-inflammatory drug used for the treatment of musculoskeletal pain. The main problem encountered when piroxicam is administered orally is its gastric side-effect (ulcer, bleeding and holes in the stomach). Transmucosal delivery and encapsulation of piroxicam in biodegradable particles offer potential advantages over conventional oral delivery. The present study was aimed to develop an alternative to piroxicam-delivery which could overcome the direct contact of the drug at the mucosal membrane and its permeation through the mucosal membrane was studied. To achieve this, the piroxicam was encapsulated in Poly (lactide-co-glycolide) (PLGA) microparticles (size 1-4 {mu}m, encapsulation efficiency 80-85 %) and nanoparticles (size 151.6 {+-} 28.6 nm, encapsulation efficiency 92.17 {+-} 3.08 %). Various formulation process parameters were optimised for the preparation of piroxicam-loaded PLGA nanoparticles of optimal size and encapsulation efficiency. Transmucosal permeability of piroxicam-loaded PLGA micro- and nanoparticles through the porcine oesophageal mucosa was studied. Using fluorescently labelled PLGA micro- and nanoparticles, size-dependent permeation was demonstrated. Furthermore, the effect of different permeation enhancers on the flux rate and permeability coefficient for the permeation of nanoparticles was investigated. The results suggested that amongst the permeation enhancers used the most efficient enhancement of permeation was observed with 10 mM sodium dodecyl sulphate.

  7. Differential permeation of piroxicam-loaded PLGA micro/nanoparticles and their in vitro enhancement

    Science.gov (United States)

    Shankarayan, Raju; Kumar, Sumit; Mishra, Prashant

    2013-03-01

    Piroxicam is a non-steroidal anti-inflammatory drug used for the treatment of musculoskeletal pain. The main problem encountered when piroxicam is administered orally is its gastric side-effect (ulcer, bleeding and holes in the stomach). Transmucosal delivery and encapsulation of piroxicam in biodegradable particles offer potential advantages over conventional oral delivery. The present study was aimed to develop an alternative to piroxicam-delivery which could overcome the direct contact of the drug at the mucosal membrane and its permeation through the mucosal membrane was studied. To achieve this, the piroxicam was encapsulated in Poly (lactide- co-glycolide) (PLGA) microparticles (size 1-4 μm, encapsulation efficiency 80-85 %) and nanoparticles (size 151.6 ± 28.6 nm, encapsulation efficiency 92.17 ± 3.08 %). Various formulation process parameters were optimised for the preparation of piroxicam-loaded PLGA nanoparticles of optimal size and encapsulation efficiency. Transmucosal permeability of piroxicam-loaded PLGA micro- and nanoparticles through the porcine oesophageal mucosa was studied. Using fluorescently labelled PLGA micro- and nanoparticles, size-dependent permeation was demonstrated. Furthermore, the effect of different permeation enhancers on the flux rate and permeability coefficient for the permeation of nanoparticles was investigated. The results suggested that amongst the permeation enhancers used the most efficient enhancement of permeation was observed with 10 mM sodium dodecyl sulphate.

  8. Reply to Comment on 'On the importance of the free energy for elasticity under pressure'

    International Nuclear Information System (INIS)

    Marcus, P M; Qiu, S L

    2004-01-01

    All criticisms by Steinle-Neumann and Cohen of the correctness of our calculations of equilibrium structure and elastic constants under pressure from the Gibbs free energy are answered and the criticisms are rejected. The difference between the free energy and the internal energy as functions of structure is described to clarify the use of the free energy. The meaning of elastic constants in a system under pressure is discussed in order to derive the basic quadratic expansion of the free energy in the strains. The coefficients in the expansion are the elastic constants under pressure and are in agreement with well-known work. We give reasons why calculations based on the Gibbs free energy are simpler and more accurate than the usual calculations based on minima of the energy at constant volume. (reply)

  9. Chromatic response of polydiacetylene vesicle induced by the permeation of methotrexate.

    Science.gov (United States)

    Shin, Min Jae; Kim, Ye Jin; Kim, Jong-Duk

    2015-07-07

    The noble vesicular system of polydiacetylene showed a red shift using two types of detecting systems. One of the systems involves the absorption of target materials from the outer side of the vesicle, and the other system involves the permeation through the vesicular layers from within the vesicle. The chromatic mixed vesicles of N-(2-aminoethyl)pentacosa-10,12-diynamide (AEPCDA) and dimethyldioctadecylammonium chloride (DODAC) were fabricated by sonication, followed by polymerization by UV irradiation. The stability of monomeric vesicles was observed to increase with the polymerization of the vesicles. Methotrexate was used as a target material. The polymerized mixed vesicles having a blue color were exposed to a concentration gradient of methotrexate, and a red shift was observed indicating the adsorption of methotrexate on the polydiacetylene bilayer. In order to check the chromatic change by the permeation of methotrexate, we separated the vesicle portion, which contained methotrexate inside the vesicle, and checked chromatic change during the permeation of methotrexate through the vesicle. The red shift apparently indicates the disturbance in the bilayer induced by the permeation of methotrexate. The maximum contrast of color appeared at the equal molar ratio of AEPCDA and DODAC, indicating that the formation of flexible and deformable vesicular layers is important for red shift. Therefore, it is hypothesized that the system can be applicable for the chromatic detection of the permeation of methotrexate through the polydiacetylene layer.

