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Sample records for chemical kinetics calculations

  1. Trajectory Calculations in Chemical Kinetics

    ERIC Educational Resources Information Center

    Hemphill, Gregory L.; White, John M.

    1972-01-01

    This exercise, suitable for an advanced undergraduate physical chemistry lab, examines the detailed theoretical description of a chemical reaction. Mathematical techniques of moderate complexity serve to introduce some aspects of theoretical chemistry. (Author/TS)

  2. Fast algorithm for calculating chemical kinetics in turbulent reacting flow

    NASA Technical Reports Server (NTRS)

    Radhakrishnan, K.; Pratt, D. T.

    1986-01-01

    This paper addresses the need for a fast batch chemistry solver to perform the kinetics part of a split operator formulation of turbulent reacting flows, with special attention focused on the solution of the ordinary differential equations governing a homogeneous gas-phase chemical reaction. For this purpose, a two-part predictor-corrector algorithm which incorporates an exponentially fitted trapezoidal method was developed. The algorithm performs filtering of ill-posed initial conditions, automatic step-size selection, and automatic selection of Jacobi-Newton or Newton-Raphson iteration for convergence to achieve maximum computational efficiency while observing a prescribed error tolerance. The new algorithm, termed CREK1D (combustion reaction kinetics, one-dimensional), compared favorably with the code LSODE when tested on two representative problems drawn from combustion kinetics, and is faster than LSODE.

  3. APOLLO: A computer program for the calculation of chemical equilibrium and reaction kinetics of chemical systems

    SciTech Connect

    Nguyen, H.D.

    1991-11-01

    Several of the technologies being evaluated for the treatment of waste material involve chemical reactions. Our example is the in situ vitrification (ISV) process where electrical energy is used to melt soil and waste into a ``glass like`` material that immobilizes and encapsulates any residual waste. During the ISV process, various chemical reactions may occur that produce significant amounts of products which must be contained and treated. The APOLLO program was developed to assist in predicting the composition of the gases that are formed. Although the development of this program was directed toward ISV applications, it should be applicable to other technologies where chemical reactions are of interest. This document presents the mathematical methodology of the APOLLO computer code. APOLLO is a computer code that calculates the products of both equilibrium and kinetic chemical reactions. The current version, written in FORTRAN, is readily adaptable to existing transport programs designed for the analysis of chemically reacting flow systems. Separate subroutines EQREACT and KIREACT for equilibrium ad kinetic chemistry respectively have been developed. A full detailed description of the numerical techniques used, which include both Lagrange multiplies and a third-order integrating scheme is presented. Sample test problems are presented and the results are in excellent agreement with those reported in the literature.

  4. APOLLO: A computer program for the calculation of chemical equilibrium and reaction kinetics of chemical systems

    SciTech Connect

    Nguyen, H.D.

    1991-11-01

    Several of the technologies being evaluated for the treatment of waste material involve chemical reactions. Our example is the in situ vitrification (ISV) process where electrical energy is used to melt soil and waste into a glass like'' material that immobilizes and encapsulates any residual waste. During the ISV process, various chemical reactions may occur that produce significant amounts of products which must be contained and treated. The APOLLO program was developed to assist in predicting the composition of the gases that are formed. Although the development of this program was directed toward ISV applications, it should be applicable to other technologies where chemical reactions are of interest. This document presents the mathematical methodology of the APOLLO computer code. APOLLO is a computer code that calculates the products of both equilibrium and kinetic chemical reactions. The current version, written in FORTRAN, is readily adaptable to existing transport programs designed for the analysis of chemically reacting flow systems. Separate subroutines EQREACT and KIREACT for equilibrium ad kinetic chemistry respectively have been developed. A full detailed description of the numerical techniques used, which include both Lagrange multiplies and a third-order integrating scheme is presented. Sample test problems are presented and the results are in excellent agreement with those reported in the literature.

  5. Learning Chemical Kinetics with Spreadsheets.

    ERIC Educational Resources Information Center

    Blickensderfer, Roger

    1990-01-01

    Presented are several simple kinetic systems together with the spreadsheets used to solve them. A set of exercises in chemical kinetics appropriate for an introductory course in physical chemistry is given. Error propagation calculations with experimental data are illustrated. (CW)

  6. Effect of chemical kinetics uncertainties on calculated constituents in a tropospheric photochemical model

    NASA Technical Reports Server (NTRS)

    Thompson, Anne M.; Stewart, Richard W.

    1991-01-01

    Random photochemical reaction rates are employed in a 1D photochemical model to examine uncertainties in tropospheric concentrations and thereby determine critical kinetic processes and significant correlations. Monte Carlo computations are used to simulate different chemical environments and their related imprecisions. The most critical processes are the primary photodissociation of O3 (which initiates ozone destruction) and NO2 (which initiates ozone formation), and the OH/methane reaction is significant. Several correlations and anticorrelations between species are discussed, and the ozone/transient OH correlation is examined in detail. One important result of the modeling is that estimates of global OH are generally about 25 percent uncertain, limiting the precision of photochemical models. Techniques for reducing the imprecision are discussed which emphasize the use of species and radical species measurements.

  7. Chemical and Biological Kinetics

    NASA Astrophysics Data System (ADS)

    Emanuel', N. M.

    1981-10-01

    Examples of the application of the methods and ideas of chemical kinetics in various branches of chemistry and biology are considered and the results of studies on the kinetics and mechanisms of autoxidation and inhibited and catalysed oxidation of organic substances in the liquid phase are surveyed. Problems of the kinetics of the ageing of polymers and the principles of their stabilisation are discussed and certain trends in biological kinetics (kinetics of tumour growth, kinetic criteria of the effectiveness of chemotherapy, problems of gerontology, etc.) are considered. The bibliography includes 281 references.

  8. Chemical Kinetics Database

    National Institute of Standards and Technology Data Gateway

    SRD 17 NIST Chemical Kinetics Database (Web, free access)   The NIST Chemical Kinetics Database includes essentially all reported kinetics results for thermal gas-phase chemical reactions. The database is designed to be searched for kinetics data based on the specific reactants involved, for reactions resulting in specified products, for all the reactions of a particular species, or for various combinations of these. In addition, the bibliography can be searched by author name or combination of names. The database contains in excess of 38,000 separate reaction records for over 11,700 distinct reactant pairs. These data have been abstracted from over 12,000 papers with literature coverage through early 2000.

  9. LLNL Chemical Kinetics Modeling Group

    SciTech Connect

    Pitz, W J; Westbrook, C K; Mehl, M; Herbinet, O; Curran, H J; Silke, E J

    2008-09-24

    The LLNL chemical kinetics modeling group has been responsible for much progress in the development of chemical kinetic models for practical fuels. The group began its work in the early 1970s, developing chemical kinetic models for methane, ethane, ethanol and halogenated inhibitors. Most recently, it has been developing chemical kinetic models for large n-alkanes, cycloalkanes, hexenes, and large methyl esters. These component models are needed to represent gasoline, diesel, jet, and oil-sand-derived fuels.

  10. Chemical kinetics modeling

    SciTech Connect

    Westbrook, C.K.; Pitz, W.J.

    1993-12-01

    This project emphasizes numerical modeling of chemical kinetics of combustion, including applications in both practical combustion systems and in controlled laboratory experiments. Elementary reaction rate parameters are combined into mechanisms which then describe the overall reaction of the fuels being studied. Detailed sensitivity analyses are used to identify those reaction rates and product species distributions to which the results are most sensitive and therefore warrant the greatest attention from other experimental and theoretical research programs. Experimental data from a variety of environments are combined together to validate the reaction mechanisms, including results from laminar flames, shock tubes, flow systems, detonations, and even internal combustion engines.

  11. Quantum Chemical Calculations

    NASA Technical Reports Server (NTRS)

    Bauschlicher, Charles W.; Arnold, James O. (Technical Monitor)

    1997-01-01

    The current methods of quantum chemical calculations will be reviewed. The accent will be on the accuracy that can be achieved with these methods. The basis set requirements and computer resources for the various methods will be discussed. The utility of the methods will be illustrated with some examples, which include the calculation of accurate bond energies for SiF$_n$ and SiF$_n^+$ and the modeling of chemical data storage.

  12. Chemical Looping Combustion Kinetics

    SciTech Connect

    Edward Eyring; Gabor Konya

    2009-03-31

    One of the most promising methods of capturing CO{sub 2} emitted by coal-fired power plants for subsequent sequestration is chemical looping combustion (CLC). A powdered metal oxide such as NiO transfers oxygen directly to a fuel in a fuel reactor at high temperatures with no air present. Heat, water, and CO{sub 2} are released, and after H{sub 2}O condensation the CO{sub 2} (undiluted by N{sub 2}) is ready for sequestration, whereas the nickel metal is ready for reoxidation in the air reactor. In principle, these processes can be repeated endlessly with the original nickel metal/nickel oxide participating in a loop that admits fuel and rejects ash, heat, and water. Our project accumulated kinetic rate data at high temperatures and elevated pressures for the metal oxide reduction step and for the metal reoxidation step. These data will be used in computational modeling of CLC on the laboratory scale and presumably later on the plant scale. The oxygen carrier on which the research at Utah is focused is CuO/Cu{sub 2}O rather than nickel oxide because the copper system lends itself to use with solid fuels in an alternative to CLC called 'chemical looping with oxygen uncoupling' (CLOU).

  13. Chemical kinetics on extrasolar planets.

    PubMed

    Moses, Julianne I

    2014-04-28

    Chemical kinetics plays an important role in controlling the atmospheric composition of all planetary atmospheres, including those of extrasolar planets. For the hottest exoplanets, the composition can closely follow thermochemical-equilibrium predictions, at least in the visible and infrared photosphere at dayside (eclipse) conditions. However, for atmospheric temperatures approximately <2000K, and in the uppermost atmosphere at any temperature, chemical kinetics matters. The two key mechanisms by which kinetic processes drive an exoplanet atmosphere out of equilibrium are photochemistry and transport-induced quenching. I review these disequilibrium processes in detail, discuss observational consequences and examine some of the current evidence for kinetic processes on extrasolar planets. PMID:24664912

  14. Chemical kinetics on extrasolar planets

    NASA Astrophysics Data System (ADS)

    Moses, J. I.

    2014-03-01

    Chemical kinetics plays an important role in controlling the atmospheric composition of all planetary atmospheres, including those of extrasolar planets. For the hottest exoplanets, the composition can closely follow thermochemical-equilibrium predictions, at least in the visible and infrared photosphere at dayside (eclipse) conditions. However, for atmospheric temperatures < ~2000 K, and in the uppermost atmosphere at any temperature, chemical kinetics matters. The two key mechanisms by which kinetic processes drive an exoplanet atmosphere out of equilibrium are photochemistry and transport-induced quenching. We review these disequilibrium processes in detail, discuss observational consequences, and examine some of the current evidence for kinetic processes on extrasolar planets.

  15. Accurate quantum chemical calculations

    NASA Technical Reports Server (NTRS)

    Bauschlicher, Charles W., Jr.; Langhoff, Stephen R.; Taylor, Peter R.

    1989-01-01

    An important goal of quantum chemical calculations is to provide an understanding of chemical bonding and molecular electronic structure. A second goal, the prediction of energy differences to chemical accuracy, has been much harder to attain. First, the computational resources required to achieve such accuracy are very large, and second, it is not straightforward to demonstrate that an apparently accurate result, in terms of agreement with experiment, does not result from a cancellation of errors. Recent advances in electronic structure methodology, coupled with the power of vector supercomputers, have made it possible to solve a number of electronic structure problems exactly using the full configuration interaction (FCI) method within a subspace of the complete Hilbert space. These exact results can be used to benchmark approximate techniques that are applicable to a wider range of chemical and physical problems. The methodology of many-electron quantum chemistry is reviewed. Methods are considered in detail for performing FCI calculations. The application of FCI methods to several three-electron problems in molecular physics are discussed. A number of benchmark applications of FCI wave functions are described. Atomic basis sets and the development of improved methods for handling very large basis sets are discussed: these are then applied to a number of chemical and spectroscopic problems; to transition metals; and to problems involving potential energy surfaces. Although the experiences described give considerable grounds for optimism about the general ability to perform accurate calculations, there are several problems that have proved less tractable, at least with current computer resources, and these and possible solutions are discussed.

  16. Computer Simulation in Chemical Kinetics

    ERIC Educational Resources Information Center

    Anderson, Jay Martin

    1976-01-01

    Discusses the use of the System Dynamics technique in simulating a chemical reaction for kinetic analysis. Also discusses the use of simulation modelling in biology, ecology, and the social sciences, where experimentation may be impractical or impossible. (MLH)

  17. Kinetic studies of elementary chemical reactions

    SciTech Connect

    Durant, J.L. Jr.

    1993-12-01

    This program concerning kinetic studies of elementary chemical reactions is presently focussed on understanding reactions of NH{sub x} species. To reach this goal, the author is pursuing experimental studies of reaction rate coefficients and product branching fractions as well as using electronic structure calculations to calculate transition state properties and reaction rate calculations to relate these properties to predicted kinetic behavior. The synergy existing between the experimental and theoretical studies allow one to gain a deeper insight into more complex elementary reactions.

  18. Pocket Calculators in Chemical Education.

    ERIC Educational Resources Information Center

    Holdsworth, D. K.

    1980-01-01

    Reviews ways in which programable pocket calculators are used in chemical education. Discussed are simulations of chemical experiments, performance of repetitive calculations, processing chemical data directly from instruments, testing hypotheses, and monitoring class practical results. Lists some calculators and their features and some useful

  19. Oxygen fluoride chemical kinetics

    SciTech Connect

    Lyman, J.L.; Holland, R.

    1988-12-29

    This paper reports the results of a study of the reactions of fluorine atoms with oxygen. The fluorine atoms are produced by photolysis of molecular fluorine with an excimer laser (KrF, 248 nm). Subsequent reactions produce (and consume) the species O/sub 2/F and O/sub 2/F/sub 2/. The reaction mechanism and rate constants for six reactions follow from the analysis of transient absorption signals. The signals were obtained with an ultraviolet lamp at 215 nm. Both of the oxygen fluorides absorb at that wavelength. The experiments also gave the absorption cross sections of the two species at the probe wavelength and an enthalpy of formation for O/sub 2/F. Some of the rate constants are different from those reported earlier. This is most likely due to their avoidance of assumptions made by authors. All experiments were at room temperature, but they estimated the temperature dependence of the set of reaction rates using the measured rate constants and published, measured, and calculated thermodynamic properties.

  20. The kinetic chemical equilibrium regime

    NASA Astrophysics Data System (ADS)

    Ern, Alexandre; Giovangigli, Vincent

    We investigate reactive gas mixtures in the kinetic chemical equilibrium regime. Our starting point is a generalized Boltzmann equation with a chemical source term valid for arbitrary reaction mechanisms and yielding a positive entropy production. We first study the Enskog expansion in the kinetic chemical equilibrium regime. We derive a new set of macroscopic equations in the zeroth- and first-order regimes, expressing conservation of element densities, momentum and energy. The transport fluxes arising in the Navier-Stokes equilibrium regime are the element diffusion velocities, the heat flux vector and the pressure tensor and are written in terms of transport coefficients. Upon introducing species diffusion velocities, the kinetic equilibrium regime appears to be formally equivalent to the one obtained for gas mixtures in chemical nonequilibrium and then letting the chemical reactions approach equilibrium. The actual values of the transport coefficients are, however, different. Finally, we derive the entropy conservation equation in the Navier-Stokes equilibrium regime and show that the source term is positive and that it is compatible with Onsagers reciprocal relations.

  1. Chemical kinetics and combustion modeling

    SciTech Connect

    Miller, J.A.

    1993-12-01

    The goal of this program is to gain qualitative insight into how pollutants are formed in combustion systems and to develop quantitative mathematical models to predict their formation rates. The approach is an integrated one, combining low-pressure flame experiments, chemical kinetics modeling, theory, and kinetics experiments to gain as clear a picture as possible of the process in question. These efforts are focused on problems involved with the nitrogen chemistry of combustion systems and on the formation of soot and PAH in flames.

  2. Chemical Kinetic Modeling of Hydrogen Combustion Limits

    SciTech Connect

    Pitz, W J; Westbrook, C K

    2008-04-02

    A detailed chemical kinetic model is used to explore the flammability and detonability of hydrogen mixtures. In the case of flammability, a detailed chemical kinetic mechanism for hydrogen is coupled to the CHEMKIN Premix code to compute premixed, laminar flame speeds. The detailed chemical kinetic model reproduces flame speeds in the literature over a range of equivalence ratios, pressures and reactant temperatures. A series of calculation were performed to assess the key parameters determining the flammability of hydrogen mixtures. Increased reactant temperature was found to greatly increase the flame speed and the flammability of the mixture. The effect of added diluents was assessed. Addition of water and carbon dioxide were found to reduce the flame speed and thus the flammability of a hydrogen mixture approximately equally well and much more than the addition of nitrogen. The detailed chemical kinetic model was used to explore the detonability of hydrogen mixtures. A Zeldovich-von Neumann-Doring (ZND) detonation model coupled with detailed chemical kinetics was used to model the detonation. The effectiveness on different diluents was assessed in reducing the detonability of a hydrogen mixture. Carbon dioxide was found to be most effective in reducing the detonability followed by water and nitrogen. The chemical action of chemical inhibitors on reducing the flammability of hydrogen mixtures is discussed. Bromine and organophosphorus inhibitors act through catalytic cycles that recombine H and OH radicals in the flame. The reduction in H and OH radicals reduces chain branching in the flame through the H + O{sub 2} = OH + O chain branching reaction. The reduction in chain branching and radical production reduces the flame speed and thus the flammability of the hydrogen mixture.

  3. Updated Chemical Kinetics and Sensitivity Analysis Code

    NASA Technical Reports Server (NTRS)

    Radhakrishnan, Krishnan

    2005-01-01

    An updated version of the General Chemical Kinetics and Sensitivity Analysis (LSENS) computer code has become available. A prior version of LSENS was described in "Program Helps to Determine Chemical-Reaction Mechanisms" (LEW-15758), NASA Tech Briefs, Vol. 19, No. 5 (May 1995), page 66. To recapitulate: LSENS solves complex, homogeneous, gas-phase, chemical-kinetics problems (e.g., combustion of fuels) that are represented by sets of many coupled, nonlinear, first-order ordinary differential equations. LSENS has been designed for flexibility, convenience, and computational efficiency. The present version of LSENS incorporates mathematical models for (1) a static system; (2) steady, one-dimensional inviscid flow; (3) reaction behind an incident shock wave, including boundary layer correction; (4) a perfectly stirred reactor; and (5) a perfectly stirred reactor followed by a plug-flow reactor. In addition, LSENS can compute equilibrium properties for the following assigned states: enthalpy and pressure, temperature and pressure, internal energy and volume, and temperature and volume. For static and one-dimensional-flow problems, including those behind an incident shock wave and following a perfectly stirred reactor calculation, LSENS can compute sensitivity coefficients of dependent variables and their derivatives, with respect to the initial values of dependent variables and/or the rate-coefficient parameters of the chemical reactions.

  4. Radionuclide kinetics in MIRD dose calculations

    SciTech Connect

    Wooten, W.W.

    1983-07-01

    A recent case report is reviewed and an alternative model for the radionuclide kinetics is presented; it estimates in an absorbed dose differing by a factor of two from the published calculation. Both models are consistent with observed data. Within a compartment model, one may choose to monitor a compartment of interest directly, or to monitor another compartment and (indirectly) solve for the activity in the compartment of interest. Advantages and disadvantages are reviewed.

  5. Reduced chemical kinetics for propane combustion

    NASA Technical Reports Server (NTRS)

    Ying, Shuh-Jing; Nguyen, Hung Lee

    1990-01-01

    It is pointed out that a detailed chemical kinetics mechanism for the combustion of propane consists of 40 chemical species and 118 elementary chemical reactions. An attempt is made to reduce the number of chemical species and elementary chemical reactions so that the computer run times and storage requirements may be greatly reduced in three-dimensional gas turbine combustion flow calculations, while maintaining accurate predictions of the propane combustion and exhaust emissions. By way of a sensitivity analysis, the species of interest and chemical reactions are classified in descending order of importance. Nineteen species are chosen, and their pressure, temperature, and concentration profiles are presented for the reduced mechanisms, which are then compared with those from the full 118 reactions. It is found that 45 reactions involving 27 species have to be kept for comparable agreement. A comparison of the results obtained from the 45 reactions to that of the full 118 shows that the pressure and temperature profiles and concentrations of C3H8, O2, N2, H2O, CO, and CO2 are within 10 percent of maximum change.

  6. Inflation Rates, Car Devaluation, and Chemical Kinetics.

    ERIC Educational Resources Information Center

    Pogliani, Lionello; Berberan-Santos, Mario N.

    1996-01-01

    Describes the inflation rate problem and offers an interesting analogy with chemical kinetics. Presents and solves the car devaluation problem as a normal chemical kinetic problem where the order of the rate law and the value of the rate constant are derived. (JRH)

  7. Enhancing Thai Students' Learning of Chemical Kinetics

    ERIC Educational Resources Information Center

    Chairam, Sanoe; Somsook, Ekasith; Coll, Richard K.

    2009-01-01

    Chemical kinetics is an extremely important concept for introductory chemistry courses. The literature suggests that instruction in chemical kinetics is often teacher-dominated at both the secondary school and tertiary levels, and this is the case in Thailand--the educational context for this inquiry. The work reported here seeks to shift students…

  8. Enhancing Thai Students' Learning of Chemical Kinetics

    ERIC Educational Resources Information Center

    Chairam, Sanoe; Somsook, Ekasith; Coll, Richard K.

    2009-01-01

    Chemical kinetics is an extremely important concept for introductory chemistry courses. The literature suggests that instruction in chemical kinetics is often teacher-dominated at both the secondary school and tertiary levels, and this is the case in Thailand--the educational context for this inquiry. The work reported here seeks to shift students

  9. Chemical kinetics of geminal recombination

    SciTech Connect

    Levin, P.P.; Khudyakov, I.V.; Brin, E.F.; Kuz'min, V.A.

    1988-09-01

    The kinetics of geminal recombination of triplet radical pairs formed in photoreduction of benzophenone by p-cresol in glycerin solution was studied by pulsed laser photolysis. The experiments were conducted at several temperatures and in a constant magnetic field of H = 0.34 T. The parameters in six kinetic equations describing geminal recombination were determined with a computer. The values of the sums of the squares of the residual deviations of the approximation were obtained. It was found that the kinetics are best described by the functions proposed by Noyes and Shushin. It was shown that it is necessary to use the mutual diffusion coefficient of the radicals, which is significantly smaller than the sum of the estimations of the experimental values of the radical diffusion coefficients, for describing the kinetics due to the correlations of the molecular motions of the radicals in the cage.

  10. Chemical Weathering Kinetics of Basalt on Venus

    NASA Technical Reports Server (NTRS)

    Fegley, Bruce, Jr.

    1997-01-01

    The purpose of this project was to experimentally measure the kinetics for chemical weathering reactions involving basalt on Venus. The thermochemical reactions being studied are important for the CO2 atmosphere-lithosphere cycle on Venus and for the atmosphere-surface reactions controlling the oxidation state of the surface of Venus. These reactions include the formation of carbonate and scapolite minerals, and the oxidation of Fe-bearing minerals. These experiments and calculations are important for interpreting results from the Pioneer Venus, Magellan, Galileo flyby, Venera, and Vega missions to Venus, for interpreting results from Earth-based telescopic observations, and for the design of new Discovery class (e.g., VESAT) and New Millennium missions to Venus such as geochemical landers making in situ elemental and mineralogical analyses, and orbiters, probes and balloons making spectroscopic observations of the sub-cloud atmosphere of Venus.

  11. Chemical kinetics of Estane aging in PBX

    SciTech Connect

    Pack, R.T.; Hanson, D.E.; Redondo, A.

    1997-12-01

    The Plastic-Bonded Explosive PBX 9501 is about 95% HMX, 2.5% Estane 5703, 2.5% nitroplasticizer (NP), and 0.1% stabilizer by weight. The NP, BDNPA/F, is a eutectic mixture of bis(2,2-dinitropropyl) acetal and bis(2,2-dinitropropyl)formal. The stabilizer is diphenylamine (DPA) or Irganox 1010. The Estane, a polyester-polyurethane, slowly degrades with time. Knowledge of the effect of the Estane aging on the mechanical properties of the PBX 9501 is required to predict with confidence the useful lifetime of the explosive with respect to safety and reliability. A detailed master equation model of the chemical mechanisms and kinetics of the aging of Estane 5703 in PBX 9501 is being developed. Its output will be used as input into other models being developed to calculate the changes in the mechanical properties of the PBX.

  12. Chemical kinetics and oil shale process design

    SciTech Connect

    Burnham, A.K.

    1993-07-01

    Oil shale processes are reviewed with the goal of showing how chemical kinetics influences the design and operation of different processes for different types of oil shale. Reaction kinetics are presented for organic pyrolysis, carbon combustion, carbonate decomposition, and sulfur and nitrogen reactions.

  13. Nonlinear response theory in chemical kinetics

    PubMed Central

    Kryvohuz, Maksym; Mukamel, Shaul

    2014-01-01

    A theory of nonlinear response of chemical kinetics, in which multiple perturbations are used to probe the time evolution of nonlinear chemical systems, is developed. Expressions for nonlinear chemical response functions and susceptibilities, which can serve as multidimensional measures of the kinetic pathways and rates, are derived. A new class of multidimensional measures that combine multiple perturbations and measurements is also introduced. Nonlinear fluctuation-dissipation relations for steady-state chemical systems, which replace operations of concentration measurement and perturbations, are proposed. Several applications to the analysis of complex reaction mechanisms are provided. PMID:25669367

  14. Chemical kinetic modelling of hydrocarbon ignition

    SciTech Connect

    Westbrook, C.K.; Pitz, W.J.; Curran, H.J.; Gaffuri, P.; Marinov, N.M.

    1995-08-25

    Chemical kinetic modeling of hydrocarbon ignition is discussed with reference to a range of experimental configurations, including shock tubes, detonations, pulse combustors, static reactors, stirred reactors and internal combustion engines. Important conditions of temperature, pressure or other factors are examined to determine the main chemical reaction sequences responsible for chain branching and ignition, and kinetic factors which can alter the rate of ignition are identified. Hydrocarbon ignition usually involves complex interactions between physical and chemical factors, and it therefore is a suitable and often productive subject for computer simulations. In most of the studies to be discussed below, the focus of the attention is placed on the chemical features of the system. The other physical parts of each application are generally included in the form of initial or boundary conditions to the chemical kinetic parts of the problem, as appropriate for each type of application being addressed.

  15. Mass Conservation and Chemical Kinetics.

    ERIC Educational Resources Information Center

    Barbara, Thomas M.; Corio, P. L.

    1980-01-01

    Presents a method for obtaining all mass conservation conditions implied by a given mechanism in which the conditions are used to simplify integration of the rate equations and to derive stoichiometric relations. Discusses possibilities of faulty inference of kinetic information from a given stoichiometry. (CS)

  16. Improved General Chemical-Kinetics Program

    NASA Technical Reports Server (NTRS)

    Bittker, David A.; Scullin, Vincent J.

    1987-01-01

    New general chemical-kinetics code, GCKP84, developed to compute progress of many types of complex gas-phase chemical reactions. Replaces original GCKP code and offers greatly improved efficiency, additional capabilities, and greater convenience. New code written in FORTRAN IV.

  17. Chemical kinetics in the coma

    SciTech Connect

    Huebner, W.F.

    1980-01-01

    Physical and chemical conditions in the coma of a bright new comet are related to the composition of the nucleus. Chemical and photolytic processes are described and related to distance in the coma above the nucleus and to heliocentric distance of the comet. Comparison of the model with coma observations leads to some restrictions about the nucleus composition. It is expected that these restrictions become more stringent as coma models are developed further and as observations become more detailed.

  18. Chemical Kinetic Modeling of Advanced Transportation Fuels

    SciTech Connect

    PItz, W J; Westbrook, C K; Herbinet, O

    2009-01-20

    Development of detailed chemical kinetic models for advanced petroleum-based and nonpetroleum based fuels is a difficult challenge because of the hundreds to thousands of different components in these fuels and because some of these fuels contain components that have not been considered in the past. It is important to develop detailed chemical kinetic models for these fuels since the models can be put into engine simulation codes used for optimizing engine design for maximum efficiency and minimal pollutant emissions. For example, these chemistry-enabled engine codes can be used to optimize combustion chamber shape and fuel injection timing. They also allow insight into how the composition of advanced petroleum-based and non-petroleum based fuels affect engine performance characteristics. Additionally, chemical kinetic models can be used separately to interpret important in-cylinder experimental data and gain insight into advanced engine combustion processes such as HCCI and lean burn engines. The objectives are: (1) Develop detailed chemical kinetic reaction models for components of advanced petroleum-based and non-petroleum based fuels. These fuels models include components from vegetable-oil-derived biodiesel, oil-sand derived fuel, alcohol fuels and other advanced bio-based and alternative fuels. (2) Develop detailed chemical kinetic reaction models for mixtures of non-petroleum and petroleum-based components to represent real fuels and lead to efficient reduced combustion models needed for engine modeling codes. (3) Characterize the role of fuel composition on efficiency and pollutant emissions from practical automotive engines.

  19. Chemical Dosing and First-Order Kinetics

    ERIC Educational Resources Information Center

    Hladky, Paul W.

    2011-01-01

    College students encounter a variety of first-order phenomena in their mathematics and science courses. Introductory chemistry textbooks that discuss first-order processes, usually in conjunction with chemical kinetics or radioactive decay, stop at single, discrete dose events. Although single-dose situations are important, multiple-dose events,

  20. Chemical Dosing and First-Order Kinetics

    ERIC Educational Resources Information Center

    Hladky, Paul W.

    2011-01-01

    College students encounter a variety of first-order phenomena in their mathematics and science courses. Introductory chemistry textbooks that discuss first-order processes, usually in conjunction with chemical kinetics or radioactive decay, stop at single, discrete dose events. Although single-dose situations are important, multiple-dose events,…

  1. PACKAGE (Plasma Analysis, Chemical Kinetics and Generator Efficiency): a computer program for the calculation of partial chemical equilibrium/partial chemical rate controlled composition of multiphased mixtures under one dimensional steady flow

    SciTech Connect

    Yousefian, V.; Weinberg, M.H.; Haimes, R.

    1980-02-01

    The NASA CEC Code was the starting point for PACKAGE, whose function is to evaluate the composition of a multiphase combustion product mixture under the following chemical conditions: (1) total equilibrium with pure condensed species; (2) total equilibrium with ideal liquid solution; (3) partial equilibrium/partial finite rate chemistry; and (4) fully finite rate chemistry. The last three conditions were developed to treat the evolution of complex mixtures such as coal combustion products. The thermodynamic variable pairs considered are either pressure (P) and enthalpy, P and entropy, at P and temperature. Minimization of Gibbs free energy is used. This report gives detailed discussions of formulation and input/output information used in the code. Sample problems are given. The code development, description, and current programming constraints are discussed. (DLC)

  2. Chemical kinetics and modeling of planetary atmospheres

    NASA Technical Reports Server (NTRS)

    Yung, Yuk L.

    1990-01-01

    A unified overview is presented for chemical kinetics and chemical modeling in planetary atmospheres. The recent major advances in the understanding of the chemistry of the terrestrial atmosphere make the study of planets more interesting and relevant. A deeper understanding suggests that the important chemical cycles have a universal character that connects the different planets and ultimately link together the origin and evolution of the solar system. The completeness (or incompleteness) of the data base for chemical kinetics in planetary atmospheres will always be judged by comparison with that for the terrestrial atmosphere. In the latter case, the chemistry of H, O, N, and Cl species is well understood. S chemistry is poorly understood. In the atmospheres of Jovian planets and Titan, the C-H chemistry of simple species (containing 2 or less C atoms) is fairly well understood. The chemistry of higher hydrocarbons and the C-N, P-N chemistry is much less understood. In the atmosphere of Venus, the dominant chemistry is that of chlorine and sulfur, and very little is known about C1-S coupled chemistry. A new frontier for chemical kinetics both in the Earth and planetary atmospheres is the study of heterogeneous reactions. The formation of the ozone hole on Earth, the ubiquitous photochemical haze on Venus and in the Jovian planets and Titan all testify to the importance of heterogeneous reactions. It remains a challenge to connect the gas phase chemistry to the production of aerosols.

  3. Computer-Aided Construction of Chemical Kinetic Models

    SciTech Connect

    Green, William H.

    2014-12-31

    The combustion chemistry of even simple fuels can be extremely complex, involving hundreds or thousands of kinetically significant species. The most reasonable way to deal with this complexity is to use a computer not only to numerically solve the kinetic model, but also to construct the kinetic model in the first place. Because these large models contain so many numerical parameters (e.g. rate coefficients, thermochemistry) one never has sufficient data to uniquely determine them all experimentally. Instead one must work in “predictive” mode, using theoretical rather than experimental values for many of the numbers in the model, and as appropriate refining the most sensitive numbers through experiments. Predictive chemical kinetics is exactly what is needed for computer-aided design of combustion systems based on proposed alternative fuels, particularly for early assessment of the value and viability of proposed new fuels before those fuels are commercially available. This project was aimed at making accurate predictive chemical kinetics practical; this is a challenging goal which requires a range of science advances. The project spanned a wide range from quantum chemical calculations on individual molecules and elementary-step reactions, through the development of improved rate/thermo calculation procedures, the creation of algorithms and software for constructing and solving kinetic simulations, the invention of methods for model-reduction while maintaining error control, and finally comparisons with experiment. Many of the parameters in the models were derived from quantum chemistry calculations, and the models were compared with experimental data measured in our lab or in collaboration with others.

  4. KinChem: A Computational Resource for Teaching and Learning Chemical Kinetics

    ERIC Educational Resources Information Center

    da Silva, Jose Nunes, Jr.; Sousa Lima, Mary Anne; Silva Sousa, Eduardo Henrique; Oliveira Alexandre, Francisco Serra; Melo Leite, Antonio Jose, Jr.

    2014-01-01

    This paper presents a piece of educational software covering a comprehensive number of topics of chemical kinetics, which is available free of charge in Portuguese and English. The software was developed to support chemistry educators and students in the teaching-learning process of chemical kinetics by using animations, calculations, and

  5. KinChem: A Computational Resource for Teaching and Learning Chemical Kinetics

    ERIC Educational Resources Information Center

    da Silva, Jose´ Nunes, Jr.; Sousa Lima, Mary Anne; Silva Sousa, Eduardo Henrique; Oliveira Alexandre, Francisco Serra; Melo Leite, Antonio Jose´, Jr.

    2014-01-01

    This paper presents a piece of educational software covering a comprehensive number of topics of chemical kinetics, which is available free of charge in Portuguese and English. The software was developed to support chemistry educators and students in the teaching-learning process of chemical kinetics by using animations, calculations, and…

  6. Promoting Graphical Thinking: Using Temperature and a Graphing Calculator to Teach Kinetics Concepts

    ERIC Educational Resources Information Center

    Cortes-Figueroa, Jose E.; Moore-Russo, Deborah A.

    2004-01-01

    A combination of graphical thinking with chemical and physical theories in the classroom is encouraged by using the Calculator-Based Laboratory System (CBL) with a temperature sensor and graphing calculator. The theory of first-order kinetics is logically explained with the aid of the cooling or heating of the metal bead of the CBL's temperature

  7. Point kinetics calculations with fully coupled thermal fluids reactivity feedback

    SciTech Connect

    Zhang, H.; Zou, L.; Andrs, D.; Zhao, H.; Martineau, R.

    2013-07-01

    The point kinetics model has been widely used in the analysis of the transient behavior of a nuclear reactor. In the traditional nuclear reactor system safety analysis codes such as RELAP5, the reactivity feedback effects are calculated in a loosely coupled fashion through operator splitting approach. This paper discusses the point kinetics calculations with the fully coupled thermal fluids and fuel temperature feedback implemented into the RELAP-7 code currently being developed with the MOOSE framework. (authors)

  8. Perspective: Stochastic algorithms for chemical kinetics

    PubMed Central

    Gillespie, Daniel T.; Hellander, Andreas; Petzold, Linda R.

    2013-01-01

    We outline our perspective on stochastic chemical kinetics, paying particular attention to numerical simulation algorithms. We first focus on dilute, well-mixed systems, whose description using ordinary differential equations has served as the basis for traditional chemical kinetics for the past 150 years. For such systems, we review the physical and mathematical rationale for a discrete-stochastic approach, and for the approximations that need to be made in order to regain the traditional continuous-deterministic description. We next take note of some of the more promising strategies for dealing stochastically with stiff systems, rare events, and sensitivity analysis. Finally, we review some recent efforts to adapt and extend the discrete-stochastic approach to systems that are not well-mixed. In that currently developing area, we focus mainly on the strategy of subdividing the system into well-mixed subvolumes, and then simulating diffusional transfers of reactant molecules between adjacent subvolumes together with chemical reactions inside the subvolumes. PMID:23656106

  9. Calculation of Kinetics Parameters for the NBSR

    SciTech Connect

    Hanson A. L.; Diamond D.

    2012-03-06

    The delayed neutron fraction and prompt neutron lifetime have been calculated at different times in the fuel cycle for the NBSR when fueled with both high-enriched uranium (HEU) and low-enriched uranium (LEU) fuel. The best-estimate values for both the delayed neutron fraction and the prompt neutron lifetime are the result of calculations using MCNP5-1.60 with the most recent ENDFB-VII evaluations. The best-estimate values for the total delayed neutron fraction from fission products are 0.00665 and 0.00661 for the HEU fueled core at startup and end-of-cycle, respectively. For the LEU fuel the best estimate values are 0.00650 and 0.00648 at startup and end-of-cycle, respectively. The present recommendations for the delayed neutron fractions from fission products are smaller than the value reported previously of 0.00726 for the HEU fuel. The best-estimate values for the contribution from photoneutrons will remain as 0.000316, independent of the fuel or time in the cycle.The values of the prompt neutron lifetime as calculated with MCNP5-1.60 are compared to values calculated with two other independent methods and the results are in reasonable agreement with each other. The recommended, conservative values of the neutron lifetime for the HEU fuel are 650 {micro}s and 750 {micro}s for the startup and end-of-cycle conditions, respectively. For LEU fuel the recommended, conservative values are 600 {micro}s and 700 {micro}s for the startup and end-of-cycle conditions, respectively. In all three calculations, the prompt neutron lifetime was determined to be longer for the end-of-cycle equilibrium condition when compared to the startup condition. The results of the three analyses were in agreement that the LEU fuel will exhibit a shorter prompt neutron lifetime when compared to the HEU fuel.

  10. Spreadsheet Templates for Chemical Equilibrium Calculations.

    ERIC Educational Resources Information Center

    Joshi, Bhairav D.

    1993-01-01

    Describes two general spreadsheet templates to carry out all types of one-equation chemical equilibrium calculations encountered by students in undergraduate chemistry courses. Algorithms, templates, macros, and representative examples are presented to illustrate the approach. (PR)

  11. Detailed Chemical Kinetic Modeling of Hydrazine Decomposition

    NASA Technical Reports Server (NTRS)

    Meagher, Nancy E.; Bates, Kami R.

    2000-01-01

    The purpose of this research project is to develop and validate a detailed chemical kinetic mechanism for gas-phase hydrazine decomposition. Hydrazine is used extensively in aerospace propulsion, and although liquid hydrazine is not considered detonable, many fuel handling systems create multiphase mixtures of fuels and fuel vapors during their operation. Therefore, a thorough knowledge of the decomposition chemistry of hydrazine under a variety of conditions can be of value in assessing potential operational hazards in hydrazine fuel systems. To gain such knowledge, a reasonable starting point is the development and validation of a detailed chemical kinetic mechanism for gas-phase hydrazine decomposition. A reasonably complete mechanism was published in 1996, however, many of the elementary steps included had outdated rate expressions and a thorough investigation of the behavior of the mechanism under a variety of conditions was not presented. The current work has included substantial revision of the previously published mechanism, along with a more extensive examination of the decomposition behavior of hydrazine. An attempt to validate the mechanism against the limited experimental data available has been made and was moderately successful. Further computational and experimental research into the chemistry of this fuel needs to be completed.

  12. Chemical Kinetic Modeling of Biofuel Combustion

    NASA Astrophysics Data System (ADS)

    Sarathy, Subram Maniam

    Bioalcohols, such as bioethanol and biobutanol, are suitable replacements for gasoline, while biodiesel can replace petroleum diesel. Improving biofuel engine performance requires understanding its fundamental combustion properties and the pathways of combustion. This study's contribution is experimentally validated chemical kinetic combustion mechanisms for biobutanol and biodiesel. Fundamental combustion data and chemical kinetic mechanisms are presented and discussed to improve our understanding of biofuel combustion. The net environmental impact of biobutanol (i.e., n-butanol) has not been studied extensively, so this study first assesses the sustainability of n-butanol derived from corn. The results indicate that technical advances in fuel production are required before commercializing biobutanol. The primary contribution of this research is new experimental data and a novel chemical kinetic mechanism for n-butanol combustion. The results indicate that under the given experimental conditions, n-butanol is consumed primarily via abstraction of hydrogen atoms to produce fuel radical molecules, which subsequently decompose to smaller hydrocarbon and oxygenated species. The hydroxyl moiety in n-butanol results in the direct production of the oxygenated species such as butanal, acetaldehyde, and formaldehyde. The formation of these compounds sequesters carbon from forming soot precursors, but they may introduce other adverse environmental and health effects. Biodiesel is a mixture of long chain fatty acid methyl esters derived from fats and oils. This research study presents high quality experimental data for one large fatty acid methyl ester, methyl decanoate, and models its combustion using an improved skeletal mechanism. The results indicate that methyl decanoate is consumed via abstraction of hydrogen atoms to produce fuel radicals, which ultimately lead to the production of alkenes. The ester moiety in methyl decanoate leads to the formation of low molecular weight oxygenated compounds such as carbon monoxide, formaldehyde, and ketene. The study concludes that the oxygenated molecules in biofuels follow similar combustion pathways to the hydrocarbons in petroleum fuels. The oxygenated moiety's ability to sequester carbon from forming soot precursors is highlighted. However, the direct formation of oxygenated hydrocarbons warrants further investigation into the environmental and health impacts of practical biofuel combustion systems.

  13. Calculation of kinetic spatial weighting factors in power reactors

    SciTech Connect

    Sweeney, F.J.; Renier, J.P.

    1982-01-01

    Ex-core neutron detector kinetic (frequency-dependent) spatial sensitivities (weighting factors) for in-core neutron sources were determined by performing space-dependent, transport and diffusion theory, kinetic detector adjoint calculations in which both source propagation through fission processes and the frequency dependence of the reactivity-to-power transfer function were considered. This study was pursued to overcome the shortcomings of previous calculations of ex-core detector weighting factors for in-core neutron sources using discrete-ordinate shielding or point kernel techniques.

  14. Theory of homogeneous nucleation - A chemical kinetic view

    NASA Technical Reports Server (NTRS)

    Yang, C. H.; Qiu, H.

    1986-01-01

    A simple function with two undetermined parameters has been used in place of the Thomson-Gibbs relation to relate the activation energy of the vaporization reaction to cluster size. The parameters are iterated to assume optimum values in numerical computation so experimental data may be correlated. Calculations show this approach closely predicts and correlates available data for water, benzene, and ethanol. The nucleation formulism is redeveloped with an emphasis on the chemical kinetic view. Surface tension of the liquid and free energy of droplet formation are not used in its derivation.

  15. Benchmarking kinetic calculations of resistive wall mode stability

    NASA Astrophysics Data System (ADS)

    Berkery, J. W.; Liu, Y. Q.; Wang, Z. R.; Sabbagh, S. A.; Logan, N. C.; Park, J.-K.; Manickam, J.; Betti, R.

    2014-05-01

    Validating the calculations of kinetic resistive wall mode (RWM) stability is important for confidently predicting RWM stable operating regions in ITER and other high performance tokamaks for disruption avoidance. Benchmarking the calculations of the Magnetohydrodynamic Resistive Spectrum—Kinetic (MARS-K) [Y. Liu et al., Phys. Plasmas 15, 112503 (2008)], Modification to Ideal Stability by Kinetic effects (MISK) [B. Hu et al., Phys. Plasmas 12, 057301 (2005)], and Perturbed Equilibrium Nonambipolar Transport PENT) [N. Logan et al., Phys. Plasmas 20, 122507 (2013)] codes for two Solov'ev analytical equilibria and a projected ITER equilibrium has demonstrated good agreement between the codes. The important particle frequencies, the frequency resonance energy integral in which they are used, the marginally stable eigenfunctions, perturbed Lagrangians, and fluid growth rates are all generally consistent between the codes. The most important kinetic effect at low rotation is the resonance between the mode rotation and the trapped thermal particle's precession drift, and MARS-K, MISK, and PENT show good agreement in this term. The different ways the rational surface contribution was treated historically in the codes is identified as a source of disagreement in the bounce and transit resonance terms at higher plasma rotation. Calculations from all of the codes support the present understanding that RWM stability can be increased by kinetic effects at low rotation through precession drift resonance and at high rotation by bounce and transit resonances, while intermediate rotation can remain susceptible to instability. The applicability of benchmarked kinetic stability calculations to experimental results is demonstrated by the prediction of MISK calculations of near marginal growth rates for experimental marginal stability points from the National Spherical Torus Experiment (NSTX) [M. Ono et al., Nucl. Fusion 40, 557 (2000)].

  16. Benchmarking kinetic calculations of resistive wall mode stability

    SciTech Connect

    Berkery, J. W.; Sabbagh, S. A.; Liu, Y. Q.; Betti, R.

    2014-05-15

    Validating the calculations of kinetic resistive wall mode (RWM) stability is important for confidently predicting RWM stable operating regions in ITER and other high performance tokamaks for disruption avoidance. Benchmarking the calculations of the Magnetohydrodynamic Resistive Spectrum—Kinetic (MARS-K) [Y. Liu et al., Phys. Plasmas 15, 112503 (2008)], Modification to Ideal Stability by Kinetic effects (MISK) [B. Hu et al., Phys. Plasmas 12, 057301 (2005)], and Perturbed Equilibrium Nonambipolar Transport (PENT) [N. Logan et al., Phys. Plasmas 20, 122507 (2013)] codes for two Solov'ev analytical equilibria and a projected ITER equilibrium has demonstrated good agreement between the codes. The important particle frequencies, the frequency resonance energy integral in which they are used, the marginally stable eigenfunctions, perturbed Lagrangians, and fluid growth rates are all generally consistent between the codes. The most important kinetic effect at low rotation is the resonance between the mode rotation and the trapped thermal particle's precession drift, and MARS-K, MISK, and PENT show good agreement in this term. The different ways the rational surface contribution was treated historically in the codes is identified as a source of disagreement in the bounce and transit resonance terms at higher plasma rotation. Calculations from all of the codes support the present understanding that RWM stability can be increased by kinetic effects at low rotation through precession drift resonance and at high rotation by bounce and transit resonances, while intermediate rotation can remain susceptible to instability. The applicability of benchmarked kinetic stability calculations to experimental results is demonstrated by the prediction of MISK calculations of near marginal growth rates for experimental marginal stability points from the National Spherical Torus Experiment (NSTX) [M. Ono et al., Nucl. Fusion 40, 557 (2000)].

  17. Calculating Shocks In Flows At Chemical Equilibrium

    NASA Technical Reports Server (NTRS)

    Eberhardt, Scott; Palmer, Grant

    1988-01-01

    Boundary conditions prove critical. Conference paper describes algorithm for calculation of shocks in hypersonic flows of gases at chemical equilibrium. Although algorithm represents intermediate stage in development of reliable, accurate computer code for two-dimensional flow, research leading up to it contributes to understanding of what is needed to complete task.

  18. Theoretical validation of chemical kinetic mechanisms : combustion of methanol.

    SciTech Connect

    Skodje, R. T.; Tomlin, A. S.; Klippenstein, S. J.; Harding, L. B.; Davis, M. J.; Chemical Sciences and Engineering Division; Univ. of Colorado; Univ. of Leeds

    2010-08-19

    A new technique is proposed that uses theoretical methods to systematically improve the performance of chemical kinetic mechanisms. Using a screening method, the chemical reaction steps that most strongly influence a given kinetic observable are identified. The associated rate coefficients are then improved by high-level quantum chemistry and transition-state-theory calculations, which leads to new values for the coefficients and smaller uncertainty ranges. This updating process is continued as new reactions emerge as the most important steps in the target observable. The screening process employed is a global sensitivity analysis that involves Monte Carlo sampling of the full N-dimensional uncertainty space of rate coefficients, where N is the number of reaction steps. The method is applied to the methanol combustion mechanism of Li et al. (Int. J. Chem. Kinet. 2007, 39, 109.). It was found that the CH{sub 3}OH + HO{sub 2} and CH{sub 3}OH + O{sub 2} reactions were the most important steps in setting the ignition delay time, and the rate coefficients for these reactions were updated. The ignition time is significantly changed for a broad range of high-concentration methanol/oxygen mixtures in the updated mechanism.

  19. Quantum mechanical calculations to chemical accuracy

    NASA Technical Reports Server (NTRS)

    Bauschlicher, Charles W., Jr.; Langhoff, Stephen R.

    1991-01-01

    The accuracy of current molecular-structure calculations is illustrated with examples of quantum mechanical solutions for chemical problems. Two approaches are considered: (1) the coupled-cluster singles and doubles (CCSD) with a perturbational estimate of the contribution of connected triple excitations, or CCDS(T); and (2) the multireference configuration-interaction (MRCI) approach to the correlation problem. The MRCI approach gains greater applicability by means of size-extensive modifications such as the averaged-coupled pair functional approach. The examples of solutions to chemical problems include those for C-H bond energies, the vibrational frequencies of O3, identifying the ground state of Al2 and Si2, and the Lewis-Rayleigh afterglow and the Hermann IR system of N2. Accurate molecular-wave functions can be derived from a combination of basis-set saturation studies and full configuration-interaction calculations.

  20. Accelerating quantum instanton calculations of the kinetic isotope effects.

    PubMed

    Karandashev, Konstantin; Van?ek, Ji?

    2015-11-21

    Path integral implementation of the quantum instanton approximation currently belongs among the most accurate methods for computing quantum rate constants and kinetic isotope effects, but its use has been limited due to the rather high computational cost. Here, we demonstrate that the efficiency of quantum instanton calculations of the kinetic isotope effects can be increased by orders of magnitude by combining two approaches: The convergence to the quantum limit is accelerated by employing high-order path integral factorizations of the Boltzmann operator, while the statistical convergence is improved by implementing virial estimators for relevant quantities. After deriving several new virial estimators for the high-order factorization and evaluating the resulting increase in efficiency, using ?H? + H?H? ? H?H? + ? H? reaction as an example, we apply the proposed method to obtain several kinetic isotope effects on CH4 + ? H ? ? CH3 + H2 forward and backward reactions. PMID:26590524

  1. Accelerating quantum instanton calculations of the kinetic isotope effects

    NASA Astrophysics Data System (ADS)

    Karandashev, Konstantin; Van?ek, Ji?

    2015-11-01

    Path integral implementation of the quantum instanton approximation currently belongs among the most accurate methods for computing quantum rate constants and kinetic isotope effects, but its use has been limited due to the rather high computational cost. Here, we demonstrate that the efficiency of quantum instanton calculations of the kinetic isotope effects can be increased by orders of magnitude by combining two approaches: The convergence to the quantum limit is accelerated by employing high-order path integral factorizations of the Boltzmann operator, while the statistical convergence is improved by implementing virial estimators for relevant quantities. After deriving several new virial estimators for the high-order factorization and evaluating the resulting increase in efficiency, using ?H? + H?H? ? H?H? + ? H? reaction as an example, we apply the proposed method to obtain several kinetic isotope effects on CH4 + ? H ? ? CH3 + H2 forward and backward reactions.

  2. Kinetic isotope effects calculated with the instanton method.

    PubMed

    Meisner, Jan; Rommel, Judith B; Kstner, Johannes

    2011-12-01

    The ring-opening reaction of the cyclopropylcarbinyl radical proceeds via heavy-atom tunneling at low temperature. We used instanton theory to calculate tunneling rates and kinetic isotope effects with on-the-fly calculation of energies by density functional theory (B3LYP). The accuracy was verified by explicitly correlated coupled-cluster calculations (UCCSD(T)-F12). At cryogenic temperatures, we found protium/deuterium KIEs up to 13 and inverse KIEs down to 0.2. We also studied an intramolecular tautomerization reaction. A simple and computationally efficient method is proposed to calculate KIEs with the instanton method: the instanton path is assumed to be independent of the atomic masses. This results in surprisingly good estimates of the KIEs for the cyclopropylcarbinyl radical and for the secondary KIEs of the tautomerization. Challenges and capabilities of the instanton method for calculating KIEs are discussed. PMID:21898468

  3. Improve Claus simulation by integrating kinetic limitations into equilibrium calculations

    SciTech Connect

    Wen, T.C.

    1986-01-01

    Since all existing Claus simulators are based on equilibrium calculations, it is not surprising that the simulation results, including the overall sulfur yield, air to acid gas ratio, and stream compositions are somewhat different from the plant data. One method for improving the simulation is to consider the kinetic limitations in the Claus reactions. This has been accomplished in this work by integrating kinetic considerations into equilibrium calculations. Kinetic limitations have been introduced in both the Claus reaction furnace and the catalytic converters. An interactive computer program SULPLT Version 3 was written to implement the proposed modifications. The computer program was used to simulate the Claus furnace, catalytic converters, and the effect of air to acid gas ratio on sulfur recovery to check against literature data. Three Claus plants for which data exist have also been simulated. The results show that the proposed model predicts sulfur recovery, sulfur emission, optimal air to acid gas ratio, and various stream compositions more accurately than the equilibrium model. The proposed model appears to be valid, reliable, and applicable over a wide range of operating conditions (acid gas feeds ranging from 13% to 95% H/sub 2/S with different levels of impurities). The methodology developed in this study should be applicable to any reaction systems where kinetic limitations are important but where equilibrium still prevails.

  4. Ligand Affinities Estimated by Quantum Chemical Calculations.

    PubMed

    Sderhjelm, Pr; Kongsted, Jacob; Ryde, Ulf

    2010-05-11

    We present quantum chemical estimates of ligand-binding affinities performed, for the first time, at a level of theory for which there is a hope that dispersion and polarization effects are properly accounted for (MP2/cc-pVTZ) and at the same time effects of solvation, entropy, and sampling are included. We have studied the binding of seven biotin analogues to the avidin tetramer. The calculations have been performed by the recently developed PMISP approach (polarizable multipole interactions with supermolecular pairs), which treats electrostatic interactions by multipoles up to quadrupoles, induction by anisotropic polarizabilities, and nonclassical interactions (dispersion, exchange repulsion, etc.) by explicit quantum chemical calculations, using a fragmentation approach, except for long-range interactions that are treated by standard molecular-mechanics Lennard-Jones terms. In order to include effects of sampling, 10 snapshots from a molecular dynamics simulation are studied for each biotin analogue. Solvation energies are estimated by the polarized continuum model (PCM), coupled to the multipole-polarizability model. Entropy effects are estimated from vibrational frequencies, calculated at the molecular mechanics level. We encounter several problems, not previously discussed, illustrating that we are first to apply such a method. For example, the PCM model is, in the present implementation, questionable for large molecules, owing to the use of a surface definition that gives numerous small cavities in a protein. PMID:26615702

  5. Spatial Kinetics Calculations of MOX Fueled Core: Variant 22

    SciTech Connect

    Pavlovichev, A.M.

    2001-01-11

    This work is part of a Joint US/Russian Project with Weapons-Grade Plutonium Disposition in VVER Reactors and presents the results of spatial kinetics calculational benchmarks. The examinations were carried out with the following purposes: to verify one of spatial neutronic kinetics model elaborated in KI, to understand sensibility of the model to neutronics difference of UOX and MOX cores, to compare in future point and spatial kinetics models (on the base of a set of selected accidents) in view of eventual creation of RELAP option with 3D kinetics. The document contains input data and results of model operation of three emergency dynamic processes in the VVER-1000 core: central control rod ejection by pressure drop caused by destroying of the moving mechanism cover; overcooling of the reactor core caused by steam line rupture and non-closure of steam generator stop valve; and the boron dilution of coolant in part of the VVER-1000 core caused by penetration of the distillate slug into the core at start up of non-working loop.

  6. Coupling of chemical kinetics, gas dynamics, and charged particle kinetics models for the analysis of NO reduction from flue gases

    SciTech Connect

    Eichwald, O.; Yousfi, M.; Hennad, A.; Benabdessadok, M.D.

    1997-11-01

    A chemical kinetics model is developed to analyze the time evolution of the different main species involved in a flue gas initially stressed by a pulsed corona discharge at the atmospheric pressure and including N{sub 2}, O{sub 2}, H{sub 2}O, and CO{sub 2} with a few ppm of NO. The present chemical kinetics model is coupled to a gas dynamics model used to analyze the radial expansion of the gas in the ionized channel created during the discharge phase. It is also meant to analyze the gas heating due to the Joule effect. This chemical kinetics model is also coupled to charged particle kinetics models based on a Boltzmann equation model to calculate the electron-molecule reaction coefficients in the flue gas and on a Monte Carlo code to estimate the energy and momentum transfer terms relative to ion-molecule collisions which are the input data for the gas dynamics model. It is shown, in particular, that the evolution of the radicals and the oxides is substantially affected by the gas temperature rise (from the initial value of 300 K up to 750 K near the anode) thus emphasizing the present coupling between gas dynamics, charged particle, and chemical kinetics models. {copyright} {ital 1997 American Institute of Physics.}

  7. Understanding Chemical Reaction Kinetics and Equilibrium with Interlocking Building Blocks

    ERIC Educational Resources Information Center

    Cloonan, Carrie A.; Nichol, Carolyn A.; Hutchinson, John S.

    2011-01-01

    Chemical reaction kinetics and equilibrium are essential core concepts of chemistry but are challenging topics for many students, both at the high school and undergraduate university level. Visualization at the molecular level is valuable to aid understanding of reaction kinetics and equilibrium. This activity provides a discovery-based method to

  8. Understanding Chemical Reaction Kinetics and Equilibrium with Interlocking Building Blocks

    ERIC Educational Resources Information Center

    Cloonan, Carrie A.; Nichol, Carolyn A.; Hutchinson, John S.

    2011-01-01

    Chemical reaction kinetics and equilibrium are essential core concepts of chemistry but are challenging topics for many students, both at the high school and undergraduate university level. Visualization at the molecular level is valuable to aid understanding of reaction kinetics and equilibrium. This activity provides a discovery-based method to…

  9. The Multiplexed Chemical Kinetic Photoionization Mass Spectrometer: A New Approach To Isomer-resolved Chemical Kinetics

    SciTech Connect

    Osborne, David L.; Zou, Peng; Johnsen, Howard; Hayden, Carl C.; Taatjes, Craig A.; Knyazev, Vadim D.; North, Simon W.; Peterka, Darcy S.; Ahmed, Musahid; Leone, Stephen R.

    2008-08-28

    We have developed a multiplexed time- and photon-energy?resolved photoionizationmass spectrometer for the study of the kinetics and isomeric product branching of gasphase, neutral chemical reactions. The instrument utilizes a side-sampled flow tubereactor, continuously tunable synchrotron radiation for photoionization, a multi-massdouble-focusing mass spectrometer with 100percent duty cycle, and a time- and positionsensitive detector for single ion counting. This approach enables multiplexed, universal detection of molecules with high sensitivity and selectivity. In addition to measurement of rate coefficients as a function of temperature and pressure, different structural isomers can be distinguished based on their photoionization efficiency curves, providing a more detailed probe of reaction mechanisms. The multiplexed 3-dimensional data structure (intensity as a function of molecular mass, reaction time, and photoionization energy) provides insights that might not be available in serial acquisition, as well as additional constraints on data interpretation.

  10. A hybrid computer program for rapidly solving flowing or static chemical kinetic problems involving many chemical species

    NASA Technical Reports Server (NTRS)

    Mclain, A. G.; Rao, C. S. R.

    1976-01-01

    A hybrid chemical kinetic computer program was assembled which provides a rapid solution to problems involving flowing or static, chemically reacting, gas mixtures. The computer program uses existing subroutines for problem setup, initialization, and preliminary calculations and incorporates a stiff ordinary differential equation solution technique. A number of check cases were recomputed with the hybrid program and the results were almost identical to those previously obtained. The computational time saving was demonstrated with a propane-oxygen-argon shock tube combustion problem involving 31 chemical species and 64 reactions. Information is presented to enable potential users to prepare an input data deck for the calculation of a problem.

  11. Chemical Kinetic Modeling of HMX and TATB Laser Ignition Tests

    SciTech Connect

    Tarver, C M

    2004-03-02

    Recent laser ignition experiments on octahydro-1,3,5,7-tetranitro-1,3,5,7-terrazocine (HMX) and 1,3,5-triamino-2,4,6-trinitrobenzene (TATB) subjected to laser fluxes ranging from 10 to 800 W/cm{sup 2} produced ignition times from seconds to milliseconds. Global chemical kinetic thermal decomposition models for HMX and TATB have been developed to calculate times to thermal explosion for experiments in the seconds to days time frame. These models are applied to the laser ignition experimental data in this paper. Excellent agreement was obtained for TATB, while the calculated ignition times were longer than experiment for HMX at lower laser fluxes. At the temperatures produced in the laser experiments, HMX melts. Melting generally increases condensed phase reaction rates so faster rates were used for three of the HMX reaction rates. This improved agreement with experiments at the lower laser fluxes but yielded very fast ignition at high fluxes. The calculated times to ignition are in reasonable agreement with the laser ignition experiments, and this justifies the use of these models for estimating reaction times at impact and shock ''hot spot'' temperatures.

  12. Optimization of KINETICS Chemical Computation Code

    NASA Technical Reports Server (NTRS)

    Donastorg, Cristina

    2012-01-01

    NASA JPL has been creating a code in FORTRAN called KINETICS to model the chemistry of planetary atmospheres. Recently there has been an effort to introduce Message Passing Interface (MPI) into the code so as to cut down the run time of the program. There has been some implementation of MPI into KINETICS; however, the code could still be more efficient than it currently is. One way to increase efficiency is to send only certain variables to all the processes when an MPI subroutine is called and to gather only certain variables when the subroutine is finished. Therefore, all the variables that are used in three of the main subroutines needed to be investigated. Because of the sheer amount of code that there is to comb through this task was given as a ten-week project. I have been able to create flowcharts outlining the subroutines, common blocks, and functions used within the three main subroutines. From these flowcharts I created tables outlining the variables used in each block and important information about each. All this information will be used to determine how to run MPI in KINETICS in the most efficient way possible.

  13. Hungarian University Students' Misunderstandings in Thermodynamics and Chemical Kinetics

    ERIC Educational Resources Information Center

    Turanyi, Tamas; Toth, Zoltan

    2013-01-01

    The misunderstandings related to thermodynamics (including chemical equilibrium) and chemical kinetics of first and second year Hungarian students of chemistry, environmental science, biology and pharmacy were investigated. We demonstrated that Hungarian university students have similar misunderstandings in physical chemistry to those reported in…

  14. Chemical kinetics computer program for static and flow reactions

    NASA Technical Reports Server (NTRS)

    Bittker, D. A.; Scullin, V. J.

    1972-01-01

    General chemical kinetics computer program for complex gas mixtures has been developed. Program can be used for any homogeneous reaction in either one dimensional flow or static system. It is flexible, accurate, and easy to use. It can be used for any chemical system for which species thermodynamic data and reaction rate constant data are known.

  15. Hungarian University Students' Misunderstandings in Thermodynamics and Chemical Kinetics

    ERIC Educational Resources Information Center

    Turanyi, Tamas; Toth, Zoltan

    2013-01-01

    The misunderstandings related to thermodynamics (including chemical equilibrium) and chemical kinetics of first and second year Hungarian students of chemistry, environmental science, biology and pharmacy were investigated. We demonstrated that Hungarian university students have similar misunderstandings in physical chemistry to those reported in

  16. [Study on Chemical Kinetic Effect of Dielectric Barrier Discharge Plasma].

    PubMed

    Zrang, Peng; Hong, Yan-ji; Shen, Shuang-yan; Ding, Xiao-yu; Ma, Di

    2015-03-01

    To reveal the mechanism of plasma (assisted the ignition process of methane/air further, schematic of dielectric barrier discharge plasma system with atmospheric air was designed and set up, the emission spectrum of dielectric barrier discharge plasma with atmospheric air was measured, and the active particles produced by the interaction of dielectric barrier discharge plasma with atmospheric air were analyzed with the spectrum technology, the ignition model and calculation methods of sensitivity analysis and reaction path analysis were given, effects of NO and O3 on the ignition delay time were simulated, and the chemical kinetics mechanism of NO and O3 assisted ignition was revealed via sensitivity analysis and reaction path analysis. The results show that main excited particles of N2 and O3 are generated via effect of plasma on the atmospheric air, which are converted into active particles of NO(?) and O3 in the end, the life of which are longer than any other active particles, effects of plasma on the ignition is simplified as effects of NO(?) and O3 on the ignition; NO and O3 could reduce the ignition delay time significantly, but the amplitude decrease with increase of the initial temperature, this is because the rate of ignition is decided by the oxidation rate of CH3, the oxidized pathway of CH3 is R155 and R156 for auto-ignition and their rates are slower when temperature is low, so the ignition delay time of methane/air is longer; NO could reduce the ignition delay time significantly because of the oxidized pathway of CH3 is changed to R327 CH3O2 + NO = CH3O + NO2, R328 CH3 + NO2 = CH3O + NO for NO(?) (assisted ignition process from R155 and R156 for auto-ignition; and the chemical kinetic effect is the dominating factor of O3 on the ignition and which change the reaction path. PMID:26117883

  17. Fluid flow and chemical reaction kinetics in metamorphic systems

    SciTech Connect

    Lasaga, A.C.; Rye, D.M. )

    1993-05-01

    The treatment and effects of chemical reaction kinetics during metamorphism are developed along with the incorporation of fluid flow, diffusion, and thermal evolution. The interplay of fluid flow and surface reaction rates, the distinction between steady state and equilibrium, and the possible overstepping of metamorphic reactions are discussed using a simple analytic model. This model serves as an introduction to the second part of the paper, which develops a reaction model that solves the coupled temperature-fluid flow-chemical composition differential equations relevant to metamorphic processes. Consideration of stable isotopic evidence requires that such a kinetic model be considered for the chemical evolution of a metamorphic aureole. A general numerical scheme is discussed to handle the solution of the model. The results of this kinetic model allow us to reach several important conclusions regarding the factors controlling the chemical evolution of mineral assemblages during a metamorphic event. 41 refs., 19 figs., 5 tabs.

  18. Fourth-Order Vibrational Transition State Theory and Chemical Kinetics

    NASA Astrophysics Data System (ADS)

    Stanton, John F.; Matthews, Devin A.; Gong, Justin Z.

    2015-06-01

    Second-order vibrational perturbation theory (VPT2) is an enormously successful and well-established theory for treating anharmonic effects on the vibrational levels of semi-rigid molecules. Partially as a consequence of the fact that the theory is exact for the Morse potential (which provides an appropriate qualitative model for stretching anharmonicity), VPT2 calculations for such systems with appropriate ab initio potential functions tend to give fundamental and overtone levels that fall within a handful of wavenumbers of experimentally measured positions. As a consequence, the next non-vanishing level of perturbation theory -- VPT4 -- offers only slight improvements over VPT2 and is not practical for most calculations since it requires information about force constants up through sextic. However, VPT4 (as well as VPT2) can be used for other applications such as the next vibrational correction to rotational constants (the ``gammas'') and other spectroscopic parameters. In addition, the marriage of VPT with the semi-classical transition state theory of Miller (SCTST) has recently proven to be a powerful and accurate treatment for chemical kinetics. In this talk, VPT4-based SCTST tunneling probabilities and cumulative reaction probabilities are give for the first time for selected low-dimensional model systems. The prospects for VPT4, both practical and intrinsic, will also be discussed.

  19. A kinetic-theory approach to turbulent chemically reacting flows

    NASA Technical Reports Server (NTRS)

    Chung, P. M.

    1976-01-01

    The paper examines the mathematical and physical foundations for the kinetic theory of reactive turbulent flows, discussing the differences and relation between the kinetic and averaged equations, and comparing some solutions of the kinetic equations obtained by the Green's function method with those obtained by the approximate bimodal method. The kinetic method described consists essentially in constructing the probability density functions of the chemical species on the basis of solutions of the Langevin stochastic equation for the influence of eddies on the behavior of fluid elements. When the kinetic equations are solved for the structure of the diffusion flame established in a shear layer by the bimodal method, discontinuities in gradients of the mean concentrations at the two flame edges appear. This is a consequence of the bimodal approximation of all distribution functions by two dissimilar half-Maxwellian functions, which is a very crude approximation. These discontinuities do not appear when the solutions are constructed by the Green's function method described here.

  20. A Gas-Kinetic Scheme for Multimaterial Flows and Its Application in Chemical Reaction

    NASA Technical Reports Server (NTRS)

    Lian, Yongsheng; Xu, Kun

    1999-01-01

    This paper concerns the extension of the multicomponent gas-kinetic BGK-type scheme to multidimensional chemical reactive flow calculations. In the kinetic model, each component satisfies its individual gas-kinetic BGK equation and the equilibrium states of both components are coupled in space and time due to the momentum and energy exchange in the course of particle collisions. At the same time, according to the chemical reaction rule one component can be changed into another component with the release of energy, where the reactant and product could have different gamma. Many numerical test cases are included in this paper, which show the robustness and accuracy of kinetic approach in the description of multicomponent reactive flows.

  1. Ernest Rutherford, Avogadro's Number, and Chemical Kinetics

    NASA Astrophysics Data System (ADS)

    Leenson, I. A.

    1998-08-01

    The paper presents a way for students to use data from Rutherford's works (1908 - 1911) in order to determine one of the most precise values of Avogadro Constant available at the beginning of the century. A brief discussion of earlier and modern methods for the determination of this fundamental constant is followed by vast quotations from the works of Rutherford, Boltwood and Geiger. Then there are given a dozen of problems and questions for students about these classical experiments; they vary in complexity from rather simple to quite challenging. Additional information and hints are provided to help the students in solving the problems. The last part contains detailed answers and solutions to all problems. The article will be useful for students of general chemistry, radiochemistry and physical chemistry (kinetics).

  2. Chemical Kinetic Models for HCCI and Diesel Combustion

    SciTech Connect

    Pitz, W J; Westbrook, C K; Mehl, M; Sarathy, S M

    2010-11-15

    Predictive engine simulation models are needed to make rapid progress towards DOE's goals of increasing combustion engine efficiency and reducing pollutant emissions. These engine simulation models require chemical kinetic submodels to allow the prediction of the effect of fuel composition on engine performance and emissions. Chemical kinetic models for conventional and next-generation transportation fuels need to be developed so that engine simulation tools can predict fuel effects. The objectives are to: (1) Develop detailed chemical kinetic models for fuel components used in surrogate fuels for diesel and HCCI engines; (2) Develop surrogate fuel models to represent real fuels and model low temperature combustion strategies in HCCI and diesel engines that lead to low emissions and high efficiency; and (3) Characterize the role of fuel composition on low temperature combustion modes of advanced combustion engines.

  3. Computational fluid dynamics coupled with chemical kinetics, combustion and thermodynamics

    NASA Astrophysics Data System (ADS)

    Jokilaakso, A.

    This volume contains the proceedings of papers presented at the Colloquium on Process Simulation held at Helsinki University of Technology, Espoo, Finland, August 3-4, 1994. The presentations at the colloquium were all invited as this was the first meeting organized on the topic covering process modelling and computational fluid dynamics involving chemical kinetics, combustion and thermodynamics. Thermodynamic modelling and heat transfer problems in metallurgical processes have been studied at the Laboratory of Materials Processing and Powder Metallurgy, Helsinki University of Technology since 1970s. Combining chemical kinetics, combustion and thermodynamics with CFD-modelling have been studied at the laboratory during the last few years. Therefore, an annual colloquium was initiated for bringing together researchers in different process simulation fields to discuss the present status of the process modelling and, especially, the CFD-modelling involving chemical kinetics, combustion and thermodynamics.

  4. The chemical shock tube as a tool for studying high-temperature chemical kinetics

    NASA Technical Reports Server (NTRS)

    Brabbs, Theodore A.

    1986-01-01

    Although the combustion of hydrocarbons is our primary source of energy today, the chemical reactions, or pathway, by which even the simplest hydro-carbon reacts with atmospheric oxygen to form CO2 and water may not always be known. Furthermore, even when the reaction pathway is known, the reaction rates are always under discussion. The shock tube has been an important and unique tool for building a data base of reaction rates important in the combustion of hydrocarbon fuels. The ability of a shock wave to bring the gas sample to reaction conditions rapidly and homogeneously makes shock-tube studies of reaction kinetics extremely attractive. In addition to the control and uniformity of reaction conditions achieved with shock-wave methods, shock compression can produce gas temperatures far in excess of those in conventional reactors. Argon can be heated to well over 10 000 K, and temperatures around 5000 K are easily obtained with conventional shock-tube techniques. Experiments have proven the validity of shock-wave theory; thus, reaction temperatures and pressures can be calculated from a measurement of the incident shock velocity. A description is given of the chemical shock tube and auxiliary equipment and of two examples of kinetic experiments conducted in a shock tube.

  5. Kinetics of chemical weathering in b horizon spodosol fraction

    SciTech Connect

    Asolekar, S.R.; Valentine, R.L.; Schnoor, J.L.

    1991-01-01

    The purpose of this study is to investigate the rate and kinetic formulation of chemical weathering on an isolated fraction of whole soil, specifically, whether the rate of chemical weathering is proportional to a fractional power of the hydrogen ion activity in soil solution, a kinetic formulation that is consistent with a surface-reaction-controlled dissolution mechanism. Weathering experiments were also conducted to investigate the effect of an accumulation of base cations (near saturation for kaolinite) on the weathering rate in the semicontinuous mode of operation of a laboratory pH-stat reactor.

  6. A kinetic and equilibrium analysis of silicon carbide chemical vapor deposition on monofilaments

    NASA Technical Reports Server (NTRS)

    Gokoglu, S. A.; Kuczmarski, M. A.

    1993-01-01

    Chemical kinetics of atmospheric pressure silicon carbide (SiC) chemical vapor deposition (CVD) from dilute silane and propane source gases in hydrogen is numerically analyzed in a cylindrical upflow reactor designed for CVD on monofilaments. The chemical composition of the SiC deposit is assessed both from the calculated total fluxes of carbon and silicon and from chemical equilibrium considerations for the prevailing temperatures and species concentrations at and along the filament surface. The effects of gas and surface chemistry on the evolution of major gas phase species are considered in the analysis.

  7. The applications of chemical thermodynamics and chemical kinetics to planetary atmospheres research

    NASA Technical Reports Server (NTRS)

    Fegley, Bruce, Jr.

    1990-01-01

    A review of the applications of chemical thermodynamics and chemical kinetics to planetary atmospheres research during the past four decades is presented with an emphasis on chemical equilibrium models and thermochemical kinetics. Several current problems in planetary atmospheres research such as the origin of the atmospheres of the terrestrial planets, atmosphere-surface interactions on Venus and Mars, deep mixing in the atmospheres of the gas giant planets, and the origin of the atmospheres of outer planet satellites all require laboratory data on the kinetics of thermochemical reactions for their solution.

  8. LSENS - GENERAL CHEMICAL KINETICS AND SENSITIVITY ANALYSIS CODE

    NASA Technical Reports Server (NTRS)

    Bittker, D. A.

    1994-01-01

    LSENS has been developed for solving complex, homogeneous, gas-phase, chemical kinetics problems. The motivation for the development of this program is the continuing interest in developing detailed chemical reaction mechanisms for complex reactions such as the combustion of fuels and pollutant formation and destruction. A reaction mechanism is the set of all elementary chemical reactions that are required to describe the process of interest. Mathematical descriptions of chemical kinetics problems constitute sets of coupled, nonlinear, first-order ordinary differential equations (ODEs). The number of ODEs can be very large because of the numerous chemical species involved in the reaction mechanism. Further complicating the situation are the many simultaneous reactions needed to describe the chemical kinetics of practical fuels. For example, the mechanism describing the oxidation of the simplest hydrocarbon fuel, methane, involves over 25 species participating in nearly 100 elementary reaction steps. Validating a chemical reaction mechanism requires repetitive solutions of the governing ODEs for a variety of reaction conditions. Analytical solutions to the systems of ODEs describing chemistry are not possible, except for the simplest cases, which are of little or no practical value. Consequently, there is a need for fast and reliable numerical solution techniques for chemical kinetics problems. In addition to solving the ODEs describing chemical kinetics, it is often necessary to know what effects variations in either initial condition values or chemical reaction mechanism parameters have on the solution. Such a need arises in the development of reaction mechanisms from experimental data. The rate coefficients are often not known with great precision and in general, the experimental data are not sufficiently detailed to accurately estimate the rate coefficient parameters. The development of a reaction mechanism is facilitated by a systematic sensitivity analysis which provides the relationships between the predictions of a kinetics model and the input parameters of the problem. LSENS provides for efficient and accurate chemical kinetics computations and includes sensitivity analysis for a variety of problems, including nonisothermal conditions. LSENS replaces the previous NASA general chemical kinetics codes GCKP and GCKP84. LSENS is designed for flexibility, convenience and computational efficiency. A variety of chemical reaction models can be considered. The models include static system, steady one-dimensional inviscid flow, reaction behind an incident shock wave including boundary layer correction, and the perfectly stirred (highly backmixed) reactor. In addition, computations of equilibrium properties can be performed for the following assigned states, enthalpy and pressure, temperature and pressure, internal energy and volume, and temperature and volume. For static problems LSENS computes sensitivity coefficients with respect to the initial values of the dependent variables and/or the three rates coefficient parameters of each chemical reaction. To integrate the ODEs describing chemical kinetics problems, LSENS uses the packaged code LSODE, the Livermore Solver for Ordinary Differential Equations, because it has been shown to be the most efficient and accurate code for solving such problems. The sensitivity analysis computations use the decoupled direct method, as implemented by Dunker and modified by Radhakrishnan. This method has shown greater efficiency and stability with equal or better accuracy than other methods of sensitivity analysis. LSENS is written in FORTRAN 77 with the exception of the NAMELIST extensions used for input. While this makes the code fairly machine independent, execution times on IBM PC compatibles would be unacceptable to most users. LSENS has been successfully implemented on a Sun4 running SunOS and a DEC VAX running VMS. With minor modifications, it should also be easily implemented on other platforms with FORTRAN compilers which support NAMELIST input. LSENS required 4Mb of RAM under Sun

  9. Kinetics of the chemical degradation of diuron.

    PubMed

    Salvestrini, Stefano; Di Cerbo, Paola; Capasso, Sante

    2002-07-01

    The influence of pH and buffer concentration on the chemical degradation of diuron in water has been analysed over a wide temperature range. The process irreversibly gives 3,4-dichloroaniline as the only product containing the phenyl ring. H+, OH- and phosphate buffer are efficient catalysts of the reaction. The rate constant first increases rapidly at low buffer concentrations and then gradually levels off at higher ones. At 40 degrees C and high phosphate concentration (>0.01 M), or in the extreme pH regions, the half-life is approximately 4 months and the activation energy is 127 +/- 2 kJmol(-1). PMID:12137059

  10. Integration Strategies for Efficient Multizone Chemical Kinetics Models

    SciTech Connect

    McNenly, M J; Havstad, M A; Aceves, S M; Pitz, W J

    2009-10-15

    Three integration strategies are developed and tested for the stiff, ordinary differential equation (ODE) integrators used to solve the fully coupled multizone chemical kinetics model. Two of the strategies tested are found to provide more than an order of magnitude of improvement over the original, basic level of usage for the stiff ODE solver. One of the faster strategies uses a decoupled, or segregated, multizone model to generate an approximate Jacobian. This approach yields a 35-fold reduction in the computational cost for a 20 zone model. Using the same approximate Jacobian as a preconditioner for an iterative Krylov-type linear system solver, the second improved strategy achieves a 75-fold reduction in the computational cost for a 20 zone model. The faster strategies achieve their cost savings with no significant loss of accuracy. The pressure, temperature and major species mass fractions agree with the solution from the original integration approach to within six significant digits; and the radical mass fractions agree with the original solution to within four significant digits. The faster strategies effectively change the cost scaling of the multizone model from cubic to quadratic, with respect to the number of zones. As a consequence of the improved scaling, the 40 zone model offers more than a 250-fold cost savings over the basic calculation.

  11. Combustion Research Program: Flame studies, laser diagnostics, and chemical kinetics

    SciTech Connect

    Crosley, D.R.

    1992-09-01

    This project has comprised laser flame diagnostic experiments, chemical kinetics measurements, and low pressure flame studies. Collisional quenching has been investigated for several systems: the OH radical, by H{sub 2}0 in low pressure flames; the rotational level dependence for NH, including measurements to J=24; and of NH{sub 2} at room temperature. Transition probability measurements for bands involving v{prime} = 2 and 3 of the A-X system of OH were measured in a flame. Laser-induced fluorescence of vinyl radicals was unsuccessfully attempted. RRKM and transition state theory calculations were performed on the OH + C{sub 2}H{sub 4} reaction, on the t-butyl radical + HX; and transition state theory has been applied to a series of bond scission reactions. OH concentrations were measured quantitatively in low pressure H{sub 2}/N{sub 2}O and H{sub 2}/O{sub 2} flames, and the ability to determine spatially precise flame temperatures accurately using OH laser-induced fluorescence was studied.

  12. Prospective Chemistry Teachers' Conceptions of Chemical Thermodynamics and Kinetics

    ERIC Educational Resources Information Center

    Sozbilir, Mustafa; Pinarbasi, Tacettin; Canpolat, Nurtac

    2010-01-01

    This study aimed at identifying specifically prospective chemistry teachers' difficulties in determining the differences between the concepts of chemical thermodynamics and kinetics. Data were collected from 67 prospective chemistry teachers at Kazim Karabekir Education Faculty of Ataturk University in Turkey during 2005-2006 academic year. Data

  13. Chemical Kinetics at the Single-Molecule Level

    ERIC Educational Resources Information Center

    Levitus, Marcia

    2011-01-01

    For over a century, chemists have investigated the rates of chemical reactions using experimental conditions involving huge numbers of molecules. As a consequence, the description of the kinetics of the reaction in terms of average values was good enough for all practical purposes. From the pedagogical point of view, such a description misses the…

  14. Prospective Chemistry Teachers' Conceptions of Chemical Thermodynamics and Kinetics

    ERIC Educational Resources Information Center

    Sozbilir, Mustafa; Pinarbasi, Tacettin; Canpolat, Nurtac

    2010-01-01

    This study aimed at identifying specifically prospective chemistry teachers' difficulties in determining the differences between the concepts of chemical thermodynamics and kinetics. Data were collected from 67 prospective chemistry teachers at Kazim Karabekir Education Faculty of Ataturk University in Turkey during 2005-2006 academic year. Data…

  15. Chemical Kinetics at the Single-Molecule Level

    ERIC Educational Resources Information Center

    Levitus, Marcia

    2011-01-01

    For over a century, chemists have investigated the rates of chemical reactions using experimental conditions involving huge numbers of molecules. As a consequence, the description of the kinetics of the reaction in terms of average values was good enough for all practical purposes. From the pedagogical point of view, such a description misses the

  16. Calculation of stable isotope enrichment tracer kinetic procedures.

    PubMed

    Buckley, W T; Huckin, S N; Eigendorf, G K

    1985-01-01

    The choice of method of expressing isotopic enrichment in tracer kinetic experiments utilizing stable isotopes was found to affect the calculation of tracee pool size and half-life. The most commonly used definition, the difference between enriched and natural abundance, i.e. atom percent excess, was found to result in significant error in model systems when the dose of tracer was 10% of the pool size. Errors in determining first-order rate constants of efflux and in pool sizes decreased with decreasing ratio of tracer to tracee. Error in determining pool size increased with longer 'sampling' periods, while error in determining the rate constant increased with shorter sampling periods. Of three less frequently used expressions of isotopic enrichment two were found to yield the exact answers in model systems. The correct expressions of isotopic enrichment were linear functions of the quantity of tracer in the system. A practical example demonstrated the effect of choice of expression of enrichment on estimates of whole body copper pool size and turnover in dairy cattle. PMID:3157407

  17. Chemical kinetic performance losses for a hydrogen laser thermal thruster

    NASA Technical Reports Server (NTRS)

    Mccay, T. D.; Dexter, C. E.

    1985-01-01

    Projected requirements for efficient, economical, orbit-raising propulsion systems have generated investigations into several potentially high specific impulse, moderate thrust, advanced systems. One of these systems, laser thermal propulsion, utilizes a high temperature plasma as the enthalpy source. The plasma is sustained by a focused laser beam which maintains the plasma temperature at levels near 20,000 K. Since such temperature levels lead to total dissociation and high ionization, the plasma thruster system potentially has a high specific impulse decrement due to recombination losses. The nozzle flow is expected to be sufficiently nonequilibrium to warrant concern over the achievable specific impluse. This investigation was an attempt at evaluation of those losses. The One-Dimensional Kinetics (ODK) option of the Two-Dimensional Kinetics (TDK) Computer Program was used with a chemical kinetics rate set obtained from available literature to determine the chemical kinetic energy losses for typical plasma thruster conditions. The rates were varied about the nominal accepted values to band the possible losses. Kinetic losses were shown to be highly significant for a laser thermal thruster using hydrogen. A 30 percent reduction in specific impulse is possible simply due to the inability to completely extract the molecular recombination energy.

  18. Chemical kinetic reaction mechanism for the combustion of propane

    NASA Technical Reports Server (NTRS)

    Jachimowski, C. J.

    1984-01-01

    A detailed chemical kinetic reaction mechanism for the combustion of propane is presented and discussed. The mechanism consists of 27 chemical species and 83 elementary chemical reactions. Ignition and combustion data as determined in shock tube studies were used to evaluate the mechanism. Numerical simulation of the shock tube experiments showed that the kinetic behavior predicted by the mechanism for stoichiometric mixtures is in good agrement with the experimental results over the entire temperature range examined (1150-2600K). Sensitivity and theoretical studies carried out using the mechanism revealed that hydrocarbon reactions which are involved in the formation of the HO2 radical and the H2O2 molecule are very important in the mechanism and that the observed nonlinear behavior of ignition delay time with decreasing temperature can be interpreted in terms of the increased importance of the HO2 and H2O2 reactions at the lower temperatures.

  19. Infrared absorption spectroscopy and chemical kinetics of free radicals

    SciTech Connect

    Curl, R.F.; Glass, G.P.

    1993-12-01

    This research is directed at the detection, monitoring, and study of chemical kinetic behavior by infrared absorption spectroscopy of small free radical species thought to be important intermediates in combustion. During the last year, infrared kinetic spectroscopy using excimer laser flash photolysis and color-center laser probing has been employed to study the high resolution spectrum of HCCN, the rate constant of the reaction between ethynyl (C{sub 2}H) radical and H{sub 2} in the temperature region between 295 and 875 K, and the recombination rate of propargyl (CH{sub 2}CCH) at room temperature.

  20. DNA as a universal substrate for chemical kinetics.

    PubMed

    Soloveichik, David; Seelig, Georg; Winfree, Erik

    2010-03-23

    Molecular programming aims to systematically engineer molecular and chemical systems of autonomous function and ever-increasing complexity. A key goal is to develop embedded control circuitry within a chemical system to direct molecular events. Here we show that systems of DNA molecules can be constructed that closely approximate the dynamic behavior of arbitrary systems of coupled chemical reactions. By using strand displacement reactions as a primitive, we construct reaction cascades with effectively unimolecular and bimolecular kinetics. Our construction allows individual reactions to be coupled in arbitrary ways such that reactants can participate in multiple reactions simultaneously, reproducing the desired dynamical properties. Thus arbitrary systems of chemical equations can be compiled into real chemical systems. We illustrate our method on the Lotka-Volterra oscillator, a limit-cycle oscillator, a chaotic system, and systems implementing feedback digital logic and algorithmic behavior. PMID:20203007

  1. Chemical Dynamics, Molecular Energetics, and Kinetics at the Synchrotron

    SciTech Connect

    Leone, Stephen R.; Ahmed, Musahid; Wilson, Kevin R.

    2010-03-14

    Scientists at the Chemical Dynamics Beamline of the Advanced Light Source in Berkeley are continuously reinventing synchrotron investigations of physical chemistry and chemical physics with vacuum ultraviolet light. One of the unique aspects of a synchrotron for chemical physics research is the widely tunable vacuum ultraviolet light that permits threshold ionization of large molecules with minimal fragmentation. This provides novel opportunities to assess molecular energetics and reaction mechanisms, even beyond simple gas phase molecules. In this perspective, significant new directions utilizing the capabilities at the Chemical Dynamics Beamline are presented, along with an outlook for future synchrotron and free electron laser science in chemical dynamics. Among the established and emerging fields of investigations are cluster and biological molecule spectroscopy and structure, combustion flame chemistry mechanisms, radical kinetics and product isomer dynamics, aerosol heterogeneous chemistry, planetary and interstellar chemistry, and secondary neutral ion-beam desorption imaging of biological matter and materials chemistry.

  2. Calculation of kinetic rate constants from thermodynamic data

    NASA Technical Reports Server (NTRS)

    Marek, C. John

    1995-01-01

    A new scheme for relating the absolute value for the kinetic rate constant k to the thermodynamic constant Kp is developed for gases. In this report the forward and reverse rate constants are individually related to the thermodynamic data. The kinetic rate constants computed from thermodynamics compare well with the current kinetic rate constants. This method is self consistent and does not have extensive rules. It is first demonstrated and calibrated by computing the HBr reaction from H2 and Br2. This method then is used on other reactions.

  3. Chemical Kinetic Study of Toluene Oxidation Under Premixed and Nonpremixed Conditions

    SciTech Connect

    Costa, I D; Bozzelli, J W; Seiser, R; Pitz, W J; Westbrook, C K; Chen, C -; Fournet, R; Seshadri, K; Battin-Leclerc, F; Billaud, F

    2003-12-10

    A study was performed to elucidate the chemical-kinetic mechanism of combustion of toluene. A detailed chemical-kinetic mechanism for toluene was improved by adding a more accurate description of the phenyl + O{sub 2} reaction channels, toluene decomposition reactions and the benzyl + O reaction. Results of the chemical kinetic mechanism are compared with experimental data obtained from premixed and non-premixed systems. Under premixed conditions, predicted ignition delay times are compared with new experimental data obtained in shock tube. Also, calculated species concentration histories are compared to experimental flow reactor data from the literature. Under non-premixed conditions, critical conditions of extinction and autoignition were measured in strained laminar flows in the counterflow configuration. Numerical calculations are performed using the chemical-kinetic mechanism at conditions corresponding to those in the experiments. Critical conditions of extinction and autoignition are predicted and compared with the experimental data. Comparisons between the model predictions and experimental results of ignition delay times in shock tube, and extinction and autoignition in non-premixed systems show that the chemical-kinetic mechanism predicts that toluene/air is overall less reactive than observed in the experiments. For both premixed and non-premixed systems, sensitivity analysis was used to identify the reaction rate constants that control the overall rate of oxidation in each of the systems considered. Under shock tube conditions, the reactions that influence ignition delay time are H + O{sub 2} chain branching, the toluene decomposition reaction to give an H atom, and the toluene + H abstraction reaction. The reactions that influence autoignition in non-premixed systems involve the benzyl + HO{sub 2} reaction and the phenyl + O{sub 2} reaction.

  4. Chemical Kinetic Modeling of Combustion of Automotive Fuels

    SciTech Connect

    Pitz, W J; Westbrook, C K; Silke, E J

    2006-11-10

    The objectives of this report are to: (1) Develop detailed chemical kinetic reaction models for components of fuels, including olefins and cycloalkanes used in diesel, spark-ignition and HCCI engines; (2) Develop surrogate mixtures of hydrocarbon components to represent real fuels and lead to efficient reduced combustion models; and (3) Characterize the role of fuel composition on production of emissions from practical automotive engines.

  5. Chemical-Kinetic Characterization of Autoignition and Combustion of Surrogate Diesel

    SciTech Connect

    Seshadri, K

    2003-03-03

    A study was performed to elucidate the chemical-kinetic mechanism of combustion of toluene. The research was performed in collaboration Dr. Charles Westbrook and Dr. William Pitz at Lawrence Livermore National Laboratory (LLNL). A detailed chemical-kinetic mechanism for toluene developed at LLNL was employed. Numerical calculations were performed using this mechanism and the results were compared with experimental data obtained from premixed and nonpremixed systems. Under premixed conditions, predicted ignition delay times were compared with new experimental data obtained by I. Da Costa, R. Fournet, F. Billaud, F. Battin-Leclerc at Departement de Chime Physique des Reactions, CNRS-ENSIC, BP. 451, 1, rue Grandville, 51001 Nancy, France. Also, calculated species concentration histories were compared to experimental flow reactor data from the literature. Under nonpremixed conditions, critical conditions of extinction and autoignition were measured in strained laminar flows in the counterflow configuration. Numerical calculations were performed using the chemical-kinetic mechanism at conditions corresponding to those in the experiments. Critical conditions of extinction and autoignition are predicted and compared with the experimental data. Comparisons between the model predictions and experimental results of ignition delay times in shock tube, and extinction and autoignition in nonpremixed systems show that the chemical-kinetic mechanism predicts that toluene/air is overall less reactive than observed in the experiments. The principal objective of this research is to obtain a fundamental understanding of the physical and chemical mechanisms of autoignition and combustion of Diesel in nonpremixed systems. The major components of Diesel are straight-chain paraffins, branched-chain paraffins, cycloparaffins, and aromatics. The results of this research on toluene are expected to be useful in understanding the role of aromatics in combustion of Diesel.

  6. A chemical kinetic model of hydrocarbon generation from the Bakken Formation, Williston Basin, North Dakota

    SciTech Connect

    Sweeney, J.J.; Braun, R.L.; Burnham, A.K.; Gosnold, W.D.

    1992-10-01

    This report describes a model of hydrocarbon generation and expulsion in the North Dakota portion of the Williston Basin. The modeling incorporates kinetic methods to simulate chemical reactions and 1-dimensional conductive heat flow models to simulate thermal histories of the Mississippian-Devonian Bakken Formation source rock. We developed thermal histories of the source rock for 53 wells in the basin using stratigraphic and heat flow data obtained by the University of North Dakota. Chemical kinetics for hydrocarbon generation, determined from Pyromat pyrolysis, were, then used with the diennal histories to calculate the present day value of the Rock-Eval T{sub max} for each well. The calculated Rock-Eval T{sub max} values agreed with measured values within amounts attributable to uncertainties in the chemical kinetics and the heat flow. These optimized thermal histories were then used with a more detailed chemical kinetic model of hydrocarbon generation and expulsion, modified from a model developed for the Cretaceous La Luna shale, to simulate pore pressure development and detailed aspects of the hydrocarbon chemistry. When compared to values estimated from sonic logs, the pore pressure calculation underestimates the role of hydrocarbon generation and overestimates the role of compaction disequilibrium, but it matches well the general areal extent of pore pressures of 0.7 times lithostatic and higher. The simulated chemistry agrees very well with measured values of HI, PI, H/C atomic ratio of the kerogen, and Rock-Eval S1. The model is not as successful in simulating the amount of extracted bitumen and its saturate content, suggesting that detailed hydrous pyrolysis experiments will probably be needed to further refine the chemical model.

  7. A chemical kinetic model of hydrocarbon generation from the Bakken Formation, Williston Basin, North Dakota

    SciTech Connect

    Sweeney, J.J.; Braun, R.L.; Burnham, A.K. ); Gosnold, W.D. )

    1992-10-01

    This report describes a model of hydrocarbon generation and expulsion in the North Dakota portion of the Williston Basin. The modeling incorporates kinetic methods to simulate chemical reactions and 1-dimensional conductive heat flow models to simulate thermal histories of the Mississippian-Devonian Bakken Formation source rock. We developed thermal histories of the source rock for 53 wells in the basin using stratigraphic and heat flow data obtained by the University of North Dakota. Chemical kinetics for hydrocarbon generation, determined from Pyromat pyrolysis, were, then used with the diennal histories to calculate the present day value of the Rock-Eval T[sub max] for each well. The calculated Rock-Eval T[sub max] values agreed with measured values within amounts attributable to uncertainties in the chemical kinetics and the heat flow. These optimized thermal histories were then used with a more detailed chemical kinetic model of hydrocarbon generation and expulsion, modified from a model developed for the Cretaceous La Luna shale, to simulate pore pressure development and detailed aspects of the hydrocarbon chemistry. When compared to values estimated from sonic logs, the pore pressure calculation underestimates the role of hydrocarbon generation and overestimates the role of compaction disequilibrium, but it matches well the general areal extent of pore pressures of 0.7 times lithostatic and higher. The simulated chemistry agrees very well with measured values of HI, PI, H/C atomic ratio of the kerogen, and Rock-Eval S1. The model is not as successful in simulating the amount of extracted bitumen and its saturate content, suggesting that detailed hydrous pyrolysis experiments will probably be needed to further refine the chemical model.

  8. Chemical Kinetic Models for HCCI and Diesel Combustion

    SciTech Connect

    Pitz, W J; Westbook, C K; Mehl, M

    2008-10-30

    Hydrocarbon fuels for advanced combustion engines consist of complex mixtures of hundreds or even thousands of different components. These components can be grouped into a number of chemically distinct classes, consisting of n-paraffins, branched paraffins, cyclic paraffins, olefins, oxygenates, and aromatics. Biodiesel contains its own unique chemical class called methyl esters. The fractional amounts of these chemical classes are quite different in gasoline, diesel fuel, oil-sand derived fuels and bio-derived fuels, which contributes to the very different combustion characteristics of each of these types of combustion systems. The objectives of this project are: (1) Develop detailed chemical kinetic models for fuel components used in surrogate fuels for diesel and HCCI engines; (2) Develop surrogate fuel models to represent real fuels and model low temperature combustion strategies in HCCI and diesel engines that lead to low emissions and high efficiency; and (3) Characterize the role of fuel composition on low temperature combustion modes of advanced combustion engines.

  9. Accelerating the Computation of Detailed Chemical Reaction Kinetics for Simulating Combustion of Complex Fuels

    SciTech Connect

    Sankaran, R.; Grout, R.