  10. A simple free energy for the isotropic-nematic phase transition of rods

    NARCIS (Netherlands)

    Tuinier, R.

    2016-01-01

    A free energy expression is proposed that describes the isotropic-nematic binodal concentrations of hard rods. A simple analytical form for this free energy was yet only available using a Gaussian trial function for the orientation distribution function (ODF), leading, however, to a significant

  11. Variationally Optimized Free-Energy Flooding for Rate Calculation

    Science.gov (United States)

    McCarty, James; Valsson, Omar; Tiwary, Pratyush; Parrinello, Michele

    2015-08-01

    We propose a new method to obtain kinetic properties of infrequent events from molecular dynamics simulation. The procedure employs a recently introduced variational approach [Valsson and Parrinello, Phys. Rev. Lett. 113, 090601 (2014)] to construct a bias potential as a function of several collective variables that is designed to flood the associated free energy surface up to a predefined level. The resulting bias potential effectively accelerates transitions between metastable free energy minima while ensuring bias-free transition states, thus allowing accurate kinetic rates to be obtained. We test the method on a few illustrative systems for which we obtain an order of magnitude improvement in efficiency relative to previous approaches and several orders of magnitude relative to unbiased molecular dynamics. We expect an even larger improvement in more complex systems. This and the ability of the variational approach to deal efficiently with a large number of collective variables will greatly enhance the scope of these calculations. This work is a vindication of the potential that the variational principle has if applied in innovative ways.

  12. Financial Permeation and Economic Growth: Evidence from Sub-Saharan Africa

    OpenAIRE

    Inoue, Takeshi; Hamori, Shigeyuki

    2013-01-01

    This article empirically analyzes the role of finance in economic growth in Sub-Saharan Africa from the perspective of what is termed herein “financial permeation”. By estimating panel data on 37 countries in Sub-Saharan Africa between 2004 and 2010, we examine whether financial permeation through improved convenience and access to financial services has contributed to economic growth in this region. Empirical results clearly indicate that financial permeation has a statistically significant ...

  13. Measurement of tritium permeation through resistant materials near room temperature

    International Nuclear Information System (INIS)

    Maienschein, J.; DuVal, V.; McMurphy, F.; Uribe, F.; Musket, R.; Brown, D.

    1985-01-01

    To measure tritium permeation through low-permeability materials at 50 to 170 0 C, we use highly-sensitive liquid scintillation counting to detect the permeating tritium. To validate our method, we conducted extensive experiments with copper, for which much data exists for comparison. We report permeability of tritium through copper at 50, 100, and 170 0 C, and discuss details of the experimental technique. Further plans are outlined. 15 refs., 5 figs., 1 tab

  14. BFEE: A User-Friendly Graphical Interface Facilitating Absolute Binding Free-Energy Calculations.

    Science.gov (United States)

    Fu, Haohao; Gumbart, James C; Chen, Haochuan; Shao, Xueguang; Cai, Wensheng; Chipot, Christophe

    2018-03-26

    Quantifying protein-ligand binding has attracted the attention of both theorists and experimentalists for decades. Many methods for estimating binding free energies in silico have been reported in recent years. Proper use of the proposed strategies requires, however, adequate knowledge of the protein-ligand complex, the mathematical background for deriving the underlying theory, and time for setting up the simulations, bookkeeping, and postprocessing. Here, to minimize human intervention, we propose a toolkit aimed at facilitating the accurate estimation of standard binding free energies using a geometrical route, coined the binding free-energy estimator (BFEE), and introduced it as a plug-in of the popular visualization program VMD. Benefitting from recent developments in new collective variables, BFEE can be used to generate the simulation input files, based solely on the structure of the complex. Once the simulations are completed, BFEE can also be utilized to perform the post-treatment of the free-energy calculations, allowing the absolute binding free energy to be estimated directly from the one-dimensional potentials of mean force in simulation outputs. The minimal amount of human intervention required during the whole process combined with the ergonomic graphical interface makes BFEE a very effective and practical tool for the end-user.

  15. Thermodynamic free energy methods to investigate shape transitions in bilayer membranes.

    Science.gov (United States)

    Ramakrishnan, N; Tourdot, Richard W; Radhakrishnan, Ravi

    2016-06-01

    The conformational free energy landscape of a system is a fundamental thermodynamic quantity of importance particularly in the study of soft matter and biological systems, in which the entropic contributions play a dominant role. While computational methods to delineate the free energy landscape are routinely used to analyze the relative stability of conformational states, to determine phase boundaries, and to compute ligand-receptor binding energies its use in problems involving the cell membrane is limited. Here, we present an overview of four different free energy methods to study morphological transitions in bilayer membranes, induced either by the action of curvature remodeling proteins or due to the application of external forces. Using a triangulated surface as a model for the cell membrane and using the framework of dynamical triangulation Monte Carlo, we have focused on the methods of Widom insertion, thermodynamic integration, Bennett acceptance scheme, and umbrella sampling and weighted histogram analysis. We have demonstrated how these methods can be employed in a variety of problems involving the cell membrane. Specifically, we have shown that the chemical potential, computed using Widom insertion, and the relative free energies, computed using thermodynamic integration and Bennett acceptance method, are excellent measures to study the transition from curvature sensing to curvature inducing behavior of membrane associated proteins. The umbrella sampling and WHAM analysis has been used to study the thermodynamics of tether formation in cell membranes and the quantitative predictions of the computational model are in excellent agreement with experimental measurements. Furthermore, we also present a method based on WHAM and thermodynamic integration to handle problems related to end-point-catastrophe that are common in most free energy methods.