    2012-01-01

    Combustion of hydrocarbon fuels has been a very challenging scientific and engineering problem due to the complexity of turbulent flows and hydrocarbon reaction kinetics. There is an urgent need to develop an efficient modeling capability to accurately predict the combustion of complex fuels. Detailed chemical kinetic models for the surrogates of fuels such as gasoline, diesel and JP-8 consist of thousands of chemical species and Arrhenius reaction steps. Oxygenated fuels such as bio-fuels and heavier hydrocarbons, such as from newer fossil fuel sources, are expected to have a much more complex chemistry requiring increasingly larger chemical kinetic models. Such models are beyond current computational capability, except for homogeneous or partially stirred reactor type calculations. The advent of highly parallel multi-core processors and graphical processing units (GPUs) promises a steep increase in computational performance in the coming years. This paper will present a software framework that translates the detailed chemical kinetic models to high-performance code targeted for GPU accelerators.

  10. Impact of toxic organic chemicals on the kinetics of acetoclastic methanogenesis

    SciTech Connect

    Davies-Venn, C.; Young, J.C.; Tabak, H.H.

    1990-01-01

    A knowledge of the effect of toxic organic chemicals on the biotransformation characteristics of organic co-substrates is essential for predicting the impact of these chemicals in anaerobic processes. Bench-scale tests were conducted to assess the impact of toxic organic chemicals on the kinetics of acetoclastic methanogenesis and to determine the relationship between kinetic parameters obtained under non-toxic and toxic conditions. A computer model based on a finite difference non-linear least squares algorithm was used to calculate the kinetic parameters by obtaining a best-fit of the experimental data to the Michaelis-Menten substrate utilization model. Resulting kinetic coefficients revealed significant changes in both the maximum rate of acetate conversion, and the half-velocity coefficient, when using both chlorophenols and chloroanilines. Therefore, mixed inhibition was occurring. However, non-competitive mechanisms predominated with chemicals containing the 2-chloro functional group while competitive mechanisms seemed to predominate with the 3- and 4-chloro functional groups.

  11. Accelerating the Computation of Detailed Chemical Reaction Kinetics for Simulating Combustion of Complex Fuels

    SciTech Connect

    Grout, Ray W

    2012-01-01

    Combustion of hydrocarbon fuels has been a very challenging scientific and engineering problem due to the complexity of turbulent flows and hydrocarbon reaction kinetics. There is an urgent need to develop an efficient modeling capability to accurately predict the combustion of complex fuels. Detailed chemical kinetic models for the surrogates of fuels such as gasoline, diesel and JP-8 consist of thousands of chemical species and Arrhenius reaction steps. Oxygenated fuels such as bio-fuels and heavier hydrocarbons, such as from newer fossil fuel sources, are expected to have a much more complex chemistry requiring increasingly larger chemical kinetic models. Such models are beyond current computational capability, except for homogeneous or partially stirred reactor type calculations. The advent of highly parallel multi-core processors and graphical processing units (GPUs) promises a steep increase in computational performance in the coming years. This paper will present a software framework that translates the detailed chemical kinetic models to high- performance code targeted for GPU accelerators.

  12. LSENS - GENERAL CHEMICAL KINETICS AND SENSITIVITY ANALYSIS CODE

    NASA Technical Reports Server (NTRS)

    Bittker, D. A.

    1994-01-01

    LSENS has been developed for solving complex, homogeneous, gas-phase, chemical kinetics problems. The motivation for the development of this program is the continuing interest in developing detailed chemical reaction mechanisms for complex reactions such as the combustion of fuels and pollutant formation and destruction. A reaction mechanism is the set of all elementary chemical reactions that are required to describe the process of interest. Mathematical descriptions of chemical kinetics problems constitute sets of coupled, nonlinear, first-order ordinary differential equations (ODEs). The number of ODEs can be very large because of the numerous chemical species involved in the reaction mechanism. Further complicating the situation are the many simultaneous reactions needed to describe the chemical kinetics of practical fuels. For example, the mechanism describing the oxidation of the simplest hydrocarbon fuel, methane, involves over 25 species participating in nearly 100 elementary reaction steps. Validating a chemical reaction mechanism requires repetitive solutions of the governing ODEs for a variety of reaction conditions. Analytical solutions to the systems of ODEs describing chemistry are not possible, except for the simplest cases, which are of little or no practical value. Consequently, there is a need for fast and reliable numerical solution techniques for chemical kinetics problems. In addition to solving the ODEs describing chemical kinetics, it is often necessary to know what effects variations in either initial condition values or chemical reaction mechanism parameters have on the solution. Such a need arises in the development of reaction mechanisms from experimental data. The rate coefficients are often not known with great precision and in general, the experimental data are not sufficiently detailed to accurately estimate the rate coefficient parameters. The development of a reaction mechanism is facilitated by a systematic sensitivity analysis which provides the relationships between the predictions of a kinetics model and the input parameters of the problem. LSENS provides for efficient and accurate chemical kinetics computations and includes sensitivity analysis for a variety of problems, including nonisothermal conditions. LSENS replaces the previous NASA general chemical kinetics codes GCKP and GCKP84. LSENS is designed for flexibility, convenience and computational efficiency. A variety of chemical reaction models can be considered. The models include static system, steady one-dimensional inviscid flow, reaction behind an incident shock wave including boundary layer correction, and the perfectly stirred (highly backmixed) reactor. In addition, computations of equilibrium properties can be performed for the following assigned states, enthalpy and pressure, temperature and pressure, internal energy and volume, and temperature and volume. For static problems LSENS computes sensitivity coefficients with respect to the initial values of the dependent variables and/or the three rates coefficient parameters of each chemical reaction. To integrate the ODEs describing chemical kinetics problems, LSENS uses the packaged code LSODE, the Livermore Solver for Ordinary Differential Equations, because it has been shown to be the most efficient and accurate code for solving such problems. The sensitivity analysis computations use the decoupled direct method, as implemented by Dunker and modified by Radhakrishnan. This method has shown greater efficiency and stability with equal or better accuracy than other methods of sensitivity analysis. LSENS is written in FORTRAN 77 with the exception of the NAMELIST extensions used for input. While this makes the code fairly machine independent, execution times on IBM PC compatibles would be unacceptable to most users. LSENS has been successfully implemented on a Sun4 running SunOS and a DEC VAX running VMS. With minor modifications, it should also be easily implemented on other platforms with FORTRAN compilers which support NAMELIST input. LSENS required 4Mb of RAM under SunOS 4.1.1 and 3.4Mb of RAM under VMS 5.5.1. The standard distribution medium for LSENS is a .25 inch streaming magnetic tape cartridge (QIC-24) in UNIX tar format. It is also available on a 1600 BPI 9-track magnetic tape or a TK50 tape cartridge in DEC VAX BACKUP format. Alternate distribution media and formats are available upon request. LSENS was developed in 1992.

  13. Detailed chemical kinetic oxidation mechanism for a biodiesel surrogate

    SciTech Connect

    Herbinet, O; Pitz, W J; Westbrook, C K

    2007-09-20

    A detailed chemical kinetic mechanism has been developed and used to study the oxidation of methyl decanoate, a surrogate for biodiesel fuels. This model has been built by following the rules established by Curran et al. for the oxidation of n-heptane and it includes all the reactions known to be pertinent to both low and high temperatures. Computed results have been compared with methyl decanoate experiments in an engine and oxidation of rapeseed oil methyl esters in a jet stirred reactor. An important feature of this mechanism is its ability to reproduce the early formation of carbon dioxide that is unique to biofuels and due to the presence of the ester group in the reactant. The model also predicts ignition delay times and OH profiles very close to observed values in shock tube experiments fueled by n-decane. These model capabilities indicate that large n-alkanes can be good surrogates for large methyl esters and biodiesel fuels to predict overall reactivity, but some kinetic details, including early CO{sub 2} production from biodiesel fuels, can be predicted only by a detailed kinetic mechanism for a true methyl ester fuel. The present methyl decanoate mechanism provides a realistic kinetic tool for simulation of biodiesel fuels.

  14. Detailed chemical kinetic oxidation mechanism for a biodiesel surrogate

    SciTech Connect

    Herbinet, O; Pitz, W J; Westbrook, C K

    2007-09-17

    A detailed chemical kinetic mechanism has been developed and used to study the oxidation of methyl decanoate, a surrogate for biodiesel fuels. This model has been built by following the rules established by Curran et al. for the oxidation of n-heptane and it includes all the reactions known to be pertinent to both low and high temperatures. Computed results have been compared with methyl decanoate experiments in an engine and oxidation of rapeseed oil methyl esters in a jet stirred reactor. An important feature of this mechanism is its ability to reproduce the early formation of carbon dioxide that is unique to biofuels and due to the presence of the ester group in the reactant. The model also predicts ignition delay times and OH profiles very close to observed values in shock tube experiments fueled by n-decane. These model capabilities indicate that large n-alkanes can be good surrogates for large methyl esters and biodiesel fuels to predict overall reactivity, but some kinetic details, including early CO2 production from biodiesel fuels, can be predicted only by a detailed kinetic mechanism for a true methyl ester fuel. The present methyl decanoate mechanism provides a realistic kinetic tool for simulation of biodiesel fuels.

  15. Detailed chemical kinetic oxidation mechanism for a biodiesel surrogate

    SciTech Connect

    Herbinet, Olivier; Pitz, William J.; Westbrook, Charles K.

    2008-08-15

    A detailed chemical kinetic mechanism has been developed and used to study the oxidation of methyl decanoate, a surrogate for biodiesel fuels. This model has been built by following the rules established by Curran and co-workers for the oxidation of n-heptane and it includes all the reactions known to be pertinent to both low and high temperatures. Computed results have been compared with methyl decanoate experiments in an engine and oxidation of rapeseed oil methyl esters in a jet-stirred reactor. An important feature of this mechanism is its ability to reproduce the early formation of carbon dioxide that is unique to biofuels and due to the presence of the ester group in the reactant. The model also predicts ignition delay times and OH profiles very close to observed values in shock tube experiments fueled by n-decane. These model capabilities indicate that large n-alkanes can be good surrogates for large methyl esters and biodiesel fuels to predict overall reactivity, but some kinetic details, including early CO{sub 2} production from biodiesel fuels, can be predicted only by a detailed kinetic mechanism for a true methyl ester fuel. The present methyl decanoate mechanism provides a realistic kinetic tool for simulation of biodiesel fuels. (author)

  16. Mission Fuel Kinetics Input and RELAP-like Calculations

    SciTech Connect

    Pavlovichev, A.M.

    2001-09-28

    In this document issued according to ''Work Release 02. P. 99-4b'' the neutronics parameters intended for use in 1-point kinetics RELAP model are presented. They are obtained for equilibrium 30% MOX fueled core of VVER-1000 containing boron burnable poison rods.

  17. Towards cleaner combustion engines through groundbreaking detailed chemical kinetic models

    PubMed Central

    Battin-Leclerc, Frédérique; Blurock, Edward; Bounaceur, Roda; Fournet, René; Glaude, Pierre-Alexandre; Herbinet, Olivier; Sirjean, Baptiste; Warth, V.

    2013-01-01

    In the context of limiting the environmental impact of transportation, this paper reviews new directions which are being followed in the development of more predictive and more accurate detailed chemical kinetic models for the combustion of fuels. In the first part, the performance of current models, especially in terms of the prediction of pollutant formation, is evaluated. In the next parts, recent methods and ways to improve these models are described. An emphasis is given on the development of detailed models based on elementary reactions, on the production of the related thermochemical and kinetic parameters, and on the experimental techniques available to produce the data necessary to evaluate model predictions under well defined conditions. PMID:21597604

  18. Progress in Chemical Kinetic Modeling for Surrogate Fuels

    SciTech Connect

    Pitz, W J; Westbrook, C K; Herbinet, O; Silke, E J

    2008-06-06

    Gasoline, diesel, and other alternative transportation fuels contain hundreds to thousands of compounds. It is currently not possible to represent all these compounds in detailed chemical kinetic models. Instead, these fuels are represented by surrogate fuel models which contain a limited number of representative compounds. We have been extending the list of compounds for detailed chemical models that are available for use in fuel surrogate models. Detailed models for components with larger and more complicated fuel molecular structures are now available. These advancements are allowing a more accurate representation of practical and alternative fuels. We have developed detailed chemical kinetic models for fuels with higher molecular weight fuel molecules such as n-hexadecane (C16). Also, we can consider more complicated fuel molecular structures like cyclic alkanes and aromatics that are found in practical fuels. For alternative fuels, the capability to model large biodiesel fuels that have ester structures is becoming available. These newly addressed cyclic and ester structures in fuels profoundly affect the reaction rate of the fuel predicted by the model. Finally, these surrogate fuel models contain large numbers of species and reactions and must be reduced for use in multi-dimensional models for spark-ignition, HCCI and diesel engines.

  19. Analytical Derivation of Moment Equations in Stochastic Chemical Kinetics

    PubMed Central

    Sotiropoulos, Vassilios; Kaznessis, Yiannis N.

    2011-01-01

    The master probability equation captures the dynamic behavior of a variety of stochastic phenomena that can be modeled as Markov processes. Analytical solutions to the master equation are hard to come by though because they require the enumeration of all possible states and the determination of the transition probabilities between any two states. These two tasks quickly become intractable for all but the simplest of systems. Instead of determining how the probability distribution changes in time, we can express the master probability distribution as a function of its moments, and, we can then write transient equations for the probability distribution moments. In 1949, Moyal defined the derivative, or jump, moments of the master probability distribution. These are measures of the rate of change in the probability distribution moment values, i.e. what the impact is of any given transition between states on the moment values. In this paper we present a general scheme for deriving analytical moment equations for any N-dimensional Markov process as a function of the jump moments. Importantly, we propose a scheme to derive analytical expressions for the jump moments for any N-dimensional Markov process. To better illustrate the concepts, we focus on stochastic chemical kinetics models for which we derive analytical relations for jump moments of arbitrary order. Chemical kinetics models are widely used to capture the dynamic behavior of biological systems. The elements in the jump moment expressions are a function of the stoichiometric matrix and the reaction propensities, i.e the probabilistic reaction rates. We use two toy examples, a linear and a non-linear set of reactions, to demonstrate the applicability and limitations of the scheme. Finally, we provide an estimate on the minimum number of moments necessary to obtain statistical significant data that would uniquely determine the dynamics of the underlying stochastic chemical kinetic system. The first two moments only provide limited information, especially when complex, non-linear dynamics are involved. PMID:21949443

  20. Implementation of logic functions and computations by chemical kinetics

    NASA Astrophysics Data System (ADS)

    Hjelmfelt, A.; Ross, J.

    We review our work on the computational functions of the kinetics of chemical networks. We examine spatially homogeneous networks which are based on prototypical reactions occurring in living cells and show the construction of logic gates and sequential and parallel networks. This work motivates the study of an important biochemical pathway, glycolysis, and we demonstrate that the switch that controls the flux in the direction of glycolysis or gluconeogenesis may be described as a fuzzy AND operator. We also study a spatially inhomogeneous network which shares features of theoretical and biological neural networks.

  1. Detailed Chemical Kinetic Modeling of Diesel Combustion with Oxygenated Fuels

    SciTech Connect

    Curran, H J; Fisher, E M; Glaude, P-A; Marinov, N M; Pitz, W J; Westbrook, C K; Flynn, P F; Durrett, R P; zur Loye, A O; Akinyemi, O C; Dryer, F L

    2000-01-11

    Emission standards for diesel engines in vehicles have been steadily reduced in recent years, and a great deal of research and development effort has been focused on reducing particulate and nitrogen oxide emissions. One promising approach to reducing emissions involves the addition of oxygen to the fuel, generally by adding an oxygenated compound to the normal diesel fuel. Miyamoto et al. [1] showed experimentally that particulate levels can be significantly reduced by adding oxygenated species to the fuel. They found the Bosch smoke number (a measure of the particulate or soot levels in diesel exhaust) falls from about 55% for conventional diesel fuel to less than 1% when the oxygen content of the fuel is above about 25% by mass, as shown in Figure 1. It has been well established that addition of oxygenates to automotive fuel, including both diesel fuel as well as gasoline, reduces NOx and CO emissions by reducing flame temperatures. This is the basis for addition of oxygenates to produce reformulated gasoline in selected portions of the country. Of course, this is also accompanied by a slight reduction in fuel economy. A new overall picture of diesel combustion has been developed by Dec [2], in which laser diagnostic studies identified stages in diesel combustion that had not previously been recognized. These stages are summarized in Figure 2. The evolution of the diesel spray is shown, starting as a liquid jet that vaporizes and entrains hot air from the combustion chamber. This relatively steady process continues as long as fuel is being injected. In particular, Dec showed that the fuel spray vaporizes and mixes with air and products of earlier combustion to provide a region in which a gas phase, premixed fuel-rich ignition and burn occurs. The products of this ignition are then observed experimentally to lead rapidly to formation of soot particles, which subsequently are consumed in a diffusion flame. Recently, Flynn et al. [3] used a chemical kinetic and mixing model to study the premixed, rich ignition process. Using n-heptane as a representative diesel fuel, they showed that addition of an oxygenated additive, methanol, to the fuel reduced the concentrations of a number of hydrocarbon species in the products of the rich ignition. Specifically, methanol addition reduced the total concentrations of acetylene, ethylene and 1,3-butadiene, as well as propargyl and vinyl radicals, in the ignition products. These are the same species shown in a number of studies [4-6] to be responsible for formation of aromatic and polycyclic aromatic species in flames, species which lead eventually to production of soot. Flynn et al. did not, however, examine the kinetic processes responsible for the computed reduction in production of soot precursor species. At least two hypotheses have been advanced to explain the role that oxygenated species play in diesel ignition and the reduction in the concentrations of these species. The first is that the additive, methanol in the case of Flynn et al., does not contain any C-C bonds and cannot then produce significant levels of the species such as acetylene, ethylene or the unsaturated radicals which are known to lead to aromatic species. The second hypothesis is that the product distribution changes very naturally as oxygen is added and the overall equivalence ratio is reduced. In the present study, we repeat the ignition calculations of Flynn et al. and include a number of other oxygenated species to determine which of these theories is more applicable to this model.

  2. Carbon Footprint Calculations: An Application of Chemical Principles

    ERIC Educational Resources Information Center

    Treptow, Richard S.

    2010-01-01

    Topics commonly taught in a general chemistry course can be used to calculate the quantity of carbon dioxide emitted into the atmosphere by various human activities. Each calculation begins with the balanced chemical equation for the reaction that produces the CO[subscript 2] gas. Stoichiometry, thermochemistry, the ideal gas law, and dimensional…

  3. Carbon Footprint Calculations: An Application of Chemical Principles

    ERIC Educational Resources Information Center

    Treptow, Richard S.

    2010-01-01

    Topics commonly taught in a general chemistry course can be used to calculate the quantity of carbon dioxide emitted into the atmosphere by various human activities. Each calculation begins with the balanced chemical equation for the reaction that produces the CO[subscript 2] gas. Stoichiometry, thermochemistry, the ideal gas law, and dimensional

  4. Reflected kinetics model for nuclear space reactor kinetics and control scoping calculations

    SciTech Connect

    Washington, K.E.

    1986-05-01

    The objective of this research is to develop a model that offers an alternative to the point kinetics (PK) modelling approach in the analysis of space reactor kinetics and control studies. Modelling effort will focus on the explicit treatment of control drums as reactivity input devices so that the transition to automatic control can be smoothly done. The proposed model is developed for the specific integration of automatic control and the solution of the servo mechanism problem. The integration of the kinetics model with an automatic controller will provide a useful tool for performing space reactor scoping studies for different designs and configurations. Such a tool should prove to be invaluable in the design phase of a space nuclear system from the point of view of kinetics and control limitations.

  5. Incorporation of chemical kinetic models into process control

    SciTech Connect

    Herget, C.J.; Frazer, J.W.

    1981-07-08

    An important consideration in chemical process control is to determine the precise rationing of reactant streams, particularly when a large time delay exists between the mixing of the reactants and the measurement of the product. In this paper, a method is described for incorporating chemical kinetic models into the control strategy in order to achieve optimum operating conditions. The system is first characterized by determining a reaction rate surface as a function of all input reactant concentrations over a feasible range. A nonlinear constrained optimization program is then used to determine the combination of reactants which produces the specified yield at minimum cost. This operating condition is then used to establish the nominal concentrations of the reactants. The actual operation is determined through a feedback control system employing a Smith predictor. The method is demonstrated on a laboratory bench scale enzyme reactor.

  6. Modeling of chemical inhibition from amyloid protein aggregation kinetics

    PubMed Central

    2014-01-01

    Backgrounds The process of amyloid proteins aggregation causes several human neuropathologies. In some cases, e.g. fibrillar deposits of insulin, the problems are generated in the processes of production and purification of protein and in the pump devices or injectable preparations for diabetics. Experimental kinetics and adequate modelling of chemical inhibition from amyloid aggregation are of practical importance in order to study the viable processing, formulation and storage as well as to predict and optimize the best conditions to reduce the effect of protein nucleation. Results In this manuscript, experimental data of insulin, Aβ42 amyloid protein and apomyoglobin fibrillation from recent bibliography were selected to evaluate the capability of a bivariate sigmoid equation to model them. The mathematical functions (logistic combined with Weibull equation) were used in reparameterized form and the effect of inhibitor concentrations on kinetic parameters from logistic equation were perfectly defined and explained. The surfaces of data were accurately described by proposed model and the presented analysis characterized the inhibitory influence on the protein aggregation by several chemicals. Discrimination between true and apparent inhibitors was also confirmed by the bivariate equation. EGCG for insulin (working at pH = 7.4/T = 37°C) and taiwaniaflavone for Aβ42 were the compounds studied that shown the greatest inhibition capacity. Conclusions An accurate, simple and effective model to investigate the inhibition of chemicals on amyloid protein aggregation has been developed. The equation could be useful for the clear quantification of inhibitor potential of chemicals and rigorous comparison among them. PMID:24572069

  7. CHEMKIN-III: A FORTRAN chemical kinetics package for the analysis of gas-phase chemical and plasma kinetics

    SciTech Connect

    Kee, R.J.; Rupley, F.M.; Meeks, E.; Miller, J.A.

    1996-05-01

    This document is the user`s manual for the third-generation CHEMKIN package. CHEMKIN is a software package whose purpose is to facilitate the formation, solution, and interpretation of problems involving elementary gas-phase chemical kinetics. It provides a flexible and powerful tool for incorporating complex chemical kinetics into simulations of fluid dynamics. The package consists of two major software components: an Interpreter and a Gas-Phase Subroutine Library. The Interpreter is a program that reads a symbolic description of an elementary, user-specified chemical reaction mechanism. One output from the Interpreter is a data file that forms a link to the Gas-Phase Subroutine Library. This library is a collection of about 100 highly modular FORTRAN subroutines that may be called to return information on equations of state, thermodynamic properties, and chemical production rates. CHEMKIN-III includes capabilities for treating multi-fluid plasma systems, that are not in thermal equilibrium. These new capabilities allow researchers to describe chemistry systems that are characterized by more than one temperature, in which reactions may depend on temperatures associated with different species; i.e. reactions may be driven by collisions with electrons, ions, or charge-neutral species. These new features have been implemented in such a way as to require little or no changes to CHEMKIN implementation for systems in thermal equilibrium, where all species share the same gas temperature. CHEMKIN-III now has the capability to handle weakly ionized plasma chemistry, especially for application related to advanced semiconductor processing.

  8. Significance of Xenobiotic Metabolism for Bioaccumulation Kinetics of Organic Chemicals in Gammarus pulex

    PubMed Central

    2012-01-01

    Bioaccumulation and biotransformation are key toxicokinetic processes that modify toxicity of chemicals and sensitivity of organisms. Bioaccumulation kinetics vary greatly among organisms and chemicals; thus, we investigated the influence of biotransformation kinetics on bioaccumulation in a model aquatic invertebrate using fifteen 14C-labeled organic xenobiotics from diverse chemical classes and physicochemical properties (1,2,3-trichlorobenzene, imidacloprid, 4,6-dinitro-o-cresol, ethylacrylate, malathion, chlorpyrifos, aldicarb, carbofuran, carbaryl, 2,4-dichlorophenol, 2,4,5-trichlorophenol, pentachlorophenol, 4-nitrobenzyl-chloride, 2,4-dichloroaniline, and sea-nine (4,5-dichloro-2-octyl-3-isothiazolone)). We detected and identified metabolites using HPLC with UV and radio-detection as well as high resolution mass spectrometry (LTQ-Orbitrap). Kinetics of uptake, biotransformation, and elimination of parent compounds and metabolites were modeled with a first-order one-compartment model. Bioaccumulation factors were calculated for parent compounds and metabolite enrichment factors for metabolites. Out of 19 detected metabolites, we identified seven by standards or accurate mass measurements and two via pathway analysis and analogies to other compounds. 1,2,3-Trichlorobenzene, imidacloprid, and 4,6-dinitro-o-cresol were not biotransformed. Dietary uptake contributed little to overall uptake. Differentiation between parent and metabolites increased accuracy of bioaccumulation parameters compared to total 14C measurements. Biotransformation dominated toxicokinetics and strongly affected internal concentrations of parent compounds and metabolites. Many metabolites reached higher internal concentrations than their parents, characterized by large metabolite enrichment factors. PMID:22321051

  9. Grain-growth kinetics in wadsleyite: Effects of chemical environment

    NASA Astrophysics Data System (ADS)

    Nishihara, Yu; Shinmei, Toru; Karato, Shun-ichiro

    2006-01-01

    Grain-growth kinetics in wadsleyite was investigated using a multianvil high-pressure apparatus. Fine-grained wadsleyite aggregates were synthesized by isostatic hot-pressing and were subsequently annealed under high pressure and temperature in a controlled chemical environment. Wadsleyite samples show normal grain-growth characterized by a log-normal grain-size distribution following the relation, L-L0n=kt where n is a constant, L the grain-size at time t, L0 the grain-size at time t = 0 and k is a rate constant that depends on temperature T and chemical environments ( f: oxygen fugacity in Pa, COH: water content in H/10 6Si) as: k=ADfOr exp{-HD*}/{RT}+AWfOrCOHq exp{-HW*}/{RT} with AD=10 (m s Pa), rD = 0.12 ± 0.11(0.20 ± 0.14), HD* = 410 ± 230(500 ± 270) kJ/mol, AW=10 (m s Pa), rW = 0.14 ± 0.05(0.22 ± 0.06), q = 1.7 ± 0.3(2.2 ± 0.3) and HW* = 120 ± 60(160 ± 70) kJ/mol with assumed value of n = 2(3) (values in parentheses denote parameters for n = 3). Both water and oxygen fugacities significantly enhance grain-growth kinetics. The large value of the parameter describing the water fugacity dependence, q ˜ 1.5-2.5, cannot be explained solely by a simple model in which grain-growth is controlled by diffusion of atoms (defects) across the grain-boundaries The interaction of grain-boundaries with charged defects or the density of hydrated ledges may be important factors that control the grain-growth kinetics of wadsleyite. When compared at similar thermo-chemical conditions, grain-growth of wadsleyite is found to be more sluggish than grain-growth of olivine. The present results show that a small wadsleyite grain-size (<1 mm) in subducting slabs can be maintained for a significant geological time (˜1 My) under "dry" (<200 H/10 6Si) conditions when the temperature is lower than 1500 K, whereas when a large amount of water (>100,000 H/10 6Si) is present, a small grain-size (<1 mm) can only be maintained for a significant time at low temperatures (<600 K).

  10. Mars sample return orbiter: Detailed vibrational-chemical kinetics and heat transfer

    NASA Astrophysics Data System (ADS)

    Armenise, I.; Kustova, E.

    2014-12-01

    In the present paper, detailed state-to-state model of vibrational-chemical kinetic and transport processes is applied to study fluid dynamics and heat transfer in a non-equilibrium flow of a five-component mixture containing CO2 molecules and products of their dissociation near the surface of the Mars Sample Return Orbiter. For several test cases, vibrational distributions, chemical composition, specific vibrational energy profiles as well as the transport coefficients and different contributions to the heat flux are calculated along the stagnation line. For a non-catalytic surface, the role of thermal diffusion process is found to be important. Prandtl and Schmidt numbers are calculated along the stagnation line, and their influence on the diffusion velocities and heat flux is evaluated.

  11. From prelife to life: how chemical kinetics become evolutionary dynamics

    PubMed Central

    Chen, Irene A.

    2015-01-01

    Conspectus Life is that which evolves. Living systems are the products of evolutionary processes and are capable of undergoing further evolution. A crucial question for the origin of life is the following: when do chemical kinetics become evolutionary dynamics? In this paper we review properties of ‘prelife’ and discuss the transition from prelife to life. We describe prelife as a chemical system where activated monomers can co-polymerize into macromolecules (such as RNA). These macromolecules are information carriers. Their physical and chemical properties depend to a certain extent on their particular sequence of monomers. We consider prelife as a logical precursor of life, where macromolecules are formed by copolymerization, but they are not capable of replication. Prelife can undergo ‘prevolutionary dynamics’. There can be mutation, selection and cooperation. Prelife selection, however, is blunt: small differences in rate constants lead to small differences in abundance. Life emerges with the ability of replication. In the resulting evolutionary dynamics selection is sharp: small differences in rate constants can lead to large differences in abundance. We also study the competition of different ‘prelives’ and find that there can be selection for those systems which ultimately give rise to replication. The transition from prelife to life can occur over an extended period of time. There may not have been a single moment which marks the origin of life. Instead prelife seeds many attempts for the origin of life. Eventually life takes over and destroys prelife. PMID:22335792

  12. Infrared Absorption Spectroscopy and Chemical Kinetics of Free Radicals

    SciTech Connect

    Curl, Robert F; Glass, Graham

    2004-11-01

    This research was directed at the detection, monitoring, and study of the chemical kinetic behavior by infrared absorption spectroscopy of small free radical species thought to be important intermediates in combustion. Work on the reaction of OH with acetaldehyde has been completed and published and work on the reaction of O({sup 1}D) with CH{sub 4} has been completed and submitted for publication. In the course of our investigation of branching ratios of the reactions of O({sup 1}D) with acetaldehyde and methane, we discovered that hot atom chemistry effects are not negligible at the gas pressures (13 Torr) initially used. Branching ratios of the reaction of O({sup 1}D) with CH{sub 4} have been measured at a tenfold higher He flow and fivefold higher pressure.

  13. Fluidity dependence of deprotonation kinetics of chemically amplified resist

    NASA Astrophysics Data System (ADS)

    Okamoto, Kazumasa; Ishida, Takuya; Yamamoto, Hiroki; Kozawa, Takahiro; Fujiyoshi, Ryoko; Umegaki, Kikuo

    2014-03-01

    Chemically amplified resists have been widely used in the mass production line. An acid generation mechanism induced by ionizing radiation with extreme ultraviolet (EUV) and electron beam is an important issue for improvement of the resist performance such as sensitivity, roughness, and resolution below 16 nm. However, the details of deprotonation kinetics from the ionized resist solid film immediately after the ionization have been still unclear. In this study, pulse radiolysis of highly concentrated poly(4-hydroxystylene) (PHS) solutions was performed. The viscosity dependence on the deprotonation dynamics of the ionized concentrated solutions was investigated to clarify the proton generation of ionized PHS in a medium with low mobility. The deprotonation from the PHS radical cation becomes slower with increasing PHS concentration. It is suggested that the deprotonation reaction is slower in a less mobile medium because of decrease of the molecular motions.

  14. High Temperature Chemical Kinetic Combustion Modeling of Lightly Methylated Alkanes

    SciTech Connect

    Sarathy, S M; Westbrook, C K; Pitz, W J; Mehl, M

    2011-03-01

    Conventional petroleum jet and diesel fuels, as well as alternative Fischer-Tropsch (FT) fuels and hydrotreated renewable jet (HRJ) fuels, contain high molecular weight lightly branched alkanes (i.e., methylalkanes) and straight chain alkanes (n-alkanes). Improving the combustion of these fuels in practical applications requires a fundamental understanding of large hydrocarbon combustion chemistry. This research project presents a detailed high temperature chemical kinetic mechanism for n-octane and three lightly branched isomers octane (i.e., 2-methylheptane, 3-methylheptane, and 2,5-dimethylhexane). The model is validated against experimental data from a variety of fundamental combustion devices. This new model is used to show how the location and number of methyl branches affects fuel reactivity including laminar flame speed and species formation.

  15. Advanced software for the calculation of thermochemistry, kinetics, and dynamics.

    SciTech Connect

    Shepard, R.; Chemistry

    2007-01-01

    The Born-Oppenheimer separation of the Schroedinger equation allows the electronic and nuclear motions to be solved in three steps. (1) The solution of the electronic wave function at a discrete set of molecular conformations; (2) the fitting of this discrete set of energy values in order to construct an analytical approximation to the potential energy surface (PES) at all molecular conformations; (3) the use of this analytical PES to solve for the nuclear motion using either time-dependent or time-independent formulations to compute molecular energy values, chemical reaction rates, and cumulative reaction probabilities. This project involves the development of technology to address all three of these steps. This report focuses on our recent work on the optimization of nonlinear wave function parameters for the electronic wave functions.

  16. Advanced software for the calculation of thermochemistry, kinetics, and dynamics.

    SciTech Connect

    Shepard, R.; Wagner, A. F.; Gray, S. K.; Chemistry

    2006-01-01

    The Born-Oppenheimer separation of the Schrodinger equation allows the electronic and nuclear motions to be solved in three steps. (1) The solution of the electronic wave function at a discrete set of molecular conformations; (2) the fitting of this discrete set of energy values in order to construct an analytical approximation to the potential energy surface (PES) at all molecular conformations; (3) the use of this analytical PES to solve for the nuclear motion using either time-dependent or time-independent formulations to compute molecular energy values, chemical reaction rates, and cumulative reaction probabilities. This project involves the development of technology to address all three of these steps. This report focuses on our recent work on the optimization of nonlinear wave function parameters for the electronic wave functions.

  17. Core Physics and Kinetics Calculations for the Fissioning Plasma Core Reactor

    NASA Technical Reports Server (NTRS)

    Butler, C.; Albright, D.

    2007-01-01

    Highly efficient, compact nuclear reactors would provide high specific impulse spacecraft propulsion. This analysis and numerical simulation effort has focused on the technical feasibility issues related to the nuclear design characteristics of a novel reactor design. The Fissioning Plasma Core Reactor (FPCR) is a shockwave-driven gaseous-core nuclear reactor, which uses Magneto Hydrodynamic effects to generate electric power to be used for propulsion. The nuclear design of the system depends on two major calculations: core physics calculations and kinetics calculations. Presently, core physics calculations have concentrated on the use of the MCNP4C code. However, initial results from other codes such as COMBINE/VENTURE and SCALE4a. are also shown. Several significant modifications were made to the ISR-developed QCALC1 kinetics analysis code. These modifications include testing the state of the core materials, an improvement to the calculation of the material properties of the core, the addition of an adiabatic core temperature model and improvement of the first order reactivity correction model. The accuracy of these modifications has been verified, and the accuracy of the point-core kinetics model used by the QCALC1 code has also been validated. Previously calculated kinetics results for the FPCR were described in the ISR report, "QCALC1: A code for FPCR Kinetics Model Feasibility Analysis" dated June 1, 2002.

  18. An open-source chemical kinetics network: VULCAN

    NASA Astrophysics Data System (ADS)

    Tsai, Shang-Min; Lyons, James; Heng, Kevin

    2015-12-01

    I will present VULCAN, an open-source 1D chemical kinetics code suited for the temperature and pressure range relevant to observable exoplanet atmospheres. The chemical network is based on a set of reduced rate coefficients for C-H-O systems. Most of the rate coefficients are based on the NIST online database, and validated by comparing withthermodynamic equilibrium codes (TEA, STANJAN). The difference between the experimental rates and those from the thermodynamical data is carefully examined and discussed. For the numerical method, a simple, quick, semi-implicit Euler integrator is adopted to solve the stiff chemical reactions, within an operator-splitting scheme for computational efficiency.Several test runs of VULCAN are shown in a hierarchical way: pure H, H+O, H+O+C, including controlled experiments performed with a simple analytical temperature-pressure profiles, so that different parameters, such as the stellar irradiation, atmospheric opacities and albedo can be individually explored to understand how these properties affect the temperaturestructure and hence the chemical abundances. I will also revisit the "transport-induced-quenching” effects, and discuss the limitation of this approximation and its impact on observations. Finally, I will discuss the effects of C/O ratio and compare with published work in the literature.VULCAN is written in Python and is part of the publicly-available set of community tools we call the Exoclimes Simulation Platform (ESP; www.exoclime.org). I am a Ph.D student of Kevin Heng at the University of Bern, Switzerland.

  19. Improve Claus simulation by integrating kinetic limitations into equilibrium calculations

    SciTech Connect

    Wen, T.C.; Chen, D.H.; Hopper, J.R.; Maddox, R.N.

    1986-01-01

    The Claus process is the most widely used commercial process for element sulfur recovery from acid gas streams. The interest in this process is not only for economic reasons but because of the general concern for air pollution control to protect the environment. Computer-aided simulation is suited for designing a new Claus unit and can be used to search for better operating conditions (for an existing Claus plant). This simulation program is also useful for designing the upstream amine unit and the downstream tail gas clean-up unit. Modern current Claus simulators are all based on calculating the equilibrium compositions using the free energy minimization technique. The simulation results including the overall sulfur yield, air to acid gas ratio, and stream compositions do not satisfactorily represent plant data. This is not unexpected since no plant is operated under equilibrium conditions but under rate limitations.

  20. Chemical-equilibrium calculations for aqueous geothermal brines

    SciTech Connect

    Kerrisk, J.F.

    1981-05-01

    Results from four chemical-equilibrium computer programs, REDEQL.EPAK, GEOCHEM, WATEQF, and SENECA2, have been compared with experimental solubility data for some simple systems of interest with geothermal brines. Seven test cases involving solubilities of CaCO/sub 3/, amorphous SiO/sub 2/, CaSO/sub 4/, and BaSO/sub 4/ at various temperatures from 25 to 300/sup 0/C and in NaCl or HCl solutions of 0 to 4 molal have been examined. Significant differences between calculated results and experimental data occurred in some cases. These differences were traced to inaccuracies in free-energy or equilibrium-constant data and in activity coefficients used by the programs. Although currently available chemical-equilibrium programs can give reasonable results for these calculations, considerable care must be taken in the selection of free-energy data and methods of calculating activity coefficients.

  1. Considerations for Reliable Calculation of (77)Se Chemical Shifts.

    PubMed

    Bayse, Craig A

    2005-11-01

    The theoretical chemical shifts of a large series of selenium compounds have been calculated using GIAO-MP2 and -DFT methods in several basis sets. Reliable chemical shifts are calculated for many compounds, especially with the mPW1PW91 exchange-correlation functional and either a triple-? basis set (tzvp:? 13% mean absolute error) or a limited RECP set chosen for practical applications on complex molecules (BSL:? 11.8% mean absolute error). Molecules with three-center-four-electron bonding or low-lying n??* states require additional diffuse functions and nonperturbative methods, respectively, but terminal selenium anions cannot be calculated reliably in the gas phase due to the neglect of solvation. When these cases are excluded, the mean absolute error decreases from 16.5% to 8.9% in GIAO-MP2/BSL but only slightly for DFT methods. PMID:26631655

  2. GPU Accelerated Chemical Similarity Calculation for Compound Library Comparison

    PubMed Central

    Ma, Chao; Wang, Lirong; Xie, Xiang-Qun

    2012-01-01

    Chemical similarity calculation plays an important role in compound library design, virtual screening, and lead optimization. In this manuscript, we present a novel GPU-accelerated algorithm for all-vs-all Tanimoto matrix calculation and nearest neighbor search. By taking advantage of multi-core GPU architecture and CUDA parallel programming technology, the algorithm is up to 39 times superior to the existing commercial software that runs on CPUs. Because of the utilization of intrinsic GPU instructions, this approach is nearly 10 times faster than existing GPU-accelerated sparse vector algorithm, when Unity fingerprints are used for Tanimoto calculation. The GPU program that implements this new method takes about 20 minutes to complete the calculation of Tanimoto coefficients between 32M PubChem compounds and 10K Active Probes compounds, i.e., 324G Tanimoto coefficients, on a 128-CUDA-core GPU. PMID:21692447

  3. Calculating kinetics parameters and reactivity changes with continuous-energy Monte Carlo

    SciTech Connect

    Kiedrowski, Brian C; Brown, Forrest B; Wilson, Paul

    2009-01-01

    The iterated fission probability interpretation of the adjoint flux forms the basis for a method to perform adjoint weighting of tally scores in continuous-energy Monte Carlo k-eigenvalue calculations. Applying this approach, adjoint-weighted tallies are developed for two applications: calculating point reactor kinetics parameters and estimating changes in reactivity from perturbations. Calculations are performed in the widely-used production code, MCNP, and the results of both applications are compared with discrete ordinates calculations, experimental measurements, and other Monte Carlo calculations.

  4. Chemical kinetic analysis of hydrogen-air ignition and reaction times

    NASA Technical Reports Server (NTRS)

    Rogers, R. C.; Schexnayder, C. J., Jr.

    1981-01-01

    An anaytical study of hydrogen air kinetics was performed. Calculations were made over a range of pressure from 0.2 to 4.0 atm, temperatures from 850 to 2000 K, and mixture equivalence ratios from 0.2 to 2.0. The finite rate chemistry model included 60 reactions in 20 species of the H2-O2-N2 system. The calculations also included an assessment of how small amounts of the chemicals H2O, NOx, H2O2, and O3 in the initial mixture affect ignition and reaction times, and how the variation of the third body efficiency of H2O relative of N2 in certain key reactions may affect reaction time. The results indicate that for mixture equivalence ratios between 0.5 and 1.7, ignition times are nearly constant; however, the presence of H2O and NO can have significant effects on ignition times, depending on the mixture temperature. Reaction time is dominantly influenced by pressure but is nearly independent of initial temperature, equivalence ratio, and the addition of chemicals. Effects of kinetics on reaction at supersonic combustor conditions are discussed.

  5. Chemical equilibrium calculations of tungsten-halogen systems

    NASA Astrophysics Data System (ADS)

    Sell, J. A.

    1983-08-01

    The performance of the compound bromotrifluoromethane (CBrF3) as a tungsten-halogen bulb fill gas was evaluated theoretically by chemical equilibrium calculations. It was found to be an ideal fill gas in terms of maintaining clear bulb walls and redepositing evaporated tungsten on hot spots in the filament. The calculations were done at different CBrF3 and water concentrations. The compounds most responsible for tungsten transport were identified; fluorine compounds of tungsten dominate over bromine compounds. Finally, CBrF3 is compared to other possible fill gases such as CBr2F2, CBr3F, CBr4, and also HBr, since HBr is presently used commercially.

  6. Identifying Alternative Conceptions of Chemical Kinetics among Secondary School and Undergraduate Students in Turkey

    ERIC Educational Resources Information Center

    Cakmakci, Gultekin

    2010-01-01

    This study identifies some alternative conceptions of chemical kinetics held by secondary school and undergraduate students (N = 191) in Turkey. Undergraduate students who participated are studying to become chemistry teachers when they graduate. Students' conceptions about chemical kinetics were elicited through a series of written tasks and

  7. Exploring Secondary Students' Understanding of Chemical Kinetics through Inquiry-Based Learning Activities

    ERIC Educational Resources Information Center

    Chairam, Sanoe; Klahan, Nutsuda; Coll, Richard K.

    2015-01-01

    This research is trying to evaluate the feedback of Thai secondary school students to inquiry-based teaching and learning methods, exemplified by the study of chemical kinetics. This work used the multiple-choice questions, scientifically practical diagram and questionnaire to assess students' understanding of chemical kinetics. The findings

  8. Exploring Secondary Students' Understanding of Chemical Kinetics through Inquiry-Based Learning Activities

    ERIC Educational Resources Information Center

    Chairam, Sanoe; Klahan, Nutsuda; Coll, Richard K.

    2015-01-01

    This research is trying to evaluate the feedback of Thai secondary school students to inquiry-based teaching and learning methods, exemplified by the study of chemical kinetics. This work used the multiple-choice questions, scientifically practical diagram and questionnaire to assess students' understanding of chemical kinetics. The findings…

  9. Identifying Alternative Conceptions of Chemical Kinetics among Secondary School and Undergraduate Students in Turkey

    ERIC Educational Resources Information Center

    Cakmakci, Gultekin

    2010-01-01

    This study identifies some alternative conceptions of chemical kinetics held by secondary school and undergraduate students (N = 191) in Turkey. Undergraduate students who participated are studying to become chemistry teachers when they graduate. Students' conceptions about chemical kinetics were elicited through a series of written tasks and…

  10. Cometary impact and amino acid survival - Chemical kinetics and thermochemistry

    USGS Publications Warehouse

    Ross, D.S.

    2006-01-01

    The Arrhenius parameters for the initiating reactions in butane thermolysis and the formation of soot, reliable to at least 3000 K, have been applied to the question of the survival of amino acids in cometary impacts on early Earth. The pressure/temperature/time course employed here was that developed in hydrocode simulations for kilometer-sized comets (Pierazzo and Chyba, 1999), with attention to the track below 3000 K where it is shown that potential stabilizing effects of high pressure become unimportant kinetically. The question of survival can then be considered without the need for assignment of activation volumes and the related uncertainties in their application to extreme conditions. The exercise shows that the characteristic times for soot formation in the interval fall well below the cooling periods for impacts ranging from fully vertical down to about 9?? above horizontal. Decarboxylation, which emerges as more rapid than soot formation below 2000-3000 K, continues further down to extremely narrow impact angles, and accordingly cometa??ry delivery of amino acids to early Earth is highly unlikely. ?? 2006 American Chemical Society.

  11. Detailed and global chemical kinetics model for hydrogen

    SciTech Connect

    Marinov, N.M.; Westbrook, C.K.; Pitz, W.J.

    1995-03-01

    Detailed and global chemical kinetic computations for hydrogen-air mixtures have been performed to describe flame propagation, flame structure and ignition phenomena. Simulations of laminar flame speeds, flame compositions and shock tube ignition delay times have been successfully performed. Sensitivity analysis was applied to determine the governing rate-controlling reactions for the experimental data sets examined. In the flame propagation and structure studies, the reactions, OH + H{sub 2} = H{sub 2}0 + H, 0 + H{sub 2} = OH + H and 0 + OH = 0{sub 2} + H were the most important in flames. The shock tube ignition delay time study indicated the H + 0{sub 2} + M = H0{sub 2} + M (M = N{sub 2}, H{sub 2}) and 0 + OH = 0{sub 2} + H reactions controlled ignition. A global rate expression for a one-step overall reaction was developed and validated against experimental hydrogen-air laminar flame speed data. The global reaction expression was determined to be 1.8 {times} 10{sup 13} exp({minus}17614K/T)[H{sub 2}]{sup 1.0}[O{sub 2}]{sup 0.5} for the single step reaction H{sub 2} + 1/2O{sub 2} = H{sub 2}O.

  12. Uptake and release kinetics of 22 polar organic chemicals in the Chemcatcher passive sampler.

    PubMed

    Vermeirssen, Etinne L M; Dietschweiler, Conrad; Escher, Beate I; van der Voet, Jrgen; Hollender, Juliane

    2013-06-01

    The Chemcatcher passive sampler, which uses Empore disks as sampling phase, is frequently used to monitor polar organic chemicals in river water and effluents. Uptake kinetics need to be quantified to calculate time-weighted average concentrations from Chemcatcher field deployments. Information on release kinetics is needed if performance reference compounds (PRCs) are used to quantify the influence of environmental conditions on the uptake. In a series of uptake and elimination experiments, we used Empore SDB disks (poly(styrenedivinylbenzene) copolymer modified with sulfonic acid groups) as a sampling phase and 22 compounds with a logK(ow) (octanol-water partitioning coefficient) range from -2.6 to 3.8. Uptake experiments were conducted in river water or tap water and lasted up to 25 days. Only 1 of 22 compounds (sulfamethoxazole) approached equilibrium in the uptake trials. Other compounds showed continuing non-linear uptake, even after 25 days. All compounds could be released from SDB disks, and desorption was proportionally higher in disks loaded for shorter periods. Desorption showed two-phase characteristics, and desorption was proportionally higher for passively sorbed compounds compared to actively loaded compounds (active loading was performed by pulling spiked river water over SDB disks using vacuum). We hypothesise that the two-phase kinetics and better retention of actively loaded compounds--and compounds loaded for a longer period--may be caused by slow diffusion of chemicals within the polymer. As sorption and desorption did not show isotropic kinetics, it is not possible to develop robust PRCs for adsorbent material like SDB disks. PMID:23532391

  13. Kinetic energies to analyze the experimental auger electron spectra by density functional theory calculations

    NASA Astrophysics Data System (ADS)

    Endo, Kazunaka

    2016-02-01

    In the Auger electron spectra (AES) simulations, we define theoretical modified kinetic energies of AES in the density functional theory (DFT) calculations. The modified kinetic energies correspond to two final-state holes at the ground state and at the transition-state in DFT calculations, respectively. This method is applied to simulate Auger electron spectra (AES) of 2nd periodic atom (Li, Be, B, C, N, O, F)-involving substances (LiF, beryllium, boron, graphite, GaN, SiO2, PTFE) by deMon DFT calculations using the model molecules of the unit cell. Experimental KVV (valence band electrons can fill K-shell core holes or be emitted during KVV-type transitions) AES of the (Li, O) atoms in the substances agree considerably well with simulation of AES obtained with the maximum kinetic energies of the atoms, while, for AES of LiF, and PTFE substance, the experimental F KVV AES is almost in accordance with the spectra from the transitionstate kinetic energy calculations.

  14. Calculation of rates for enzyme and microbial kinetics via a spline technique

    Technology Transfer Automated Retrieval System (TEKTRAN)

    In biocatalysis research, determination of enzyme kinetics, microbial growth rates, substrate utilization rates, and product accumulation rates sometime require derivatives to be calculated with a method that can be duplicated and yields consistent results. In this paper, several methods that have ...

  15. Fundamental Chemical Kinetic And Thermodynamic Data For Purex Process Models

    SciTech Connect

    Taylor, R.J.; Fox, O.D.; Sarsfield, M.J.; Carrott, M.J.; Mason, C.; Woodhead, D.A.; Maher, C.J.; Steele, H.; Koltunov, V.S.

    2007-07-01

    To support either the continued operations of current reprocessing plants or the development of future fuel processing using hydrometallurgical processes, such as Advanced Purex or UREX type flowsheets, the accurate simulation of Purex solvent extraction is required. In recent years we have developed advanced process modeling capabilities that utilize modern software platforms such as Aspen Custom Modeler and can be run in steady state and dynamic simulations. However, such advanced models of the Purex process require a wide range of fundamental data including all relevant basic chemical kinetic and thermodynamic data for the major species present in the process. This paper will summarize some of these recent process chemistry studies that underpin our simulation, design and testing of Purex solvent extraction flowsheets. Whilst much kinetic data for actinide redox reactions in nitric acid exists in the literature, the data on reactions in the diluted TBP solvent phase is much rarer. This inhibits the accurate modelization of the Purex process particularly when species show a significant extractability in to the solvent phase or when cycling between solvent and aqueous phases occurs, for example in the reductive stripping of Pu(IV) by ferrous sulfamate in the Magnox reprocessing plant. To support current oxide reprocessing, we have investigated a range of solvent phase reactions: - U(IV)+HNO{sub 3}; - U(IV)+HNO{sub 2}; - U(IV)+HNO{sub 3} (Pu catalysis); - U(IV)+HNO{sub 3} (Tc catalysis); - U(IV)+ Np(VI); - U(IV)+Np(V); - Np(IV)+HNO{sub 3}; - Np(V)+Np(V); Rate equations have been determined for all these reactions and kinetic rate constants and activation energies are now available. Specific features of these reactions in the TBP phase include the roles of water and hydrolyzed intermediates in the reaction mechanisms. In reactions involving Np(V), cation-cation complex formation, which is much more favourable in TBP than in HNO{sub 3}, also occurs and complicates the redox chemistry. Whilst some features of the redox chemistry in TBP appear similar to the corresponding reactions in aqueous HNO{sub 3}, there are notable differences in rates, the forms of the rate equations and mechanisms. Secondly, to underpin the development of advanced single cycle flowsheets using the complexant aceto-hydroxamic acid, we have also characterised in some detail its redox chemistry and solvent extraction behaviour with both Np and Pu ions. We find that simple hydroxamic acids are remarkably rapid reducing agents for Np(VI). They also reduce Pu(VI) and cause a much slower reduction of Pu(IV) through a complex mechanism involving acid hydrolysis of the ligand. AHA is a strong hydrophilic and selective complexant for the tetravalent actinide ions as evidenced by stability constant and solvent extraction data for An(IV), M(III) and U(VI) ions. This has allowed the successful design of U/Pu+Np separation flowsheets suitable for advanced fuel cycles. (authors)

  16. Development and validation of a model for the chemical kinetics of graphite oxidation

    NASA Astrophysics Data System (ADS)

    El-Genk, Mohamed S.; Tournier, Jean-Michel P.

    2011-04-01

    A model of the chemical kinetics and primary reactions of graphite oxidation is developed and successfully validated for pyrolytic carbon thin films. The model uses Gaussian distributions of the activation energies for adsorption and desorption and the measured active surface area (ASA) as a function of burn-off. The activation energies distributions and the pre-exponential rate coefficients for the four elementary oxidation kinetics reactions in the model are obtained from the reported measurements of the gases yields and adsorbed oxygen using a multi-parameter optimization algorithm. The model calculates the production rates of CO and CO 2 and the gasification rate as functions of temperature and oxygen partial pressure, and its predictions are in excellent agreement with reported experimental measurements. Results for pyrolytic carbon thin films show that when the oxygen pressure is kept constant, the gasification rate depends on both temperature and ASA until a full burn-off is reached. By contrast, in a depleting oxygen environment, only partial burn-off is possible; gasification ceases following the consumption of the free oxygen in the enclosure. This model represents the first phase in an ongoing effort to develop a model for predicting the oxidation kinetics of nuclear graphite following a massive air ingress in high temperature reactors.

  17. A chemical kinetic model for chemical vapor deposition of carbon nanotubes

    NASA Astrophysics Data System (ADS)

    Raji, K.; Thomas, Shijo; Sobhan, C. B.

    2011-10-01

    Carbon nanotubes (CNTs) are classified among the most promising novel materials due to their exceptional physical properties. Still, optimal fabrication of carbon nanotubes involves a number of challenges. Whatever be the fabrication method, a process optimization can be evolved only on the basis of a good theoretical model to predict the parametric influences on the final product. The work reported here investigates the dependence of the deposition parameters on the controllable parameters for carbon nanotube growth during Chemical vapor deposition (CVD), through a chemical kinetic model. The theoretical model consisted of the design equations and the energy balance equations, based on the reaction kinetics, for the plug flow and the batch reactor, which simulate the CVD system. The numerical simulation code was developed in-house in a g++ environment. The results predicted the growth conditions for CNT: the deposition temperature, pressure and number of atoms, which were found to be influenced substantially by the initial controllable parameters namely the temperature, volumetric flow rate of the carbon precursor, and the reaction time. An experimental study was also conducted on a CVD system developed in the laboratory, to benchmark the computational results. The experimental results were found to agree well with the theoretical predictions obtained from the model.

  18. Development of chemical kinetic models for lean NOx traps.

    SciTech Connect

    Larson, Richard S.

    2010-04-01

    Overall project goal: Obtain the fundamental surface chemistry knowledge needed for the design and optimal utilization of NOx trap catalysts, thereby helping to speed the widespread adoption of this technology. Relevance to VT Program goals: Effective, durable advanced aftertreatment systems for lean-burn engines must be available if the fuel economy advantages of these engines are to be realized. Specific current year objective: Identify and correct any deficiencies in the previously developed reaction mechanism describing normal storage/regeneration cycles, and complete development of a supplementary mechanism accounting for the effects of sulfation. A fundamental understanding of LNT chemistry is needed to realize the full potential of this aftertreatment technology, which could lead to greater use of fuel-efficient lean-burn engines. We have used a multi-tiered approach to developing an elementary chemical mechanism benchmarked against experimental data: (1) Simulate a set of steady flow experiments, with storage effects minimized, to infer a tentative mechanism for chemistry on precious metal sites (completed). (2) Simulate a set of long cycle experiments to infer a mechanism for NOx and oxygen storage sites while simultaneously finalizing precious metal chemistry (completed). (3) Simulate a simplified sulfation/desulfation protocol to obtain a supplementary set of reactions involving sulfur on all three kinds of sites (nearly completed). (4) Investigate the potential role of reductants other than CO and H{sub 2}. While simulation of isothermal experiments is the preferred way to extract kinetic parameters, simulation of realistic storage/regeneration cycles requires that exotherms be considered. Our ultimate goal is to facilitate improved designs for LNT-based aftertreatment systems and to assist in the development of improved catalysts.

  19. Application of Photoacoustic Effect to Chemical Kinetics in Solution.

    NASA Astrophysics Data System (ADS)

    Cheng, Huy-Zu.

    The application of the pulsed photoacoustic technique (PA) to the study of chemical kinetics in very dilute solutions is demonstrated with three different reactions: A bidental ligand substitution of 1,2-bi(diphenylphosphino) ethane on the five-coordinate cobalt dithiolene complex, a nucleophilic addition of tributyl phosphite to (p-(dimethylamino)triphenyl)methyl cation, and an enzyme catalyzed reduction of nicotinamide adenine dinucleotide by glucose-6-phosphate. Photoacoustic detection is shown to be 100 times more sensitive than spectrophotometric detection. As a consequence, it allows one to use lower reactant concentrations so that the time scale for the corresponding fast reactions can be lengthened. The pulsed PA technique also provides an alternative method for the direct determination of reverse rate constants and equilibrium constants of reactions. Moreover, Michaelis constants of biochemical reactions, especially for enzymes whose K_{rm m} values is below 1.0 muM, can be measured more accurately using photoacoustic detection than using spectrophotometric detection. Additionally, the pulsed PA method can be very valuable for the study of reactions that are restricted by the low solubility, availability, or high cost of reactants. The sensitivity of the PA method is found to be limited by the background signal resulting from solvents. Photoacoustic signals generated in strongly absorbing media are also studied and results are in agreement with the theory developed by G. J. Diebold. From the time profile of the acoustic signal, the absorption coefficient of strongly absorbing medium can be determined provided the sound speed is known. Since the pulse shape of the acoustic transient depends upon the relative density and the acoustic velocity of the transparent and the strongly absorbing media, the physical properties of the transparent medium can also be determined with the use of the PA technique.

  20. Application of Chemical Kinetics to Deterioration of Foods.

    ERIC Educational Resources Information Center

    Labuza, T. P.

    1984-01-01

    Possible modes of food deterioration (such as microbial decay, nonenzymatic browning, senescence, lipid oxidation) are reviewed. A basic mathematical approach to the kinetics of food deterioration, kinetic approach to accelerating shelf-life deterioration, and shelf-life predictions are discussed. (JN)

  1. Innovative Laser Techniques in Chemical Kinetics: A Pedagogical Survey.

    ERIC Educational Resources Information Center

    Kovalenko, Laurie J.; Leone, Stephen R.

    1988-01-01

    Considers two types of laser applications in kinetics. Explores short laser pulses to prepare a reactant in a known state and a continuous laser as a probe to monitor specific species in a reaction. Describes how lasers work and provides several examples of kinetic reactions. (ML)

  2. Chemical kinetic simulation of kerosene combustion in an individual flame tube.

    PubMed

    Zeng, Wen; Liang, Shuang; Li, Hai-Xia; Ma, Hong-An

    2014-05-01

    The use of detailed chemical reaction mechanisms of kerosene is still very limited in analyzing the combustion process in the combustion chamber of the aircraft engine. In this work, a new reduced chemical kinetic mechanism for fuel n-decane, which selected as a surrogate fuel for kerosene, containing 210 elemental reactions (including 92 reversible reactions and 26 irreversible reactions) and 50 species was developed, and the ignition and combustion characteristics of this fuel in both shock tube and flat-flame burner were kinetic simulated using this reduced reaction mechanism. Moreover, the computed results were validated by experimental data. The calculated values of ignition delay times at pressures of 12, 50 bar and equivalence ratio is 1.0, 2.0, respectively, and the main reactants and main products mole fractions using this reduced reaction mechanism agree well with experimental data. The combustion processes in the individual flame tube of a heavy duty gas turbine combustor were simulated by coupling this reduced reaction mechanism of surrogate fuel n-decane and one step reaction mechanism of surrogate fuel C12H23 into the computational fluid dynamics software. It was found that this reduced reaction mechanism is shown clear advantages in simulating the ignition and combustion processes in the individual flame tube over the one step reaction mechanism. PMID:25685503

  3. Chemical kinetic simulation of kerosene combustion in an individual flame tube

    PubMed Central

    Zeng, Wen; Liang, Shuang; Li, Hai-xia; Ma, Hong-an

    2013-01-01

    The use of detailed chemical reaction mechanisms of kerosene is still very limited in analyzing the combustion process in the combustion chamber of the aircraft engine. In this work, a new reduced chemical kinetic mechanism for fuel n-decane, which selected as a surrogate fuel for kerosene, containing 210 elemental reactions (including 92 reversible reactions and 26 irreversible reactions) and 50 species was developed, and the ignition and combustion characteristics of this fuel in both shock tube and flat-flame burner were kinetic simulated using this reduced reaction mechanism. Moreover, the computed results were validated by experimental data. The calculated values of ignition delay times at pressures of 12, 50bar and equivalence ratio is 1.0, 2.0, respectively, and the main reactants and main products mole fractions using this reduced reaction mechanism agree well with experimental data. The combustion processes in the individual flame tube of a heavy duty gas turbine combustor were simulated by coupling this reduced reaction mechanism of surrogate fuel n-decane and one step reaction mechanism of surrogate fuel C12H23 into the computational fluid dynamics software. It was found that this reduced reaction mechanism is shown clear advantages in simulating the ignition and combustion processes in the individual flame tube over the one step reaction mechanism. PMID:25685503

  4. Chemical kinetic modeling of component mixtures relevant to gasoline

    SciTech Connect

    Mehl, M; Curran, H J; Pitz, W J; Dooley, S; Westbrook, C K

    2008-05-29

    Detailed kinetic models of pyrolysis and combustion of hydrocarbon fuels are nowadays widely used in the design of internal combustion engines and these models are effectively applied to help meet the increasingly stringent environmental and energetic standards. In previous studies by the combustion community, such models not only contributed to the understanding of pure component combustion, but also provided a deeper insight into the combustion behavior of complex mixtures. One of the major challenges in this field is now the definition and the development of appropriate surrogate models able to mimic the actual features of real fuels. Real fuels are complex mixtures of thousands of hydrocarbon compounds including linear and branched paraffins, naphthenes, olefins and aromatics. Their behavior can be effectively reproduced by simpler fuel surrogates containing a limited number of components. Aside the most commonly used surrogates containing iso-octane and n-heptane only, the so called Primary Reference Fuels (PRF), new mixtures have recently been suggested to extend the reference components in surrogate mixtures to also include alkenes and aromatics. It is generally agreed that, including representative species for all the main classes of hydrocarbons which can be found in real fuels, it is possible to reproduce very effectively in a wide range of operating conditions not just the auto-ignition propensity of gasoline or Diesel fuels, but also their physical properties and their combustion residuals [1]. In this work, the combustion behavior of several components relevant to gasoline surrogate formulation is computationally examined. The attention is focused on the autoignition of iso-octane, hexene and their mixtures. Some important issues relevant to the experimental and modeling investigation of such fuels are discussed with the help of rapid compression machine data and calculations. Following the model validation, the behavior of mixtures is discussed on the basis of computational results.

  5. Ab Initio NMR Chemical Shift Calculations Using Fragment Molecular Orbitals

    NASA Astrophysics Data System (ADS)

    Yokojima, Satoshi; Gao, Qi; Nakamura, Shinichiro

    2009-03-01

    The recently proposed method to calculate NMR chemical shift of large biomolecular systems using fragment molecular orbitals (FMO) is evaluated in comparison with the conventional ab initio results using a ?-sheet (32 residues). The errors in isotropic shielding constants are slightly larger than the previous errors. [Q. Gao, S. Yokojima, T. Kohno, T. Ishida, D. G. Fedorov, K. Kitaura, M. Fujihira, and S. Nakamura, Chem. Phys. Lett. 445, 331-339 (2007).] The increase of the errors in anisotropic shielding constants of 15N is attributed to the neglect of the shielding of the neighboring hydrogen bonded residue, which suggests the crucial importance of hydrogen bonds in biomolecular systems.

  6. A pressure correction method for the calculation of compressible chemical reacting flows

    NASA Technical Reports Server (NTRS)

    Chen, Z. J.; Chen, C. P.; Chen, Y. S.

    1992-01-01

    A recently developed noniterative method for the solution of the transient fluid flow equations at all speed is extended to handle chemical reacting flows. The species conservation equations are loosely coupled into the predictor/multicorrector sequence of the solution procedure. A split-operator method separates the chemical kinetics terms from the fluid-dynamical terms, as well as an implicit differencing method enhance the numerical stability. The method was applied for turbulent diffusion flame calculations and for the analyses of high pressure, axisymmetric turbulent hypersonic nozzle flows. The diffusion flame results were compared with a similar pressure method for fast chemistry integration scheme without operator-splitting. Simulations of the nozzle flow indicated that the nonideal intermolecular effects must be included in the analysis and design of high pressure hypersonic nozzle.

  7. A Shock Tube and Chemical Kinetic Modeling Study of the Oxidation of 2,5-Dimethylfuran

    PubMed Central

    Sirjean, Baptiste; Fournet, René; Glaude, Pierre-Alexandre; Battin-Leclerc, Frédérique; Wang, Weijing; Oehlschlaeger, Matthew A.

    2013-01-01

    A detailed kinetic model describing the oxidation of 2,5-dimethylfuran (DMF), a potential second-generation biofuel, is proposed. The kinetic model is based upon quantum chemical calculations for the initial DMF consumption reactions and important reactions of intermediates. The model is validated by comparison to new DMF shock tube ignition delay time measurements (over the temperature range 1300 – 1831 K and at nominal pressures of 1 and 4 bar) and the DMF pyrolysis speciation measurements of Lifshitz et al. [J. Phys. Chem. A 102 (52) (1998) 10655-10670] Globally, modeling predictions are in good agreement with the considered experimental targets. In particular, ignition delay times are predicted well by the new model, with model experiment deviations of at most a factor of two, and DMF pyrolysis conversion is predicted well, to within experimental scatter of the Lifshitz et al. data. Additionally, comparisons of measured and model predicted pyrolysis speciation provides validation of theoretically calculated channels for the oxidation of DMF. Sensitivity and reaction flux analyses highlight important reactions as well as the primary reaction pathways responsible for the decomposition of DMF and formation and destruction of key intermediate and product species. PMID:23327724

  8. Atmospheric chemical reactions of monoethanolamine initiated by OH radical: mechanistic and kinetic study.

    PubMed

    Xie, Hong-Bin; Li, Chao; He, Ning; Wang, Cheng; Zhang, Shaowen; Chen, Jingwen

    2014-01-01

    Monoethanolamine (MEA) is a benchmark and widely utilized solvent in amine-based postcombustion CO2 capture (PCCC), a leading technology for reducing CO2 emission from fossil fuel power plants. The large-scale implementation of PCCC would lead to inevitable discharges of amines to the atmosphere. Therefore, understanding the kinetics and mechanisms of the transformation of representative amine MEA in the atmosphere is of great significance for risk assessment of the amine-based PCCC. In this study, the H-abstraction reaction of MEA with OH, and ensuing reactions of produced MEA-radicals, including isomerization, dissociation, and bimolecular reaction MEA-radicals+O2, were investigated by quantum chemical calculation [M06-2X/aug-cc-pVTZ//M06-2X/6-311++G(d,p)] and kinetic modeling. The calculated overall rate constant [(7.27 10(-11)) cm(3) molecule(-1) s(-1)] for H-abstraction is in excellent agreement with the experimental value [(7.02 0.46) 10(-11) cm(3) molecule(-1) s(-1)]. The results show that the product branching ratio of NH2CH2 CHOH (MEA-?) (43%) is higher than that of NH2 CHCH2OH (MEA-?) (39%), clarifying that MEA-? is not an exclusive product. On the basis of the unveiled reaction mechanisms of MEA-radicals + O2, the proton transfer reaction mass spectrometry signal (m/z 60.044), not recognized in the experiment, was identified. PMID:24438015

  9. Quantum chemical and kinetics study of the thermal gas phase decomposition of 2-chloropropene.

    PubMed

    Tucceri, Mara E; Badenes, Mara P; Cobos, Carlos J

    2013-10-10

    A detailed theoretical study of the kinetics of the thermal decomposition of 2-chloropropene over the 600-1400 K temperature range has been done. The reaction takes place through the elimination of HCl with the concomitant formation of propyne or allene products. Relevant molecular properties of the reactant and transition states were calculated for each reaction channel at 14 levels of theory. From information provided by the BMK, MPWB1K, BB1K, M05-2X, and M06-2X functionals, specific for chemical kinetics studies, high-pressure limit rate coefficients of (5.8 1.0) 10(14) exp[-(67.8 0.4 kcal mol(-1))/RT] s(-1) and (1.1 0.2) 10(14) exp[-(66.8 0.5 kcal mol(-1))/RT] s(-1) were obtained for the propyne and allene channels, respectively. The pressure effect over the reaction was analyzed through the calculation of the low-pressure limit rate coefficients and falloff curves. An analysis of the branching ratio between the two channels as a function of pressure and temperature, based on these results and on computed specific rate coefficients, show that the propyne forming channel is predominant. PMID:24032406

  10. EQ6 Calculations for Chemical Degradation of Navy Waste Packages

    SciTech Connect

    S. LeStrange

    1999-11-15

    The Monitored Geologic Repository Waste Package Operations of the Civilian Radioactive Waste Management System Management & Operating Contractor (CRWMS M&O) performed calculations to provide input for disposal of spent nuclear fuel (SNF) from the Navy (Refs. 1 and 2). The Navy SNF has been considered for disposal at the potential Yucca Mountain site. For some waste packages, the containment may breach (Ref. 3), allowing the influx of water. Water in the waste package may moderate neutrons, increasing the likelihood of a criticality event within the waste package. The water may gradually leach the fissile components and neutron absorbers out of the waste package. In addition, the accumulation of silica (SiO{sub 2}) in the waste package over time may further affect the neutronics of the system. This study presents calculations of the long-term geochemical behavior of waste packages containing the Enhanced Design Alternative (EDA) II inner shell, Navy canister, and basket components. The calculations do not include the Navy SNF in the waste package. The specific study objectives were to determine the chemical composition of the water and the quantity of silicon (Si) and other solid corrosion products in the waste package during the first million years after the waste package is breached. The results of this calculation will be used to ensure that the type and amount of criticality control material used in the waste package design will prevent criticality.

  11. Chemical TOPAZ: Modifications to the heat transfer code TOPAZ: The addition of chemical reaction kinetics and chemical mixtures

    SciTech Connect

    Nichols, A.L. III.

    1990-06-07

    This is a report describing the modifications which have been made to the heat flow code TOPAZ to allow the inclusion of thermally controlled chemical kinetics. This report is broken into parts. The first part is an introduction to the general assumptions and theoretical underpinning that were used to develop the model. The second section describes the changes that have been implemented into the code. The third section is the users manual for the input for the code. The fourth section is a compilation of hints, common errors, and things to be aware of while you are getting started. The fifth section gives a sample problem using the new code. This manual addenda is written with the presumption that most readers are not fluent with chemical concepts. Therefore, we shall in this section endeavor to describe the requirements that must be met before chemistry can occur and how we have modeled the chemistry in the code.

  12. The pyrolysis of 2-methylfuran: a quantum chemical, statistical rate theory and kinetic modelling study.

    PubMed

    Somers, Kieran P; Simmie, John M; Metcalfe, Wayne K; Curran, Henry J

    2014-03-21

    Due to the rapidly growing interest in the use of biomass derived furanic compounds as potential platform chemicals and fossil fuel replacements, there is a simultaneous need to understand the pyrolysis and combustion properties of such molecules. To this end, the potential energy surfaces for the pyrolysis relevant reactions of the biofuel candidate 2-methylfuran have been characterized using quantum chemical methods (CBS-QB3, CBS-APNO and G3). Canonical transition state theory is employed to determine the high-pressure limiting kinetics, k(T), of elementary reactions. Rice-Ramsperger-Kassel-Marcus theory with an energy grained master equation is used to compute pressure-dependent rate constants, k(T,p), and product branching fractions for the multiple-well, multiple-channel reaction pathways which typify the pyrolysis reactions of the title species. The unimolecular decomposition of 2-methylfuran is shown to proceed via hydrogen atom transfer reactions through singlet carbene intermediates which readily undergo ring opening to form collisionally stabilised acyclic C5H6O isomers before further decomposition to C1-C4 species. Rate constants for abstraction by the hydrogen atom and methyl radical are reported, with abstraction from the alkyl side chain calculated to dominate. The fate of the primary abstraction product, 2-furanylmethyl radical, is shown to be thermal decomposition to the n-butadienyl radical and carbon monoxide through a series of ring opening and hydrogen atom transfer reactions. The dominant bimolecular products of hydrogen atom addition reactions are found to be furan and methyl radical, 1-butene-1-yl radical and carbon monoxide and vinyl ketene and methyl radical. A kinetic mechanism is assembled with computer simulations in good agreement with shock tube speciation profiles taken from the literature. The kinetic mechanism developed herein can be used in future chemical kinetic modelling studies on the pyrolysis and oxidation of 2-methylfuran, or the larger molecular structures for which it is a known pyrolysis/combustion intermediate (e.g. cellulose, coals, 2,5-dimethylfuran). PMID:24496403

  13. Numerical simulation of Jet-A combustion approximated by improved propane chemical kinetics

    NASA Technical Reports Server (NTRS)

    Ying, Shuh-Jing; Nguyen, Hung Lee

    1991-01-01

    Through the effort devoted to the chemical kinetics for propane air combustion, three mechanisms are developed. The full mechanism consists of 131 reactions. This mechanism is used as a guide for the evaluation of other mechanisms, but because of the long expected cpu time, it is not to be incorporated into the computer code KIVA-II for actual simulation. Through the sensitivity analysis, a reduced mechanism of 45 reactions is produced. But the calculated results from the 45 reaction mechanism are always low in temperature. Some efforts are devoted to correct this situation and details are included in this report. A simplified mechanism of reactions is successfully improved and computed results are compared with experimental data. Contour plots of physical parameters and species concentrations and results for emission indices of CO and NOx are presented.

  14. Review of chemical-kinetic problems of future NASA missions. I - Earth entries

    NASA Technical Reports Server (NTRS)

    Park, Chul

    1993-01-01

    A number of chemical-kinetic problems related to phenomena occurring behind a shock wave surrounding an object flying in the earth atmosphere are discussed, including the nonequilibrium thermochemical relaxation phenomena occurring behind a shock wave surrounding the flying object, problems related to aerobraking maneuver, the radiation phenomena for shock velocities of up to 12 km/sec, and the determination of rate coefficients for ionization reactions and associated electron-impact ionization reactions. Results of experiments are presented in form of graphs and tables, giving data on the reaction rate coefficients for air, the ionization distances, thermodynamic properties behind a shock wave, radiative heat flux calculations, Damkoehler numbers for the ablation-product layer, together with conclusions.

  15. Spectroscopic analysis of cinnamic acid using quantum chemical calculations

    NASA Astrophysics Data System (ADS)

    Vinod, K. S.; Periandy, S.; Govindarajan, M.

    2015-02-01

    In this present study, FT-IR, FT-Raman, 13C NMR and 1H NMR spectra for cinnamic acid have been recorded for the vibrational and spectroscopic analysis. The observed fundamental frequencies (IR and Raman) were assigned according to their distinctiveness region. The computed frequencies and optimized parameters have been calculated by using HF and DFT (B3LYP) methods and the corresponding results are tabulated. On the basis of the comparison between computed and experimental results assignments of the fundamental vibrational modes are examined. A study on the electronic and optical properties; absorption wavelengths, excitation energy, dipole moment and frontier molecular orbital energies, were performed by HF and DFT methods. The alternation of the vibration pattern of the pedestal molecule related to the substitutions was analyzed. The 13C and 1H NMR spectra have been recorded and the chemical shifts have been calculated using the gauge independent atomic orbital (GIAO) method. The Mulliken charges, UV spectral analysis and HOMO-LUMO analysis of have been calculated and reported. The molecular electrostatic potential (MEP) was constructed.

  16. Recent Advances in Detailed Chemical Kinetic Models for Large Hydrocarbon and Biodiesel Transportation Fuels

    SciTech Connect

    Westbrook, C K; Pitz, W J; Curran, H J; Herbinet, O; Mehl, M

    2009-03-30

    n-Hexadecane and 2,2,4,4,6,8,8-heptamethylnonane represent the primary reference fuels for diesel that are used to determine cetane number, a measure of the ignition property of diesel fuel. With the development of chemical kinetics models for these two primary reference fuels for diesel, a new capability is now available to model diesel fuel ignition. Also, we have developed chemical kinetic models for a whole series of large n-alkanes and a large iso-alkane to represent these chemical classes in fuel surrogates for conventional and future fuels. Methyl decanoate and methyl stearate are large methyl esters that are closely related to biodiesel fuels, and kinetic models for these molecules have also been developed. These chemical kinetic models are used to predict the effect of the fuel molecule size and structure on ignition characteristics under conditions found in internal combustion engines.

  17. Chemical kinetics parameters and model validation for the gasification of PCEA nuclear graphite

    SciTech Connect

    El-Genk, Mohamed S; Tournier, Jean-Michel; Contescu, Cristian I

    2014-01-01

    A series of gasification experiments, using two right cylinder specimens (~ 12.7 x 25.4 mm and 25.4 x 25.4 mm) of PCEA nuclear graphite in ambient airflow, measured the total gasification flux at weight losses up to 41.5% and temperatures (893-1015 K) characteristics of those for in-pores gasification Mode (a) and in-pores diffusion-limited Mode (b). The chemical kinetics parameters for the gasification of PCEA graphite are determined using a multi-parameters optimization algorithm from the measurements of the total gasification rate and transient weight loss in experiments. These parameters are: (i) the pre-exponential rate coefficients and the Gaussian distributions and values of specific activation energies for adsorption of oxygen and desorption of CO gas; (ii) the specific activation energy and pre-exponential rate coefficient for the breakup of stable un-dissociated C(O2) oxygen radicals to form stable (CO) complexes; (iii) the specific activation energy and pre-exponential coefficient for desorption of CO2 gas and; (iv) the initial surface area of reactive free sites per unit mass. This area is consistently 13.5% higher than that for nuclear graphite grades of NBG-25 and IG-110 and decreases inversely proportional with the square root of the initial mass of the graphite specimens in the experiments. Experimental measurements successfully validate the chemical-reactions kinetics model that calculates continuous Arrhenius curves of the total gasification flux and the production rates of CO and CO2 gases. The model results at different total weight losses agree well with measurements and expand beyond the temperatures in the experiments to the diffusion-limited mode of gasification. Also calculated are the production rates of CO and CO2 gases and their relative contributions to the total gasification rate in the experiments as functions of temperature, for total weight losses of 5% and 10%.

  18. An investigation on the catalytic capacity of dolomite in transesterification and the calculation of kinetic parameters.

    PubMed

    Niu, Sheng-Li; Huo, Meng-Jia; Lu, Chun-Mei; Liu, Meng-Qi; Li, Hui

    2014-04-01

    The catalytic capacity of dolomite in transesterification was investigated and the kinetic parameters were calculated. The activated dolomites as transesterification catalyst were characterized by X-ray diffraction, nitrogen adsorption and desorption and Hammett indicator method, where the original dolomite was analyzed by thermogravimetric and X-ray fluorescence in advance. Its potential catalytic capacity was validated from aspects of the activated temperature and the reused property, where the reliability of the experimental system was also examined. Then, influences of the catalyst added amount, the mole ratio of methanol to oil, the transesterification temperature and the transesterification time on the catalytic capacity were investigated. Finally, kinetic parameters of the transesterification catalyzed by the activated dolomite were calculated. PMID:24583217

  19. Chemical kinetic modeling of propane oxidation behind shock waves

    NASA Technical Reports Server (NTRS)

    Mclain, A. G.; Jachimowski, C. J.

    1977-01-01

    The stoichiometric combustion of propane behind incident shock waves was studied experimentally and analytically over a temperature range from 1700 K to 2600 K and a pressure range from 1.2 to 1.9 atm. Measurements of the concentrations of carbon monoxide (CO) and carbon dioxide (CO2) and the product of the oxygen atom and carbon dioxide concentrations (O)(CO) were made after passage of the incident shock wave. A kinetic mechanism was developed which, when used in a computer program for a flowing, reacting gas behind an incident shock wave predicted experimentally measured results quite well. Ignition delay times from the literature were also predicted quite well. The kinetic mechanism consisted of 59 individual kinetic steps.

  20. Mechanistic, kinetic, and processing aspects of tungsten chemical mechanical polishing

    NASA Astrophysics Data System (ADS)

    Stein, David

    This dissertation presents an investigation into tungsten chemical mechanical polishing (CMP). CMP is the industrially predominant unit operation that removes excess tungsten after non-selective chemical vapor deposition (CVD) during sub-micron integrated circuit (IC) manufacture. This work explores the CMP process from process engineering and fundamental mechanistic perspectives. The process engineering study optimized an existing CMP process to address issues of polish pad and wafer carrier life. Polish rates, post-CMP metrology of patterned wafers, electrical test data, and synergy with a thermal endpoint technique were used to determine the optimal process. The oxidation rate of tungsten during CMP is significantly lower than the removal rate under identical conditions. Tungsten polished without inhibition during cathodic potentiostatic control. Hertzian indenter model calculations preclude colloids of the size used in tungsten CMP slurries from indenting the tungsten surface. AFM surface topography maps and TEM images of post-CMP tungsten do not show evidence of plow marks or intergranular fracture. Polish rate is dependent on potassium iodate concentration; process temperature is not. The colloid species significantly affects the polish rate and process temperature. Process temperature is not a predictor of polish rate. A process energy balance indicates that the process temperature is predominantly due to shaft work, and that any heat of reaction evolved during the CMP process is negligible. Friction and adhesion between alumina and tungsten were studied using modified AFM techniques. Friction was constant with potassium iodate concentration, but varied with applied pressure. This corroborates the results from the energy balance. Adhesion between the alumina and the tungsten was proportional to the potassium iodate concentration. A heuristic mechanism, which captures the relationship between polish rate, pressure, velocity, and slurry chemistry, is presented. In this mechanism, the colloid reacts with the chemistry of the slurry to produce active sites. These active sites become inactive by removing tungsten from the film. The process repeats when then inactive sites are reconverted to active sites. It is shown that the empirical form of the heuristic mechanism fits all of the data obtained. The mechanism also agrees with the limiting cases that were investigated.

  1. Dominant particles and reactions in a two-temperature chemical kinetic model of a decaying SF6 arc

    NASA Astrophysics Data System (ADS)

    Wang, Xiaohua; Gao, Qingqing; Fu, Yuwei; Yang, Aijun; Rong, Mingzhe; Wu, Yi; Niu, Chunping; Murphy, Anthony B.

    2016-03-01

    This paper is devoted to the computation of the non-equilibrium composition of an SF6 plasma, and determination of the dominant particles and reactions, at conditions relevant to high-voltage circuit breakers after current zero (temperatures from 12 000 K to 1000 K and a pressure of 4 atm). The non-equilibrium composition is characterized by departures from both thermal and chemical equilibrium. In thermal non-equilibrium process, the electron temperature (T e) is not equal to the heavy-particle temperature (T h), while for chemical non-equilibrium, a chemical kinetic model is adopted. In order to evaluate the reasonableness and reliability of the non-equilibrium composition, calculation methods for equilibrium composition based on Gibbs free energy minimization and kinetic composition in a one-temperature kinetic model are first considered. Based on the one-temperature kinetic model, a two-temperature kinetic model with the ratio T e/T h varying as a function of the logarithm of electron density ratio (n e/n\\text{e}\\max ) was established. In this model, T* is introduced to allow a smooth transition between T h and T e and to determine the temperatures for the rate constants. The initial composition in the kinetic models is obtained from the asymptotic composition as infinite time is approached at 12 000 K. The molar fractions of neutral particles and ions in the two-temperature kinetic model are consistent with the equilibrium composition and the composition obtained from the one-temperature kinetic model above 10 000 K, while significant differences appear below 10 000 K. Based on the dependence of the particle distributions on temperature in the two-temperature kinetic model, three temperature ranges, and the dominant particles and reactions in the respective ranges, are determined. The full model is then simplified into three models and the accuracy of the simplified models is assessed. The simplified models reduce the number of species and reactions by a factor of about 2, while providing results that agree closely with the full model. Thus, the physicochemical processes of SF6 arc can be characterized by relatively few species and reactions in each temperature range. It is noted that the simplified models can also be applied to a wide range of pressures, 1–16 atm, conditions which cover most circuit breaker applications. The simplified species and reactions will allow the computing time of multi-dimensional models, taking into account departures from both thermal and chemical equilibrium, to be decreased dramatically while capturing the main physicochemical processes in SF6 arcs.

  2. Chemical kinetic considerations for postflame synthesis of carbon nanotubes in premixed flames using a support catalyst

    SciTech Connect

    Gopinath, Prarthana; Gore, Jay

    2007-11-15

    Multiwalled carbon nanotubes (MWCNTs) on a grid supported cobalt nanocatalyst were grown, by exposing it to combustion gases from ethylene/air rich premixed flames. Ten equivalence ratios ({phi}) were investigated, as follows: 1.37, 1.44, 1.47, 1.50, 1.55, 1.57, 1.62, 1.75, 1.82, and 1.91. MWCNT growth could be observed for the range of equivalence ratios between 1.45 and 1.75, with the best yield restricted to the range 1.5-1.6. A one-dimensional premixed flame code with a postflame heat loss model, including detailed chemistry, was used to estimate the gas phase chemical composition that favors MWCNT growth. The results of the calculations show that the mixture, including the water gas shift reaction, is not even in partial chemical equilibrium. Therefore, past discussions of compositional parameters that relate to optimum carbon nanotube (CNT) growth are revised to include chemical kinetic effects. Specifically, rapid departures of the water gas shift reaction from partial equilibrium and changes in mole fraction ratios of unburned C{sub 2} hydrocarbons to hydrogen correlate well with experimentally observed CNT yields. (author)

  3. Leaching Kinetics of Atrazine and Inorganic Chemicals in Tilled and Orchard Soils

    NASA Astrophysics Data System (ADS)

    Szajdak, Lech W.; Lipiec, Jerzy; Siczek, Anna; Nosalewicz, Artur; Majewska, Urszula

    2014-04-01

    The aim of this study was to verify first-order kinetic reaction rate model performance in predicting of leaching of atrazine and inorganic compounds (K+1, Fe+3, Mg+2, Mn+2, NH4 +, NO3 - and PO4 -3) from tilled and orchard silty loam soils. This model provided an excellent fit to the experimental concentration changes of the compounds vs. time data during leaching. Calculated values of the first-order reaction rate constants for the changes of all chemicals were from 3.8 to 19.0 times higher in orchard than in tilled soil. Higher first-order reaction constants for orchard than tilled soil correspond with both higher total porosity and contribution of biological pores in the former. The first order reaction constants for the leaching of chemical compounds enables prediction of the actual compound concentration and the interactions between compound and soil as affected by management system. The study demonstrates the effectiveness of simultaneous chemical and physical analyses as a tool for the understanding of leaching in variously managed soils.

  4. Critical evaluation of Jet-A spray combustion using propane chemical kinetics in gas turbine combustion simulated by KIVA-2

    NASA Technical Reports Server (NTRS)

    Nguyen, H. L.; Ying, S.-J.

    1990-01-01

    Jet-A spray combustion has been evaluated in gas turbine combustion with the use of propane chemical kinetics as the first approximation for the chemical reactions. Here, the numerical solutions are obtained by using the KIVA-2 computer code. The KIVA-2 code is the most developed of the available multidimensional combustion computer programs for application of the in-cylinder combustion dynamics of internal combustion engines. The released version of KIVA-2 assumes that 12 chemical species are present; the code uses an Arrhenius kinetic-controlled combustion model governed by a four-step global chemical reaction and six equilibrium reactions. Researchers efforts involve the addition of Jet-A thermophysical properties and the implementation of detailed reaction mechanisms for propane oxidation. Three different detailed reaction mechanism models are considered. The first model consists of 131 reactions and 45 species. This is considered as the full mechanism which is developed through the study of chemical kinetics of propane combustion in an enclosed chamber. The full mechanism is evaluated by comparing calculated ignition delay times with available shock tube data. However, these detailed reactions occupy too much computer memory and CPU time for the computation. Therefore, it only serves as a benchmark case by which to evaluate other simplified models. Two possible simplified models were tested in the existing computer code KIVA-2 for the same conditions as used with the full mechanism. One model is obtained through a sensitivity analysis using LSENS, the general kinetics and sensitivity analysis program code of D. A. Bittker and K. Radhakrishnan. This model consists of 45 chemical reactions and 27 species. The other model is based on the work published by C. K. Westbrook and F. L. Dryer.

  5. A Case Study in Chemical Kinetics: The OH + CO Reaction.

    ERIC Educational Resources Information Center

    Weston, Ralph E., Jr.

    1988-01-01

    Reviews some important properties of the bimolecular reaction between the hydroxyl radical and carbon monoxide. Investigates the kinetics of the reaction, the temperature and pressure dependence of the rate constant, the state-to-state dynamics of the reaction, and the reverse reaction. (MVL)

  6. Local Dynamics of Chemical Kinetics at Different Phases of Nitriding Process

    NASA Astrophysics Data System (ADS)

    Özdemir, İ. Bedii; Akar, Firat

    2015-08-01

    The local dynamics of chemical kinetics at different phases of the nitriding process have been studied. The calculations are performed under the conditions where the temperature and composition data are provided experimentally from an in-service furnace. Results are presented in temporal variations of gas concentrations and the nitrogen coverage on the surface. It is shown that if it is available in the furnace, the adsorption of the N2 gas can seemingly start at temperatures as low as 200 °C. However, at such low temperatures, as the diffusion into the material is very unlikely, this results in the surface poisoning. It becomes clear that, contrary to common knowledge, the nitriding heat treatment with ammonia as a nitrogen-providing medium is possible at temperatures like 400 °C. Under these conditions, however, the presence of excess amounts of product gas N2 in the furnace atmosphere suppresses the forward kinetics in the nitriding process. It seems that the best operating point in the nitriding heat treatment is achieved with a mixture of 6% N2. When the major nitriding species NH3 is substituted by N2 and the N2 fraction increases above 30%, the rate of the forward reaction decreases drastically, so that there is no point to continue the furnace operation any further. Hence, during the initial heating phase, the N2 gas must be purged from the furnace to keep its fraction less than 30% before the furnace reaches the temperature where the reaction starts.

  7. The influence of chemical mechanisms on PDF calculations of nonpremixed piloted jet flames

    SciTech Connect

    Cao, Renfeng Richard; Pope, Stephen B.

    2005-12-01

    Seven different chemical mechanisms for methane are used in PDF model calculations of the Barlow and Frank flames D, E, and F in order to investigate the ability of these mechanisms to represent the local extinction, reignition, and other chemical phenomena observed in these nonpremixed piloted jet flames. The mechanisms studied range from a 5-step reduced mechanism to the GRI3.0 mechanism which involves 53 species. As in several other recent studies, we use the PDF method based on the joint probability density function of velocity, turbulence frequency, and composition. Extensive tests are performed to ensure the numerical accuracy of the calculations, to relate them to previous calculations based on the same model, and to reexamine the sensitivity of the calculations (especially of flame F) to uncertainties in the pilot temperature and the treatment of radiation. As has been observed in other studies of laminar and turbulent nonpremixed flames, we find that the GRI3.0 mechanism overpredicts the levels of NO, typically by a factor of 2. Apart from this, the GRI3.0 and GRI2.11 mechanisms yield comparably good agreement with the experimental data for all three flames, including the level of local extinction and the conditional means of major and other minor species. Two augmented reduce mechanism (ARM1 and ARM2) based on GRI2.11 and containing 16 and 19 species are slightly less accurate; while the 5-step reduced mechanism and two C{sub 1} skeletal mechanisms containing 16 species display significant inaccuracies. An examination of the autoignition and laminar-flame behavior of the different mechanisms confirms (with some exceptions) expected trends: there is an association between long ignition delay times, small extinction strain rates, and high levels of local extinction. This study again demonstrates the ability of the joint PDF method to represent accurately the strong turbulence-chemistry interactions in these flames, and it clarifies the necessary level of description of the chemical kinetics.

  8. Solutions of the chemical kinetic equations for initially inhomogeneous mixtures.

    NASA Technical Reports Server (NTRS)

    Hilst, G. R.

    1973-01-01

    Following the recent discussions by O'Brien (1971) and Donaldson and Hilst (1972) of the effects of inhomogeneous mixing and turbulent diffusion on simple chemical reaction rates, the present report provides a more extensive analysis of when inhomogeneous mixing has a significant effect on chemical reaction rates. The analysis is then extended to the development of an approximate chemical sub-model which provides much improved predictions of chemical reaction rates over a wide range of inhomogeneities and pathological distributions of the concentrations of the reacting chemical species. In particular, the development of an approximate representation of the third-order correlations of the joint concentration fluctuations permits closure of the chemical sub-model at the level of the second-order moments of these fluctuations and the mean concentrations.

  9. Chemical compounds in the remote Pacific troposphere: Comparison between MLOPEX measurements and chemical transport model calculations

    NASA Astrophysics Data System (ADS)

    Brasseur, G. P.; Hauglustaine, D. A.; Walters, S.

    1996-06-01

    A global three-dimensional chemical transport model, called MOZART (Model of OZone And Related species in the Troposphere), is used to compare calculated abundances of chemical species and their seasonal evolution in the remote Pacific troposphere near Hawaii with values observed during the Mauna Loa Observatory Photochemistry Experiments (MLOPEX 1 and 2). MOZART is a fully diurnal model which calculates the time evolution of about 30 chemical species from the surface to the upper stratosphere. It accounts for surface emissions of source gases, wet and dry depositions, photochemical transformations and transport processes. The dynamical variables are provided by the National Center for Atmospheric Research (NCAR) Community Climate Model (CCM2) at T42 resolution (2.8 2.8) and 18 levels in the vertical. Simulated abundances of 222Rn reveal an underestimate of the transport of continental emissions to the remote Pacific troposphere, more particularly during winter and summer. Calculated concentrations of chemical species are generally in fair agreement with observations. However, the abundances of soluble species are overestimated, leading, for example, to concentrations of nitric acid (HNO3) and hydrogen peroxide (H2O2) which are overpredicted by a factor of 3-8, depending on the season. This feature is attributed to insufficient washout by clouds and precipitation in the model. MOZART succesfully reproduces the development of high-NOx episodes at Mauna Loa Observatory (MLO) associated with anticyclonic conditions to the north of Hawaii and breakdown of the polar jet which tends to deflect to the central Pacific the flow of NOx transported from eastern Asia (China, Japan). During high NOx episodes, the calculated NOx mixing ratio in the vicinity of the MLO increases by about a factor of 3 over its background level (reaching 90-100 pptv) within 3-5 days.

  10. Chemical gas-dynamics beyond Wang Chang-Uhlenbeck's kinetics

    SciTech Connect

    Kolesnichenko, Evgeniy G.; Gorbachev, Yuriy E.

    2014-12-09

    Wang Chang-Uhlenbeck equation does not give possibility to take into account intermolecular processes such as redistribution of the energy among different degrees of freedom. The modification of the generalized Wang Chang-Uhlenbeck equation including such processes is proposed. It allows to study for instance the kinetics of non-radiative transitions. Limitations of this approach are connected with the requirements of absence of polarization of rotational momentum and phases of intermolecular vibrations.

  11. Inventory Control: A Small Electronic Device for Studying Chemical Kinetics.

    ERIC Educational Resources Information Center

    Perez-Rodriguez, A. L.; Calvo-Aguilar, J. L.

    1984-01-01

    Shows how the rate of reaction can be studied using a simple electronic device that overcomes the difficulty students encounter in solving the differential equations describing chemical equilibrium. The device, used in conjunction with an oscilloscope, supplies the voltages that represent the chemical variables that take part in the equilibrium.

  12. Inventory Control: A Small Electronic Device for Studying Chemical Kinetics.

    ERIC Educational Resources Information Center

    Perez-Rodriguez, A. L.; Calvo-Aguilar, J. L.

    1984-01-01

    Shows how the rate of reaction can be studied using a simple electronic device that overcomes the difficulty students encounter in solving the differential equations describing chemical equilibrium. The device, used in conjunction with an oscilloscope, supplies the voltages that represent the chemical variables that take part in the equilibrium.…

  13. General chemical kinetics computer program for static and flow reactions, with application to combustion and shock-tube kinetics

    NASA Technical Reports Server (NTRS)

    Bittker, D. A.; Scullin, V. J.

    1972-01-01

    A general chemical kinetics program is described for complex, homogeneous ideal-gas reactions in any chemical system. Its main features are flexibility and convenience in treating many different reaction conditions. The program solves numerically the differential equations describing complex reaction in either a static system or one-dimensional inviscid flow. Applications include ignition and combustion, shock wave reactions, and general reactions in a flowing or static system. An implicit numerical solution method is used which works efficiently for the extreme conditions of a very slow or a very fast reaction. The theory is described, and the computer program and users' manual are included.

  14. Theory of chemical kinetics. Technical report, January 16, 1980-January 15, 1981

    SciTech Connect

    Ross, J.

    1981-01-01

    Progress made in research in the theory of chemical kinetics is described. The work in the past year has been primarily concerned with the efficiency of thermal and chemical engines, the role of inertial effect in thermal engines, the behavior of harmonically driven oscillatory reactions and a detailed analysis of glycolysis including its mechanism, its control features and its resonance effects.