  16. Temperature effects on the nuclear symmetry energy and symmetry free energy with an isospin and momentum dependent interaction

    International Nuclear Information System (INIS)

    Xu, Jun; Ma, Hong-Ru; Chen, Lie-Wen; Li, Bao-An

    2007-01-01

    Within a self-consistent thermal model using an isospin and momentum dependent interaction (MDI) constrained by the isospin diffusion data in heavy-ion collisions, we investigate the temperature dependence of the symmetry energy E sym (ρ,T) and symmetry free energy F sym (ρ,T) for hot, isospin asymmetric nuclear matter. It is shown that the symmetry energy E sym (ρ,T) generally decreases with increasing temperature while the symmetry free energy F sym (ρ,T) exhibits opposite temperature dependence. The decrement of the symmetry energy with temperature is essentially due to the decrement of the potential energy part of the symmetry energy with temperature. The difference between the symmetry energy and symmetry free energy is found to be quite small around the saturation density of nuclear matter. While at very low densities, they differ significantly from each other. In comparison with the experimental data of temperature dependent symmetry energy extracted from the isotopic scaling analysis of intermediate mass fragments (IMF's) in heavy-ion collisions, the resulting density and temperature dependent symmetry energy E sym (ρ,T) is then used to estimate the average freeze-out density of the IMF's

  17. Effect of chemical permeation enhancers on stratum corneum barrier lipid organizational structure and interferon alpha permeability.

    Science.gov (United States)

    Moghadam, Shadi H; Saliaj, Evi; Wettig, Shawn D; Dong, Chilbert; Ivanova, Marina V; Huzil, J Torin; Foldvari, Marianna

    2013-06-03

    The outermost layer of the skin, known as the stratum corneum (SC), is composed of dead corneocytes embedded in an intercellular lipid matrix consisting of ceramides, free fatty acids, and cholesterol. The high level of organization within this matrix protects the body by limiting the permeation of most compounds through the skin. While essential for its protective functions, the SC poses a significant barrier for the delivery of topically applied pharmaceutical agents. Chemical permeation enhancers (CPEs) can increase delivery of small drug compounds into the skin by interacting with the intercellular lipids through physical processes including extraction, fluidization, increased disorder, and phase separation. However, it is not clear whether these same mechanisms are involved in delivery of biotherapeutic macromolecules, such as proteins. Here we describe the effect of three categories of CPEs {solvents [ethanol, propylene glycol, diethylene glycol monoethyl ether (transcutol), oleic acid], terpenes [menthol, nerol, camphor, methyl salicylate], and surfactants [Tween 80, SDS, benzalkonium chloride, polyoxyl 40 hydrogenated castor oil (Cremophor RH40), didecyldimethylammonium bromide (DDAB), didecyltrimethylammonium bromide (DTAB)]} on the lipid organizational structure of human SC as determined by X-ray scattering studies. Small- and wide-angle X-ray scattering studies were conducted to correlate the degree of structural changes and hydrocarbon chain packing in SC lipids caused by these various classes of CPEs to the extent of permeation of interferon alpha-2b (IFNα), a 19 kDa protein drug, into human skin. With the exception of solvents, propylene glycol and ethanol, all classes of CPEs caused increased disordering of lamellar and lateral packing of lipids. We observed that the highest degree of SC lipid disordering was caused by surfactants (especially SDS, DDAB, and DTAB) followed by terpenes, such as nerol. Interestingly, in vitro skin permeation studies

  18. Characterization of the titanium Kβ spectral profile

    International Nuclear Information System (INIS)

    Chantler, C T; Smale, L F; Kinnane, M N; Illig, A J; Kimpton, J A; Crosby, D N

    2013-01-01

    Transition metals have Kα and Kβ characteristic radiation possessing complex asymmetric spectral profiles. Instrumental broadening normally encountered in x-ray experiments shifts features of profiles used for calibration, such as peak energy, by many times the quoted accuracies. We measure and characterize the titanium Kβ spectral profile. The peak energy of the titanium Kβ spectral profile is found to be 4931.966 ± 0.022 eV prior to instrumental broadening. This 4.5 ppm result decreases the uncertainty over the past literature by a factor of 2.6 and is 2.4 standard deviations from the previous standard. The spectrum is analysed and the resolution-free lineshape is extracted and listed for use in other experiments. We also incorporate improvement in analysis applied to earlier results for V Kβ. (paper)

  19. Performance profiles of major energy producers 1993

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1995-01-01

    Performance Profiles of Major Energy Producers 1993 is the seventeenth annual report of the Energy Information Administration`s (EIA) Financial Reporting System (FRS). The report examines financial and operating developments in energy markets, with particular reference to the 25 major US energy companies required to report annually on Form EIA-28. Financial information is reported by major liens of business, including oil and gas production, petroleum refining and marketing, other energy operations, and nonenergy businesses. Financial and operating results are presented in the context of energy market developments with a view toward identifying changing corporate strategies and measuring the performance of ongoing operations both in the US and abroad. This year`s report analyzes financial and operating developments for 1993 (Part 1: Developments in 1993) and also reviews key developments during the 20 years following the Arab Oil Embargo of 1973--1974 (Part 2: Major Energy Company Strategies Since the Arab Oil Embargo). 49 figs., 104 tabs.

  20. Results and analysis of free-electron-laser oscillation in a high-energy storage ring

    International Nuclear Information System (INIS)

    Couprie, M.E.; Velghe, M.; Prazeres, R.; Jaroszynski, D.; Billardon, M.

    1991-01-01

    A storage-ring free-electron laser at Orsay has been operating since 1989 in the visible wavelength range. In contrast with previous experiments, it operates with positrons and at higher energies (600--800 MeV), with the storage ring Super-ACO (ACO denotes Anneau de Collisions d'Orsay). The optical gain, the laser power, the transverse profile, and the macrotemporal structure of the laser are analyzed. In particular, we show that the gain matrix possesses many off-diagonal elements, which results in lasing on a combination of noncylindrical Gaussian modes. The eigenmode of the laser oscillation is a combination of one or two main Gaussian modes and several higher-order modes, which results in most of the power being extracted in these modes

  1. Interfacial free energy and stiffness of aluminum during rapid solidification

    International Nuclear Information System (INIS)

    Brown, Nicholas T.; Martinez, Enrique; Qu, Jianmin

    2017-01-01

    Using molecular dynamics simulations and the capillary fluctuation method, we have calculated the anisotropic crystal-melt interfacial free energy and stiffness of aluminum in a rapid solidification system where a temperature gradient is applied to enforce thermal non-equilibrium. To calculate these material properties, the standard capillary fluctuation method typically used for systems in equilibrium has been modified to incorporate a second-order Taylor expansion of the interfacial free energy term. The result is a robust method for calculating interfacial energy, stiffness and anisotropy as a function of temperature gradient using the fluctuations in the defined interface height. This work includes the calculation of interface characteristics for temperature gradients ranging from 11 to 34 K/nm. The captured results are compared to a thermal equilibrium case using the same model and simulation technique with a zero gradient definition. We define the temperature gradient as the change in temperature over height perpendicular to the crystal-melt interface. The gradients are applied in MD simulations using defined thermostat regions on a stable solid-liquid interface initially in thermal equilibrium. The results of this work show that the interfacial stiffness and free energy for aluminum are dependent on the magnitude of the temperature gradient, however the anisotropic parameters remain independent of the non-equilibrium conditions applied in this analysis. As a result, the relationships of the interfacial free energy/stiffness are determined to be linearly related to the thermal gradient, and can be interpolated to find material characteristics at additional temperature gradients.

  2. Energy of Force-Free Magnetic Fields in Relation to Coronal Mass Ejections

    International Nuclear Information System (INIS)

    Choe, G.S.; Cheng, C.Z.

    2002-01-01

    In typical observations of coronal mass ejections (CMEs), a magnetic structure of a helmet-shaped closed configuration bulges out and eventually opens up. However, a spontaneous transition between these field configurations has been regarded to be energetically impossible in force-free fields according to the Aly-Sturrock theorem. The theorem states that the maximum energy state of force-free fields with a given boundary normal field distribution is the open field. The theorem implicitly assumes the existence of the maximum energy state, which may not be taken for granted. In this study, we have constructed force-free fields containing tangential discontinuities in multiple flux systems. These force-free fields can be generated from a potential field by footpoint motions that do not conserve the boundary normal field distribution. Some of these force-free fields are found to have more magnetic energy than the corresponding open fields. The constructed force-free configurations are compared with observational features of CME-bearing active regions. Possible mechanisms of CMEs are also discussed

  3. Energy Profiles of an Agricultural Frontier: The American Great Plains, 1860-2000.

    Science.gov (United States)

    Cunfer, Geoff; Watson, Andrew; MacFadyen, Joshua

    2018-04-01

    Agro-ecosystem energy profiles reveal energy flows into, within, and out of U.S. Great Plains farm communities across 140 years. This study evaluates external energy inputs such as human labor, machinery, fuel, and fertilizers. It tracks the energy content of land produce, including crops, grazed pasture, and firewood, and also accounts unharvested energy that remains available for wildlife. It estimates energy redirected through livestock feed into draft power, meat, and milk, and estimates the energy content of final produce available for local consumption or market sale. The article presents energy profiles for three case studies in Kansas in 1880, 1930, 1954, and 1997. Two energy transformations occurred during that time. The first, agricultural colonization , saw farm communities remake the landscape, turning native grassland into a mosaic of cropland and pasture, a process that reduced overall landscape energy productivity. A second energy transition occurred in the mid-twentieth century, characterized by fossil fuel energy imports. That outside energy raised harvested and unharvested energy flows, reused biomass energy, and also final produce. This socio-ecological transition increased landscape energy productivity by 33 to 45 percent above pre-settlement conditions in grain-growing regions. These energy developments were not uniform across the plains. Variations in rainfall and soil quality constrained or favored energy productivity in different places. The case studies reveal the spatial variation of energy profiles in Great Plains agro-ecosystems, while the longitudinal approach tracks temporal change.