  15. Clouds Composition in Super-Earth Atmospheres: Chemical Equilibrium Calculations

    NASA Astrophysics Data System (ADS)

    Kempton, Eliza M.-R.; Mbarek, Rostom

    2015-12-01

    Attempts to determine the composition of super-Earth atmospheres have so far been plagued by the presence of clouds. Yet the theoretical framework to understand these clouds is still in its infancy. For the super-Earth archetype GJ 1214b, KCl, Na2S, and ZnS have been proposed as condensates that would form under the condition of chemical equilibrium, if the planet’s atmosphere has a bulk composition near solar. Condensation chemistry calculations have not been presented for a wider range of atmospheric bulk composition that is to be expected for super-Earth exoplanets. Here we provide a theoretical context for the formation of super-Earth clouds in atmospheres of varied composition by determining which condensates are likely to form, under the assumption of chemical equilibrium. We model super-Earth atmospheres assuming they are formed by degassing of volatiles from a solid planetary core of chondritic material. Given the atomic makeup of these atmospheres, we minimize the global Gibbs free energy of over 550 gases and condensates to obtain the molecular composition of the atmospheres over a temperature range of 350-3,000 K. Clouds should form along the temperature-pressure boundaries where the condensed species appear in our calculations. The super-Earth atmospheres that we study range from highly reducing to oxidizing and have carbon to oxygen (C:O) ratios that are both sub-solar and super-solar, thereby spanning a diverse range of atmospheric composition that is appropriate for low-mass exoplanets. Some condensates appear across all of our models. However, the majority of condensed species appear only over specific ranges of H:O and C:O ratios. We find that for GJ 1214b, KCl is the primary cloud-forming condensate at solar composition, in agreement with previous work. However, for oxidizing atmospheres, where H:O is less than unity, K2SO4 clouds form instead. For carbon-rich atmospheres with super-solar C:O ratios, graphite clouds additionally appear. At higher temperatures, clouds are formed from a variety of materials including metals, metal oxides, and aluminosilicates.

  16. KINETICS OF CHEMICAL & MICROBIAL CONTAMINANTS IN DISTRIBUTION SYSTEMS

    EPA Science Inventory

    Once treated drinking water enters the distribution system, substantial microbial, chemical, and physical changes can occur. Examples of such changes can nclude loss of disinfectant residual, increases in disinfection byproducts (DBP), growth of microbial diversity and population...

  17. Quantum-Chemical Calculation of Carbododecahedron Formation in Carbon Plasma.

    PubMed

    Poklonski, Nikolai A; Ratkevich, Sergey V; Vyrko, Sergey A

    2015-08-27

    The ground state of the molecule consisting of 10 carbon atoms in C10(rg) "ring" conformation and the energy of its metastable C10(st) "star" conformation are reported. The reaction coordinate for the isomeric transition C10(st) ? C10(rg) was calculated using density functional theory (DFT) with UB3LYP/6-31G(d,p). It was established that a 5-fold symmetry axis is conserved in this isomeric transition. The total energy of the ring isomer is by 10.33 eV (9.16 eV as zero-point energy corrected) lower than that of the star isomer. The energy barrier for the transition from the metastable star state to the ring state is 2.87 eV (3.57 eV as zero-point energy corrected). An analysis of possible chemical reactions in carbon plasma involving C10(st) and C10(rg) and leading to the formation of C20 fullerenes was performed. It was revealed that the presence of the C10(st) conformation in the reaction medium is a necessary condition for C20 fullerene formation. It was shown that the presence of hydrogen atoms in carbon plasma and UV radiation accelerate the C10(st) ? C10(rg) transition and thus suppress the C20 fullerene formation. PMID:26267290

  18. Validity conditions for moment closure approximations in stochastic chemical kinetics

    SciTech Connect

    Schnoerr, David; Sanguinetti, Guido; Grima, Ramon

    2014-08-28

    Approximations based on moment-closure (MA) are commonly used to obtain estimates of the mean molecule numbers and of the variance of fluctuations in the number of molecules of chemical systems. The advantage of this approach is that it can be far less computationally expensive than exact stochastic simulations of the chemical master equation. Here, we numerically study the conditions under which the MA equations yield results reflecting the true stochastic dynamics of the system. We show that for bistable and oscillatory chemical systems with deterministic initial conditions, the solution of the MA equations can be interpreted as a valid approximation to the true moments of the chemical master equation, only when the steady-state mean molecule numbers obtained from the chemical master equation fall within a certain finite range. The same validity criterion for monostable systems implies that the steady-state mean molecule numbers obtained from the chemical master equation must be above a certain threshold. For mean molecule numbers outside of this range of validity, the MA equations lead to either qualitatively wrong oscillatory dynamics or to unphysical predictions such as negative variances in the molecule numbers or multiple steady-state moments of the stationary distribution as the initial conditions are varied. Our results clarify the range of validity of the MA approach and show that pitfalls in the interpretation of the results can only be overcome through the systematic comparison of the solutions of the MA equations of a certain order with those of higher orders.

  19. Semi-gas kinetics model for performance modeling of flowing chemical oxygen-iodine lasers (COIL)

    NASA Astrophysics Data System (ADS)

    Gao, Zhi; Hu, Limin; Shen, Yiqing

    2004-05-01

    A semi-gas kinetics (SGK) model for performance analyses of flowing chemical oxygen-iodine laser (COIL) is presented. In this model, the oxygen-iodine reaction gas flow is treated as a continuous medium, and the effect of thermal motions of particles of different laser energy levels on the performances of the COIL is included and the velocity distribution function equations are solved by using the double-parameter perturbational method. For a premixed flow, effects of different chemical reaction systems, different gain saturation models and temperature, pressure, yield of excited oxygen, iodine concentration and frequency-shift on the performances of the COIL are computed, and the calculated output power agrees well with the experimental data. The results indicate that the power extraction of the SGK model considering 21 reactions is close to those when only the reversible pumping reaction is considered, while different gain saturation, models and adjustable parameters greatly affect the output power, the optimal threshold gain range, and the length of power extraction.

  20. Chemical Kinetics in Support of Syngas Turbine Combustion

    SciTech Connect

    Dryer, Frederick

    2007-07-31

    This document is the final report on an overall program formulated to extend our prior work in developing and validating kinetic models for the CO/hydrogen/oxygen reaction by carefully analyzing the individual and interactive behavior of specific elementary and subsets of elementary reactions at conditions of interest to syngas combustion in gas turbines. A summary of the tasks performed under this work are: 1. Determine experimentally the third body efficiencies in H+O{sub 2}+M = HO{sub 2}+M (R1) for CO{sub 2} and H{sub 2}O. 2. Using published literature data and the results in this program, further develop the present H{sub 2}/O{sub 2}/diluent and CO/H{sub 2}/O{sub 2}/diluent mechanisms for dilution with CO{sub 2}, H{sub 2}O and N{sub 2} through comparisons with new experimental validation targets for H{sub 2}-CO-O{sub 2}-N{sub 2} reaction kinetics in the presence of significant diluent fractions of CO{sub 2} and/or H{sub 2}O, at high pressures. (task amplified to especially address ignition delay issues, see below). 3. Analyze and demonstrate issues related to NOx interactions with syngas combustion chemistry (task amplified to include interactions of iron pentacarbonyl with syngas combustion chemistry, see below). 4. Publish results, including updated syngas kinetic model. Results are summarized in this document and its appendices. Three archival papers which contain a majority of the research results have appeared. Those results not published elsewhere are highlighted here, and will appear as part of future publications. Portions of the work appearing in the above publications were also supported in part by the Department of Energy under Grant No. DE-FG02-86ER-13503. As a result of and during the research under the present contract, we became aware of other reported results that revealed substantial differences between experimental characterizations of ignition delays for syngas mixtures and ignition delay predictions based upon homogenous kinetic modeling. We adjusted emphasis of Task 2 to understand the source of these noted disparities because of their key importance to developing lean premixed combustion technologies of syngas turbine applications. In performing Task 3, we also suggest for the first time the very significant effect that metal carbonyls may have on syngas combustion properties. This work is fully detailed. The work on metal carbonyl effects is entirely computational in nature. Pursuit of experimental verification of these interactions was beyond the scope of the present work.

  1. Chemical kinetics of homogeneous atmospheric oxidation of sulfur dioxide

    NASA Technical Reports Server (NTRS)

    Sander, S. P.; Seinfeld, J. H.

    1976-01-01

    A systematic evaluation of known homogeneous SO2 reactions which might be important in air pollution chemistry is carried out. A mechanism is developed to represent the chemistry of NOx/hydrocarbon/SO2 systems, and the mechanism is used to analyze available experimental data appropriate for quantitative analysis of SO2 oxidation kinetics. Detailed comparisons of observed and predicted concentration behavior are presented. In all cases, observed SO2 oxidation rates cannot be explained solely on the basis of those SO2 reactions for which rate constants have been measured. The role of ozone-olefin reactions in SO2 oxidation is elucidated.

  2. Recent Results in Quantum Chemical Kinetics from High Resolution Spectroscopy

    NASA Astrophysics Data System (ADS)

    Quack, Martin

    2007-12-01

    We outline the approach of our group to derive intramolecular kinetic primary processes from high resolution spectroscopy. We then review recent results on intramolecular vibrational redistribution (IVR) and on tunneling processes. Examples are the quantum dynamics of the C-H-chromophore in organic molecules, hydrogen bond dynamics in (HF)2 and stereomutation dynamics in H2O2 and related chiral molecules. We finally discuss the time scales for these and further processes which range from 10 fs to more than seconds in terms of successive symmetry breakings, leading to the question of nuclear spin symmetry and parity violation as well as the question of CPT symmetry.

  3. Calculation of ion energy distributions from radio frequency plasmas using a simplified kinetic approach

    NASA Astrophysics Data System (ADS)

    Misakian, Martin; Wang, Yicheng

    2000-04-01

    Using an elementary kinetic approach, a procedure is described for calculating ion energy distributions (IEDs) from radio frequency (rf) plasmas. The calculated distributions, which are in the form of histograms, are used to fit experimental argon and CF3+ IEDs measured in a Gaseous Electronics Conference rf reactor modified to operate in a pulsed inductively coupled mode. Given the average plasma potential profile and its time dependence, the calculation incorporates a number of parameters used in more comprehensive treatments of the problem to determine the shape of the IED. The reverse calculation that determines the average potential profile, given an experimental IED, cannot be uniquely done, but some insights may be gained in some cases if a sufficient number of plasma related parameters are known, e.g., the shape and amplitude of the rf modulation. The results of the calculation indicate that argon ions forming the IEDs during the bright (H) mode come nearly exclusively from a presheath region that extends far into the interior of the plasma. The calculations also suggest that the CF3+ ions forming the IEDs observed during the dim (E) mode may preferentially come from near the "edge" of the bulk plasma. Possible significances of this difference are noted.

  4. CERENA: ChEmical REaction Network Analyzer-A Toolbox for the Simulation and Analysis of Stochastic Chemical Kinetics.

    PubMed

    Kazeroonian, Atefeh; Frhlich, Fabian; Raue, Andreas; Theis, Fabian J; Hasenauer, Jan

    2016-01-01

    Gene expression, signal transduction and many other cellular processes are subject to stochastic fluctuations. The analysis of these stochastic chemical kinetics is important for understanding cell-to-cell variability and its functional implications, but it is also challenging. A multitude of exact and approximate descriptions of stochastic chemical kinetics have been developed, however, tools to automatically generate the descriptions and compare their accuracy and computational efficiency are missing. In this manuscript we introduced CERENA, a toolbox for the analysis of stochastic chemical kinetics using Approximations of the Chemical Master Equation solution statistics. CERENA implements stochastic simulation algorithms and the finite state projection for microscopic descriptions of processes, the system size expansion and moment equations for meso- and macroscopic descriptions, as well as the novel conditional moment equations for a hybrid description. This unique collection of descriptions in a single toolbox facilitates the selection of appropriate modeling approaches. Unlike other software packages, the implementation of CERENA is completely general and allows, e.g., for time-dependent propensities and non-mass action kinetics. By providing SBML import, symbolic model generation and simulation using MEX-files, CERENA is user-friendly and computationally efficient. The availability of forward and adjoint sensitivity analyses allows for further studies such as parameter estimation and uncertainty analysis. The MATLAB code implementing CERENA is freely available from http://cerenadevelopers.github.io/CERENA/. PMID:26807911

  5. CERENA: ChEmical REaction Network Analyzer—A Toolbox for the Simulation and Analysis of Stochastic Chemical Kinetics

    PubMed Central

    Kazeroonian, Atefeh; Fröhlich, Fabian; Raue, Andreas; Theis, Fabian J.; Hasenauer, Jan

    2016-01-01

    Gene expression, signal transduction and many other cellular processes are subject to stochastic fluctuations. The analysis of these stochastic chemical kinetics is important for understanding cell-to-cell variability and its functional implications, but it is also challenging. A multitude of exact and approximate descriptions of stochastic chemical kinetics have been developed, however, tools to automatically generate the descriptions and compare their accuracy and computational efficiency are missing. In this manuscript we introduced CERENA, a toolbox for the analysis of stochastic chemical kinetics using Approximations of the Chemical Master Equation solution statistics. CERENA implements stochastic simulation algorithms and the finite state projection for microscopic descriptions of processes, the system size expansion and moment equations for meso- and macroscopic descriptions, as well as the novel conditional moment equations for a hybrid description. This unique collection of descriptions in a single toolbox facilitates the selection of appropriate modeling approaches. Unlike other software packages, the implementation of CERENA is completely general and allows, e.g., for time-dependent propensities and non-mass action kinetics. By providing SBML import, symbolic model generation and simulation using MEX-files, CERENA is user-friendly and computationally efficient. The availability of forward and adjoint sensitivity analyses allows for further studies such as parameter estimation and uncertainty analysis. The MATLAB code implementing CERENA is freely available from http://cerenadevelopers.github.io/CERENA/. PMID:26807911

  6. Using CBL Technology and a Graphing Calculator To Teach the Kinetics of Consecutive First-Order Reactions.

    ERIC Educational Resources Information Center

    Cortes-Figueroa, Jose E.; Moore, Deborah A.

    1999-01-01

    Describes the use of Calculator-Based Laboratory (CBL) technology and a projectable TI-83 graphing calculator to demonstrate the kinetic behavior of a complex reaction. Explains how the CBL is used to review first-order reactions and the graphing calculator is used to determine the rate constants for a series of consecutive first-order reactions.

  7. Chemical oscillations arise solely from kinetic nonlinearity and hence can occur near equilibrium.

    PubMed Central

    Walz, D; Caplan, S R

    1995-01-01

    A minimal kinetic scheme for a system displaying sustained chemical oscillations is presented. The system is isothermal, and all steps in the scheme are kinetically reversible. The oscillations are analyzed and the crucial points elucidated. Both positive and negative feedback, if properly introduced, support oscillations, provided the state responsible for feedback is optimally buffered. It is shown that the requisite nonlinearity is introduced at the kinetic level because of feedback regulation and not, as is usually assumed, by large affinities that introduce nonlinearity at the thermodynamic level. Hence, sustained oscillations may occur near equilibrium. PMID:8580313

  8. Integrating chemical kinetic rate equations by selective use of stiff and nonstiff methods

    NASA Technical Reports Server (NTRS)

    Radhakrishnan, K.

    1985-01-01

    The effect of switching between nonstiff and stiff methods on the efficiency of algorithms for integrating chemical kinetic rate equations is presented. Different integration methods are tested by application of the packaged code LSODE to four practical combustion kinetics problems. The problems describe adiabatic, homogeneous gas-phase combustion reactions. It is shown that selective use of nonstiff and stiff methods in different regimes of a typical batch combustion problem is faster than the use of either method for the entire problem. The implications of this result to the development of fast integration techniques for combustion kinetic rate equations are discussed.

  9. A comparison of the efficiency of numerical methods for integrating chemical kinetic rate equations

    NASA Technical Reports Server (NTRS)

    Radhakrishnan, K.

    1984-01-01

    The efficiency of several algorithms used for numerical integration of stiff ordinary differential equations was compared. The methods examined included two general purpose codes EPISODE and LSODE and three codes (CHEMEQ, CREK1D and GCKP84) developed specifically to integrate chemical kinetic rate equations. The codes were applied to two test problems drawn from combustion kinetics. The comparisons show that LSODE is the fastest code available for the integration of combustion kinetic rate equations. It is shown that an iterative solution of the algebraic energy conservation equation to compute the temperature can be more efficient then evaluating the temperature by integrating its time-derivative.

  10. Integrating chemical kinetic rate equations by selective use of stiff and nonstiff methods

    NASA Technical Reports Server (NTRS)

    Radhakrishnan, K.

    1985-01-01

    The effect of switching between nonstiff and stiff methods on the efficiency of algorithms for integrating chemical kinetic rate equations was examined. Different integration methods were tested by application of the packaged code LSODE to four practical combustion kinetics problems. The problems describe adiabatic, and homogeneous gas phase combustion reactions. It is shown that selective use of nonstiff and stiff methods in different regimes of a typical batch combustion problem is faster than the use of either method for the entire problem. The implications which result in the development of fast integration techniques for combustion kinetic rate equations are discussed.

  11. Chemical kinetic modeling study of the effects of oxygenated hydrocarbons on soot emissions from diesel engines.

    PubMed

    Westbrook, Charles K; Pitz, William J; Curran, Henry J

    2006-06-01

    A detailed chemical kinetic modeling approach is used to examine the phenomenon of suppression of sooting in diesel engines by the addition of oxygenated hydrocarbon species to the fuel. This suppression, which has been observed experimentally for a few years, is explained kinetically as a reduction in concentrations of soot precursors present in the hot products of a fuel-rich diesel ignition zone when oxygenates are included. The kinetic model is also used to show how different oxygenates, ester structures in particular, can have different soot-suppression efficiencies due to differences in the molecular structure of the oxygenated species. PMID:16722706

  12. Chemical kinetic modeling of component mixtures relevant to gasoline

    SciTech Connect

    Mehl, M; Curran, H J; Pitz, W J; Westbrook, C K

    2009-02-13

    Real fuels are complex mixtures of thousands of hydrocarbon compounds including linear and branched paraffins, naphthenes, olefins and aromatics. It is generally agreed that their behavior can be effectively reproduced by simpler fuel surrogates containing a limited number of components. In this work, a recently revised version of the kinetic model by the authors is used to analyze the combustion behavior of several components relevant to gasoline surrogate formulation. Particular attention is devoted to linear and branched saturated hydrocarbons (PRF mixtures), olefins (1-hexene) and aromatics (toluene). Model predictions for pure components, binary mixtures and multi-component gasoline surrogates are compared with recent experimental information collected in rapid compression machine, shock tube and jet stirred reactors covering a wide range of conditions pertinent to internal combustion engines. Simulation results are discussed focusing attention on the mixing effects of the fuel components.

  13. Recent Results in Quantum Chemical Kinetics from High Resolution Spectroscopy

    SciTech Connect

    Quack, Martin

    2007-12-26

    We outline the approach of our group to derive intramolecular kinetic primary processes from high resolution spectroscopy. We then review recent results on intramolecular vibrational redistribution (IVR) and on tunneling processes. Examples are the quantum dynamics of the C-H-chromophore in organic molecules, hydrogen bond dynamics in (HF){sub 2} and stereomutation dynamics in H{sub 2}O{sub 2} and related chiral molecules. We finally discuss the time scales for these and further processes which range from 10 fs to more than seconds in terms of successive symmetry breakings, leading to the question of nuclear spin symmetry and parity violation as well as the question of CPT symmetry.

  14. Infrared absorption spectroscopy and chemical kinetics of free radicals

    SciTech Connect

    Curl, R.F.; Glass, G.P.

    1992-04-01

    Propargyl radical has recently attracted interest because of its possible role in combustion and soot formation. At high temperatures it is not easily destroyed by dissociation nor by reaction with oxygen thus, it has been observed in significant concentrations in numerous pyrolysis and oxidation processes. During the last year, we have obtained the high resolution spectrum of the v{sub 1} acetylenic CH stretch of propargyl radical (HCCCH{sub 2}) near 3322 cm{sup {minus}1} using infrared laser kinetic spectroscopy at Doppler limited resolution. Propargyl is prepared by flash photolysis of propargyl bromide (or propargyl chloride) at 193 nm (ArFexcimer) and its transient infrared absorption probed by a cw color center laser. We are beginning to investigate the kinetics of propargyl radical. The decay of the radical after the flash appears to be second order. The fine structure transition of the Br atom is accessible and when monitored under the same conditions appears to exhibit a simple first order decay suggesting that the Br atom is reacting with precursor propargyl bromide. Ketenyl radicals were produced by 193 nm excimer laser photolysis of ketene and probed with a tunable diode laser operating at 2014 cm{sup {minus}1}. Under these conditions, any singlet methylene which may be formed should react with the precursor, ketene, at a rate fast enough to ensure its total removal from the photolysis cell within 1 {mu}s. In the presence of 2 to 8 Torr of O{sub 2}, the ketenyl radical was observed to decay exponentially with time constants that ranged fro 20 to 5 {mu}s.

  15. KINETICS OF CHEMICAL WEATHERING IN B-HORIZON SPODOSOL FRACTION

    EPA Science Inventory

    Studies on a B horizon soil from Maine have been conducted to etermine the weathering rate dependence on hydrogen ion concentration in soil solution. Effects of soil concentration and solution chemistry on chemical weathering rate were also investigated. he studies used a laborat...

  16. Students' Systematic Errors When Solving Kinetic and Chemical Equilibrium Problems.

    ERIC Educational Resources Information Center

    BouJaoude, Saouma

    Although students' misconceptions about the concept of chemical equilibrium has been the focus of numerous investigations, few have investigated students' systematic errors when solving equilibrium problems at the college level. Students (n=189) enrolled in the second semester of a first year chemistry course for science and engineering majors at…

  17. Parameter Estimates in Differential Equation Models for Chemical Kinetics

    ERIC Educational Resources Information Center

    Winkel, Brian

    2011-01-01

    We discuss the need for devoting time in differential equations courses to modelling and the completion of the modelling process with efforts to estimate the parameters in the models using data. We estimate the parameters present in several differential equation models of chemical reactions of order n, where n = 0, 1, 2, and apply more general

  18. A Piagetian Learning Cycle for Introductory Chemical Kinetics.

    ERIC Educational Resources Information Center

    Batt, Russell H.

    1980-01-01

    Described is a Piagetian learning cycle based on Monte Carlo modeling of several simple reaction mechanisms. Included are descriptions of learning cycle phases (exploration, invention, and discovery) and four BASIC-PLUS computer programs to be used in the explanation of chemical reacting systems. (Author/DS)

  19. Parameter Estimates in Differential Equation Models for Chemical Kinetics

    ERIC Educational Resources Information Center

    Winkel, Brian

    2011-01-01

    We discuss the need for devoting time in differential equations courses to modelling and the completion of the modelling process with efforts to estimate the parameters in the models using data. We estimate the parameters present in several differential equation models of chemical reactions of order n, where n = 0, 1, 2, and apply more general…

  20. The Steady State and Equilibrium Assumptions in Chemical Kinetics.

    ERIC Educational Resources Information Center

    Tardy, Dwight C.; Cater, E. David

    1983-01-01

    Delineates between steady state and equilibrium assumptions, demonstrating the importance of making the equilibrium assumption at the appropriate step in the calculation. Indicates that, for an ozone system, concentrations predicted by these assumptions are different, and depending on the progress of each reaction, can be far from the exact

  1. Ab Initio Calculation of Nuclear Magnetic Resonance Chemical Shift Anisotropy Tensors 1. Influence of Basis Set on the Calculation of 31P Chemical Shifts

    SciTech Connect

    Alam, T.M.

    1998-09-01

    The influence of changes in the contracted Gaussian basis set used for ab initio calculations of nuclear magnetic resonance (NMR) phosphorous chemical shift anisotropy (CSA) tensors was investigated. The isotropic chemical shitl and chemical shift anisotropy were found to converge with increasing complexity of the basis set at the Hartree-Fock @IF) level. The addition of d polarization function on the phosphorous nucIei was found to have a major impact of the calculated chemical shi~ but diminished with increasing number of polarization fimctions. At least 2 d polarization fimctions are required for accurate calculations of the isotropic phosphorous chemical shift. The introduction of density fictional theory (DFT) techniques through tie use of hybrid B3LYP methods for the calculation of the phosphorous chemical shift tensor resulted in a poorer estimation of the NMR values, even though DFT techniques result in improved energy and force constant calculations. The convergence of the W parametem with increasing basis set complexity was also observed for the DFT calculations, but produced results with consistent large deviations from experiment. The use of a HF 6-31 l++G(242p) basis set represents a good compromise between accuracy of the simulation and the complexity of the calculation for future ab initio calculations of 31P NMR parameters in larger complexes.

  2. Chemical kinetics in the coma. [of sun grazing comet

    NASA Technical Reports Server (NTRS)

    Huebner, W. F.

    1981-01-01

    Physical and chemical conditions in the coma of a bright 'new' comet are related to the composition of the nucleus. Chemical and photolytic processes are described and correlated to distance in the coma above the nucleus and to heliocentric distance of the comet. Two classes for the composition of comets are considered based on their place of origin: in the environs of the giant planets or in a companion fragment of the presolar nebula. Comparison of model results with coma observations leads to some restrictions about the nucleus composition. It is expected that these restrictions become more stringent as coma models are developed further and as observations become more detailed. Composition based on an origin of comets in the presolar nebula yields abundances of C2, C3, and CN that are in agreement with observations.

  3. KEMOD: A mixed chemical kinetic and equilibrium model of aqueous and solid phase geochemical reactions

    SciTech Connect

    Yeh, G.T.; Iskra, G.A.; Szecsody, J.E.; Zachara, J.M.; Streile, G.P.

    1995-01-01

    This report presents the development of a mixed chemical Kinetic and Equilibrium MODel in which every chemical species can be treated either as a equilibrium-controlled or as a kinetically controlled reaction. The reaction processes include aqueous complexation, adsorption/desorption, ion exchange, precipitation/dissolution, oxidation/reduction, and acid/base reactions. Further development and modification of KEMOD can be made in: (1) inclusion of species switching solution algorithms, (2) incorporation of the effect of temperature and pressure on equilibrium and rate constants, and (3) extension to high ionic strength.

  4. Studies on the kinetic response of mosquitos to chemicals*

    PubMed Central

    Elliott, R.

    1964-01-01

    An apparatus is described for study of the activity of mosquitos either with or without stimulation by exposure to insecticides or other chemicals such as repellents. Batches of up to 30 mosquitos can be used and they can be studied for a longer time than is possible with, for instance, the method put forward in 1960 by the WHO Expert Committee on Insecticides. Random activity by the test insects, in the absence of directional stimuli due to light or chemicals, is converted to progress through baffles in the partitions separating a series of four boxes and is expressed as a percentage of the total possible activity that would be shown if all the insects passed all the baffles. Exposure to chemicals, by exposure to impregnated papers, can take place before the mosquitos are put in the apparatus, or in the first box. In the experiments described, the activity of recently fed female Anopheles was studied over periods of up to 20 hours. Comparison of the method described with other methods shows that it shares the high variance characteristic of all current procedures for studying mosquito behaviour, although the use of large numbers of insects over long periods has some advantages. The method does, however, give information on mortality under conditions of facultative contact that may be a valuable supplement to the results of conventional susceptibility tests. PMID:14278003

  5. Selecting the optimum quasi-steady-state species for reduced chemical kinetic mechanisms using a genetic algorithm

    SciTech Connect

    Montgomery, Christopher J.; Yang, Chongguan; Parkinson, Alan R.; Chen, J.-Y.

    2006-01-01

    A genetic optimization algorithm has been applied to the selection of quasi-steady-state (QSS) species in reduced chemical kinetic mechanisms. The algorithm seeks to minimize the error between reduced and detailed chemistry for simple reactor calculations approximating conditions of interest for a computational fluid dynamics simulation. The genetic algorithm does not guarantee that the global optimum will be found, but much greater accuracy can be obtained than by choosing QSS species through a simple kinetic criterion or by human trial and error. The algorithm is demonstrated for methane-air combustion over a range of temperatures and stoichiometries and for homogeneous charge compression ignition engine combustion. The results are in excellent agreement with those predicted by the baseline mechanism. A factor of two reduction in the number of species was obtained for a skeletal mechanism that had already been greatly reduced from the parent detailed mechanism.

  6. Calculations of the thermodynamic and kinetic properties of Li1+xV3O8

    NASA Astrophysics Data System (ADS)

    Jiang, Tonghu; Falk, Michael L.

    2012-06-01

    The phase behavior and kinetic pathways of Li1+xV3O8 are investigated by means of density-functional theory (DFT) and a cluster expansion method that approximates the system Hamiltonian in order to identify the lowest-energy configurations. Although DFT calculations predict the correct ground state for a given composition, both generalized gradient approximation (GGA) and local-density approximation fail to obtain phase stability consistent with experiment due to strongly localized vanadium 3d electrons. A DFT+U method recovers the correct phase stability for an optimized U value of 3.0 eV. GGA+U calculations with this value of U predict electronic structures that qualitatively agree with experiment. The resulting calculations indicate solid solution behavior from Li1V3O8 to Li2.5V3O8 and two-phase coexistence between Li2.5V3O8 and Li4V3O8. Analysis of the lithiation sequence from Li1V3O8 to Li2.5V3O8 reveals the mechanism by which lithium intercalation proceeds in this material. Calculations of lithium migration energies for different lithium concentrations and configurations provide insight into the relevant diffusion pathways and their relationship to structural properties.

  7. The Role of Comprehensive Detailed Chemical Kinetic Reaction Mechanisms in Combustion Research

    SciTech Connect

    Westbrook, C K; Pitz, W J; Curran, H J; Mehl, M

    2008-07-16

    Recent developments by the authors in the field of comprehensive detailed chemical kinetic reaction mechanisms for hydrocarbon fuels are reviewed. Examples are given of how these mechanisms provide fundamental chemical insights into a range of combustion applications. Practical combustion consists primarily of chemical heat release from reactions between a fuel and an oxidizer, and computer simulations of practical combustion systems have become an essential tool of combustion research (Westbrook et al., 2005). At the heart of most combustion simulations, the chemical kinetic submodel frequently is the most detailed, complex and computationally costly part of a system model. Historically, the chemical submodel equations are solved using time-implicit numerical algorithms, due to the extreme stiffness of the coupled rate equations, with a computational cost that varies roughly with the cube of the number of chemical species in the model. While early mechanisms (c. 1980) for apparently simple fuels such as methane (Warnatz, 1980) or methanol (Westbrook and Dryer, 1979) included perhaps 25 species, current detailed mechanisms for much larger, more complex fuels such as hexadecane (Fournet et al., 2001; Ristori et al., 2001; Westbrook et al., 2008) or methyl ester methyl decanoate (Herbinet et al., 2008) have as many as 2000 or even 3000 species. Rapid growth in capabilities of modern computers has been an essential feature in this rapid growth in the size and complexity of chemical kinetic reaction mechanisms.

  8. Thermodynamic and kinetic properties of the Li-graphite system from first-principles calculations

    NASA Astrophysics Data System (ADS)

    Persson, Kristin; Hinuma, Yoyo; Meng, Ying Shirley; van der Ven, Anton; Ceder, Gerbrand

    2010-09-01

    We present an ab initio study of the thermodynamics and kinetics of LixC6 , relevant for anode Li intercalation in rechargeable Li batteries. In graphite, the interlayer interactions are dominated by Van der Waals forces, which are not captured with standard density-functional theory (DFT). By calculating the voltage profile for Li intercalation into graphite and comparing it to experimental results, we find that only by correcting for vdW interactions between the graphene planes is it possible to reproduce the experimentally observed sequence of phases, as a function of Li content. At higher Li content the interlayer binding forces are increasingly due to Li-C interactions, which are well characterized by DFT. Using the calculated energies, corrected for the vdW interactions, we derive an ab initio lattice model, based on the cluster-expansion formalism, that accounts for interactions among Li ions in LixC6 having a stage I and stage II structure. We find that the resulting cluster expansions are dominated by Li-Li repulsive interactions. The phase diagram, obtained from Monte Carlo simulations, agrees well with experiments except at low Li concentrations as we exclude stage III and stage IV compounds. Furthermore, we calculate Li migration barriers for stage I and stage II compounds and identify limiting factors for Li mobility in the in-plane dilute as well as in the high Li concentration range. The Li diffusivity, obtained through kinetic Monte Carlo simulations, slowly decreases as a function of Li content, consistent with increasing Li-Li repulsions. However, overall we find very fast Li diffusion in bulk graphite, which may have important implications for Li battery anode optimizations.

  9. Artificial neural networks combined with experimental design: a "soft" approach for chemical kinetics.

    PubMed

    Amato, Filippo; Gonzlez-Hernndez, Jos Luis; Havel, Josef

    2012-05-15

    The possibilities of artificial neural networks (ANNs) "soft" computing to evaluate chemical kinetic data have been studied. In the first stage, a set of "standard" kinetic curves with known parameters (rate constants and/or concentrations of the reactants), which is some kind of "normalized maps", is prepared. The database should be built according to a suitable experimental design (ED). In the second stage, such data set is then used for ANNs "learning". Afterwards, in the second stage, experimental data are evaluated and parameters of "other" kinetic curves are computed without solving anymore the system of differential equations. The combined ED-ANNs approach has been applied to solve several kinetic systems. It was also demonstrated that using ANNs, the optimization of complex chemical systems can be achieved even not knowing or determining the values of the rate constants. Moreover, the solution of differential equations is here not necessary, as well. Using ED the number of experiments can be reduced substantially. Methodology of ED-ANNs applied to multicomponent analysis shows advantages over classical methods while the knowledge of kinetic reactions is not needed. ANNs computation in kinetics is robust as shown evaluating the effect of experimental errors and it is of general applicability. PMID:22483879

  10. Engineering of protein thermodynamic, kinetic, and colloidal stability: Chemical Glycosylation with monofunctionally activated glycans.

    PubMed

    Sol, Ricardo J; Al-Azzam, Wasfi; Griebenow, Kai

    2006-08-20

    In this work we establish the relationship between chemical glycosylation and protein thermodynamic, kinetic, and colloidal stability. While there have been reports in the literature that chemical glycosylation modulates protein stability, mechanistic details still remain uncertain. To address this issue, we designed and coupled monofunctional activated glycans (lactose and dextran) to the model protein alpha-chymotrypsin (alpha-CT). This resulted in a series of glycoconjugates with variations in the glycan size and degree of glycosylation. Thermodynamic unfolding, thermal inactivation, and temperature-induced aggregation experiments revealed that chemical glycosylation increased protein thermodynamic (Delta G(25 degrees C)), kinetic (t(1/2)(45 degrees C)), and colloidal stability. These results highlight the potential of chemical glycosylation with monofunctional activated glycans as a technology for increasing the long-term stability of liquid protein formulations for industrial and biotherapeutic applications. PMID:16586505

  11. Detailed Chemical Kinetic Reaction Mechanism for Biodiesel Components Methyl Stearate and Methyl Oleate

    SciTech Connect

    Naik, C; Westbrook, C K; Herbinet, O; Pitz, W J; Mehl, M

    2010-01-22

    New chemical kinetic reaction mechanisms are developed for two of the five major components of biodiesel fuel, methyl stearate and methyl oleate. The mechanisms are produced using existing reaction classes and rules for reaction rates, with additional reaction classes to describe other reactions unique to methyl ester species. Mechanism capabilities were examined by computing fuel/air autoignition delay times and comparing the results with more conventional hydrocarbon fuels for which experimental results are available. Additional comparisons were carried out with measured results taken from jet-stirred reactor experiments for rapeseed methyl ester fuels. In both sets of computational tests, methyl oleate was found to be slightly less reactive than methyl stearate, and an explanation of this observation is made showing that the double bond in methyl oleate inhibits certain low temperature chain branching reaction pathways important in methyl stearate. The resulting detailed chemical kinetic reaction mechanism includes more approximately 3500 chemical species and more than 17,000 chemical reactions.

  12. Thermochemical analysis and kinetics aspects for a chemical model for camphene ozonolysis.

    PubMed

    Oliveira, R C de M; Bauerfeldt, G F

    2012-10-01

    In this work, a chemical model for the camphene ozonolysis, leading to carbonyl final products, is proposed and discussed on the basis of the thermochemical properties and kinetic data obtained at density functional theory levels of calculation. The mechanism is initiated by the electrophilic attack of ozone to the double bond in camphene leading to a 1,2,3-trioxolane intermediate, which decomposes to peroxy radicals and carbonyl compounds in a total of 10 elementary reactions. The thermodynamic properties (enthalpy and entropies differences) are calculated at 298 K. For the thermochemical evaluation, theoretical calculations are performed with the B3LYP, MPW1PW91, and mPW1K density functionals and the basis sets 6-31G(d), 6-31G(2d,2p), 6-31+G(d,p), and 6-31+G(2d,2p). Eventually, single point calculations adopting the 6-311++G(2d,2p) basis set are performed in order to improve the electronic energies. The enthalpy profiles suggest highly exothermic reactions for the individual steps, with a global enthalpy difference of -179.18 kcal mol(-1), determined at the B3LYP∕6-31+G(2d,2p) level. The Gibbs free energy differences for each step, at 298 K, calculated at the B3LYP∕6-311++G(2d,2p)∕∕B3LYP∕6-31+G(2d,2p) level, are used to estimate the composition of a final product mixture under equilibrium conditions as 58% of camphenilone and 42% of 6,6-dimethyl-ɛ-caprolactone-2,5-methylene. For the reaction kinetics, the bimolecular O(3) + camphene step is assumed to be rate determining in the global mechanism. A saddle point for the ozone addition to the double bond is located and rate constants are determined on the basis of the transition state theory. This saddle point is well represented by a loosely bound structure and corrections for the basis set superposition error (BSSE) are calculated, either by considering the effect over the geometry optimization procedure (here referred as CP1 procedure), or the effect of the BSSE over the electronic energy of a previously optimized geometry, included a posteriori (here referred as CP2). The rate constants, calculated at 298 K from the data obtained at the mPW1K∕6-31+G(d,p), CP1∕B3LYP∕∕6-31+G(2d,2p), and CP2∕B3LYP∕∕6-31+G(2d,2p) levels (3.62 × 10(-18), 1.12 × 10(-18), and 1.39 × 10(-18) cm(3) molecule(-1) s(-1)), are found in good agreement with the available experimental data at the same temperature, 0.9 × 10(-18) cm(3) molecule(-1) s(-1) [R. Atkinson, S. M. Aschmann, and J. Arey, Atmos. Environ. 24, 2647 (1990)]. The importance of the BSSE corrections for the final rate constants must be pointed out. Furthermore, this work will contribute to a better understanding of the chemistry of monoterpenes in the atmosphere, as well as the implications for the phenomena of pollution. PMID:23039598

  13. Kinetics and thermodynamics of chemical reactions in Li/SOCl2 cells

    NASA Technical Reports Server (NTRS)

    Hansen, Lee D.; Frank, Harvey

    1987-01-01

    Work is described that was designed to determine the kinetic constants necessary to extrapolate kinetic data on Li/SOCl2 cells over the temperature range from 25 to 75 C. A second objective was to characterize as far as possible the chemical reactions that occur in the cells since these reactions may be important in understanding the potential hazards of these cells. The kinetics of the corrosion processes in undischarged Li/SOCl2 cells were determined and separated according to their occurrence at the anode and cathode; the effects that switching the current on and off has on the corrosion reactions was determined; and the effects of discharge state on the kinetics of the corrosion process were found. A thermodynamic analysis of the current-producing reactions in the cell was done and is included.

  14. Kinetics of chemical weathering in B horizon spodosol fraction

    SciTech Connect

    Asolekar, S.R.; Valentine, R.L.; Schnoor, J.L. )

    1991-04-01

    In response to acidic deposition a variety of physico-chemical processes occur. Studies on a B horizon soil from Maine have been conducted to determine the weathering rate dependence on hydrogen ion concentration in soil solution. Effects of soil concentration and solution chemistry on chemical weathering rate were also investigated. Results obtained from titrations of 10, 30, and 100 g/L of soil at a constant pH of 2.7 suggest that the weathering rate, expressed in {mu}eq H{sup +}/hour/g soil, does not depend on the soil concentration in the pH-stat reactor. In order to test the effect of solute concentration on weathering rate, experiments were performed at two different concentrations, indicating that significant back reactions were not likely occurring. The weathering rate at pH 2.7 was estimated in the range 0.53-0.93 {mu}eq H{sup +}/hour/g soil, at pH 3.0 as 0.52 {mu}eq H{sup +}/hour/g soil, at pH 3.5 as 0.36 {mu}eq H{sup +}/hour/g soil, and at pH 4.0 as 0.04 {mu}eq H{sup +}/hour/g soil. Assuming a weathering rate proportional to H{sup +}{sup m}, the fractional order m was determined to be approximately 0.8. Results were consistent with a surface-reaction-controlled dissolution mechanism.

  15. Analysis of Premixed Charge Compression Ignition Combustion with a Sequential Fluid Mechanics-Multizone Chemical Kinetics Model

    SciTech Connect

    Aceves, S M; Flowers, D L; Espinosa-Loza, F; Babajimopoulos, A; Assanis, D N

    2004-09-30

    We have developed a methodology for analysis of PCCI engines that applies to conditions in which there is some stratification in the air-fuel distribution inside the cylinder at the time of combustion. Our analysis methodology consists of two stages: first, a fluid mechanics code is used to determine temperature and equivalence ratio distributions as a function of crank angle, assuming motored conditions. The distribution information is then used for grouping the mass in the cylinder into a two-dimensional (temperature-equivalence ratio) array of zones. The zone information is then handed on to a detailed chemical kinetics model that calculates combustion, emissions and engine efficiency information. The methodology applies to situations where chemistry and fluid mechanics are weakly linked. The results of the multi-zone model have been compared to the results obtained from a fully integrated code, in which a chemical kinetics code is directly linked into a fluid mechanics code to calculate chemistry in every cell of the grid. The results show that the multi-zone model predicts burn duration and peak cylinder pressure with good accuracy. However, ignition timing predicted by the multi-zone model is sensitive to the transition angle between the fluid mechanics code and the chemical kinetics code. The paper explores the possibility of using three different criteria for determining the transition angle: fraction of heat release at the time of ignition, temperature of the hottest cell at the time of ignition, and a fixed crank angle of transition. The results show that the three criteria have some validity as transition criteria. Further research is necessary to investigate the effect of fuel properties and operating conditions on transition angle.

  16. Kinetics of directed self-assembly of block copolymers on chemically patterned substrates

    NASA Astrophysics Data System (ADS)

    Mller, Marcus; Li, Weihua; Orozco Rey, Juan Carlos; Welling, Ulrich

    2015-09-01

    Chemically patterned surfaces have been successfully employed to direct the kinetics of self-assembly of block copolymers into dense, periodic morphologies (chemoepitaxy). Significant efforts have been directed towards understanding the kinetics of structure formation and, particularly, the formation and annihilation of defects. In the present manuscript we use computer simulations of a soft, coarse-grained polymer model to study the kinetics of structure formation of lamellar-forming block copolymer thin films on a chemical pattern of lines and spaces. The case where the copolymer material replicates the surface pattern and the more subtle scenario of sparse guiding patterns are considered. Our simulation results highlight (1) the importance of the early stages of pattern-directed self-assembly that template the subsequent morphology and (2) the dependence of the free-energy landscape on the incompatibility between the two blocks of the copolymer.

  17. Chemical Cycle Kinetics: Removing the Limitation of Linearity of a Non-equilibrium Thermodynamic Description

    NASA Astrophysics Data System (ADS)

    Rubi, J. M.; Bedeaux, D.; Kjelstrup, S.; Pagonabarraga, I.

    2013-07-01

    Chemical cycle kinetics is customarily analyzed by means of the law of mass action which describes how the concentrations of the substances vary with time. The connection of this approach with non-equilibrium thermodynamics (NET) has traditionally been restricted to the linear domain close to equilibrium in which the reaction rates are linear functions of the affinities. We show, by a pertinent formulation of the concept of local equilibrium in the mesoscopic description along the reaction coordinates, that the connection between kinetic and thermodynamic approaches is deeper than thought and holds in the nonlinear domain far from equilibrium, for higher values of the affinity. This new perspective indicates how to overcome the inherent limitation of classical NET in treating cyclic reactions, providing a description of closed and open cycles operating far from equilibrium, in accordance with thermodynamic principles. We propose that the new set of equations are tested and used for data reduction in chemical reaction kinetics.

  18. Interactions of multiphase hydrodynamics, droplet evaporation, and chemical kinetics in FCC riser reactors.

    SciTech Connect

    Chang, S. L.

    1998-02-17

    A computational fluid dynamics (CFD) computer code, ICRKFLO, has been developed for flow simulation of fluid catalytic cracking (FCC) riser reactors, which convert crude oil into gasoline and other valuable products. The FCC flow, especially in the entry region, is a three-phase reacting flow including hot catalyst particles, inert lift gas, and feed oil droplets. The impact of the hydrodynamics processes of heat transfer, droplet evaporation, and mixing on the chemical kinetics or riser performance can be significant. ICRKFLO was used to evaluate the impact of these processes on the performance of an advanced FCC unit. The code solves for major flow properties of all three phases in an FCC riser, with models governing the transport of catalyst particles and feed oil droplet, the vaporization of the feed oil droplets, the cracking of the oil vapor, and the formation and deposition of coke on particles. First, the code was validated against available test data of a pilot-scale FCC unit. Then, flow calculations for the FCC unit were performed. Computational results indicate that the heat transfer and droplet vaporization processes have a significant impact on the performance of a pilot-scale FCC unit. The impact is expected to be even greater on commercial scale units.

  19. Inactivation kinetics of various chemical disinfectants on Aeromonas hydrophila planktonic cells and biofilms.

    PubMed

    Jahid, Iqbal Kabir; Ha, Sang-Do

    2014-05-01

    The present article focuses on the inactivation kinetics of various disinfectants including ethanol, sodium hypochlorite, hydrogen peroxide, peracetic acid, and benzalkonium chloride against Aeromonas hydrophila biofilms and planktonic cells. Efficacy was determined by viable plate count and compared using a modified Weibull model. The removal of the biofilms matrix was determined by the crystal violet assay and was confirmed by field-emission scanning electron microscope. The results revealed that all the experimental data and calculated Weibull α (scale) and β (shape) parameters had a good fit, as the R(2) values were between 0.88 and 0.99. Biofilms are more resistant to disinfectants than planktonic cells. Ethanol (70%) was the most effective in killing cells in the biofilms and significantly reduced (p<0.05) the biofilms matrix. The Weibull parameter b-value correlated (R(2)=0.6835) with the biofilms matrix removal. The present findings deduce that the Weibull model is suitable to determine biofilms matrix reduction as well as the effectiveness of chemical disinfectants on biofilms. The study showed that the Weibull model could successfully be used on food and food contact surfaces to determine the exact contact time for killing biofilms-forming foodborne pathogens. PMID:24552163

  20. Long-term bioconcentration kinetics of hydrophobic chemicals in Selenastrum capricornutum and Microcystis aeruginosa

    SciTech Connect

    Koelmans, A.A.; Woude, H. van der; Hattink, J.; Niesten, D.J.M. . Aquatic Ecology and Water Quality Management Group)

    1999-06-01

    The bioconcentration of two chlorobenzenes (CBs) and of seven polychlorobiphenyls (PCBs) to Selenastrum capricornutum and Microcystis aeruginosa was studied with accumulation experiments followed by gas purge elimination experiments. Henry's law constants at 10 C were needed to interpret the gas purge results and were measured in control experiments. For the M. aerogunisa culture, steady-state uptake was reached within days, whereas uptake by S. capricornutum took several weeks. The relationships between the log bioconcentration factors (BCF) and log octanol-water partition coefficients (K[sub OW]) were nonlinear, with relatively low values for the more hydrophobic PCBs. Rate constants for the elimination of CBs and PCBs from the algal cells were shown to be larger than 1 per day when calculated with a one-compartment model. With such large rate constants, it is unlikely that the curvature observed for these species is caused by slow kinetics or that algal growth affects BCF by dilution of CB or PCB concentrations. The log BCF-log K[sub OW] relationships could be described by a simple three-phase model that accounted for the binding of CBs and PCBs to dissolved organic carbon (DOC). Modeling bioconcentration of hydrophobic chemicals in phytoplankton should account for the binding to DOC.

  1. An analytical kinetic model for chemical-vapor deposition of pureB layers from diborane

    NASA Astrophysics Data System (ADS)

    Mohammadi, V.; de Boer, W. B.; Nanver, L. K.

    2012-12-01

    In this paper, an analytical model is established to describe the deposition kinetics and the deposition chamber characteristics that determine the deposition rates of pure boron (PureB-) layers grown by chemical-vapor deposition (CVD) from diborane (B2H6) as gas source on a non-rotating silicon wafer. The model takes into consideration the diffusion mechanism of the diborane species through the stationary boundary layer over the wafer, the gas phase processes and the related surface reactions by applying the actual parabolic gas velocity and temperature gradient profiles in the reactor. These are calculated theoretically and also simulated with fluent software. The influence of an axial and lateral diffusion of diborane species and the validity of the model for laminar flow in experimental CVD processes are also treated. This model is based on a wide range of input parameters, such as initial diborane partial pressure, total gas flow, axial position on the wafer, deposition temperature, activation energy of PureB deposition from diborane, surface H-coverage, and reactor dimensions. By only adjusting these reactor/process parameters, the model was successfully transferred from the ASM Epsilon One to the Epsilon 2000 reactor which has totally different reactor conditions. The model's predictive capabilities have been verified by experiments performed at 700 °C in these two different ASM CVD reactors.

  2. Kinetically constrained ring-polymer molecular dynamics for non-adiabatic chemical reactions

    SciTech Connect

    Menzeleev, Artur R.; Bell, Franziska; Miller, Thomas F.