  4. Efficient free energy calculations for compounds with multiple stable conformations separated by high energy barriers

    NARCIS (Netherlands)

    Hritz, J.; Oostenbrink, C.

    2009-01-01

    Compounds with high intramolecular energy barriers represent challenging targets for free energy calculations because of the difficulty to obtain sufficient conformational sampling. Existing approaches are therefore computationally very demanding, thus preventing practical applications for such

  5. Predicting Low Energy Dopant Implant Profiles in Semiconductors using Molecular Dynamics

    Energy Technology Data Exchange (ETDEWEB)

    Beardmore, K.M.; Gronbech-Jensen, N.

    1999-05-02

    The authors present a highly efficient molecular dynamics scheme for calculating dopant density profiles in group-IV alloy, and III-V zinc blende structure materials. Their scheme incorporates several necessary methods for reducing computational overhead, plus a rare event algorithm to give statistical accuracy over several orders of magnitude change in the dopant concentration. The code uses a molecular dynamics (MD) model to describe ion-target interactions. Atomic interactions are described by a combination of 'many-body' and pair specific screened Coulomb potentials. Accumulative damage is accounted for using a Kinchin-Pease type model, inelastic energy loss is represented by a Firsov expression, and electronic stopping is described by a modified Brandt-Kitagawa model which contains a single adjustable ion-target dependent parameter. Thus, the program is easily extensible beyond a given validation range, and is therefore truly predictive over a wide range of implant energies and angles. The scheme is especially suited for calculating profiles due to low energy and to situations where a predictive capability is required with the minimum of experimental validation. They give examples of using the code to calculate concentration profiles and 2D 'point response' profiles of dopants in crystalline silicon and gallium-arsenide. Here they can predict the experimental profile over five orders of magnitude for <100> and <110> channeling and for non-channeling implants at energies up to hundreds of keV.

  6. A Variational Approach to Enhanced Sampling and Free Energy Calculations

    Science.gov (United States)

    Parrinello, Michele

    2015-03-01

    The presence of kinetic bottlenecks severely hampers the ability of widely used sampling methods like molecular dynamics or Monte Carlo to explore complex free energy landscapes. One of the most popular methods for addressing this problem is umbrella sampling which is based on the addition of an external bias which helps overcoming the kinetic barriers. The bias potential is usually taken to be a function of a restricted number of collective variables. However constructing the bias is not simple, especially when the number of collective variables increases. Here we introduce a functional of the bias which, when minimized, allows us to recover the free energy. We demonstrate the usefulness and the flexibility of this approach on a number of examples which include the determination of a six dimensional free energy surface. Besides the practical advantages, the existence of such a variational principle allows us to look at the enhanced sampling problem from a rather convenient vantage point.

  7. Rationalizing the permeation of polar antibiotics into Gram-negative bacteria

    International Nuclear Information System (INIS)

    Scorciapino, Mariano Andrea; Acosta-Gutierrez, Silvia; Benkerrou, Dehbia; D’Agostino, Tommaso; Malloci, Giuliano; Samanta, Susruta; Bodrenko, Igor; Ceccarelli, Matteo

    2017-01-01

    The increasing level of antibiotic resistance in Gram-negative bacteria, together with the lack of new potential drug scaffolds in the pipeline, make the problem of infectious diseases a global challenge for modern medicine. The main reason that Gram-negative bacteria are particularly challenging is the presence of an outer cell-protecting membrane, which is not present in Gram-positive species. Such an asymmetric bilayer is a highly effective barrier for polar molecules. Several protein systems are expressed in the outer membrane to control the internal concentration of both nutrients and noxious species, in particular: (i) water-filled channels that modulate the permeation of polar molecules and ions according to concentration gradients, and (ii) efflux pumps to actively expel toxic compounds. Thus, besides expressing specific enzymes for drugs degradation, Gram-negative bacteria can also resist by modulating the influx and efflux of antibiotics, keeping the internal concentration low. However, there are no direct and robust experimental methods capable of measuring the permeability of small molecules, thus severely limiting our knowledge of the molecular mechanisms that ultimately control the permeation of antibiotics through the outer membrane. This is the innovation gap to be filled for Gram-negative bacteria. This review is focused on the permeation of small molecules through porins, considered the main path for the entry of polar antibiotics into Gram-negative bacteria. A fundamental understanding of how these proteins are able to filter small molecules is a prerequisite to design/optimize antibacterials with improved permeation. The level of sophistication of modern molecular modeling algorithms and the advances in new computer hardware has made the simulation of such complex processes possible at the molecular level. In this work we aim to share our experience and perspectives in the context of a multidisciplinary extended collaboration within the IMI

  8. Rationalizing the permeation of polar antibiotics into Gram-negative bacteria

    Science.gov (United States)

    Scorciapino, Mariano Andrea; Acosta-Gutierrez, Silvia; Benkerrou, Dehbia; D'Agostino, Tommaso; Malloci, Giuliano; Samanta, Susruta; Bodrenko, Igor; Ceccarelli, Matteo

    2017-03-01

    The increasing level of antibiotic resistance in Gram-negative bacteria, together with the lack of new potential drug scaffolds in the pipeline, make the problem of infectious diseases a global challenge for modern medicine. The main reason that Gram-negative bacteria are particularly challenging is the presence of an outer cell-protecting membrane, which is not present in Gram-positive species. Such an asymmetric bilayer is a highly effective barrier for polar molecules. Several protein systems are expressed in the outer membrane to control the internal concentration of both nutrients and noxious species, in particular: (i) water-filled channels that modulate the permeation of polar molecules and ions according to concentration gradients, and (ii) efflux pumps to actively expel toxic compounds. Thus, besides expressing specific enzymes for drugs degradation, Gram-negative bacteria can also resist by modulating the influx and efflux of antibiotics, keeping the internal concentration low. However, there are no direct and robust experimental methods capable of measuring the permeability of small molecules, thus severely limiting our knowledge of the molecular mechanisms that ultimately control the permeation of antibiotics through the outer membrane. This is the innovation gap to be filled for Gram-negative bacteria. This review is focused on the permeation of small molecules through porins, considered the main path for the entry of polar antibiotics into Gram-negative bacteria. A fundamental understanding of how these proteins are able to filter small molecules is a prerequisite to design/optimize antibacterials with improved permeation. The level of sophistication of modern molecular modeling algorithms and the advances in new computer hardware has made the simulation of such complex processes possible at the molecular level. In this work we aim to share our experience and perspectives in the context of a multidisciplinary extended collaboration within the IMI

  9. Changes in chemical permeation of disposable latex, nitrile, and vinyl gloves exposed to simulated movement.

    Science.gov (United States)

    Phalen, Robert N; Le, Thi; Wong, Weng Kee

    2014-01-01

    Glove movement can affect chemical permeation of organic compounds through polymer glove products. However, conflicting reports make it difficult to compare the effects of movement on chemical permeation through commonly available glove types. The aim of this study was to evaluate the effect of movement on chemical permeation of an organic solvent through disposable latex, nitrile, and vinyl gloves. Simulated whole-glove permeation testing was conducted using ethyl alcohol and a previously designed permeation test system. With exposure to movement, a significant decrease (p ≤ 0.001) in breakthrough time (BT) was observed for the latex (-23%) and nitrile gloves (-31%). With exposure to movement, only the nitrile glove exhibited a significant increase (p ≤ 0.001) in steady-state permeation rate (+47%) and cumulative permeation at 30 min (+111%). Even though the nitrile glove provided optimum chemical resistance against ethyl alcohol, it was most affected by movement. With exposure to movement, the latex glove was an equivalent option for overall worker protection, because it was less affected by movement and the permeation rate was lower than that of the nitrile glove. In contrast, the vinyl glove was the least affected by movement, but did not provide adequate chemical resistance to ethyl alcohol in comparison with the nitrile and latex gloves. Glove selection should take movement and polymer type into account. Some glove polymer types are less affected by movement, most notably the latex glove in this test. With nitrile gloves, at least a factor of three should be used when attempting to assign a protection factor when repetitive hand motions are anticipated. Ultimately, the latex gloves outperformed nitrile and vinyl in these tests, which evaluated the effect of movement on chemical permeation. Future research should aim to resolve some of the observed discrepancies in test results with latex and vinyl gloves.

  10. Modeling the Effects of Interfacial Characteristics on Gas Permeation Behavior of Nanotube-Mixed Matrix Membranes.

    Science.gov (United States)

    Chehrazi, Ehsan; Sharif, Alireza; Omidkhah, Mohammadreza; Karimi, Mohammad

    2017-10-25

    Theoretical approaches that accurately predict the gas permeation behavior of nanotube-containing mixed matrix membranes (nanotube-MMMs) are scarce. This is mainly due to ignoring the effects of nanotube/matrix interfacial characteristics in the existing theories. In this paper, based on the analogy of thermal conduction in polymer composites containing nanotubes, we develop a model to describe gas permeation through nanotube-MMMs. Two new parameters, "interfacial thickness" (a int ) and "interfacial permeation resistance" (R int ), are introduced to account for the role of nanotube/matrix interfacial interactions in the proposed model. The obtained values of a int , independent of the nature of the permeate gas, increased by increasing both the nanotubes aspect ratio and polymer-nanotube interfacial strength. An excellent correlation between the values of a int and polymer-nanotube interaction parameters, χ, helped to accurately reproduce the existing experimental data from the literature without the need to resort to any adjustable parameter. The data includes 10 sets of CO 2 /CH 4 permeation, 12 sets of CO 2 /N 2 permeation, 3 sets of CO 2 /O 2 permeation, and 2 sets of CO 2 /H 2 permeation through different nanotube-MMMs. Moreover, the average absolute relative errors between the experimental data and the predicted values of the proposed model are very small (less than 5%) in comparison with those of the existing models in the literature. To the best of our knowledge, this is the first study where such a systematic comparison between model predictions and such extensive experimental data is presented. Finally, the new way of assessing gas permeation data presented in the current work would be a simple alternative to complex approaches that are usually utilized to estimate interfacial thickness in polymer composites.