    2014-02-14

    We extend ring-polymer molecular dynamics (RPMD) to allow for the direct simulation of general, electronically non-adiabatic chemical processes. The kinetically constrained (KC) RPMD method uses the imaginary-time path-integral representation in the set of nuclear coordinates and electronic states to provide continuous equations of motion that describe the quantized, electronically non-adiabatic dynamics of the system. KC-RPMD preserves the favorable properties of the usual RPMD formulation in the position representation, including rigorous detailed balance, time-reversal symmetry, and invariance of reaction rate calculations to the choice of dividing surface. However, the new method overcomes significant shortcomings of position-representation RPMD by enabling the description of non-adiabatic transitions between states associated with general, many-electron wavefunctions and by accurately describing deep-tunneling processes across asymmetric barriers. We demonstrate that KC-RPMD yields excellent numerical results for a range of model systems, including a simple avoided-crossing reaction and condensed-phase electron-transfer reactions across multiple regimes for the electronic coupling and thermodynamic driving force.

  3. Comparison of finite difference based methods to obtain sensitivities of stochastic chemical kinetic models

    NASA Astrophysics Data System (ADS)

    Srivastava, Rishi; Anderson, David F.; Rawlings, James B.

    2013-02-01

    Sensitivity analysis is a powerful tool in determining parameters to which the system output is most responsive, in assessing robustness of the system to extreme circumstances or unusual environmental conditions, in identifying rate limiting pathways as a candidate for drug delivery, and in parameter estimation for calculating the Hessian of the objective function. Anderson [SIAM J. Numer. Anal. 50, 2237 (2012)], 10.1137/110849079 shows the advantages of the newly developed coupled finite difference (CFD) estimator over the common reaction path (CRP) [M. Rathinam, P. W. Sheppard, and M. Khammash, J. Chem. Phys. 132, 034103 (2010)], 10.1063/1.3280166 estimator. In this paper, we demonstrate the superiority of the CFD estimator over the common random number (CRN) estimator in a number of scenarios not considered previously in the literature, including the sensitivity of a negative log likelihood function for parameter estimation, the sensitivity of being in a rare state, and a sensitivity with fast fluctuating species. In all examples considered, the superiority of CFD over CRN is demonstrated. We also provide an example in which the CRN method is superior to the CRP method, something not previously observed in the literature. These examples, along with Anderson's results, lead to the conclusion that CFD is currently the best estimator in the class of finite difference estimators of stochastic chemical kinetic models.

  4. Kinetic calculation of the polarization current in the presence of a neoclassical tearing mode

    NASA Astrophysics Data System (ADS)

    Poli, E.; Bergmann, A.; Peeters, A. G.; Appel, L. C.; Pinches, S. D.

    2005-05-01

    The polarization current associated with a neoclassical tearing mode (NTM) is studied by means of drift kinetic δf simulations. This current has been invoked as a possible explanation for both the observed threshold for the minimum island size that can grow unstable and the scaling of the plasma pressure at the mode onset with the normalized gyroradius, even though the theory is not able to predict the island rotation direction and hence the role (whether stabilizing or destabilizing) of the polarization current for the island evolution. In the numerical approach presented in this paper, the island rotation frequency can be assigned as an input parameter and the corresponding behaviour of the current can be studied. The calculations are performed in toroidal geometry in the presence of a helical perturbation. It is found that kinetic effects lead to a sign reversal of the polarization current for rotation frequencies close to the diamagnetic frequency even for flat pressure profiles, thus influencing both the sign and size of the polarization-current contribution to the NTM evolution.

  5. Momentum or kinetic energy - how do substrate properties influence the calculation of rainfall erosivity?

    NASA Astrophysics Data System (ADS)

    Goebes, Philipp; Seitz, Steffen; Geißler, Christian; Lassu, Tamás; Peters, Piet; Seeger, Manuel; Nadrowski, Karin; Scholten, Thomas

    2014-05-01

    Rainfall erosivity is a key component in soil erosion by water. In principle, two ways exist to describe erosivity, namely kinetic energy and momentum. However, the role of mass and velocity of raindrops in relation to properties of the substrates to be eroded is not yet clear. In our study we conducted rainfall simulation experiments to determine splash detachment amounts of five substrates (coarse sand, medium sand, fine sand, PE balls, silt) for seven different rainfall intensities (52-116 mm/h). We used linear mixed-effect modeling (LME) to calculate erosivity predictors for each substrate. Additionally, we separated drop size distribution into 1st and 3rd quartile to investigate the effect of small and slow respectively big and fast raindrops on splash detachment amounts. We suggest using momentum divided by drop diameter as a substrate-independent erosivity predictor. To consider different substrates specific erosivity parameters are needed. Heavier substrates like sand are best described by kinetic energy multiplied by diameter whereas lighter substrates like silt point to momentum divided by diameter to the power of 1.5. Further, our results show that the first quartile of the drop size distribution is best in describing splash detachment rates of light substrates whereas for heavier substrates like sand the influence of drop size distribution is indifferent.

  6. Momentum or kinetic energy - How do substrate properties influence the calculation of rainfall erosivity?

    NASA Astrophysics Data System (ADS)

    Goebes, Philipp; Seitz, Steffen; Geißler, Christian; Lassu, Tamás; Peters, Piet; Seeger, Manuel; Nadrowski, Karin; Scholten, Thomas

    2014-09-01

    Rainfall erosivity is a key component in soil erosion by water. While kinetic energy and momentum are used to describe the erosivity of rainfall, and both are derived from mass and velocity of raindrops, it is not clear how different substrates transform this energy. In our study we conducted rainfall simulation experiments to determine splash detachment amounts of five substrates (coarse sand, medium sand, fine sand, PE balls, silt) for seven different rainfall intensities (52-116 mm h-1). We used linear mixed-effect modeling (LME) to calculate erosivity predictors for each substrate. Additionally, we separated drop-size-velocity relationship into lower left and upper right quarter to investigate the effect of small and slow just as big and fast raindrops on splash detachment amounts. We suggest using momentum divided by drop diameter as a substrate-independent erosivity predictor. To consider different substrates specific erosivity parameters are needed. Heavier substrates like sand are best described by kinetic energy multiplied by diameter whereas lighter substrates like silt point to momentum divided by diameter to the power of 1.5. Furthermore, our results show that substrates are differently affected by the size and velocity of drops. While splash detachment of light substances can be reliably predicted by drop size and velocity for small and slow drops, drop size and velocity loses its predictive power in heavier substrates like sand.

  7. History and Philosophy of Science through Models: The Case of Chemical Kinetics.

    ERIC Educational Resources Information Center

    Justi, Rosaria; Gilbert, John K.

    1999-01-01

    A greater role for the history and philosophy of science in science education can only be realized if it is based on both a credible analytical approach--such as that of Lakatos--and if the evolution of a sufficient number of major themes in science is known in suitable detail. Considers chemical kinetics as an example topic. Contains 62

  8. Numerical modeling of D-mappings with applications to chemical kinetics

    NASA Technical Reports Server (NTRS)

    Dey, S. K.

    1984-01-01

    Numerical modeling of D-mappings was studied and applied to solving nonlinear stiff systems. These mappings were locally linearized for convergence analysis, and some applications were made to chemical kinetics. The technique avoids using multistep implicit codes that require inversion of Jacobian matrices, but depends on the Jacobians for its convergence analysis.

  9. New integration techniques for chemical kinetic rate equations. I - Efficiency comparison

    NASA Technical Reports Server (NTRS)

    Radhakrishnan, K.

    1986-01-01

    A comparison of the efficiency of several recently developed numerical techniques for solving chemical kinetic rate equations is presented. The solution procedures examined include two general-purpose codes, EPISODE and LSODE, developed as multipurpose differential equation solvers, and three specialzed codes, CHEMEQ, CREK1D, and GCKP84, developed specifically for chemical kinetics. The efficiency comparison is made by applying these codes to two practical combustion kinetics problems. Both problems describe adiabatic, constant-pressure, gas-phase chemical reactions and include all three combustion regimes: induction, heat release, and equilibration. The comparison shows that LSODE is the fastest routine currently available for solving chemical kinetic rate equations. An important finding is that an iterative solution of the algebraic enthalpy conservation equation for temperature can be significantly faster than evaluation of the temperature by integration of its time derivative. Significant increases in computational speed are realized by updating the reaction rate constants only when the temperature change exceeds an amount Delta-T that is problem dependent. An approximate expression for the automatic evaluation of Delta-T is presented and is shown to result in increased computational speed.

  10. Designing and Evaluating an Evidence-Informed Instruction in Chemical Kinetics

    ERIC Educational Resources Information Center

    Cakmakci, Gultekin; Aydogdu, Cemil

    2011-01-01

    We have investigated the effects of a teaching intervention based on evidence from educational theories and research data, on students' ideas in chemical kinetics. A quasi-experimental design was used to compare the outcomes for the intervention. The subjects of the study were 83 university first-year students, who were in two different classes in…

  11. A. G. Vernon Harcourt: A Founder of Chemical Kinetics and a Friend of "Lewis Carroll."

    ERIC Educational Resources Information Center

    Shorter, John

    1980-01-01

    Outlines the life of A. G. Vernon Harcourt, a founder of chemical kinetics, contributor to the purification of coal gas from sulfur compounds, inventor of the percentage chloroform inhaler, friend to Lewis Carroll, and instructor to the Prince of Wales. (CS)

  12. Designing and Evaluating an Evidence-Informed Instruction in Chemical Kinetics

    ERIC Educational Resources Information Center

    Cakmakci, Gultekin; Aydogdu, Cemil

    2011-01-01

    We have investigated the effects of a teaching intervention based on evidence from educational theories and research data, on students' ideas in chemical kinetics. A quasi-experimental design was used to compare the outcomes for the intervention. The subjects of the study were 83 university first-year students, who were in two different classes in

  13. INFLUENCE OF ORGANIC COSOLVENTS ON THE SORPTION KINETICS OF HYDROPHOBIC ORGANIC CHEMICALS

    EPA Science Inventory

    A quantitative examination of the kinetics of sorption of hydrophobic organic chemicals by soils from mixed solvents reveals that the reverse sorption rate constant (k2) increases log-linearly with increasing volume fraction of organic cosolvent (fc). This relationship was expec...

  14. The Teaching and Learning of Chemical Kinetics Supported with MS Excel

    ERIC Educational Resources Information Center

    Zain, Sharifuddin Md; Rahman, Noorsaadah Abdul; Chin, Lee Sui

    2013-01-01

    Students in 12 secondary schools in three states of Malaysia were taught to use worksheets on the chemical kinetics topic which had been pre-created using the MS Excel worksheets. After the teaching, an opinion survey of 612 Form Six students from these schools was conducted. The results showed that almost all the students felt that MS Excel

  15. Planarization mechanism of alkaline copper CMP slurry based on chemical mechanical kinetics

    NASA Astrophysics Data System (ADS)

    Shengli, Wang; Kangda, Yin; Xiang, Li; Hongwei, Yue; Yunling, Liu

    2013-08-01

    The planarization mechanism of alkaline copper slurry is studied in the chemical mechanical polishing (CMP) process from the perspective of chemical mechanical kinetics. Different from the international dominant acidic copper slurry, the copper slurry used in this research adopted the way of alkaline technology based on complexation. According to the passivation property of copper in alkaline conditions, the protection of copper film at the concave position on a copper pattern wafer surface can be achieved without the corrosion inhibitors such as benzotriazole (BTA), by which the problems caused by BTA can be avoided. Through the experiments and theories research, the chemical mechanical kinetics theory of copper removal in alkaline CMP conditions was proposed. Based on the chemical mechanical kinetics theory, the planarization mechanism of alkaline copper slurry was established. In alkaline CMP conditions, the complexation reaction between chelating agent and copper ions needs to break through the reaction barrier. The kinetic energy at the concave position should be lower than the complexation reaction barrier, which is the key to achieve planarization.

  16. Cooperative Learning Instruction for Conceptual Change in the Concepts of Chemical Kinetics

    ERIC Educational Resources Information Center

    Kirik, Ozgecan Tastan; Boz, Yezdan

    2012-01-01

    Learning is a social event and so the students need learning environments that enable them to work with their peers so that they can learn through their interactions. This study discusses the effectiveness of cooperative learning compared to traditional instruction in terms of students' motivation and understanding of chemical kinetics in a high

  17. Research in chemical kinetics. Progress report, August 1, 1987--July 20, 1988

    SciTech Connect

    Rowland, F.S.

    1996-09-01

    This paper describes chemical kinetics research in the following areas: reactions of thermalized tritium atoms with organo-tin compounds; studies on the hydrolysis of OCS and CS{sub 2}; thermal chlorine 38 reactions with 2,3-dichloro-hexafluoro-2-butene; and thermal T reactions with fluoroethylenes.

  18. Application of Tikhonov's regularization method to the solution of an inverse problem in chemical kinetics

    SciTech Connect

    Kolbanovskii, Yu.A.; Markov, M.B.; Polyakova, M.E.; Yagola, A.G.

    1988-09-01

    On the basis of Tikhonov's regularization method, an algorithm has been developed for the solution of an inverse problem in chemical kinetics for a single-stage irreversible reaction proceeding under nonisothermal, nonisobaric, and nonisochoric conditions. A model inverse problem has been solved with various values of the error in a model experiment and with different estimates of the sought parameters.

  19. Kinetics analysis and quantitative calculations for the successive radioactive decay process

    NASA Astrophysics Data System (ADS)

    Zhou, Zhiping; Yan, Deyue; Zhao, Yuliang; Chai, Zhifang

    2015-01-01

    The general radioactive decay kinetics equations with branching were developed and the analytical solutions were derived by Laplace transform method. The time dependence of all the nuclide concentrations can be easily obtained by applying the equations to any known radioactive decay series. Taking the example of thorium radioactive decay series, the concentration evolution over time of various nuclide members in the family has been given by the quantitative numerical calculations with a computer. The method can be applied to the quantitative prediction and analysis for the daughter nuclides in the successive decay with branching of the complicated radioactive processes, such as the natural radioactive decay series, nuclear reactor, nuclear waste disposal, nuclear spallation, synthesis and identification of superheavy nuclides, radioactive ion beam physics and chemistry, etc.

  20. Quantum chemical calculations for polymers and organic compounds

    NASA Technical Reports Server (NTRS)

    Lopez, J.; Yang, C.

    1982-01-01

    The relativistic effects of the orbiting electrons on a model compound were calculated. The computational method used was based on 'Modified Neglect of Differential Overlap' (MNDO). The compound tetracyanoplatinate was used since empirical measurement and calculations along "classical" lines had yielded many known properties. The purpose was to show that for large molecules relativity effects could not be ignored and that these effects could be calculated and yield data in closer agreement to empirical measurements. Both the energy band structure and molecular orbitals are depicted.

  1. Kinetics and transport model of dichlorosilane chemical vapor deposition

    NASA Astrophysics Data System (ADS)

    Knutson, K. L.; Carr, R. W.; Liu, W. H.; Campbell, S. A.

    1994-06-01

    Computational fluid dynamics is employed to examine silicon growth on a (100) surface in a dichlorosilane-hydrogen chemical vapor deposition (CVD) system. Species balances are solved in conjunction with mass, momentum, and energy balances to predict growth rates in the system. The gas-phase mechanism includes the DCS decompositions SiH2Cl2 yields SiCl2 + H2 and SiH2Cl2 yields SiHCl + HCl and the surface mechanism accounts for adsorption and growth from SiCl2, SiHCl, and SiH2Cl2. Arrhenius plots from the model show good agreement with experiment for overall growth rates at low DCS inflow concentrations but over predicts growth rates for higher DCS inflow concentrations. A sensitivity analysis is presented in the form of Arrhenius plots for several of the more important reactions included in the mechanism. The model suggests that growth rates are very sensitive to the gas-phase decomposition of SiH2Cl2 and the dissociative adsorption of SiH2Cl2 and not very sensitive to the dissociative adsorption of H2 and the activation energy for the surface growth from adsorbed SiCl and H by elimination of HCl.

  2. Kinetics of chemical weathering in B horizon spodosol fraction

    NASA Astrophysics Data System (ADS)

    Asolekar, S. R.; Valentine, R. L.; Schnoor, J. L.

    1991-04-01

    Studies on a B horizon soil from Maine have been conducted to determine the weathering rate dependence on hydrogen ion concentration in soil solution. Effects of soil concentration and solution chemistry on chemical weathering rate were also investigated. Studies were conducted using a laboratory pH-stat semicontinuous reactor at pH 2.7 and 3.5 for two concentrations of B horizon soil. Homogenized B horizon soil in the size range 63-125 ?m was washed in deionized water and acetone and used without further treatment. Results obtained from titrations of 10, 30, and 100 g/L of soil at a constant pH of 2.7 suggest that the weathering rate, expressed in ?eq H+/hr/g soil, does not depend on the soil concentration in the pH-stat reactor. In order to test the effect of solute concentration on weathering rate, experiments were performed at two different concentrations of accumulated solutes. Weathering rates were the same at the two solute concentrations, indicating that significant back reactions were not likely occurring. The weathering rate at pH 2.7 was estimated in the range 0.53-0.93 ?eq H+/hr/g soil, at pH 3.0 as 0.52 ?eq H+/hr/g soil, at pH 3.5 as 0.36 ?eq H+/hr/g soil, and at pH 4.0 as 0.04 ?eq H+/hr/g soil. Assuming a weathering rate proportional to {H+}m, the fractional order m was determined to be approximately 0.8. Results were consistent with a surface-reaction-controlled dissolution mechanism.

  3. Large eddy simulation of extinction and reignition with artificial neural networks based chemical kinetics

    SciTech Connect

    Sen, Baris Ali; Menon, Suresh; Hawkes, Evatt R.

    2010-03-15

    Large eddy simulation (LES) of a non-premixed, temporally evolving, syngas/air flame is performed with special emphasis on speeding-up the sub-grid chemistry computations using an artificial neural networks (ANN) approach. The numerical setup for the LES is identical to a previous direct numerical simulation (DNS) study, which reported considerable local extinction and reignition physics, and hence, offers a challenging test case. The chemical kinetics modeling with ANN is based on a recent approach, and replaces the stiff ODE solver (DI) to predict the species reaction rates in the subgrid linear eddy mixing (LEM) model based LES (LEMLES). In order to provide a comprehensive evaluation of the current approach, additional information on conditional statistics of some of the key species and temperature are extracted from the previous DNS study and are compared with the LEMLES using ANN (ANN-LEMLES, hereafter). The results show that the current approach can detect the correct extinction and reignition physics with reasonable accuracy compared to the DNS. The syngas flame structure and the scalar dissipation rate statistics obtained by the current ANN-LEMLES are provided to further probe the flame physics. It is observed that, in contrast to H{sub 2}, CO exhibits a smooth variation within the region enclosed by the stoichiometric mixture fraction. The probability density functions (PDFs) of the scalar dissipation rates calculated based on the mixture fraction and CO demonstrate that the mean value of the PDF is insensitive to extinction and reignition. However, this is not the case for the scalar dissipation rate calculated by the OH mass fraction. Overall, ANN provides considerable computational speed-up and memory saving compared to DI, and can be used to investigate turbulent flames in a computationally affordable manner. (author)

  4. Can accurate kinetic laws be created to describe chemical weathering?

    NASA Astrophysics Data System (ADS)

    Schott, Jacques; Oelkers, Eric H.; Bénézeth, Pascale; Goddéris, Yves; François, Louis

    2012-11-01

    Knowledge of the mechanisms and rates of mineral dissolution and growth, especially close to equilibrium, is essential for describing the temporal and spatial evolution of natural processes like weathering and its impact on CO2 budget and climate. The Surface Complexation approach (SC) combined with Transition State Theory (TST) provides an efficient framework for describing mineral dissolution over wide ranges of solution composition, chemical affinity, and temperature. There has been a large debate for several years, however, about the comparative merits of SC/TS versus classical growth theories for describing mineral dissolution and growth at near-to-equilibrium conditions. This study considers recent results obtained in our laboratory on oxides, hydroxides, silicates, and carbonates on near-equilibrium dissolution and growth via the combination of complementary microscopic and macroscopic techniques including hydrothermal atomic force microscopy, hydrogen-electrode concentration cell, mixed flow and batch reactors. Results show that the dissolution and precipitation of hydroxides, kaolinite, and hydromagnesite powders of relatively high BET surface area closely follow SC/TST rate laws with a linear dependence of both dissolution and growth rates on fluid saturation state (Ω) even at very close to equilibrium conditions (|ΔG| < 500 J/mol). This occurs because sufficient reactive sites (e.g. at kink, steps, and edges) are available at the exposed faces for dissolution and/or growth, allowing reactions to proceed via the direct and reversible detachment/attachment of reactants at the surface. In contrast, for magnesite and quartz, which have low surface areas, fewer active sites are available for growth and dissolution. Such minerals exhibit rates dependencies on Ω at near equilibrium conditions ranging from linear to highly non-linear functions of Ω, depending on the treatment of the crystals before the reaction. It follows that the form of the f(ΔG) function describing the growth and dissolution of minerals with low surface areas depends on the availability of reactive sites at the exposed faces and thus on the history of the mineral-fluid interaction and the hydrodynamic conditions under which the crystals are reacted. It is advocated that the crystal surface roughness could serve as a proxy of the density of reactive sites. The consequences of the different rate laws on the quantification of loess weathering along the Mississippi valley for the next one hundred years are examined.

  5. Chemical kinetic modeling of a methane opposed flow diffusion flame and comparison to experiments

    SciTech Connect

    Marinov, N.M., Pitz, W.J.; Westbrook, C.K.; Vincitore, A.M.; Senka, S.M.; Lutz, A.E.

    1998-01-01

    The chemical structure of an opposed flow, methane diffusion flame is studied using a chemical kinetic model and the results are compared to experimental measurements. The chemical kinetic paths leading to aromatics and polycyclic aromatics hydrocarbons (PAHs) in the diffusion flame are identified. These paths all involve resonantly stabilized radicals which include propargyl, allyl, cyclopentadienyl, and benzyl radicals. The modeling results show reasonable agreement with the experimental measurements for the large hydrocarbon aliphatic compounds, aromatics, and PAHs. the benzene was predicted to be formed primarily by the reaction sequence of Allyl plus Propargyl equals Fulvene plus H plus H followed by fulvene isomerization to benzene. Naphthalene was modeled using the reaction of benzyl with propargyl, while the combination of cyclopentadienyl radicals were shown to be a minor contributor in the diffusion flame. The agreement between the model and experiment for the four-ring PAHs was poor.

  6. LSENS, a general chemical kinetics and sensitivity analysis code for gas-phase reactions: User's guide

    NASA Technical Reports Server (NTRS)

    Radhakrishnan, Krishnan; Bittker, David A.

    1993-01-01

    A general chemical kinetics and sensitivity analysis code for complex, homogeneous, gas-phase reactions is described. The main features of the code, LSENS, are its flexibility, efficiency and convenience in treating many different chemical reaction models. The models include static system, steady, one-dimensional, inviscid flow, shock initiated reaction, and a perfectly stirred reactor. In addition, equilibrium computations can be performed for several assigned states. An implicit numerical integration method, which works efficiently for the extremes of very fast and very slow reaction, is used for solving the 'stiff' differential equation systems that arise in chemical kinetics. For static reactions, sensitivity coefficients of all dependent variables and their temporal derivatives with respect to the initial values of dependent variables and/or the rate coefficient parameters can be computed. This paper presents descriptions of the code and its usage, and includes several illustrative example problems.

  7. Helping Students Develop a Critical Attitude towards Chemical Process Calculations.

    ERIC Educational Resources Information Center

    de Nevers, Noel; Seader, J. D.

    1992-01-01

    Discusses the use of computer-assisted programs that allow chemical engineering students to study textbook thermodynamics problems from different perspectives, including the classical graphical method, while utilizing more than one property correlation and/or operation model so that comparisons can be made and sensitivities determined more

  8. An Experimental and Chemical Kinetics Study of the Combustion of Syngas and High Hydrogen Content Fuels

    SciTech Connect

    Santoro, Robers; Dryer, Frederick; Ju, Yiguang

    2013-09-30

    An integrated and collaborative effort involving experiments and complementary chemical kinetic modeling investigated the effects of significant concentrations of water and CO2 and minor contaminant species (methane [CH4], ethane [C2H6], NOX, etc.) on the ignition and combustion of HHC fuels. The research effort specifically addressed broadening the experimental data base for ignition delay, burning rate, and oxidation kinetics at high pressures, and further refinement of chemical kinetic models so as to develop compositional specifications related to the above major and minor species. The foundation for the chemical kinetic modeling was the well validated mechanism for hydrogen and carbon monoxide developed over the last 25 years by Professor Frederick Dryer and his co-workers at Princeton University. This research furthered advance the understanding needed to develop practical guidelines for realistic composition limits and operating characteristics for HHC fuels. A suite of experiments was utilized that that involved a high-pressure laminar flow reactor, a pressure-release type high-pressure combustion chamber and a high-pressure turbulent flow reactor.

  9. Chemically reacting supersonic flow calculation using an assumed PDF model

    NASA Technical Reports Server (NTRS)

    Farshchi, M.

    1990-01-01

    This work is motivated by the need to develop accurate models for chemically reacting compressible turbulent flow fields that are present in a typical supersonic combustion ramjet (SCRAMJET) engine. In this paper the development of a new assumed probability density function (PDF) reaction model for supersonic turbulent diffusion flames and its implementation into an efficient Navier-Stokes solver are discussed. The application of this model to a supersonic hydrogen-air flame will be considered.

  10. TACK—a program coupling chemical kinetics with a two-dimensional transport model in geochemical systems

    NASA Astrophysics Data System (ADS)

    Källvenius, Göran; Ekberg, Christian

    2003-05-01

    The Transport And Chemical Kinetics (TACK) program has been designed to make predictions of the chemistry in the vicinity of a planned repository for nuclear waste, i.e. SFL 3-5, where SFL is the Swedish abbreviation for "Swedish repository for long-lived waste". This implies modelling transport and chemistry in fractured rock. The system concerned in the modelling of SFL is leaching water from decommissioning waste in concrete. The concrete will raise the pH in the water to between 12 and 13.5. So far, only a few calculations have been made on such systems. Coupled transport and chemical reaction programs should be used, since the system is important for safety assessments of the repository. At least two of programs can be used for this kind of problem, for example OS3D/GIMRT and PHAST. As it is also important to consider the uncertainty of the model, the TACK program fills an important purpose here. A slightly different approach to the problem may give significantly different results. Because validation is generally not possible, using several programs is the only key to identifying conceptual uncertainties. To illustrate this point, comparative calculations have been made between TACK and the PHAST program. The calculations gave qualitatively similar result but quantitatively somewhat differing results. The TACK program couples the well known PHREEQC geochemical program with a two-dimensional transport model. The PHREEQC calculations include speciation of solutions and mineral reactions involving kinetics. The reasons for choosing this program are that it is quite a general one and is relatively stable at the high pH values present in the systems used. The transport phenomena taken into account in the model are advection, diffusion and dispersion in two dimensions.

  11. Microfluidic systems for chemical kinetics that rely on chaotic mixing in droplets

    PubMed Central

    Bringer, Michelle R.; Gerdts, Cory J.; Song, Helen; Tice, Joshua D.; Ismagilov, Rustem F.

    2006-01-01

    This paper reviews work on a microfluidic system that relies on chaotic advection to rapidly mix multiple reagents isolated in droplets (plugs). Using a combination of turns and straight sections, winding microfluidic channels create unsteady fluid flows that rapidly mix the multiple reagents contained within plugs. The scaling of mixing for a range of channel widths, flow velocities and diffusion coefficients has been investigated. Due to rapid mixing, low sample consumption and transport of reagents with no dispersion, the system is particularly appropriate for chemical kinetics and biochemical assays. The mixing occurs by chaotic advection and is rapid (sub-millisecond), allowing for an accurate description of fast reaction kinetics. In addition, mixing has been characterized and explicitly incorporated into the kinetic model. PMID:15306486

  12. A comparison of the efficiency of numerical methods for integrating chemical kinetic rate equations

    NASA Technical Reports Server (NTRS)

    Radhakrishnan, K.

    1984-01-01

    A comparison of the efficiency of several algorithms recently developed for the efficient numerical integration of stiff ordinary differential equations is presented. The methods examined include two general-purpose codes EPISODE and LSODE and three codes (CHEMEQ, CREK1D, and GCKP84) developed specifically to integrate chemical kinetic rate equations. The codes are applied to two test problems drawn from combustion kinetics. The comparisons show that LSODE is the fastest code currently available for the integration of combustion kinetic rate equations. An important finding is that an iterative solution of the algebraic energy conservation equation to compute the temperature can be more efficient than evaluating the temperature by integrating its time-derivative.

  13. Oxidation Kinetics of Chemically Vapor-Deposited Silicon Carbide in Wet Oxygen

    NASA Technical Reports Server (NTRS)

    Opila, Elizabeth J.

    1994-01-01

    The oxidation kinetics of chemically vapor-deposited SiC in dry oxygen and wet oxygen (P(sub H2O) = 0.1 atm) at temperatures between 1200 C and 1400 C were monitored using thermogravimetric analysis. It was found that in a clean environment, 10% water vapor enhanced the oxidation kinetics of SiC only very slightly compared to rates found in dry oxygen. Oxidation kinetics were examined in terms of the Deal and Grove model for oxidation of silicon. It was found that in an environment containing even small amounts of impurities, such as high-purity Al2O3 reaction tubes containing 200 ppm Na, water vapor enhanced the transport of these impurities to the oxidation sample. Oxidation rates increased under these conditions presumably because of the formation of less protective sodium alumino-silicate scales.

  14. Microfluidic systems for chemical kinetics that rely on chaotic mixing in droplets.

    PubMed

    Bringer, Michelle R; Gerdts, Cory J; Song, Helen; Tice, Joshua D; Ismagilov, Rustem F

    2004-05-15

    This paper reviews work on a microfluidic system that relies on chaotic advection to rapidly mix multiple reagents isolated in droplets (plugs). Using a combination of turns and straight sections, winding microfluidic channels create unsteady fluid flows that rapidly mix the multiple reagents contained within plugs. The scaling of mixing for a range of channel widths, flow velocities and diffusion coefficients has been investigated. Due to rapid mixing, low sample consumption and transport of reagents with no dispersion, the system is particularly appropriate for chemical kinetics and biochemical assays. The mixing occurs by chaotic advection and is rapid (sub-millisecond), allowing for an accurate description of fast reaction kinetics. In addition, mixing has been characterized and explicitly incorporated into the kinetic model. PMID:15306486

  15. Analysis of the Computational Singular Perturbation Reduction Method for Chemical Kinetics

    NASA Astrophysics Data System (ADS)

    Zagaris, A.; Kaper, H. G.; Kaper, T. J.

    This article is concerned with the asymptotic accuracy of the Computational Singular Perturbation (CSP) method developed by Lam and Goussis [The CSP method for simplifying kinetics, Int. J. Chem. Kin. 26 (1994) 461-486] to reduce the dimensionality of a system of chemical kinetics equations. The method, which is generally applicable to multiple-time scale problems arising in a broad array of scientific disciplines, exploits the presence of disparate time scales to model the dynamics by an evolution equation on a lower-dimensional slow manifold. In this article it is shown that the successive applications of the CSP algorithm generate, order by order, the asymptotic expansion of a slow manifold. The results are illustrated on the Michaelis-Menten-Henri equations of enzyme kinetics.

  16. Chemical Kinetic Reaction Mechanisms for Combustion of Hydrocarbon and Other Types of Chemical Fuels

    DOE Data Explorer

    Reaction mechanisms have been tested and validated extensively through comparisons between computed results and measured data from laboratory experiments (e.g., shock tubes, laminar flames, rapid compression machines, flow reactors, stirred reactors) and from practical systems (e.g., diesel engines, spark-ignition engines, homogeneous charge, compression ignition (HCCI) engines). These kinetic models are used to examine a wide range of combustion systems.

  17. Jozs's Legacy: Chemical and kinetic freeze-out in heavy-ion collisions

    NASA Astrophysics Data System (ADS)

    Heinz, U.; Kestin, G.

    2008-03-01

    We review J. Zimnyi's key contributions to the theoretical understanding of dynamical freeze-out in nuclear collisions and their subsequent applications to ultra-relativistic heavy-ion collisions, leading to the discovery of a freeze-out hierarchy where chemical freeze-out of hadron yields precedes the thermal decoupling of their momentum spectra. Following Zimnyi's lines of reasoning we show that kinetic freeze-out necessarily leads to a dependence of the corresponding freeze-out temperature on collision centrality. This centrality dependence can be predicted within hydrodynamic models, and for Au+Au collisions at RHIC this prediction is shown to reproduce the experimentally observed centrality dependence of the thermal decoupling temperature, extracted from hadron momentum spectra. The fact that no such centrality dependence is observed for the chemical decoupling temperature, extracted from the hadron yields measured in these collisions, excludes a similar kinetic interpretation of the chemical decoupling process. We argue that the chemical decoupling data from Au+Au collisions at RHIC can only be consistently understood if the chemical freeze-out process is driven by a phase transition, and that the measured chemical decoupling temperature therefore measures the critical temperature of the quark-hadron phase transition. We propose additional experiments to further test this interpretation.

  18. Kinetic Demonstration.

    ERIC Educational Resources Information Center

    Burgardt, Erik D.; Ryan, Hank

    1996-01-01

    Presents a unit on chemical reaction kinetics that consists of a predemonstration activity, the demonstration, and a set of postdemonstration activities that help students transfer the concepts to actual chemical reactions. Simulates various aspects of chemical reaction kinetics. (JRH)

  19. Errors in the Calculation of 27Al Nuclear Magnetic Resonance Chemical Shifts

    PubMed Central

    Wang, Xianlong; Wang, Chengfei; Zhao, Hui

    2012-01-01

    Computational chemistry is an important tool for signal assignment of 27Al nuclear magnetic resonance spectra in order to elucidate the species of aluminum(III) in aqueous solutions. The accuracy of the popular theoretical models for computing the 27Al chemical shifts was evaluated by comparing the calculated and experimental chemical shifts in more than one hundred aluminum(III) complexes. In order to differentiate the error due to the chemical shielding tensor calculation from that due to the inadequacy of the molecular geometry prediction, single-crystal X-ray diffraction determined structures were used to build the isolated molecule models for calculating the chemical shifts. The results were compared with those obtained using the calculated geometries at the B3LYP/6-31G(d) level. The isotropic chemical shielding constants computed at different levels have strong linear correlations even though the absolute values differ in tens of ppm. The root-mean-square difference between the experimental chemical shifts and the calculated values is approximately 5 ppm for the calculations based on the X-ray structures, but more than 10 ppm for the calculations based on the computed geometries. The result indicates that the popular theoretical models are adequate in calculating the chemical shifts while an accurate molecular geometry is more critical. PMID:23203134

  20. PDF calculation of scalar mixing layer with simple chemical reactions

    NASA Astrophysics Data System (ADS)

    Kanzaki, Takao; Pope, Stephen B.

    1999-11-01

    A joint velocity-composition-turbulent frequency PDF(JPDF) model is used to simulate reactive mixing layer in a grid-generated turbulence with the influence of second-order irreversible chemical reactions. To investigate the effects of molecular mixing, a gas flow and a liquid flow are simulated. For a gas flow, the oxidation reaction (NO+ O3 arrow NO2 +O2 ) between nitricoxide (NO) and ozone (O3 ) is used. For a liquid flow, the saponification reaction(NaOH+HCOOCH3 arrow HCOONa+CH_3OH) between sodiumhydroxide(NaOH) and methylformate(HCOOCH_3) is used. The both cases are moderately fast reactions. Therefore, reactive scalar statistics are affected by turbulent mixing. The results of caliculation are compared with experimental data of Komori et al.(1994) and Bilger et al.(1991)

  1. CH?NH? + O? and CH?CHNH? + O? reaction kinetics: photoionization mass spectrometry experiments and master equation calculations.

    PubMed

    Rissanen, Matti P; Eskola, Arkke J; Nguyen, Thanh Lam; Barker, John R; Liu, Jingjing; Liu, Jingyao; Halme, Erkki; Timonen, Raimo S

    2014-03-27

    Two carbon centered amino radical (CH2NH2 and CH3CHNH2) reactions with O2 were scrutinized by means of laboratory gas kinetics experiments together with quantum chemical computations and master equation modeling. In the experiments, laser photolysis of alkylamine compounds at 193 nm was used for the radical production and photoionization mass spectrometry was employed for the time-resolved detection of the reactants and products. The investigations were performed in a tubular, uncoated borosilicate glass flow reactor. The rate coefficients obtained were high, ranging from 2.4 10(-11) to 3.5 10(-11) cm(3) molecule(-1) s(-1) in the CH2NH2 + O2 reaction and from 5.5 10(-11) to 7.5 10(-11) cm(3) molecule(-1) s(-1) in the CH3CHNH2 + O2 reaction, showed negative temperature dependence with no dependence on the helium bath gas pressure (0.5 to 2.5 Torr He). The measured rate coefficients can be expressed as a function of temperature with: k(CH2NH2 + O2) = (2.89 0.13) 10(-11) (T/300 K)(-(1.100.47)) cm(3) molecule(-1) s(-1) (267-363 K) and k(CH3CHNH2 + O2) = (5.92 0.23) 10(-11) (T/300 K)(-(0.500.42)) cm(3) molecule(-1) s(-1) (241-363 K). The reaction paths and mechanisms were characterized using quantum chemical calculations and master equation modeling. Master equation computations, constrained by experimental kinetic results, were employed to model pressure-dependencies of the reactions. The constrained modeling results reproduce the experimentally observed negative temperature dependence and the dominant CH2NH imine production in the CH2NH2 + O2 reaction at the low pressures of the present laboratory investigation. In the CH3CHNH2 + O2 reaction, similar qualitative behavior was observed both in the rate coefficients and in the product formation, although the fine details of the mechanism were observed to change according to the different energetics in this system. In conclusion, the constrained modeling results predict significant imine + HO2 production for both reactions even at atmospheric pressure. PMID:24592923

  2. New integration techniques for chemical kinetic rate equations. 2: Accuracy comparison

    NASA Technical Reports Server (NTRS)

    Radhakrishnan, K.

    1985-01-01

    A comparison of the accuracy of several techniques recently developed for solving stiff differential equations is presented. The techniques examined include two general purpose codes EEPISODE and LSODE developed for an arbitrary system of ordinary differential equations, and three specialized codes CHEMEQ, CREKID, and GCKP84 developed specifically to solve chemical kinetic rate equations. The accuracy comparisons are made by applying these solution procedures to two practical combustion kinetics problems. Both problems describe adiabatic, homogeneous, gas phase chemical reactions at constant pressure, and include all three combustion regimes: induction, heat release, and equilibration. The comparisons show that LSODE is the most efficient code - in the sense that it requires the least computational work to attain a specified accuracy level. An important finding is that an iterative solution of the algebraic enthalpy conservation equation for the temperature can be more accurate and efficient than computing the temperature by integrating its time derivative.

  3. New integration techniques for chemical kinetic rate equations. II - Accuracy comparison

    NASA Technical Reports Server (NTRS)

    Radhakrishnan, K.

    1986-01-01

    A comparison of the accuracy of several techniques recently developed for solving stiff differential equations is presented. The techniques examined include two general purpose codes EEPISODE and LSODE developed for an arbitrary system of ordinary differential equations, and three specialized codes CHEMEQ, CREKID, and GCKP84 developed specifically to solve chemical kinetic rate equations. The accuracy comparisons are made by applying these solution procedures to two practical combustion kinetics problems. Both problems describe adiabatic, homogeneous, gas phase chemical reactions at constant pressure, and include all three combustion regimes: induction heat release, and equilibration. The comparisons show that LSODE is the most efficient code - in the sense that it requires the least computational work to attain a specified accuracy level. An important finding is that an iterative solution of the algebraic enthalpy conservation equation for the temperature can be more accurate and efficient than computing the temperature by integrating its time derivative.

  4. History and Philosophy of Science through Models: The Case of Chemical Kinetics

    NASA Astrophysics Data System (ADS)

    Justi, Rosria; Gilbert, John K.

    The case for a greater role for the history and philosophy of science in science education is reviewed. It is argued that such a role can only be realised if it is based on both a credible analytical approach to the history and philosophy of science and if the evolution of a sufficient number of major themes in science is known in suitable detail. Adopting Lakatos' Theory of Scientific Research Programmes as the analytical approach, it is proposed that the development, use, and replacement, of specific models forms the core of such programmes.Chemical kinetics was selected as an exemplar major topic in chemistry. Eight models which have played a central role in the evolution of the study of chemical kinetics were identified by an analysis of the literature. The implications that these models have for the teaching and learning of chemistry today are discussed.

  5. Deprotection reaction kinetics in chemically amplified photoresists determined by sub-millisecond post exposure bake

    NASA Astrophysics Data System (ADS)

    Jung, Byungki; Ober, Christopher K.; Thompson, Michael O.

    2012-03-01

    Chemically amplified photoresists require a post exposure bake (PEB) to induce deprotection using a UV generated acid-catalyst. While reaction pathways for deprotection have been proposed, key challenges remain in modeling the reaction kinetics. In this work, we used a scanning line-focused laser beam as an alternate PEB method, to quantify the deprotection reaction kinetics of an ESCAP-type and a 193 nm model resist system at high temperatures in millisecond time frames. Results were compared with conventional PEB at 115C for seconds time frames. Results show that the deprotection kinetics follow simple first-order reaction models only under laser PEB conditions, with more complex kinetics observed under hot plate PEB. FT-IR and NMR spectroscopies were used to characterize the reaction byproducts. Results suggest potential differences in deprotection mechanisms between the two PEB temperature and time regimes. The deprotection behavior obtained using this l-PEB technique enables a deeper understanding of the reaction kinetics of photoresists, critical for current DUV and future EUV technologies.

  6. Cyanomethanimine Isomers in Cold Interstellar Clouds: Insights from Electronic Structure and Kinetic Calculations

    NASA Astrophysics Data System (ADS)

    Vazart, Fanny; Latouche, Camille; Skouteris, Dimitrios; Balucani, Nadia; Barone, Vincenzo

    2015-09-01

    New insights into the formation of interstellar cyanomethanimine, a species of great relevance in prebiotic chemistry, are provided by electronic structure and kinetic calculations for the reaction CN + CH2 = NH. This reaction is a facile formation route of Z,E-C-cyanomethanimine, even under the extreme conditions of density and temperature typical of cold interstellar clouds. E-C-cyanomethanimine has been recently identified in Sgr B2(N) in the Green Bank Telescope (GBT) PRIMOS survey by P. Zaleski et al. and no efficient formation routes have been envisaged so far. The rate coefficient expression for the reaction channel leading to the observed isomer E-C-cyanomethanimine is 3.15 10-10 (T/300)0.152 e(-0.0948/T). According to the present study, the more stable Z-C-cyanomethanimine isomer is formed with a slightly larger yield (4.59 10-10 (T/300)0.153 e(-0.0871/T). As the detection of E-isomer is favored due to its larger dipole moment, the missing detection of the Z-isomer can be due to the sensitivity limit of the GBT PRIMOS survey and the detection of the Z-isomer should be attempted with more sensitive instrumentation. The CN + CH2 = NH reaction can also play a role in the chemistry of the upper atmosphere of Titan where the cyanomethanimine products can contribute to the buildup of the observed nitrogen-rich organic aerosols that cover the moon.

  7. Accuracy and precision of protein-ligand interaction kinetics determined from chemical shift titrations.

    PubMed

    Markin, Craig J; Spyracopoulos, Leo

    2012-12-01

    NMR-monitored chemical shift titrations for the study of weak protein-ligand interactions represent a rich source of information regarding thermodynamic parameters such as dissociation constants (K ( D )) in the micro- to millimolar range, populations for the free and ligand-bound states, and the kinetics of interconversion between states, which are typically within the fast exchange regime on the NMR timescale. We recently developed two chemical shift titration methods wherein co-variation of the total protein and ligand concentrations gives increased precision for the K ( D ) value of a 1:1 protein-ligand interaction (Markin and Spyracopoulos in J Biomol NMR 53: 125-138, 2012). In this study, we demonstrate that classical line shape analysis applied to a single set of (1)H-(15)N 2D HSQC NMR spectra acquired using precise protein-ligand chemical shift titration methods we developed, produces accurate and precise kinetic parameters such as the off-rate (k ( off )). For experimentally determined kinetics in the fast exchange regime on the NMR timescale, k ( off )~3,000s(-1) in this work, the accuracy of classical line shape analysis was determined to be better than 5% by conducting quantum mechanical NMR simulations of the chemical shift titration methods with the magnetic resonance toolkit GAMMA. Using Monte Carlo simulations, the experimental precision for k ( off ) from line shape analysis of NMR spectra was determined to be 13%, in agreement with the theoretical precision of 12% from line shape analysis of the GAMMA simulations in the presence of noise and protein concentration errors. In addition, GAMMA simulations were employed to demonstrate that line shape analysis has the potential to provide reasonably accurate and precise k ( off ) values over a wide range, from 100 to 15,000s(-1). The validity of line shape analysis for k ( off ) values approaching intermediate exchange (~100s(-1)), may be facilitated by more accurate K ( D ) measurements from NMR-monitored chemical shift titrations, for which the dependence of K ( D ) on the chemical shift difference (??) between free and bound states is extrapolated to ??=0. The demonstrated accuracy and precision for k ( off ) will be valuable for the interpretation of biological kinetics in weakly interacting protein-protein networks, where a small change in the magnitude of the underlying kinetics of a given pathway may lead to large changes in the associated downstream signaling cascade. PMID:23086713

  8. Reduced and simplified chemical kinetics for air dissociation using Computational Singular Perturbation

    NASA Technical Reports Server (NTRS)

    Goussis, D. A.; Lam, S. H.; Gnoffo, P. A.

    1990-01-01

    The Computational Singular Perturbation CSP methods is employed (1) in the modeling of a homogeneous isothermal reacting system and (2) in the numerical simulation of the chemical reactions in a hypersonic flowfield. Reduced and simplified mechanisms are constructed. The solutions obtained on the basis of these approximate mechanisms are shown to be in very good agreement with the exact solution based on the full mechanism. Physically meaningful approximations are derived. It is demonstrated that the deduction of these approximations from CSP is independent of the complexity of the problem and requires no intuition or experience in chemical kinetics.

  9. Parameter estimation in stochastic chemical kinetic models using derivative free optimization and bootstrapping

    PubMed Central

    Srivastava, Rishi; Rawlings, James B.

    2014-01-01

    Recent years have seen increasing popularity of stochastic chemical kinetic models due to their ability to explain and model several critical biological phenomena. Several developments in high resolution fluorescence microscopy have enabled researchers to obtain protein and mRNA data on the single cell level. The availability of these data along with the knowledge that the system is governed by a stochastic chemical kinetic model leads to the problem of parameter estimation. This paper develops a new method of parameter estimation for stochastic chemical kinetic models. There are three components of the new method. First, we propose a new expression for likelihood of the experimental data. Second, we use sample path optimization along with UOBYQA-Fit, a variant of of Powells unconstrained optimization by quadratic approximation, for optimization. Third, we use a variant of Efrons percentile bootstrapping method to estimate the confidence regions for the parameter estimates. We apply the parameter estimation method in an RNA dynamics model of E. coli. We test the parameter estimates obtained and the confidence regions in this model. The testing of the parameter estimation method demonstrates the efficiency, reliability, and accuracy of the new method. PMID:24920866

  10. Thermodynamics and kinetics of apoazurin folding under macromolecular crowding effect and chemical interference

    NASA Astrophysics Data System (ADS)

    Zegarra, Fabio; Cheung, Margaret

    2013-03-01

    Proteins fold in a cellular milieu crowded by different kinds of macromolecules. They exert volume exclusion impacting protein folding processes in vivo. Folding processes, however, has been studied by chemical denaturation under in vitro conditions. The impact of the two factors as an attempt to advance the understanding of folding mechanism in vivo is not understood. Here, we investigate the folding mechanisms of apoazurin affected by the macromolecular crowding and chemical interference by using coarse-grained molecular simulations. Crowding agents are modeled as hard-spheres and the chemical denaturation effects are implemented into an energy function of the side chain and backbone interactions. Protein folding stability, mechanism, and kinetics rates of apoazurin under chemical interference and macromolecular crowding conditions are being investigated. Supported by NSF, Molecular & Cellular Biosciences (MCB0919974).

  11. Water quality index calculated from biological, physical and chemical attributes.

    PubMed

    Rocha, Francisco Cleiton; Andrade, Eunice Maia; Lopes, Fernando Bezerra

    2015-01-01

    To ensure a safe drinking water supply, it is necessary to protect water quality. To classify the suitability of the Ors Reservoir (Northeast of Brazil) water for human consumption, a Water Quality Index (WQI) was enhanced and refined through a Principal Component Analysis (PCA). Samples were collected bi-monthly at seven points (P1 - P7) from July 2009 to July 2011. Samples were analysed for 29 physico-chemical attributes and 4 macroinvertebrate metrics associated with the macrophytes Pistia stratiotes and Eichhornia crassipes. PCA allowed us to reduce the number of attributes from 33 to 12, and 85.32% of the variance was explained in five dimensions (C1 - C5). Components C1 and C3 were related to water-soluble salts and reflect the weathering process, while C2 was related to surface runoff. C4 was associated with macroinvertebrate diversity, represented by ten pollution-resistant families. C5 was related to the nutrient phosphorus, an indicator of the degree of eutrophication. The mean values for the WQIs ranged from 49 to 65 (rated as fair), indicating that water can be used for human consumption after treatment. The lowest values for the WQI were recorded at the entry points to the reservoir (P3, P1, P5, and P4), while the best WQIs were recorded at the exit points (P6 and P7), highlighting the reservoir's purification ability. The proposed WQI adequately expressed water quality, and can be used for monitoring surface water quality. PMID:25492707

  12. Calculation of eddy viscosity in a compressible turbulent boundary layer with mass injection and chemical reaction, volume 2. [computer programs

    NASA Technical Reports Server (NTRS)

    Omori, S.