  11. CAN THE STABILITY OF PROTEIN MUTANTS BE PREDICTED BY FREE-ENERGY CALCULATIONS

    NARCIS (Netherlands)

    YUNYU, S; MARK, AE; WANG, CX; HUANG, FH; BERENDSEN, HJC; VANGUNSTEREN, WF

    The use of free energy simulation techniques in the study of protein stability is critically evaluated. Results from two simulations of the thermostability mutation Asn218 to Ser218 in Subtilisin are presented. It is shown that components of the free energy change can be highly sensitive to the

  12. FESetup: Automating Setup for Alchemical Free Energy Simulations.

    Science.gov (United States)

    Loeffler, Hannes H; Michel, Julien; Woods, Christopher

    2015-12-28

    FESetup is a new pipeline tool which can be used flexibly within larger workflows. The tool aims to support fast and easy setup of alchemical free energy simulations for molecular simulation packages such as AMBER, GROMACS, Sire, or NAMD. Post-processing methods like MM-PBSA and LIE can be set up as well. Ligands are automatically parametrized with AM1-BCC, and atom mappings for a single topology description are computed with a maximum common substructure search (MCSS) algorithm. An abstract molecular dynamics (MD) engine can be used for equilibration prior to free energy setup or standalone. Currently, all modern AMBER force fields are supported. Ease of use, robustness of the code, and automation where it is feasible are the main development goals. The project follows an open development model, and we welcome contributions.

  13. Nonlocal Free Energy of a Spatially Inhomogeneous Superconductor

    International Nuclear Information System (INIS)

    Grigorishin, K.V.; Lev, B.I.

    2012-01-01

    The microscopic approach is developed for obtaining of the free energy of a superconductor based on direct calculation of the vacuum amplitude. The free energy functional of the spatially inhomogeneous superconductor in a magnetic field is obtained with help of the developed approach. The obtained functional is generalization of Ginzburg-Landau functionals for any temperature, for arbitrary spatial variations of the order parameter and for the nonlocality of a magnetic response and the order parameter. Moreover, the nonlocality of the magnetic response is the consequence of order parameter's nonlocality. The extremals of this functional are considered in the explicit form in the low- and high-temperature limit at the condition of slowness of spatial variations of the order parameter. (condensed matter: electronic structure, electrical, magnetic, and optical properties)

  14. Descriptive sensory analysis in different classes of orange juice by a robust free-choice profile method.

    Science.gov (United States)

    Pérez Aparicio, Jesús; Toledano Medina, M Angeles; Lafuente Rosales, Victoria

    2007-07-09

    Free-choice profile (FCP), developed in the 1980s, is a sensory analysis method that can be carried out by untrained panels. The participants need only to be able to use a scale and be consumers of the product under evaluation. The data are analysed by sophisticated statistical methodologies like Generalized Procrustean Analysis (GPA) or STATIS. To facilitate a wider use of the free-choice profiling procedure, different authors have advocated simpler methods based on principal components analysis (PCA) of merged data sets. The purpose of this work was to apply another easy procedure to this type of data by means of a robust PCA. The most important characteristic of the proposed method is that quality responsible managers could use this methodology without any scale evaluation. Only the free terms generated by the assessors are necessary to apply the script, thus avoiding the error associated with scale utilization by inexpert assessors. Also, it is possible to use the application with missing data and with differences in the assessors' attendance at sessions. An example was performed to generate the descriptors from different orange juice types. The results were compared with the STATIS method and with the PCA on the merged data sets. The samples evaluated were fresh orange juices with differences in storage days and pasteurized, concentrated and orange nectar drinks from different brands. Eighteen assessors with a low-level training program were used in a six-session free-choice profile framework. The results proved that this script could be of use in marketing decisions and product quality program development.

  15. Double electrolyte sensor for monitoring hydrogen permeation rate in steels

    International Nuclear Information System (INIS)

    Ouyang, Y.J.; Yu, G.; Ou, A.L.; Hu, L.; Xu, W.J.

    2011-01-01

    Highlights: → Designed an amperometric hydrogen sensor with double electrolytes. → Explained the principle of determining hydrogen permeation rate. → Verified good stability, reproducibility and correctness of the developed sensor. → Field on-line monitoring the susceptivity of hydrogen induced cracks. - Abstract: An amperometric hydrogen sensor with double electrolytes composed of a gelatiniform electrolyte and KOH solution has been developed to determine the permeation rate of hydrogen atoms in steel equipment owing to hydrogen corrosion. The gelatiniform electrolyte was made of sodium polyacrylate (PAAS), carboxyl methyl cellulose (CMC) and 0.2 mol dm -3 KOH solution. The results show that the gelatiniform electrolyte containing 50 wt.% polymers has suitable viscosity and high electrical conductivity. The consistent permeation curves were detected by the sensor of the double electrolyte and single liquid KOH electrolyte, respectively. The developed sensor has good stability and reproducibility at room temperature.