    1973-01-01

    As described in Vol. 1, the eddy viscosity is calculated through the turbulent kinetic energy, in order to include the history of the flow and the effect of chemical reaction on boundary layer characteristics. Calculations can be performed for two different cooling concepts; that is, transpiration and regeneratively cooled wall cases. For the regenerative cooling option, coolant and gas side wall temperature and coolant bulk temperature in a rocket engine can be computed along the nozzle axis. Thus, this computer program is useful in designing coolant flow rate and cooling tube geometry, including the tube wall thickness as well as in predicting the effects of boundary layers along the gas side wall on thrust performances.

  13. Modelling transport and degradation of de-icing chemicals in soil, assuming Monod kinetics with multiple electron-acceptors

    NASA Astrophysics Data System (ADS)

    Schotanus, D.; Meeussen, J. C. L.; van der Ploeg, M. J.; van der Zee, S. E. A. T. M.

    2012-04-01

    De-icing chemicals that contain propylene glycol are used at Oslo airport during winter time. A fraction of these chemicals is spilled on the runway and can be transported rapidly in the sandy soil in spring during snowmelt. Better insight into the chemical and physical processes that govern the fate of these chemicals in soil will help to estimate potential effects on the large unconfined aquifer in this area, and makes it possible to evaluate potential remedial actions. Micro-organisms in the soil can degrade propylene glycol, for which they need electron-acceptors. Under aerobic conditions, oxygen will be used as an electron-acceptor. From experiments, it is known that also anaerobic degradation occurs in this soil. During snowmelt, high infiltration rates can lead to locally saturated soil. In these parts, oxygen diffusion is limited and thus anaerobic conditions will occur. In these anaerobic regions, other electron-acceptors, such as manganese-oxides that are present in this soil, are used. However, frequent propylene glycol application may lead to a depletion of manganese-oxides and so to increased persistence and migration of propylene glycol in soil. To prevent this depletion and to enhance biodegradation, other electron-acceptors can be applied at the soil surface. Examples are the application of nitrate to the soil surface, and air injection. Model calculations could help to estimate required concentrations. The objectives of this study are 1) to create the reactive model, 2) to use this model to evaluate which parameters are determining leaching fluxes of propylene glycol from the soil, and 3) to evaluate the effectiveness of the different remediation strategies. Therefore, transient water flow, kinetic degradation, and redox chemistry were combined in one model. Degradation is modelled with Monod kinetics using multiple electron-acceptors. Oxygen diffusion in the gas phase, biomass growth, and oxidation and reduction of the important electron-acceptors are included.

  14. On Validity of Linear Phenomenological Nonequilibrium Thermodynamics Equations in Chemical Kinetics

    NASA Astrophysics Data System (ADS)

    Cukrowski, A. S.; Kolbus, A.

    2005-05-01

    The chemical equilibrium state is treated as a fundamental ``reference frame'' in description of chemical reaction. In a definition of reactive absolute activities for components in chemical reaction the difference of chemical potential and its value in the equilibrium is used. The chemical reaction rate is shown to be proportional to the force Xnew defined as the difference of reactive absolute activities of reactants and products. The force Xnew is shown to be equivalent to the force following from chemical kinetics equations and compared with the reduced affinity X as well as with the force of Ross and Mazur XRM = 1 - {exp}(-X). The force Xnew coincides with X and XRM near to the chemical equilibrium state. A range of the molar fraction of product, in which a difference between the forces Xnew and X is relatively small, is larger than it would be for the forces XRM and X. It means that for some chemical reactions the formalism of linear nonequilibrium thermodynamics can be used in wider ranges than usually expected. Particular analysis is presented for simple reactions.

  15. Model calculations of kinetic and fluid dynamic processes in diode pumped alkali lasers

    NASA Astrophysics Data System (ADS)

    Barmashenko, Boris D.; Rosenwaks, Salman; Waichman, Karol

    2013-10-01

    Kinetic and fluid dynamic processes in diode pumped alkali lasers (DPALs) are analyzed in detail using a semianalytical model, applicable to both static and flowing-gas devices. The model takes into account effects of temperature rise, excitation of neutral alkali atoms to high lying electronic states and their losses due to ionization and chemical reactions, resulting in a decrease of the pump absorption, slope efficiency and lasing power. Effects of natural convection in static DPALs are also taken into account. The model is applied to Cs DPALs and the results are in good agreement with measurements in a static [B.V. Zhdanov, J. Sell and R.J. Knize, Electron. Lett. 44, 582 (2008)] and 1-kW flowing-gas [A.V. Bogachev et al., Quantum Electron. 42, 95 (2012)] DPALs. It predicts the dependence of power on the flow velocity in flowing-gas DPALs and on the buffer gas composition. The maximum values of the laser power can be substantially increased by optimization of the flowing-gas DPAL parameters. In particular for the aforementioned 1 kW DPAL, 6 kW maximum power is achievable just by increasing the pump power and the temperature of the wall and the gas at the flow inlet (resulting in increase of the alkali saturated vapor density). Dependence of the lasing power on the pump power is non-monotonic: the power first increases, achieves its maximum and then decreases. The decrease of the lasing power with increasing pump power at large values of the latter is due to the rise of the aforementioned losses of the alkali atoms as a result of ionization. Work in progress applying two-dimensional computational fluid dynamics modeling of flowing-gas DPALs is also reported.

  16. Chemical kinetics modeling and LES combustion model effects on a perfectly premixed burner

    NASA Astrophysics Data System (ADS)

    Albouze, Guillaume; Poinsot, Thierry; Gicquel, Laurent

    2009-06-01

    Chemical kinetics modeling and coupling with turbulent combustion models for compressible Large Eddy Simulations (LES) is a critical issue. Accurate flow predictions can only be guaranteed if the coupling is well mastered. In a first attempt to qualify the effect of each model, the case of a lean premixed swirled combustor with comprehensive measures is targeted (species mass fractions and temperature fields). For the investigation, two turbulent combustion models are considered. The first model relies on a presumed PDF approach coupled to a look-up chemistry table obtained with a reduced chemical scheme. The second model makes use of the thickened flame approach using the same reduced chemical scheme but with reaction rates computed explicitly as the computation advances. Then, to estimate kinetic schemes reduction effects, the first model is compared to a third one, with the same PDF approach, but coupled to a look-up chemistry table obtained with a complete chemical scheme. All LES are very close to each other. The main difference between the different predictions relies on CO mass fractions. Although they are all able to return good outlet mass fractions, CO values inside the flame are different depending on the model used. To cite this article: G. Albouze et al., C. R. Mecanique 337 (2009).

  17. Quantum chemical calculations on metal dications solvated by formaldehyde, acetone and DMSO ligands

    NASA Astrophysics Data System (ADS)

    El-Nahas, Ahmed M.

    2002-10-01

    Ab initio and DFT calculations have been carried out to explore the thermodynamic and/or kinetic stabilities of M 2+L complexes (M=Be, Mg, Ca, and Zn, L=formaldehyde, acetone, and DMSO). Based on the computational data, all of the investigated monoligated doubly charged metal cation complexes are expected to be observable in the gas phase. In addition to thermodynamic stability, the kinetic energy barriers further stabilize the monoligated doubly charged metal cations. Thermodynamically unstable complexes are stabilized by Coulomb barriers. Monoligated metal dications have been classified into metastable and thermodynamically stable species. Comparison with experiments indicates agreement for magnesium and calcium containing systems.

  18. Calibration of Chemical Kinetic Models Using Simulations of Small-Scale Cookoff Experiments

    SciTech Connect

    Wemhoff, A P; Becker, R C; Burnham, A K

    2008-02-26

    Establishing safe handling limits for explosives in elevated temperature environments is a difficult problem that often requires extensive simulation. The largest influence on predicting thermal cookoff safety lies in the chemical kinetic model used in these simulations, and these kinetic model reaction sequences often contain multiple steps. Several small-scale cookoff experiments, notably Differential Scanning Calorimetry (DSC), Thermogravimetric Analysis (TGA), One-Dimensional Time-to-Explosion (ODTX), and the Scaled Thermal Explosion (STEX) have been performed on various explosives to aid in cookoff behavior determination. Past work has used a single test from this group to create a cookoff model, which does not guarantee agreement with the other experiments. In this study, we update the kinetic parameters of an existing model for the common explosive 2,4,6-Trinitrotoluene (TNT) using DSC and ODTX experimental data at the same time by minimizing a global Figure of Merit based on hydrodynamic simulated data. We then show that the new kinetic model maintains STEX agreement, reduces DSC agreement, and improves ODTX and TGA agreement when compared to the original model. In addition, we describe a means to use implicit hydrodynamic simulations of DSC experiments to develop a reaction model for TNT melting.

  19. Chemical Kinetics of the TPS and Base Bleeding During Flight Test

    NASA Technical Reports Server (NTRS)

    Osipov, Viatcheslav; Ponizhovskaya, Ekaterina; Hafiychuck, Halyna; Luchinsky, Dmitry; Smelyanskiy, Vadim; Dagostino, Mark; Canabal, Francisco; Mobley, Brandon L.

    2012-01-01

    The present research deals with thermal degradation of polyurethane foam (PUF) during flight test. Model of thermal decomposition was developed that accounts for polyurethane kinetics parameters extracted from thermogravimetric analyses and radial heat losses to the surrounding environment. The model predicts mass loss of foam, the temperature and kinetic of release of the exhaust gases and char as function of heat and radiation loads. When PUF is heated, urethane bond break into polyol and isocyanate. In the first stage, isocyanate pyrolyses and oxidizes. As a result, the thermo-char and oil droplets (yellow smoke) are released. In the second decomposition stage, pyrolysis and oxidization of liquid polyol occur. Next, the kinetics of chemical compound release and the information about the reactions occurring in the base area are coupled to the CFD simulations of the base flow in a single first stage motor vertically stacked vehicle configuration. The CFD simulations are performed to estimate the contribution of the hot out-gassing, chemical reactions, and char oxidation to the temperature rise of the base flow. The results of simulations are compared with the flight test data.

  20. Two-scale large deviations for chemical reaction kinetics through second quantization path integral

    NASA Astrophysics Data System (ADS)

    Li, Tiejun; Lin, Feng

    2016-04-01

    Motivated by the study of rare events for a typical genetic switching model in systems biology, in this paper we aim to establish the general two-scale large deviations for chemical reaction systems. We build a formal approach to explicitly obtain the large deviation rate functionals for the considered two-scale processes based upon the second quantization path integral technique. We get three important types of large deviation results when the underlying two timescales are in three different regimes. This is realized by singular perturbation analysis to the rate functionals obtained by the path integral. We find that the three regimes possess the same deterministic mean-field limit but completely different chemical Langevin approximations. The obtained results are natural extensions of the classical large volume limit for chemical reactions. We also discuss its implication on the single-molecule Michaelis–Menten kinetics. Our framework and results can be applied to understand general multi-scale systems including diffusion processes.

  1. An Alternative Treatment of Trace Chemical Constituents in Calculated Chemical Source Terms for Hanford Tank Farms Safety Analsyes

    SciTech Connect

    Huckaby, James L.

    2006-09-26

    Hanford Site high-level radioactive waste tank accident analyses require chemical waste toxicity source terms to assess potential accident consequences. Recent reviews of the current methodology used to generate source terms and the need to periodically update the sources terms has brought scrutiny to the manner in which trace waste constituents are included in the source terms. This report examines the importance of trace constituents to the chemical waste source terms, which are calculated as sums of fractions (SOFs), and recommends three changes to the manner in which trace constituents are included in the calculation SOFs.

  2. Detailed chemical kinetic mechanism for the oxidation of biodiesel fuels blend surrogate

    SciTech Connect

    Herbinet, Olivier; Pitz, William J.; Westbrook, Charles K.

    2010-05-15

    Detailed chemical kinetic mechanisms were developed and used to study the oxidation of two large unsaturated esters: methyl-5-decenoate and methyl-9-decenoate. These models were built from a previous methyl decanoate mechanism and were compared with rapeseed oil methyl esters oxidation experiments in a jet-stirred reactor. A comparative study of the reactivity of these three oxygenated compounds was performed and the differences in the distribution of the products of the reaction were highlighted showing the influence of the presence and the position of a double bond in the chain. Blend surrogates, containing methyl decanoate, methyl-5-decenoate, methyl-9-decenoate and n-alkanes, were tested against rapeseed oil methyl esters and methyl palmitate/n-decane experiments. These surrogate models are realistic kinetic tools allowing the study of the combustion of biodiesel fuels in diesel and homogeneous charge compression ignition engines. (author)

  3. Detailed chemical kinetic mechanism for the oxidation of biodiesel fuels blend surrogate.

    SciTech Connect

    Herbinet, O; Pitz, W J; Westbrook, C K

    2009-07-21

    Detailed chemical kinetic mechanisms were developed and used to study the oxidation of two large unsaturated esters: methyl-5-decenoate and methyl-9-decenoate. These models were built from a previous methyl decanoate mechanism and were compared with rapeseed oil methyl esters oxidation experiments in a jet stirred reactor. A comparative study of the reactivity of these three oxygenated compounds was performed and the differences in the distribution of the products of the reaction were highlighted showing the influence of the presence and the position of a double bond in the chain. Blend surrogates, containing methyl decanoate, methyl-5-decenoate, methyl-9-decenoate and n-alkanes, were tested against rapeseed oil methyl esters and methyl palmitate/n-decane experiments. These surrogate models are realistic kinetic tools allowing the study of the combustion of biodiesel fuels in diesel and homogeneous charge compression ignition engines.

  4. Communication: Kinetics of chemical ordering in Ag-Au and Ag-Ni nanoalloys.

    PubMed

    Calvo, F; Fortunelli, A; Negreiros, F; Wales, D J

    2013-09-21

    The energy landscape and kinetics of medium-sized Ag-Au and Ag-Ni nanoalloy particles are explored via a discrete path sampling approach, focusing on rearrangements connecting regions differing in chemical order. The highly miscible Ag27Au28 supports a large number of nearly degenerate icosahedral homotops. The transformation from reverse core-shell to core-shell involves large displacements away from the icosahedron through elementary steps corresponding to surface diffusion and vacancy formation. The immiscible Ag42Ni13 naturally forms an asymmetric core-shell structure, and about 10 eV is required to extrude the nickel core to the surface. The corresponding transformation occurs via a long and smooth sequence of surface displacements. For both systems the rearrangement kinetics exhibit Arrhenius behavior. These results are discussed in the light of experimental observations. PMID:24070271

  5. Calculations of physical and chemical reactions with DNA in aqueous solution from Auger cascades

    SciTech Connect

    Wright, H.A.; Hamm, R.N.; Turner, J.E.; Howell, R.W.; Rao, D.V.; Sastry, K.S.R.

    1989-01-01

    Monte Carlo calculations are performed of the physical and chemical interactions in liquid water by electrons produced during Auger cascades resulting from the decay of various radionuclides. Estimates are also made of the number of direct physical and indirect chemical interactions that would be produced on DNA located near the decay site. 13 refs., 8 figs.

  6. Controls on chemical weathering kinetics: Implications from modelling of stable isotope fractionations

    NASA Astrophysics Data System (ADS)

    Bickle, M. J.; Tipper, E.; De La Rocha, C. L.; Galy, A.; Li, S.

    2013-12-01

    The kinetic controls on silicate chemical weathering rates are thought central to the feedback process that regulates global climate on geological time scales. However the nature and magnitude of these kinetic controls are controversial. In particular the importance of physical erosion rates is uncertain with some arguing that there is an upper limit on chemical weathering fluxes irrespective of physical erosion rates (e.g. Dixon and von Blackenburg, 2012). Others argue that it is the hydrology of catchments which determines flow path lengths and fluid residence times which are critical to chemical weathering fluxes (e.g. Maher, 2011). Understanding these physical controls is essential to predicting how chemical weathering fluxes will respond the key climatic controls. Chemical weathering fluxes are best estimated by the integrated riverine outputs from catchments as soil profiles may not integrate all the flow paths. However the interpretation of chemical weathering processes based solely on flux data is difficult, because of both the multiple processes acting and multiple phases dissolving that contribute to these fluxes. Fractionations of stable isotopes of the soluble elements including Li, Mg, Si and Ca should place additional constraints on chemical weathering processes. Here we use a simple reactive-transport model to interpret stable isotope fractionations. Although still a simplification of the natural system, this offers a much closer representation than simple batch and Rayleigh models. The isotopic fractionations are shown to be a function of the ratio of the amount of the element supplied by mineral dissolution to that lost to secondary mineral formation and the extent of reaction down the flow path. The modelling is used to interpret the evolution of dissolved Li, Mg and Si-isotope ratios in Ganges river system. The evolution of Si isotopic ratios in the rapidly eroding Himalayan catchments is distinct from that in the flood planes. Critically the extent of the isotopic fractionations is a measure of the approach of the system to chemical equilibrium, a key indicator of the temperature sensitivity of the chemical weathering rate and hence important to understanding the climate-weathering feedback. Dixon JL, & von Blanckenburg, F, (2012) Soils as pacemakers and limiters of global silicate weathering. Comptes Rendus Geoscience, 344:597-609. Maher, K (2011) The role of fluid residence time and topographic scales in determining chemical fluxes from landscapes. Earth and Planetary Science Letters, 312:48-58.

  7. Chemical Kinetic Simulation of the Combustion of Bio-based Fuels

    SciTech Connect

    Ashen, Ms. Refuyat; Cushman, Ms. Katherine C.

    2007-10-01

    Due to environmental and economic issues, there has been an increased interest in the use of alternative fuels. However, before widespread use of biofuels is feasible, the compatibility of these fuels with specific engines needs to be examined. More accurate models of the chemical combustion of alternative fuels in Homogeneous Charge Compression Ignition (HCCI) engines are necessary, and this project evaluates the performance of emissions models and uses the information gathered to study the chemical kinetics involved. The computer simulations for each alternative fuel were executed using the Chemkin chemical kinetics program, and results from the runs were compared with data gathered from an actual engine that was run under similar conditions. A new heat transfer mechanism was added to the existing model's subroutine, and simulations were then conducted using the heat transfer mechanism. Results from the simulation proved to be accurate when compared with the data taken from the actual engine. The addition of heat transfer produced more realistic temperature and pressure data for biodiesel when biodiesel's combustion was simulated in an HCCI engine. The addition of the heat transfer mechanism essentially lowered the peak pressures and peak temperatures during combustion of all fuels simulated in this project.

  8. Kinetics of ion-molecule reactions with dimethyl methylphosphonate at 298 K for chemical ionization mass spectrometry detection of GX.

    PubMed

    Midey, Anthony J; Miller, Thomas M; Viggiano, A A

    2009-04-30

    Kinetics studies of a variety of positive and negative ions reacting with the GX surrogate, dimethyl methylphosphonate (DMMP), were performed. All protonated species reacted rapidly, that is, at the collision limit. The protonated reactant ions created from neutrals with proton affinities (PAs) less than or equal to the PA for ammonia reacted exclusively by nondissociative proton transfer. Hydrated H(3)O(+) ions also reacted rapidly by proton transfer, with 25% of the products from the second hydrate, H(3)O(+)(H(2)O)(2), forming the hydrated form of protonated DMMP. Both methylamine and triethylamine reacted exclusively by clustering. NO(+) also clustered with DMMP at about 70% of the collision rate constant. O(+) and O(2)(+) formed a variety of products in reactions with DMMP, with O(2)(+) forming the nondissociative charge transfer product about 50% of the time. On the other hand, many negative ions were less reactive, particularly, SF(5)(-), SF(6)(-), CO(3)(-), and NO(3)(-). However, F(-), O(-), and O(2)(-) all reacted rapidly to generate m/z = 109 amu anions (PO(3)C(2)H(6)(-)). In addition, product ions with m/z = 122 amu from H(2)(+) loss to form H(2)O were the dominant ions produced in the O(-) reaction. NO(2)(-) underwent a slow association reaction with DMMP at 0.4 Torr. G3(MP2) calculations of the ion energetics properties of DMMP, sarin, and soman were also performed. The calculated ionization potentials, proton affinities, and fluoride affinities were consistent with the trends in the measured kinetics and product ion branching ratios. The experimental results coupled with the calculated ion energetics helped to predict which ion chemistry would be most useful for trace detection of the actual chemical agents. PMID:19385679

  9. Theory of chemical kinetics and charge transfer based on nonequilibrium thermodynamics.

    PubMed

    Bazant, Martin Z

    2013-05-21

    Advances in the fields of catalysis and electrochemical energy conversion often involve nanoparticles, which can have kinetics surprisingly different from the bulk material. Classical theories of chemical kinetics assume independent reactions in dilute solutions, whose rates are determined by mean concentrations. In condensed matter, strong interactions alter chemical activities and create variations that can dramatically affect the reaction rate. The extreme case is that of a reaction coupled to a phase transformation, whose kinetics must depend not only on the order parameter but also on its gradients at phase boundaries. Reaction-driven phase transformations are common in electrochemistry, when charge transfer is accompanied by ion intercalation or deposition in a solid phase. Examples abound in Li-ion, metal-air, and lead-acid batteries, as well as metal electrodeposition-dissolution. Despite complex thermodynamics, however, the standard kinetic model is the Butler-Volmer equation, based on a dilute solution approximation. The Marcus theory of charge transfer likewise considers isolated reactants and neglects elastic stress, configurational entropy, and other nonidealities in condensed phases. The limitations of existing theories recently became apparent for the Li-ion battery material LixFePO4 (LFP). It has a strong tendency to separate into Li-rich and Li-poor solid phases, which scientists believe limits its performance. Chemists first modeled phase separation in LFP as an isotropic "shrinking core" within each particle, but experiments later revealed striped phase boundaries on the active crystal facet. This raised the question: What is the reaction rate at a surface undergoing a phase transformation? Meanwhile, dramatic rate enhancement was attained with LFP nanoparticles, and classical battery models could not predict the roles of phase separation and surface modification. In this Account, I present a general theory of chemical kinetics, developed over the past 7 years, which is capable of answering these questions. The reaction rate is a nonlinear function of the thermodynamic driving force, the free energy of reaction, expressed in terms of variational chemical potentials. The theory unifies and extends the Cahn-Hilliard and Allen-Cahn equations through a master equation for nonequilibrium chemical thermodynamics. For electrochemistry, I have also generalized both Marcus and Butler-Volmer kinetics for concentrated solutions and ionic solids. This new theory provides a quantitative description of LFP phase behavior. Concentration gradients and elastic coherency strain enhance the intercalation rate. At low currents, the charge-transfer rate is focused on exposed phase boundaries, which propagate as "intercalation waves", nucleated by surface wetting. Unexpectedly, homogeneous reactions are favored above a critical current and below a critical size, which helps to explain the rate capability of LFP nanoparticles. Contrary to other mechanisms, elevated temperatures and currents may enhance battery performance and lifetime by suppressing phase separation. The theory has also been extended to porous electrodes and could be used for battery engineering with multiphase active materials. More broadly, the theory describes nonequilibrium chemical systems at mesoscopic length and time scales, beyond the reach of molecular simulations and bulk continuum models. The reaction rate is consistently defined for inhomogeneous, nonequilibrium states, for example, with phase separation, large electric fields, or mechanical stresses. This research is also potentially applicable to fluid extraction from nanoporous solids, pattern formation in electrophoretic deposition, and electrochemical dynamics in biological cells. PMID:23520980

  10. Characterizing acid diffusion lengths in chemically amplified resists from measurements of deprotection kinetics

    NASA Astrophysics Data System (ADS)

    Patil, Abhijit A.; Pandey, Yogendra Narayan; Doxastakis, Manolis; Stein, Gila E.

    2014-10-01

    The acid-catalyzed deprotection of glassy poly(4-hydroxystyrene-co-tertbutyl acrylate) films was studied with infrared absorbance spectroscopy and stochastic simulations. Experimental data were interpreted with a simple description of subdiffusive acid transport coupled to second-order acid loss. This model predicts key attributes of observed deprotection rates, such as fast reaction at short times, slow reaction at long times, and a nonlinear dependence on acid loading. Fickian diffusion is approached by increasing the postexposure bake temperature or adding plasticizing agents to the polymer resin. These findings demonstrate that acid mobility and overall deprotection kinetics are coupled to glassy matrix dynamics. To complement the analysis of bulk kinetics, acid diffusion lengths were calculated from the anomalous transport model and compared with nanopattern line widths. The consistent scaling between experiments and simulations suggests that the anomalous diffusion model could be further developed into a predictive lithography tool.

  11. Effects of correlated parameters and uncertainty in electronic-structure-based chemical kinetic modelling.

    PubMed

    Sutton, Jonathan E; Guo, Wei; Katsoulakis, Markos A; Vlachos, Dionisios G

    2016-04-01

    Kinetic models based on first principles are becoming common place in heterogeneous catalysis because of their ability to interpret experimental data, identify the rate-controlling step, guide experiments and predict novel materials. To overcome the tremendous computational cost of estimating parameters of complex networks on metal catalysts, approximate quantum mechanical calculations are employed that render models potentially inaccurate. Here, by introducing correlative global sensitivity analysis and uncertainty quantification, we show that neglecting correlations in the energies of species and reactions can lead to an incorrect identification of influential parameters and key reaction intermediates and reactions. We rationalize why models often underpredict reaction rates and show that, despite the uncertainty being large, the method can, in conjunction with experimental data, identify influential missing reaction pathways and provide insights into the catalyst active site and the kinetic reliability of a model. The method is demonstrated in ethanol steam reforming for hydrogen production for fuel cells. PMID:27001728

  12. A Detailed Chemical Kinetic Analysis of Low Temperature Non-Sooting Diesel Combustion

    SciTech Connect

    Aceves, S M; Flowers, D L

    2004-10-01

    We have developed a model of the diesel fuel injection process for application to analysis of low temperature non-sooting combustion. The model uses a simplified mixing correlation and detailed chemical kinetics, and analyzes a parcel of fuel as it moves along the fuel jet, from injection into evaporation and ignition. The model predicts chemical composition and soot precursors, and is applied at conditions that result in low temperature non-sooting combustion. Production of soot precursors is the first step toward production of soot, and modeling precursor production is expected to give insight into the overall evolution of soot inside the engine. The results of the analysis show that the model has been successful in describing many of the observed characteristics of low temperature combustion. The model predicts results that are qualitatively similar to those obtained for soot formation experiments at conditions in which the EGR rate is increased from zero to very high values as the fueling rate is kept constant. The model also describes the two paths to achieve non-sooting combustion. The first is smokeless rich combustion and the second is modulated kinetics (MK). The importance of the temperature after ignition and the equivalence ratio at the time of ignition is demonstrated, as these parameters can be used to collapse onto a single line all the results for soot precursors for multiple fueling rates. A parametric analysis indicates that precursor formation increases considerably as the gas temperature in the combustion chamber and the characteristic mixing time are increased. The model provides a chemical kinetic description of low temperature diesel combustion that improves the understanding of this clean and efficient regime of operation.

  13. Sum over Histories Representation for Kinetic Sensitivity Analysis: How Chemical Pathways Change When Reaction Rate Coefficients Are Varied.

    PubMed

    Bai, Shirong; Davis, Michael J; Skodje, Rex T

    2015-11-12

    The sensitivity of kinetic observables is analyzed using a newly developed sum over histories representation of chemical kinetics. In the sum over histories representation, the concentrations of the chemical species are decomposed into the sum of probabilities for chemical pathways that follow molecules from reactants to products or intermediates. Unlike static flux methods for reaction path analysis, the sum over histories approach includes the explicit time dependence of the pathway probabilities. Using the sum over histories representation, the sensitivity of an observable with respect to a kinetic parameter such as a rate coefficient is then analyzed in terms of how that parameter affects the chemical pathway probabilities. The method is illustrated for species concentration target functions in H2 combustion where the rate coefficients are allowed to vary over their associated uncertainty ranges. It is found that large sensitivities are often associated with rate limiting steps along important chemical pathways or by reactions that control the branching of reactive flux. PMID:26493932

  14. Kinetics of SiHCl3 chemical vapor deposition and fluid dynamic simulations.

    PubMed

    Cavallotti, Carlo; Masi, Maurizio

    2011-09-01

    Though most of the current silicon photovoltaic technology relies on trichlorosilane (SiHCl3) as a precursor gas to deposit Si, only a few studies have been devoted to the investigation of its gas phase and surface kinetics. In the present work we propose a new kinetic mechanism apt to describe the gas phase and surface chemistry active during the deposition of Si from SiHCl3. Kinetic constants of key reactions were either taken from the literature or determined through ab initio calculations. The capability of the mechanism to reproduce experimental data was tested through the implementation of the kinetic scheme in a fluid dynamic model and in the simulation of both deposition and etching of Si in horizontal reactors. The results of the simulations show that the reactivity of HCl is of key importance in order to control the Si deposition rate. When HCl reaches a critical concentration in the gas phase it starts etching the Si surface, so that the net deposition rate is the net sum of the adsorption rate of the gas phase precursors and the etching rate due to HCl. In these conditions the possibility to further deposit Si is directly related to the rate of consumption of HCl through its reaction with SiHCl3 to give SiCl4. The proposed reaction mechanism was implemented in a 3D fluid dynamic model of a simple Siemens reactor. The simulation results indicate that the proposed interpretation of the growth process applies also to this class of reactors, which operate in what can be defined as a mixed kinetic-transport controlled regime. PMID:22097529

  15. Iron oxidation kinetics for H-2 and CO production via chemical looping

    SciTech Connect

    Stehle, RC; Bobek, MM; Hahn, DW

    2015-01-30

    Solar driven production of fuels by means of an intermediate reactive metal for species splitting has provided a practical and potentially efficient pathway for disassociating molecules at significantly lower thermal energies. The fuels of interest are of or derive from the separation of oxygen from H2O and CO2 to form hydrogen and carbon monoxide, respectively. The following study focuses on iron oxidation through water and CO2 splitting to explore the fundamental reaction kinetics and kinetic rates that are relevant to these processes. In order to properly characterize the reactive metal potential and to optimize a scaled-up solar reactor system, a monolith-based laboratory reactor was implemented to investigate reaction temperatures over a range from 990 to 1400 K. The presence of a single, solid monolith as a reacting surface allowed for a limitation in mass transport effects in order to monitor kinetically driven reaction steps. The formation of oxide layers on the iron monoliths followed Cabrera-Mott models for oxidation of metals with kinetic rates being measured using real-time mass spectrometry to calculate kinetic constants and estimate oxide layer thicknesses. Activation energies of 47.3 kJ/mol and 32.8 kJ/mol were found for water-splitting and CO2 splitting, respectively, and the conclusions of the independent oxidation reactions where applied to experimental results for syngas (H-2-CO) production to explore ideal process characteristics. Copyright (C) 2014, Hydrogen Energy Publications, LLC. Published by Elsevier Ltd. All rights reserved.

  16. A numerical scheme for optimal transition paths of stochastic chemical kinetic systems

    NASA Astrophysics Data System (ADS)

    Liu, Di

    2008-10-01

    We present a new framework for finding the optimal transition paths of metastable stochastic chemical kinetic systems with large system size. The optimal transition paths are identified to be the most probable paths according to the Large Deviation Theory of stochastic processes. Dynamical equations for the optimal transition paths are derived using the variational principle. A modified Minimum Action Method (MAM) is proposed as a numerical scheme to solve the optimal transition paths. Applications to Gene Regulatory Networks such as the toggle switch model and the Lactose Operon Model in Escherichia coli are presented as numerical examples.

  17. Effect of off-design operation of MHD generators on NO/x/ chemical kinetics

    NASA Technical Reports Server (NTRS)

    Simmons, G. A.; Wilson, D. R.

    1980-01-01

    The purpose of this study is to provide a capability for determining the chemical kinetic behavior of one family of pollutants, the nitrogen oxides, in the flow of a coal-fired MHD generator facility. The method used in the study allows the prediction of the nonequilibrium concentration of the minor NO(x) species in a flow otherwise assumed in equilibrium. Consideration is given to the effect of preheat, stoichiometry, and oxygen enrichment of the NO(x) concentration. The effect of preheat and stoichiometry is found to have a significant influence on the NO(x) concentration at the exit of the radiant boiler.

  18. A Chemical Kinetic Mechanism for the Ignition of Silane/Hydrogen Mixtures

    NASA Technical Reports Server (NTRS)

    Jachimowski, C. J.; Mclain, A. G.

    1983-01-01

    A chemical kinetic reaction mechanism for the oxidation of silane/hydrogen mixtures is presented and discussed. Shock-tube ignition delay time data were used to evaluate and refine the mechanism. Good agreement between experimental results and the results predicted by the mechanism was obtained by adjusting the rate coefficient for the reaction SiH3 + O2 yields SiH2O + OH. The reaction mechanism was used to theoretically investigate the ignition characteristics of silane/hydrogen mixtures. The results revealed that over the entire range of temperature examined (800 K to 1200 K), substantial reduction in ignition delay times is obtained when silane is added to hydrogen.

  19. Chemical kinetic study of the oxidation of toluene and related cyclic compounds

    SciTech Connect

    Mehl, M; Frassoldati, A; Fietzek, R; Faravelli, T; Pitz, W; Ranzi, E

    2009-10-01

    Chemical kinetic models of hydrocarbons found in transportation fuels are needed to simulate combustion in engines and to improve engine performance. The study of the combustion of practical fuels, however, has to deal with their complex compositions, which generally involve hundreds of compounds. To provide a simplified approach for practical fuels, surrogate fuels including few relevant components are used instead of including all components. Among those components, toluene, the simplest of the alkyl benzenes, is one of the most prevalent aromatic compounds in gasoline in the U.S. (up to 30%) and is a promising candidate for formulating gasoline surrogates. Unfortunately, even though the combustion of aromatics been studied for a long time, the oxidation processes relevant to this class of compounds are still matter of discussion. In this work, the combustion of toluene is systematically approached through the analysis of the kinetics of some important intermediates contained in its kinetic submechanism. After discussing the combustion chemistry of cyclopentadiene, benzene, phenol and, finally, of toluene, the model is validated against literature experimental data over a wide range of operating conditions.

  20. Kinetics Study of Solid Ammonia Borane Hydrogen Release Modeling and Experimental Validation for Chemical Hydrogen Storage

    SciTech Connect

    Choi, Yong-Joon; Ronnebro, Ewa; Rassat, Scot D.; Karkamkar, Abhijeet J.; Maupin, Gary D.; Holladay, Jamelyn D.; Simmons, Kevin L.; Brooks, Kriston P.

    2014-02-24

    Ammonia borane (AB), NH3BH3, is a promising material for chemical hydrogen storage with 19.6 wt% gravimetric hydrogen capacity of which 16.2 wt% hydrogen can be utilized below 200C. We have investigated the kinetics of hydrogen release from AB and from an AB-methyl cellulose (AB/MC) composite at temperatures of 160-300C using both experiments and modeling. The purpose of our study was to show safe hydrogen release without thermal runaway effects and to validate system model kinetics. AB/MC released hydrogen at ~20C lower than neat AB and at a rate that is two times faster. Based on the experimental results, the kinetics equations were revised to better represent the growth and nucleation process during decomposition of AB. We explored two different reactor concepts; Auger and fixed bed. The current Auger reactor concept turned out to not be appropriate, however, we demonstrated safe self-propagation of the hydrogen release reaction of solid AB/MC in a fixed bed reactor.

  1. High-Pressure Turbulent Flame Speeds and Chemical Kinetics of Syngas Blends with and without Impurities

    SciTech Connect

    Peterson, Eric; Mathieu, Olivier; Morones, Anibal; Ravi, Sankar; Keesee, Charles; Hargis, Joshua; Vivanco, Jose

    2014-12-01

    This Topical Report documents the first year of the project, from October 1, 2013 through September 30, 2014. Efforts for this project included experiments to characterize the atmospheric-pressure turbulent flame speed vessel over a range of operating conditions (fan speeds and turbulent length scales). To this end, a new LDV system was acquired and set up for the detailed characterization of the turbulence field. Much progress was made in the area of impurity kinetics, which included a numerical study of the effect of impurities such as NO2, NO, H2S, and NH3 on ignition delay times and laminar flame speeds of syngas blends at engine conditions. Experiments included a series of laminar flame speed measurements for syngas (CO/H2) blends with various levels of CH4 and C2H6 addition, and the results were compared to the chemical kinetics model of NUI Galway. Also, a final NOx kinetics mechanism including ammonia was assembled, and a journal paper was written and is now in press. Overall, three journal papers and six conference papers related to this project were published this year. Finally, much progress was made on the design of the new high-pressure turbulent flame speed facility. An overall design that includes a venting system was decided upon, and the detailed design is in progress.

  2. Quantum Chemical 13Ca Chemical Shift Calculations for Protein NMR Structure Determination, Refinement, and Validation

    SciTech Connect

    Vila, J.; Aramini, J; Rossi, P; Kuzin, A; Su, M; Seetharaman, J; Xiao, R; Tong, L; Montelione, G; Scheraga, H

    2008-01-01

    A recently determined set of 20 NMR-derived conformations of a 48-residue all-?-helical protein, (PDB ID code 2JVD), is validated here by comparing the observed 13C? chemical shifts with those computed at the density functional level of theory. In addition, a recently introduced physics-based method, aimed at determining protein structures by using NOE-derived distance constraints together with observed and computed 13C? chemical shifts, was applied to determine a new set of 10 conformations, (Set-bt), as a blind test for the same protein. A cross-validation of these two sets of conformations in terms of the agreement between computed and observed 13C? chemical shifts, several stereochemical quality factors, and some NMR quality assessment scores reveals the good quality of both sets of structures. We also carried out an analysis of the agreement between the observed and computed 13C? chemical shifts for a slightly longer construct of the protein solved by x-ray crystallography at 2.0-A resolution (PDB ID code 3BHP) with an identical amino acid residue sequence to the 2JVD structure for the first 46 residues. Our results reveal that both of the NMR-derived sets, namely 2JVD and Set-bt, are somewhat better representations of the observed 13C? chemical shifts in solution than the 3BHP crystal structure. In addition, the 13C?-based validation analysis appears to be more sensitive to subtle structural differences across the three sets of structures than any other NMR quality-assessment scores used here, and, although it is computationally intensive, this analysis has potential value as a standard procedure to determine, refine, and validate protein structures.

  3. Dissecting the mechanisms of a class of chemical glycosylation using primary 13C kinetic isotope effects

    NASA Astrophysics Data System (ADS)

    Huang, Min; Garrett, Graham E.; Birlirakis, Nicolas; Boh, Luis; Pratt, Derek A.; Crich, David

    2012-08-01

    Although arguably the most important reaction in glycoscience, chemical glycosylations are among the least well understood of organic chemical reactions, resulting in an unnecessarily high degree of empiricism and a brake on rational development in this critical area. To address this problem, primary 13C kinetic isotope effects have now been determined for the formation of ?- and ?-manno- and glucopyranosides using a natural abundance NMR method. In contrast to the common current assumption, for three of the four cases studied the experimental and computed values are indicative of associative displacement of the intermediate covalent glycosyl trifluoromethanesulfonates. For the formation of the ?-mannopyranosides, the experimentally determined KIE differs significantly from that computed for an associative displacement, which is strongly suggestive of a dissociative mechanism that approaches the intermediacy of a glycosyl oxocarbenium ion. The application of analogous experiments to other glycosylation systems should shed further light on their mechanisms and thus assist in the design of better reactions conditions with improved stereoselectivity.

  4. Physically consistent simulation of mesoscale chemical kinetics: The non-negative FIS-{alpha} method

    SciTech Connect

    Dana, Saswati; Raha, Soumyendu

    2011-10-01

    Biochemical pathways involving chemical kinetics in medium concentrations (i.e., at mesoscale) of the reacting molecules can be approximated as chemical Langevin equations (CLE) systems. We address the physically consistent non-negative simulation of the CLE sample paths as well as the issue of non-Lipschitz diffusion coefficients when a species approaches depletion and any stiffness due to faster reactions. The non-negative Fully Implicit Stochastic {alpha} (FIS {alpha}) method in which stopped reaction channels due to depleted reactants are deleted until a reactant concentration rises again, for non-negativity preservation and in which a positive definite Jacobian is maintained to deal with possible stiffness, is proposed and analysed. The method is illustrated with the computation of active Protein Kinase C response in the Protein Kinase C pathway.

  5. Molecular conformational stability and Spectroscopic analysis of Parared with experimental techniques and quantum chemical calculations

    NASA Astrophysics Data System (ADS)

    Srinivasaraghavan, R.; Thamaraikannan, S.; Seshadri, S.; Gnanasambandan, T.

    2015-02-01

    The complete vibrational assignment and analysis of the fundamental modes of Parared was carried out using the experimental FTIR and FT-Raman data and quantum chemical studies. The observed vibrational data were compared with the wavenumbers derived theoretically from the optimized geometry of the compound from the DFT-B3LYP gradient calculations employing 6-31G(d,p) and 6-311++G(d,p) basis sets. Thermodynamic properties like entropy, heat capacity and enthalpy have been calculated for the molecule. HOMO-LUMO energy gap has been calculated. The intramolecular contacts have been interpreted using natural bond orbital (NBO) and natural localized molecular orbital (NLMO) analysis. Important non-linear properties such as electric dipole moment and first hyperpolarizability of Parared have been computed using B3LYP quantum chemical calculations. Finally, the Mulliken population analysis on atomic charges of the title compound has been calculated.

  6. Molecular conformational stability and Spectroscopic analysis of Parared with experimental techniques and quantum chemical calculations.

    PubMed

    Srinivasaraghavan, R; Thamaraikannan, S; Seshadri, S; Gnanasambandan, T

    2015-02-25

    The complete vibrational assignment and analysis of the fundamental modes of Parared was carried out using the experimental FTIR and FT-Raman data and quantum chemical studies. The observed vibrational data were compared with the wavenumbers derived theoretically from the optimized geometry of the compound from the DFT-B3LYP gradient calculations employing 6-31G(d,p) and 6-311++G(d,p) basis sets. Thermodynamic properties like entropy, heat capacity and enthalpy have been calculated for the molecule. HOMO-LUMO energy gap has been calculated. The intramolecular contacts have been interpreted using natural bond orbital (NBO) and natural localized molecular orbital (NLMO) analysis. Important non-linear properties such as electric dipole moment and first hyperpolarizability of Parared have been computed using B3LYP quantum chemical calculations. Finally, the Mulliken population analysis on atomic charges of the title compound has been calculated. PMID:25305611

  7. Isobutane ignition delay time measurements at high pressure and detailed chemical kinetic simulations

    SciTech Connect

    Healy, D.; Curran, H.J.; Donato, N.S.; Aul, C.J.; Petersen, E.L.; Zinner, C.M.; Bourque, G.

    2010-08-15

    Rapid compression machine and shock-tube ignition experiments were performed for real fuel/air isobutane mixtures at equivalence ratios of 0.3, 0.5, 1, and 2. The wide range of experimental conditions included temperatures from 590 to 1567 K at pressures of approximately 1, 10, 20, and 30 atm. These data represent the most comprehensive set of experiments currently available for isobutane oxidation and further accentuate the complementary attributes of the two techniques toward high-pressure oxidation experiments over a wide range of temperatures. The experimental results were used to validate a detailed chemical kinetic model composed of 1328 reactions involving 230 species. This mechanism has been successfully used to simulate previously published ignition delay times as well. A thorough sensitivity analysis was performed to gain further insight to the chemical processes occurring at various conditions. Additionally, useful ignition delay time correlations were developed for temperatures greater than 1025 K. Comparisons are also made with available isobutane data from the literature, as well as with 100% n-butane and 50-50% n-butane-isobutane mixtures in air that were presented by the authors in recent studies. In general, the kinetic model shows excellent agreement with the data over the wide range of conditions of the present study. (author)

  8. Edge-controlled growth and kinetics of single-crystal graphene domains by chemical vapor deposition

    PubMed Central

    Ma, Teng; Ren, Wencai; Zhang, Xiuyun; Liu, Zhibo; Gao, Yang; Yin, Li-Chang; Ma, Xiu-Liang; Ding, Feng; Cheng, Hui-Ming

    2013-01-01

    The controlled growth of large-area, high-quality, single-crystal graphene is highly desired for applications in electronics and optoelectronics; however, the production of this material remains challenging because the atomistic mechanism that governs graphene growth is not well understood. The edges of graphene, which are the sites at which carbon accumulates in the two-dimensional honeycomb lattice, influence many properties, including the electronic properties and chemical reactivity of graphene, and they are expected to significantly influence its growth. We demonstrate the growth of single-crystal graphene domains with controlled edges that range from zigzag to armchair orientations via growth–etching–regrowth in a chemical vapor deposition process. We have observed that both the growth and the etching rates of a single-crystal graphene domain increase linearly with the slanted angle of its edges from 0° to ∼19° and that the rates for an armchair edge are faster than those for a zigzag edge. Such edge-structure–dependent growth/etching kinetics of graphene can be well explained at the atomic level based on the concentrations of the kinks on various edges and allow the evolution and control of the edge and morphology in single-crystal graphene following the classical kinetic Wulff construction theory. Using these findings, we propose several strategies for the fabrication of wafer-sized, high-quality, single-crystal graphene. PMID:24297886

  9. Reduction Kinetics of a CasO4 Based Oxygen Carrier for Chemical-Looping Combustion

    NASA Astrophysics Data System (ADS)

    Xiao, R.; Song, Q. L.; Zheng, W. G.; Deng, Z. Y.; Shen, L. H.; Zhang, M. Y.

    The CaSO4 based oxygen carrier has been proposed as an alternative low cost oxygen carrier for Chemical-looping combustion (CLC) of coal. The reduction of CaSO4 to CaS is an important step for the cyclic process of reduction/oxidation in CLC of coal with CaSO4 based oxygen carrier. Thermodynamic analysis of CaSO4 oxygen carrier with CO based on the principle of Gibbs free energy minimization show that the essentially high purity of CO2 can be obtained, while the solid product is CaS instead of CaO. The intrinsic reduction kinetics of a CaSO4 based oxygen carrier with CO was investigated in a differential fixed bed reactor. The effects of gas partial pressure (20%-70%) and temperature (880-950°C) on the reduction were investigated. The reduction was described with shrinking unreacted core model. Experimental results of CO partial pressure on the solid conversion show that the reduction of fresh oxygen carriers is of first order with respect to the CO partial pressure. Both chemical reaction control and product layer diffusion control determine the reduction rate. The dependences of reaction rate constant and effective diffusivity with temperature were both obtained. The kinetic equation well predicted the experimental data.

  10. Colloquium on Process Simulation. Computational Fluid Dynamics Coupled With Chemical Kinetics, Combustion and Thermodynamics

    NASA Astrophysics Data System (ADS)

    Jokilaakso, Ari

    This volume contains the proceedings of the Colloquium on Process Simulation held at Helsinki University of Technology, Espoo, Finland, 3-4 Aug. 1994. The range of applications for computational fluid dynamics (CFD) is wide. This is mainly due to the great development of computer performance together with the diversification of modelling software and built-in options included in the software. Furthermore, the modelling tools have become more user friendly and thus easier to learn. As a result of all this the experts of different fields have been able to start using the CFD-tools to simulate and analyse their own cases. This, in turn, has brought a strong demand for addition of user developed sub-routines to the CFD-codes. Also, more and more precise models for turbulence, radiation heat transfer, two-phase flow etc. are needed in the CFD modelling. Thermodynamic modelling and heat transfer problems in metallurgical processes have been studied at the Laboratory of Materials Processing and Powder Metallurgy, Helsinki University of Technology since 1970s. Combining chemical kinetics, combustion, and thermodynamics with CFD-modelling have been studied at the laboratory during the last few years. Therefore, an annual colloquium was initiated for bringing together researchers in different process simulation fields to discuss the present status of the process modelling and, especially, the CFD-modelling involving chemical kinetics, combustion and thermodynamics.

  11. Accelerating moderately stiff chemical kinetics in reactive-flow simulations using GPUs

    NASA Astrophysics Data System (ADS)

    Niemeyer, Kyle E.; Sung, Chih-Jen

    2014-01-01

    The chemical kinetics ODEs arising from operator-split reactive-flow simulations were solved on GPUs using explicit integration algorithms. Nonstiff chemical kinetics of a hydrogen oxidation mechanism (9 species and 38 irreversible reactions) were computed using the explicit fifth-order Runge-Kutta-Cash-Karp method, and the GPU-accelerated version performed faster than single- and six-core CPU versions by factors of 126 and 25, respectively, for 524,288 ODEs. Moderately stiff kinetics, represented with mechanisms for hydrogen/carbon-monoxide (13 species and 54 irreversible reactions) and methane (53 species and 634 irreversible reactions) oxidation, were computed using the stabilized explicit second-order Runge-Kutta-Chebyshev (RKC) algorithm. The GPU-based RKC implementation demonstrated an increase in performance of nearly 59 and 10 times, for problem sizes consisting of 262,144 ODEs and larger, than the single- and six-core CPU-based RKC algorithms using the hydrogen/carbon-monoxide mechanism. With the methane mechanism, RKC-GPU performed more than 65 and 11 times faster, for problem sizes consisting of 131,072 ODEs and larger, than the single- and six-core RKC-CPU versions, and up to 57 times faster than the six-core CPU-based implicit VODE algorithm on 65,536 ODEs. In the presence of more severe stiffness, such as ethylene oxidation (111 species and 1566 irreversible reactions), RKC-GPU performed more than 17 times faster than RKC-CPU on six cores for 32,768 ODEs and larger, and at best 4.5 times faster than VODE on six CPU cores for 65,536 ODEs. With a larger time step size, RKC-GPU performed at best 2.5 times slower than six-core VODE for 8192 ODEs and larger. Therefore, the need for developing new strategies for integrating stiff chemistry on GPUs was discussed.