  16. Double electrolyte sensor for monitoring hydrogen permeation rate in steels

    Energy Technology Data Exchange (ETDEWEB)

    Ouyang, Y.J. [State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082 (China); Department of Chemistry and Chemical Engineering, Huaihua College, Huaihua 418008 (China); Yu, G., E-mail: yuganghnu@163.co [State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082 (China); Ou, A.L.; Hu, L.; Xu, W.J. [State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082 (China)

    2011-06-15

    Highlights: {yields} Designed an amperometric hydrogen sensor with double electrolytes. {yields} Explained the principle of determining hydrogen permeation rate. {yields} Verified good stability, reproducibility and correctness of the developed sensor. {yields} Field on-line monitoring the susceptivity of hydrogen induced cracks. - Abstract: An amperometric hydrogen sensor with double electrolytes composed of a gelatiniform electrolyte and KOH solution has been developed to determine the permeation rate of hydrogen atoms in steel equipment owing to hydrogen corrosion. The gelatiniform electrolyte was made of sodium polyacrylate (PAAS), carboxyl methyl cellulose (CMC) and 0.2 mol dm{sup -3} KOH solution. The results show that the gelatiniform electrolyte containing 50 wt.% polymers has suitable viscosity and high electrical conductivity. The consistent permeation curves were detected by the sensor of the double electrolyte and single liquid KOH electrolyte, respectively. The developed sensor has good stability and reproducibility at room temperature.

  17. Modeling free energy availability from Hadean hydrothermal systems to the first metabolism.

    Science.gov (United States)

    Simoncini, E; Russell, M J; Kleidon, A

    2011-12-01

    Off-axis Hydrothermal Systems (HSs) are seen as the possible setting for the emergence of life. As the availability of free energy is a general requirement to drive any form of metabolism, we ask here under which conditions free energy generation by geologic processes is greatest and relate these to the conditions found at off-axis HSs. To do so, we present a conceptual model in which we explicitly capture the energetics of fluid motion and its interaction with exothermic reactions to maintain a state of chemical disequilibrium. Central to the interaction is the temperature at which the exothermic reactions take place. This temperature not only sets the equilibrium constant of the chemical reactions and thereby the distance of the actual state to chemical equilibrium, but these reactions also shape the temperature gradient that drives convection and thereby the advection of reactants to the reaction sites and the removal of the products that relate to geochemical free energy generation. What this conceptual model shows is that the positive feedback between convection and the chemical kinetics that is found at HSs favors a greater rate of free energy generation than in the absence of convection. Because of the lower temperatures and because the temperature of reactions is determined more strongly by these dynamics rather than an external heat flux, the conditions found at off-axis HSs should result in the greatest rates of geochemical free energy generation. Hence, we hypothesize from these thermodynamic considerations that off-axis HSs seem most conducive for the emergence of protometabolic pathways as these provide the greatest, abiotic generation rates of chemical free energy.

  18. Probing ultrafast changes of spin and charge density profiles with resonant XUV magnetic reflectivity at the free-electron laser FERMI.

    Science.gov (United States)

    Gutt, C; Sant, T; Ksenzov, D; Capotondi, F; Pedersoli, E; Raimondi, L; Nikolov, I P; Kiskinova, M; Jaiswal, S; Jakob, G; Kläui, M; Zabel, H; Pietsch, U

    2017-09-01

    We report the results of resonant magnetic XUV reflectivity experiments performed at the XUV free-electron laser FERMI. Circularly polarized XUV light with the photon energy tuned to the Fe M 2,3 edge is used to measure resonant magnetic reflectivities and the corresponding Q -resolved asymmetry of a Permalloy/Ta/Permalloy trilayer film. The asymmetry exhibits ultrafast changes on 240 fs time scales upon pumping with ultrashort IR laser pulses. Depending on the value of the wavevector transfer Q z , we observe both decreasing and increasing values of the asymmetry parameter, which is attributed to ultrafast changes in the vertical spin and charge density profiles of the trilayer film.

  19. Free Energy Calculations using a Swarm-Enhanced Sampling Molecular Dynamics Approach.

    Science.gov (United States)

    Burusco, Kepa K; Bruce, Neil J; Alibay, Irfan; Bryce, Richard A

    2015-10-26

    Free energy simulations are an established computational tool in modelling chemical change in the condensed phase. However, sampling of kinetically distinct substates remains a challenge to these approaches. As a route to addressing this, we link the methods of thermodynamic integration (TI) and swarm-enhanced sampling molecular dynamics (sesMD), where simulation replicas interact cooperatively to aid transitions over energy barriers. We illustrate the approach by using alchemical alkane transformations in solution, comparing them with the multiple independent trajectory TI (IT-TI) method. Free energy changes for transitions computed by using IT-TI grew increasingly inaccurate as the intramolecular barrier was heightened. By contrast, swarm-enhanced sampling TI (sesTI) calculations showed clear improvements in sampling efficiency, leading to more accurate computed free energy differences, even in the case of the highest barrier height. The sesTI approach, therefore, has potential in addressing chemical change in systems where conformations exist in slow exchange. © 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  20. Inequalities for magnetic-flux free energies and confinement in lattice gauge theories

    International Nuclear Information System (INIS)

    Yoneya, T.

    1982-01-01

    Rigorous inequalities among magnetic-flux free energies of tori with varying diameters are derived in lattice gauge theories. From the inequalities, it follows that if the magnetic-flux free energy vanishes in the limit of large uniform dilatation of a torus, the free energy must always decrease exponentially with the area of the cross section of the torus. The latter property is known to be sufficient for permanent confinement of static quarks. As a consequence of this property, a lower bound V(R) >= const x R for the static quark-antiquark potential is obtained in three-dimensional U(n) lattice gauge theory for sufficiently large R. (orig.)