  12. FORTRAN 4 computer program for calculation of thermodynamic and transport properties of complex chemical systems

    NASA Technical Reports Server (NTRS)

    Svehla, R. A.; Mcbride, B. J.

    1973-01-01

    A FORTRAN IV computer program for the calculation of the thermodynamic and transport properties of complex mixtures is described. The program has the capability of performing calculations such as:(1) chemical equilibrium for assigned thermodynamic states, (2) theoretical rocket performance for both equilibrium and frozen compositions during expansion, (3) incident and reflected shock properties, and (4) Chapman-Jouguet detonation properties. Condensed species, as well as gaseous species, are considered in the thermodynamic calculation; but only the gaseous species are considered in the transport calculations.

  13. Inclusion of chemical kinetics into upwind/beam-warming PNS models for hypersonic propulsion applications

    NASA Astrophysics Data System (ADS)

    Sinha, N.; Krawczyk, W. J.; Dash, S. M.

    1987-06-01

    The methodology developed for extending two-dimensional Beam-Warming and Roe upwind-based Parabolized Navier-Stokes (PNS) models to analyze hypersonic propulsive flowfields with finite-rate chemistry is presented. A modular approach has been taken to provide a coupled fluid dynamic/chemical kinetic solution which retains the (4 x 4) fluid dynamic coupling of the basic algorithm via a matrix-splitting procedure which represents the influence of chemical species variations on the fluid solution via source terms. The n species equations are solved using implicit convective/diffusive numerics with a point-implicit representation of the chemical source term. This approach is significantly more flexible than solving the (n + 4) coupled fluid and species equations since it permits utilizing a variety of step-splitting procedures to deal with disparate fluid/chemical time scales, and it also permits decoupling minor, highly stiff species (e.g., electrons and charged species) from the coupling numerics. This paper describes the overall numerics and several examples illustrating applications of the approach to representative hypersonic propulsive flowfields.

  14. The invariant constrained equilibrium edge preimage curve method for the dimension reduction of chemical kinetics

    NASA Astrophysics Data System (ADS)

    Ren, Zhuyin; Pope, Stephen B.; Vladimirsky, Alexander; Guckenheimer, John M.

    2006-03-01

    This work addresses the construction and use of low-dimensional invariant manifolds to simplify complex chemical kinetics. Typically, chemical kinetic systems have a wide range of time scales. As a consequence, reaction trajectories rapidly approach a hierarchy of attracting manifolds of decreasing dimension in the full composition space. In previous research, several different methods have been proposed to identify these low-dimensional attracting manifolds. Here we propose a new method based on an invariant constrained equilibrium edge (ICE) manifold. This manifold (of dimension nr) is generated by the reaction trajectories emanating from its (nr-1)-dimensional edge, on which the composition is in a constrained equilibrium state. A reasonable choice of the nr represented variables (e.g., nr "major" species) ensures that there exists a unique point on the ICE manifold corresponding to each realizable value of the represented variables. The process of identifying this point is referred to as species reconstruction. A second contribution of this work is a local method of species reconstruction, called ICE-PIC, which is based on the ICE manifold and uses preimage curves (PICs). The ICE-PIC method is local in the sense that species reconstruction can be performed without generating the whole of the manifold (or a significant portion thereof). The ICE-PIC method is the first approach that locally determines points on a low-dimensional invariant manifold, and its application to high-dimensional chemical systems is straightforward. The "inputs" to the method are the detailed kinetic mechanism and the chosen reduced representation (e.g., some major species). The ICE-PIC method is illustrated and demonstrated using an idealized H2/O system with six chemical species. It is then tested and compared to three other dimension-reduction methods for the test case of a one-dimensional premixed laminar flame of stoichiometric hydrogen/air, which is described by a detailed mechanism containing nine species and 21 reactions. It is shown that the error incurred by the ICE-PIC method with four represented species is small across the whole flame, even in the low temperature region.

  15. Gas phase chemical kinetics at high temperature of carbonaceous molecules: application to circumstellar envelopes

    NASA Astrophysics Data System (ADS)

    Biennier, L.; Gardez, A.; Saidani, G.; Georges, R.; Rowe, B.; Reddy, K. P. J.

    2011-05-01

    Circumstellar shells of evolved stars are a theater of extremely rich physical and chemical processes. More than seventy molecules of varied nature have been identified in the envelopes through their spectral fingerprints in the microwave or far infrared regions. Many of them are carbon chain molecules and radicals and a significant number are unique to the circumstellar medium. However, observational data remain scarce and more than half of the detected species have been observed in only one object, the nearby carbon star IRC + 10216. Chemical kinetic models are needed to describe the formation of molecules in evolved circumstellar outflows. Upcoming terrestrial telescopes such as ALMA will increase the spatial resolution by several orders of magnitude and provide a wealth of data. The determination of relevant laboratory kinetics data is critical to keep up with the development of the observations and of the refinement of chemical models. Today, the majority of reactions studied in the laboratory are the ones involved in combustion and concerning light hydrocarbons. Our objective is to provide the scientific community with rate coefficients of reactions between abundant species in these warm environments. Cyanopolyynes from HC_2N to HC_9N have all been detected in carbon rich circumstellar envelopes in up to 10 sources for HC_3N. Neutral-neutral reactions of the CN radical with unsaturated hydrocarbons could be a dominant route in the formation of cyanopolyynes, even at low temperatures. Our approach aims to bridge the temperature gap between resistively heated flow tubes and shock tubes. The present kinetic measurements are obtained using a new reactor combining a high enthalpy source (Moudens et al. 2011) with a flow tube and a pulsed laser photolysis and laser induced fluorescence system to probe the undergoing chemical reactions. The high enthalpy flow tube has been used to measure the rate constant of the reaction of the CN radical with propane, propene, propadiene, 1,3-butadiene, and butyne over a temperature range extending from 300 to 1200 K. The majority of the reactions studied are rapid, with rate constants greater than 10-10 cm^3 molecule-1 s-1.

  16. Trimesitylsilylium cation verification of a free silylium cation in solution by NMR chemical shift calculations

    NASA Astrophysics Data System (ADS)

    Kraka, Elfi; Sosa, Carlos P.; Grfenstein, Jrgen; Cremer, Dieter

    1997-11-01

    NMR chemical shift calculations at the SOS-DFPT/PW91/[9s6p2d/5s4pld/5s4pld/3s]//B3LYP/6-31G(d) level of theory were used to describe the trimesitylsilylium cation 1, recently synthesized in benzene solution and investigated by NMR spectroscopy. The conformation of cation 1 is characterized by mesityl rings rotated by 47 in a propeller-like form. Contrary to other silylium cations investigated, cation 1 forms a weak Van der Waals complex 3 with benzene rather than a Wheland ?-complex. The calculated 29Si NMR chemical shifts for 1 and 3 are 226 and 227 ppm, compared to the experimental value of 225.5 ppm. The agreement between calculated and measured NMR chemical shifts provides evidence that cation 1 presents the first free silylium cation synthesized.

  17. Molecular corridors and kinetic regimes in the multiphase chemical evolution of secondary organic aerosol

    NASA Astrophysics Data System (ADS)

    Shiraiwa, M.; Berkemeier, T.; Schilling-Fahnestock, K.; Seinfeld, J.; Poeschl, U.

    2014-12-01

    The dominant component of atmospheric organic aerosol is that derived from the oxidation of volatile organic compounds (VOCs), so-called secondary organic aerosol (SOA). SOA consists of a multitude of organic compounds, only a small fraction of which has historically been identified. Formation and evolution of SOA is a complex process involving coupled chemical reaction and mass transport in the gas and particle phases. Current SOA models do not embody the full spectrum of reaction and transport processes nor do they identify the dominant rate-limiting steps in SOA formation. Based on molecular identification of SOA oxidation products, we show here that the chemical evolution of SOA from a variety of VOC precursors adheres to characteristic "molecular corridors" with a tight inverse correlation between volatility and molar mass. The slope of these corridors corresponds to the increase in molar mass required to decrease volatility by one order of magnitude (-dM/dlogC0). It varies in the range of 10-30 g mol-1 depending on the molecular size of the SOA precursor and the O:C ratio of the reaction products. Sequential and parallel reaction pathways of oxidation and dimerization or oligomerization progressing along these corridors pass through characteristic regimes of reaction-, diffusion-, or accommodation-limited multiphase chemical kinetics that can be classified according to reaction location, degree of saturation, and extent of heterogeneity of gas and particle phases. The molecular corridors and kinetic regimes help to constrain and described the properties of the products, pathways and rates of SOA evolution, thereby facilitating the further development of aerosol models for air quality and climate.

  18. Molecular corridors and kinetic regimes in the multiphase chemical evolution of secondary organic aerosol

    NASA Astrophysics Data System (ADS)

    Shiraiwa, M.; Berkemeier, T.; Schilling-Fahnestock, K. A.; Seinfeld, J. H.; Pschl, U.

    2014-08-01

    The dominant component of atmospheric, organic aerosol is that derived from the oxidation of volatile organic compounds (VOCs), so-called secondary organic aerosol (SOA). SOA consists of a multitude of organic compounds, only a small fraction of which has historically been identified. Formation and evolution of SOA is a complex process involving coupled chemical reaction and mass transport in the gas and particle phases. Current SOA models do not embody the full spectrum of reaction and transport processes, nor do they identify the dominant rate-limiting steps in SOA formation. Based on molecular identification of SOA oxidation products, we show here that the chemical evolution of SOA from a variety of VOC precursors adheres to characteristic "molecular corridors" with a tight inverse correlation between volatility and molar mass. The slope of these corridors corresponds to the increase in molar mass required to decrease volatility by one order of magnitude (-dM / dlogC0). It varies in the range of 10-30 g mol-1, depending on the molecular size of the SOA precursor and the O : C ratio of the reaction products. Sequential and parallel reaction pathways of oxidation and dimerization or oligomerization progressing along these corridors pass through characteristic regimes of reaction-, diffusion-, or accommodation-limited multiphase chemical kinetics that can be classified according to reaction location, degree of saturation, and extent of heterogeneity of gas and particle phases. The molecular corridors and kinetic regimes help to constrain and describe the properties of the products, pathways, and rates of SOA evolution, thereby facilitating the further development of aerosol models for air quality and climate.

  19. Modeling Multiphase Chemical Kinetics of OH Radical Reacting with Biomass Burning Organic Aerosol

    NASA Astrophysics Data System (ADS)

    Arangio, Andrea; Slade, Jonathan H.; Berkemeier, Thomas; Knopf, Daniel A.; Shiraiwa, Manabu

    2014-05-01

    Levoglucosan, abietic acid and nitroguaiacol are commonly used as molecular tracers of biomass burning in source apportionment. Recent studies have demonstrated the decay of levoglucosan when the particles were exposed to atmospherically relevant concentration of OH radicals [1-3]. However, multiphase chemical kinetics of OH radical reacting with such compounds has not fully understood. Here we apply the kinetic multi-layer model for gas-particle interactions (KM-GAP) [4] to experimental data of OH exposure to levoglucosan, abietic acid and nitroguaiacol [1]. KM-GAP resolves the following mass transport and chemical reactions explicitly: gas-phase diffusion, reversible surface adsorption, surface reaction, surface-bulk transport, bulk diffusion and reaction. The particle shrink due to the evaporation of volatile reaction products is also considered. The time- and concentration-dependence of reactive uptake coefficient of OH radicals were simulated by KM-GAP. The measured OH uptake coefficients were fitted by a Monte Carlo (MC) filtering coupled with a genetic algorithm (GA) to derive physicochemical parameters such as bulk diffusion coefficient, Henry's law coefficient and desorption lifetime of OH radicals. We assessed the relative contribution of surface and bulk reactions to the overall uptake of OH radicals. Chemical half-life and the evaporation time scale of these compounds are estimated in different scenarios (dry, humid and cloud processing conditions) and at different OH concentrations. REFERENCES [1] J. H. Slade, D. A. Knopf, Phys. Chem. Chem. Phys., 2013, 15, 5898. [2] S. H. Kessler, J. D. Smith, D.L. Che, D.R. Worsnop, K. R. Wilson, J. H. Kroll, Environ. Sci. Technol., 2010, 44, 7005. [3] C. J. Hennigan, A. P. Sullivan, J. L. Collett Jr, A. L. Robinson, Geophys. Res. Lett., 2010, 37, L09806. [4] M. Shiraiwa, C. Pfrang, T. Koop, U. Pschl, Atmos. Chem. Phys, 2012, 12, 2777.

  20. Benchmarking quantum mechanical calculations with experimental NMR chemical shifts of 2-HADNT

    NASA Astrophysics Data System (ADS)

    Liu, Yuemin; Junk, Thomas; Liu, Yucheng; Tzeng, Nianfeng; Perkins, Richard

    2015-04-01

    In this study, both GIAO-DFT and GIAO-MP2 calculations of nuclear magnetic resonance (NMR) spectra were benchmarked with experimental chemical shifts. The experimental chemical shifts were determined experimentally for carbon-13 (C-13) of seven carbon atoms for the TNT degradation product 2-hydroxylamino-4,6-dinitrotoluene (2-HADNT). Quantum mechanics GIAO calculations were implemented using Becke-3-Lee-Yang-Parr (B3LYP) and other six hybrid DFT methods (Becke-1-Lee-Yang-Parr (B1LYP), Becke-half-and-half-Lee-Yang-Parr (BH and HLYP), Cohen-Handy-3-Lee-Yang-Parr (O3LYP), Coulomb-attenuating-B3LYP (CAM-B3LYP), modified-Perdew-Wang-91-Lee-Yang-Parr (mPW1LYP), and Xu-3-Lee-Yang-Parr (X3LYP)) which use the same correlation functional LYP. Calculation results showed that the GIAO-MP2 method gives the most accurate chemical shift values, and O3LYP method provides the best prediction of chemical shifts among the B3LYP and other five DFT methods. Three types of atomic partial charges, Mulliken (MK), electrostatic potential (ESP), and natural bond orbital (NBO), were also calculated using MP2/aug-cc-pVDZ method. A reasonable correlation was discovered between NBO partial charges and experimental chemical shifts of carbon-13 (C-13).

  1. Robust automated mass spectra interpretation and chemical formula calculation using mixed integer linear programming.

    PubMed

    Baran, Richard; Northen, Trent R

    2013-10-15

    Untargeted metabolite profiling using liquid chromatography and mass spectrometry coupled via electrospray ionization is a powerful tool for the discovery of novel natural products, metabolic capabilities, and biomarkers. However, the elucidation of the identities of uncharacterized metabolites from spectral features remains challenging. A critical step in the metabolite identification workflow is the assignment of redundant spectral features (adducts, fragments, multimers) and calculation of the underlying chemical formula. Inspection of the data by experts using computational tools solving partial problems (e.g., chemical formula calculation for individual ions) can be performed to disambiguate alternative solutions and provide reliable results. However, manual curation is tedious and not readily scalable or standardized. Here we describe an automated procedure for the robust automated mass spectra interpretation and chemical formula calculation using mixed integer linear programming optimization (RAMSI). Chemical rules among related ions are expressed as linear constraints and both the spectra interpretation and chemical formula calculation are performed in a single optimization step. This approach is unbiased in that it does not require predefined sets of neutral losses and positive and negative polarity spectra can be combined in a single optimization. The procedure was evaluated with 30 experimental mass spectra and was found to effectively identify the protonated or deprotonated molecule ([M + H](+) or [M - H](-)) while being robust to the presence of background ions. RAMSI provides a much-needed standardized tool for interpreting ions for subsequent identification in untargeted metabolomics workflows. PMID:24032353

  2. Steady-state kinetics and chemical mechanism of octopus hepatopancreatic glutathione transferase.

    PubMed Central

    Tang, S S; Chang, G G

    1995-01-01

    The kinetic mechanism of glutathione S-transferase (GST) from Octopus vulgaris hepatopancreas was investigated by steady-state analysis. Initial-velocity studies showed an intersecting pattern, which suggests a sequential kinetic mechanism for the enzyme. Product-inhibition patterns by chloride and the conjugate product were all non-competitive with respect to glutathione or 1-chloro-2,4-dinitrobenzene (CDNB), which indicates that the octopus digestive gland GST conforms to a steady-state sequential random Bi Bi kinetic mechanism. Dead-end inhibition patterns indicate that ethacrynic acid ([2,3-dichloro-4-(2-methyl-enebutyryl) phenoxy]acetic acid) binds at the hydrophobic H-site, norophthalmic acid (gamma-glutamylalanylglycine) binds at the glutathione G-site, and glutathione-ethacrynate conjugate occupied both H- and G-sites of the enzyme. The chemical mechanism of the enzyme was examined by pH and kinetic solvent-isotope effects. At pH (and p2H) = 8.011, in which kcat. was independent of pH or p2H, the solvent isotope effects on V and V/KmGSH were near unity, in the range 1.069-1.175. An inverse isotope effect was observed for V/KmCDNB (0.597), presumably resulting from the hydrogen-bonding of enzyme-bound glutathione, which has pKa of 6.83 +/- 0.04, a value lower by 2.34 pH units than the pKa of glutathione in aqueous solution. This lowering of the pKa value for the sulphydryl group of the bound glutathione was presumably due to interaction with the active site Tyr7, which had a pKa value of 8.46 +/- 0.09 that was raised to 9.63 +/- 0.08 in the presence of glutathione thiolate. Subsequent chemical reaction involves attacking of thiolate anion at the electrophilic substrate with the formation of a negatively charged Meisenheimer complex, which is the rate-limiting step of the reaction. Images Scheme 2 PMID:7619078

  3. Steady-state kinetics and chemical mechanism of octopus hepatopancreatic glutathione transferase.

    PubMed

    Tang, S S; Chang, G G

    1995-07-01

    The kinetic mechanism of glutathione S-transferase (GST) from Octopus vulgaris hepatopancreas was investigated by steady-state analysis. Initial-velocity studies showed an intersecting pattern, which suggests a sequential kinetic mechanism for the enzyme. Product-inhibition patterns by chloride and the conjugate product were all non-competitive with respect to glutathione or 1-chloro-2,4-dinitrobenzene (CDNB), which indicates that the octopus digestive gland GST conforms to a steady-state sequential random Bi Bi kinetic mechanism. Dead-end inhibition patterns indicate that ethacrynic acid ([2,3-dichloro-4-(2-methyl-enebutyryl) phenoxy]acetic acid) binds at the hydrophobic H-site, norophthalmic acid (gamma-glutamylalanylglycine) binds at the glutathione G-site, and glutathione-ethacrynate conjugate occupied both H- and G-sites of the enzyme. The chemical mechanism of the enzyme was examined by pH and kinetic solvent-isotope effects. At pH (and p2H) = 8.011, in which kcat. was independent of pH or p2H, the solvent isotope effects on V and V/KmGSH were near unity, in the range 1.069-1.175. An inverse isotope effect was observed for V/KmCDNB (0.597), presumably resulting from the hydrogen-bonding of enzyme-bound glutathione, which has pKa of 6.83 +/- 0.04, a value lower by 2.34 pH units than the pKa of glutathione in aqueous solution. This lowering of the pKa value for the sulphydryl group of the bound glutathione was presumably due to interaction with the active site Tyr7, which had a pKa value of 8.46 +/- 0.09 that was raised to 9.63 +/- 0.08 in the presence of glutathione thiolate. Subsequent chemical reaction involves attacking of thiolate anion at the electrophilic substrate with the formation of a negatively charged Meisenheimer complex, which is the rate-limiting step of the reaction. PMID:7619078

  4. Study of ethane hydrate formation kinetics using the chemical affinity model with and without presence of surfactants

    NASA Astrophysics Data System (ADS)

    Karimi, Reza; Varaminian, Farshad; Izadpanah, Amir A.

    2014-12-01

    In this article, we examine ethane hydrate formation kinetics with and without the presence of various surfactants. Firstly, the influences of stirring rate and initial pressure without the presence of surfactants are studied. The effects of four surfactants containing Sodium dodecyl sulfate (SDS), sodium dodecyl benzene sulfonate (SDBS), Polyoxyethylene (20) sorbitanmonopalmitate (Tween 40), and TritonX-100 (TX-100) on ethane hydrate formation kinetics were experimentally investigated. Then the chemical affinity model is applied to model the ethane hydrate formation kinetics with and without surfactants. The kinetic parameters of the chemical affinity model were computed for the ethane hydrate formation with and without surfactants. We will see that the results of the modeling are in good agreement with the experimental data.

  5. Programming chemical kinetics: engineering dynamic reaction networks with DNA strand displacement

    NASA Astrophysics Data System (ADS)

    Srinivas, Niranjan

    Over the last century, the silicon revolution has enabled us to build faster, smaller and more sophisticated computers. Today, these computers control phones, cars, satellites, assembly lines, and other electromechanical devices. Just as electrical wiring controls electromechanical devices, living organisms employ "chemical wiring" to make decisions about their environment and control physical processes. Currently, the big difference between these two substrates is that while we have the abstractions, design principles, verification and fabrication techniques in place for programming with silicon, we have no comparable understanding or expertise for programming chemistry. In this thesis we take a small step towards the goal of learning how to systematically engineer prescribed non-equilibrium dynamical behaviors in chemical systems. We use the formalism of chemical reaction networks (CRNs), combined with mass-action kinetics, as our programming language for specifying dynamical behaviors. Leveraging the tools of nucleic acid nanotechnology (introduced in Chapter 1), we employ synthetic DNA molecules as our molecular architecture and toehold-mediated DNA strand displacement as our reaction primitive. Abstraction, modular design and systematic fabrication can work only with well-understood and quantitatively characterized tools. Therefore, we embark on a detailed study of the "device physics" of DNA strand displacement (Chapter 2). We present a unified view of strand displacement biophysics and kinetics by studying the process at multiple levels of detail, using an intuitive model of a random walk on a 1-dimensional energy landscape, a secondary structure kinetics model with single base-pair steps, and a coarse-grained molecular model that incorporates three-dimensional geometric and steric effects. Further, we experimentally investigate the thermodynamics of three-way branch migration. Our findings are consistent with previously measured or inferred rates for hybridization, fraying, and branch migration, and provide a biophysical explanation of strand displacement kinetics. Our work paves the way for accurate modeling of strand displacement cascades, which would facilitate the simulation and construction of more complex molecular systems. In Chapters 3 and 4, we identify and overcome the crucial experimental challenges involved in using our general DNA-based technology for engineering dynamical behaviors in the test tube. In this process, we identify important design rules that inform our choice of molecular motifs and our algorithms for designing and verifying DNA sequences for our molecular implementation. We also develop flexible molecular strategies for "tuning" our reaction rates and stoichiometries in order to compensate for unavoidable non-idealities in the molecular implementation, such as imperfectly synthesized molecules and spurious "leak" pathways that compete with desired pathways. We successfully implement three distinct autocatalytic reactions, which we then combine into a de novo chemical oscillator. Unlike biological networks, which use sophisticated evolved molecules (like proteins) to realize such behavior, our test tube realization is the first to demonstrate that Watson-Crick base pairing interactions alone suffice for oscillatory dynamics. Since our design pipeline is general and applicable to any CRN, our experimental demonstration of a de novo chemical oscillator could enable the systematic construction of CRNs with other dynamic behaviors.

  6. Modeling of the HiPco process for carbon nanotube production. I. Chemical kinetics.

    PubMed

    Dateo, Christopher E; Gken, Tahir; Meyyappan, M

    2002-10-01

    A chemical kinetic model is developed to help understand and optimize the production of single-walled carbon nanotubes via the high-pressure carbon monoxide (HiPco) process, which employs iron pentacarbonyl as the catalyst precursor and carbon monoxide as the carbon feedstock. The model separates the HiPco process into three steps, precursor decomposition, catalyst growth and evaporation, and carbon nanotube production resulting from the catalyst-enhanced disproportionation of carbon monoxide, known as the Boudouard reaction: 2 CO(g)-->C(s) + CO2(g). The resulting detailed model contains 971 species and 1948 chemical reactions. A second model with a reduced reaction set containing 14 species and 22 chemical reactions is developed on the basis of the detailed model and reproduces the chemistry of the major species. Results showing the parametric dependence of temperature, total pressure, and initial precursor partial pressures are presented, with comparison between the two models. The reduced model is more amenable to coupled reacting flow-field simulations, presented in the following article. PMID:12908291

  7. An efficient error-propagation-based reduction method for large chemical kinetic mechanisms

    SciTech Connect

    Pepiot-Desjardins, P.; Pitsch, H.

    2008-07-15

    Production rates obtained from a detailed chemical mechanism are analyzed in order to quantify the coupling between the various species and reactions involved. These interactions can be represented by a directed relation graph. A geometric error propagation strategy applied to this graph accurately identifies the dependencies of specified targets and creates a set of increasingly simplified kinetic schemes containing only the chemical paths deemed the most important for the targets. An integrity check is performed concurrently with the reduction process to avoid truncated chemical paths and mass accumulation in intermediate species. The quality of a given skeletal model is assessed through the magnitude of the errors introduced in the target predictions. The applied error evaluation is variable-dependent and unambiguous for unsteady problems. The technique yields overall monotonically increasing errors, and the smallest skeletal mechanism that satisfies a user-defined error tolerance over a selected domain of applicability is readily obtained. An additional module based on life-time analysis identifies a set of species that can be modeled accurately by quasi-steady state relations. An application of the reduction procedure is presented for autoignition using a large iso-octane mechanism. The whole process is automatic, is fast, has moderate CPU and memory requirements, and compares favorably to other existing techniques. (author)

  8. Modeling of the HiPco process for carbon nanotube production. I. Chemical kinetics

    NASA Technical Reports Server (NTRS)

    Dateo, Christopher E.; Gokcen, Tahir; Meyyappan, M.

    2002-01-01

    A chemical kinetic model is developed to help understand and optimize the production of single-walled carbon nanotubes via the high-pressure carbon monoxide (HiPco) process, which employs iron pentacarbonyl as the catalyst precursor and carbon monoxide as the carbon feedstock. The model separates the HiPco process into three steps, precursor decomposition, catalyst growth and evaporation, and carbon nanotube production resulting from the catalyst-enhanced disproportionation of carbon monoxide, known as the Boudouard reaction: 2 CO(g)-->C(s) + CO2(g). The resulting detailed model contains 971 species and 1948 chemical reactions. A second model with a reduced reaction set containing 14 species and 22 chemical reactions is developed on the basis of the detailed model and reproduces the chemistry of the major species. Results showing the parametric dependence of temperature, total pressure, and initial precursor partial pressures are presented, with comparison between the two models. The reduced model is more amenable to coupled reacting flow-field simulations, presented in the following article.

  9. Reactibodies generated by kinetic selection couple chemical reactivity with favorable protein dynamics

    PubMed Central

    Smirnov, Ivan; Carletti, Eugnie; Kurkova, Inna; Nachon, Florian; Nicolet, Yvain; Mitkevich, Vladimir A.; Dbat, Hlne; Avalle, Brangre; Belogurov, Alexey A.; Kuznetsov, Nikita; Reshetnyak, Andrey; Masson, Patrick; Tonevitsky, Alexander G.; Ponomarenko, Natalia; Makarov, Alexander A.; Friboulet, Alain; Tramontano, Alfonso; Gabibov, Alexander

    2011-01-01

    Igs offer a versatile template for combinatorial and rational design approaches to the de novo creation of catalytically active proteins. We have used a covalent capture selection strategy to identify biocatalysts from within a human semisynthetic antibody variable fragment library that uses a nucleophilic mechanism. Specific phosphonylation at a single tyrosine within the variable light-chain framework was confirmed in a recombinant IgG construct. High-resolution crystallographic structures of unmodified and phosphonylated Fabs display a 15--deep two-chamber cavity at the interface of variable light (VL) and variable heavy (VH) fragments having a nucleophilic tyrosine at the base of the site. The depth and structure of the pocket are atypical of antibodies in general but can be compared qualitatively with the catalytic site of cholinesterases. A structurally disordered heavy chain complementary determining region 3 loop, constituting a wall of the cleft, is stabilized after covalent modification by hydrogen bonding to the phosphonate tropinol moiety. These features and presteady state kinetics analysis indicate that an induced fit mechanism operates in this reaction. Mutations of residues located in this stabilized loop do not interfere with direct contacts to the organophosphate ligand but can interrogate second shell interactions, because the H3 loop has a conformation adjusted for binding. Kinetic and thermodynamic parameters along with computational docking support the active site model, including plasticity and simple catalytic components. Although relatively uncomplicated, this catalytic machinery displays both stereo- and chemical selectivity. The organophosphate pesticide paraoxon is hydrolyzed by covalent catalysis with rate-limiting dephosphorylation. This reactibody is, therefore, a kinetically selected protein template that has enzyme-like catalytic attributes. PMID:21896761

  10. The concept of collision strength and a unified kinetic calculation for hard-sphere interactions and inverse square force law interactions

    NASA Astrophysics Data System (ADS)

    Chang, Yongbin

    2003-12-01

    With a concept of collision strength and other associated definitions, a unified kinetic theory for both hard-sphere interactions and inverse square force law interactions is developed. Collision frequencies that associate with many kinds of physical terms are calculated and expressed by a series special function Υj(α,x). Among them are arbitrary higher order linear Fokker-Planck coefficients, collision frequency, and energy exchange frequency. In case of a two-temperature system, the total collision rate, energy exchange rate, and collision strength rate are calculated and expressed in a uniform expression. A primitive form of Coulomb logarithm 1/2Γ(0,hmin) is found by comparing the exact form of equilibration time with Spitzer's result. Many unifications are found from the unified expression. The threshold value of collision strength has unified activation energy in chemical reaction rate theory and ionization energy in Thomson's classical ionization theory. An incomplete gamma function has unified Arrhenius exponential coefficient in chemical reaction rate theory and Coulomb logarithm in plasma physics.

  11. Ab initio quantum chemical calculation as a tool of evaluating diamagnetic susceptibility of magnetically levitating substances

    NASA Astrophysics Data System (ADS)

    Fujiwara, Y.; Tanimoto, Y.

    2009-03-01

    On magnetic force evaluation necessary for magnetically levitated diamagnetic substances, isotropic diamagnetic susceptibility estimation by the ab initio quantum chemical calculation using Gaussian03W was verified for more than 300 molecules in a viewpoint of the accuracy in the absolute value and the calculation level affording good cost performance. From comparison, the method of B3PW91 / 6-311+G(d,p) was found to give the adequate absolute value by the relation of (observed) = (1.03 0.005) x (calculated) - (1.22 0.60) x 10-6 in a unit of cm3 mol-1 and good cost performance.

  12. n-Butane: Ignition delay measurements at high pressure and detailed chemical kinetic simulations

    SciTech Connect

    Healy, D.; Curran, H.J.; Donato, N.S.; Aul, C.J.; Petersen, E.L.; Zinner, C.M.; Bourque, G.

    2010-08-15

    Ignition delay time measurements were recorded at equivalence ratios of 0.3, 0.5, 1, and 2 for n-butane at pressures of approximately 1, 10, 20, 30 and 45 atm at temperatures from 690 to 1430 K in both a rapid compression machine and in a shock tube. A detailed chemical kinetic model consisting of 1328 reactions involving 230 species was constructed and used to validate the delay times. Moreover, this mechanism has been used to simulate previously published ignition delay times at atmospheric and higher pressure. Arrhenius-type ignition delay correlations were developed for temperatures greater than 1025 K which relate ignition delay time to temperature and concentration of the mixture. Furthermore, a detailed sensitivity analysis and a reaction pathway analysis were performed to give further insight to the chemistry at various conditions. When compared to existing data from the literature, the model performs quite well, and in several instances the conditions of earlier experiments were duplicated in the laboratory with overall good agreement. To the authors' knowledge, the present paper presents the most comprehensive set of ignition delay time experiments and kinetic model validation for n-butane oxidation in air. (author)

  13. Physico-chemical requirements and kinetics of membrane fusion of flavivirus-like particles.

    PubMed

    Espsito, Danillo L A; Nguyen, Jennifer B; DeWitt, David C; Rhoades, Elizabeth; Modis, Yorgo

    2015-07-01

    Flaviviruses deliver their RNA genome into the host-cell cytoplasm by fusing their lipid envelope with a cellular membrane. Expression of the flavivirus pre-membrane and envelope glycoprotein genes in the absence of other viral genes results in the spontaneous assembly and secretion of virus-like particles (VLPs) with membrane fusion activity. Here, we examined the physico-chemical requirements for membrane fusion of VLPs from West Nile and Japanese encephalitis viruses. In a bulk fusion assay, optimal hemifusion (or lipid mixing) efficiencies were observed at 37 C. Fusion efficiency increased with decreasing pH; half-maximal hemifusion was attained at pH 5.6. The anionic lipids bis(monoacylglycero)phosphate and phosphatidylinositol-3-phosphate, when present in the target membrane, significantly enhanced fusion efficiency, consistent with the emerging model that flaviviruses fuse with intermediate-to-late endosomal compartments, where these lipids are most abundant. In a single-particle fusion assay, VLPs catalysed membrane hemifusion, tracked as lipid mixing with the cellular membrane, on a timescale of 7-20 s after acidification. Lipid mixing kinetics suggest that hemifusion is a kinetically complex, multistep process. PMID:25740960

  14. Physico-chemical requirements and kinetics of membrane fusion of flavivirus-like particles

    PubMed Central

    Espósito, Danillo L. A.; Nguyen, Jennifer B.; DeWitt, David C.; Rhoades, Elizabeth

    2015-01-01

    Flaviviruses deliver their RNA genome into the host-cell cytoplasm by fusing their lipid envelope with a cellular membrane. Expression of the flavivirus pre-membrane and envelope glycoprotein genes in the absence of other viral genes results in the spontaneous assembly and secretion of virus-like particles (VLPs) with membrane fusion activity. Here, we examined the physico-chemical requirements for membrane fusion of VLPs from West Nile and Japanese encephalitis viruses. In a bulk fusion assay, optimal hemifusion (or lipid mixing) efficiencies were observed at 37 °C. Fusion efficiency increased with decreasing pH; half-maximal hemifusion was attained at pH 5.6. The anionic lipids bis(monoacylglycero)phosphate and phosphatidylinositol-3-phosphate, when present in the target membrane, significantly enhanced fusion efficiency, consistent with the emerging model that flaviviruses fuse with intermediate-to-late endosomal compartments, where these lipids are most abundant. In a single-particle fusion assay, VLPs catalysed membrane hemifusion, tracked as lipid mixing with the cellular membrane, on a timescale of 7–20 s after acidification. Lipid mixing kinetics suggest that hemifusion is a kinetically complex, multistep process. PMID:25740960

  15. Kinetic Detection of Orthogonal Protein and Chemical Coordinates in Enzyme Catalysis: Double Mutants of Soybean Lipoxygenase.

    PubMed

    Sharma, Sudhir C; Klinman, Judith P

    2015-09-01

    Soybean lipoxygenase-1 (SLO-1) is a paradigmatic enzyme system for studying the contribution of hydrogen tunneling to enzymatic proton-coupled electron transfer processes. In this study, the impact of pairs of double mutants on the properties of SLO-1 is presented. Steady-state rates and their deuterium kinetic isotope effects (KIEs) have been measured for the bimolecular reaction of enzyme with free substrate (kcat/Km) and compared to the unimolecular rate constant, kcat. A key kinetic finding is that the competitive KIEs on the second-order rate constant (kcat/Km) are all reduced from (D)kcat and, despite large changes in rate and activation parameters, remain essentially unaltered under a variety of conditions. These data implicate a protein reaction coordinate that is orthogonal to the chemical reaction coordinate and controls the concentration of the active enzyme. This study introduces a new means to interrogate the alteration of conformational landscapes that can occur following site-specific mutagenesis. PMID:26154975

  16. Bis-BN cyclohexane: a remarkably kinetically stable chemical hydrogen storage material.

    PubMed

    Chen, Gang; Zakharov, Lev N; Bowden, Mark E; Karkamkar, Abhijeet J; Whittemore, Sean M; Garner, Edward B; Mikulas, Tanya C; Dixon, David A; Autrey, Tom; Liu, Shih-Yuan

    2015-01-14

    A critical component for the successful development of fuel cell applications is hydrogen storage. For back-up power applications, where long storage periods under extreme temperatures are expected, the thermal stability of the storage material is particularly important. Here, we describe the development of an unusually kinetically stable chemical hydrogen storage material with a H2 storage capacity of 4.7 wt%. The compound, which is the first reported parental BN isostere of cyclohexane featuring two BN units, is thermally stable up to 150 C both in solution and as a neat material. Yet, it can be activated to rapidly desorb H2 at room temperature in the presence of a catalyst without releasing other detectable volatile contaminants. We also disclose the isolation and characterization of two cage compounds with S4 symmetry from the H2 desorption reactions. PMID:25494531

  17. Infrared Absorption Spectroscopy and Chemical Kinetics of Free Radicals, Final Technical Report

    DOE R&D Accomplishments Database

    Curl, Robert F.; Glass, Graham P.

    2004-11-01

    This research was directed at the detection, monitoring, and study of the chemical kinetic behavior by infrared absorption spectroscopy of small free radical species thought to be important intermediates in combustion. Work on the reaction of OH with acetaldehyde has been completed and published and work on the reaction of O({sup 1}D) with CH{sub 4} has been completed and submitted for publication. In the course of our investigation of branching ratios of the reactions of O({sup 1}D) with acetaldehyde and methane, we discovered that hot atom chemistry effects are not negligible at the gas pressures (13 Torr) initially used. Branching ratios of the reaction of O({sup 1}D) with CH{sub 4} have been measured at a tenfold higher He flow and fivefold higher pressure.

  18. Optimization of chemical reactor feed by simulations based on a kinetic approach.

    PubMed

    Guinand, Charles; Dabros, Michal; Roduit, Bertrand; Meyer, Thierry; Stoessel, Francis

    2014-10-01

    Chemical incidents are typically caused by loss of control, resulting in runaway reactions or process deviations in different stages of the production. In the case of fed-batch reactors, the problem generally encountered is the accumulation of heat. This is directly related to the temperature of the process, the reaction kinetics and adiabatic temperature rise, which is the maximum temperature attainable in the event of cooling failure. The main possibility to control the heat accumulation is the use of a well-controlled adapted feed. The feed rate can be adjusted by using reaction and reactor dynamic models coupled to Model Predictive Control. Thereby, it is possible to predict the best feed profile respecting the safety constraints. PMID:25437170

  19. The Chemical Kinetics of Alkaline Extraction of Tellurium from Lead-Bismuth Eutectic

    SciTech Connect

    Laurence E. Auman; Eric P. Loewen; Thomas F. Gesell; Shuji Ohno

    2005-07-01

    Polonium-210 is an important radioactive product of neutron activation of molten lead-bismuth eutectic, a promising candidate coolant for advanced fast nuclear reactors. The radiological hazard potential associated with polonium can be significantly reduced by continuous online removal of polonium from the coolant. The removal method under investigation in this research is alkaline extraction. Chemical kinetic measurements were made to determine first and second order rate constants, activation energy, and heat of reaction at various temperatures using tellurium as a surrogate. First and second order alkaline extraction rate constants were measured to be: k1 = 10.05 e 52,274/RT and k2 = 167 e 97,224/RT. Alkaline extraction is dependent on temperature and was found to follow the Arrhenius rate law. The activation energy (Ea) ranged between 52,274 97,224 J mol-1. With a strong foundation of surrogate work completed, this work should be validated using polonium-210.

  20. XCHEM-1D: A Heat Transfer/Chemical Kinetics Computer Program for multilayered reactive materials

    SciTech Connect

    Gross, R.J.; Baer, M.R.; Hobbs, M.L.

    1993-10-01

    An eXplosive CHEMical kinetics code, XCHEM, has been developed to solve the reactive diffusion equations associated with thermal ignition of energetic materials. This method-of-lines code uses stiff numerical methods and adaptive meshing to resolve relevant combustion physics. Solution accuracy is maintained between multilayered materials consisting of blends of reactive components and/or inert materials. Phase change and variable properties are included in one-dimensional slab, cylindrical and spherical geometries. Temperature-dependent thermal properties have been incorporated and the modification of thermal conductivities to include decomposition effects are estimated using solid/gas volume fractions determined by species fractions. Gas transport properties, including high pressure corrections, have also been included. Time varying temperature, heat flux, convective and thermal radiation boundary conditions, and layer to layer contact resistances have also been implemented.

  1. Ultrafast Electron Transfer Kinetics of Graphene Grown by Chemical Vapor Deposition.

    PubMed

    Chen, Ran; Nioradze, Nikoloz; Santhosh, Padmanabhan; Li, Zhiting; Surwade, Sumedh P; Shenoy, Ganesh J; Parobek, David G; Kim, Min A; Liu, Haitao; Amemiya, Shigeru

    2015-12-01

    High electrochemical reactivity is required for various energy and sensing applications of graphene grown by chemical vapor deposition (CVD). Herein, we report that heterogeneous electron transfer can be remarkably fast at CVD-grown graphene electrodes that are fabricated without using the conventional poly(methyl methacrylate) (PMMA) for graphene transfer from a growth substrate. We use nanogap voltammetry based on scanning electrochemical microscopy to obtain very high standard rate constants k(0) ?25?cm?s(-1) for ferrocenemethanol oxidation at polystyrene-supported graphene. The rate constants are at least 2-3?orders of magnitude higher than those at PMMA-transferred graphene, which demonstrates an anomalously weak dependence of electron-transfer rates on the potential. Slow kinetics at PMMA-transferred graphene is attributed to the presence of residual PMMA. This unprecedentedly high reactivity of PMMA-free CVD-grown graphene electrodes is fundamentally and practically important. PMID:26563580

  2. Time-resolved simplified chemical kinetics modelling using computational singular perturbation

    NASA Technical Reports Server (NTRS)

    Lam, S. H.; Goussis, D. A.; Konopka, D.

    1989-01-01

    A CO-CH4-air reaction system is used to demonstrate the computational singular perturbation (CSP) method for deriving time-resolved simplified chemical kinetics models. CSP provides a programmable algorithm to group the given collection of elementary reactions into reaction groups which are ordered according to their speed. The concept of Importance Index k(m)exp s is introduced: k(m)exp s is defined to be a number between 0 and 1 which measures the importance of the m-th reaction group to the s-th reactant and can readily be computed from data generated by CSP. It is suggested that the robustness of the solutions of the reaction system can be qualitatively assessed by inspecting the Importance Index data.

  3. A quantitative study of chemical kinetics for the synthesis of doped oxide nanocrystals using FTIR

    PubMed Central

    Zhang, Na; Wang, Xin; Ye, Zhizhen; Jin, Yizheng

    2014-01-01

    The synthesis of Mg-doped ZnO nanocrystals was employed as a model system to quantitatively study the chemical kinetics of the precursor conversion reactions at synthetic conditions and the correlations with the formation of doped nanocrystals. An accurate method using Fourier transform infrared spectroscopy was developed to explore the alcoholysis reactions of the cationic precursors. Our study showed that three independent factors, molar ratio of dopant precursor, reaction temperature and coordination ligands of cationic precursors influenced the relative reactivity of magnesium to zinc precursor, and in turn the formation of Mg-doped ZnO nanocrystals with defined shapes and properties. This understanding underpins the advancement of the syntheses of doped nanocrystals and should be useful for future rational design of new synthetic systems. PMID:24619066

  4. Time-resolved broadband cavity-enhanced absorption spectroscopy for chemical kinetics.

    SciTech Connect

    Sheps, Leonid; Chandler, David W.

    2013-04-01

    Experimental measurements of elementary reaction rate coefficients and product branching ratios are essential to our understanding of many fundamentally important processes in Combustion Chemistry. However, such measurements are often impossible because of a lack of adequate detection techniques. Some of the largest gaps in our knowledge concern some of the most important radical species, because their short lifetimes and low steady-state concentrations make them particularly difficult to detect. To address this challenge, we propose a novel general detection method for gas-phase chemical kinetics: time-resolved broadband cavity-enhanced absorption spectroscopy (TR-BB-CEAS). This all-optical, non-intrusive, multiplexed method enables sensitive direct probing of transient reaction intermediates in a simple, inexpensive, and robust experimental package.

  5. Systematic Approach to Calculate the Concentration of Chemical Species in Multi-Equilibrium Problems

    ERIC Educational Resources Information Center

    Baeza-Baeza, Juan Jose; Garcia-Alvarez-Coque, Maria Celia

    2011-01-01

    A general systematic approach is proposed for the numerical calculation of multi-equilibrium problems. The approach involves several steps: (i) the establishment of balances involving the chemical species in solution (e.g., mass balances, charge balance, and stoichiometric balance for the reaction products), (ii) the selection of the unknowns (the

  6. Calculation of ionization potential and chemical hardness: A comparative study of different methods

    NASA Astrophysics Data System (ADS)

    Shankar, R.; Senthilkumar, K.; Kolandaivel, P.

    The suitability of ab initio and density functional theory (DFT) methods for an accurate determination of ionization potential and chemical hardness is the subject of systematic analysis for a panel of molecules. Comparison of experimental ionization potential values with theoretical results indicates that using orbital energies obtained from the so-called statistical average of orbital potential (SAOP) model exchange correlation potential in Koopman's theorem is an efficient method to evaluate the correct ionization potentials. Experimental ionization potential and electron affinity values have been used to calculate the absolute chemical hardness. Comparative results show that the chemical hardness values calculated by using Hartree-Fock orbital energies in Koopman's theorem are sufficiently good rather than Mller-Plesset second order perturbation method and DFT-generalized gradient approximation (GGA) exchange correlation functional orbital energies. A new method given by Tozer et al. (J Phys Chem A 2005, 109, 8923) to calculate the chemical hardness works well with the orbital energies of DFT-GGA functionals together with the ionization potential values calculated from SAOP orbital energies.

  7. Calculations of protective action distance for toxic chemical spills using nomographs

    SciTech Connect

    Lee, L.G.; Vail, J.A.; Gibeault, G.L.

    1995-04-01

    This document was produced for emergency use following a spill of liquid gas or finely divided solid (<100 micron) toxic chemicals. The information on the next few pages was kept deliberately terse and is limited to data and graphic aids needed for calculation of plume distance (protective action distance). All supporting material is provided as Appendices.

  8. Quantum Chemistry and Non-Equilibrium Thermodynamics: Does Chaos Play a Role in Quantum Chemical Calculations?

    NASA Astrophysics Data System (ADS)

    Andr, J.-M.; Andr, M.-Cl.; Fripiat, J. G.; Lambert, C.

    2007-12-01

    The theory of solitons in polyacetylene chains is reviewed with the emphasis on the force that drives the phenomenon. Then, the origin of bifurcation schemes in non-equilibrium thermodynamics is summarized. Examples of bifurcations schemes and of chaotic behaviors in quantum chemical calculations are given.

  9. A Simple Method to Calculate the Temperature Dependence of the Gibbs Energy and Chemical Equilibrium Constants

    ERIC Educational Resources Information Center

    Vargas, Francisco M.

    2014-01-01

    The temperature dependence of the Gibbs energy and important quantities such as Henry's law constants, activity coefficients, and chemical equilibrium constants is usually calculated by using the Gibbs-Helmholtz equation. Although, this is a well-known approach and traditionally covered as part of any physical chemistry course, the required

  10. A Simple Method to Calculate the Temperature Dependence of the Gibbs Energy and Chemical Equilibrium Constants

    ERIC Educational Resources Information Center

    Vargas, Francisco M.

    2014-01-01

    The temperature dependence of the Gibbs energy and important quantities such as Henry's law constants, activity coefficients, and chemical equilibrium constants is usually calculated by using the Gibbs-Helmholtz equation. Although, this is a well-known approach and traditionally covered as part of any physical chemistry course, the required…

  11. Systematic Approach to Calculate the Concentration of Chemical Species in Multi-Equilibrium Problems

    ERIC Educational Resources Information Center

    Baeza-Baeza, Juan Jose; Garcia-Alvarez-Coque, Maria Celia

    2011-01-01

    A general systematic approach is proposed for the numerical calculation of multi-equilibrium problems. The approach involves several steps: (i) the establishment of balances involving the chemical species in solution (e.g., mass balances, charge balance, and stoichiometric balance for the reaction products), (ii) the selection of the unknowns (the…

  12. Coherent chemical kinetics as quantum walks. I. Reaction operators for radical pairs

    NASA Astrophysics Data System (ADS)

    Chia, A.; Tan, K. C.; Pawela, Ł.; Kurzyński, P.; Paterek, T.; Kaszlikowski, D.

    2016-03-01

    Classical chemical kinetics uses rate-equation models to describe how a reaction proceeds in time. Such models are sufficient for describing state transitions in a reaction where coherences between different states do not arise, in other words, a reaction that contains only incoherent transitions. A prominent example of a reaction containing coherent transitions is the radical-pair model. The kinetics of such reactions is defined by the so-called reaction operator that determines the radical-pair state as a function of intermediate transition rates. We argue that the well-known concept of quantum walks from quantum information theory is a natural and apt framework for describing multisite chemical reactions. By composing Kraus maps that act only on two sites at a time, we show how the quantum-walk formalism can be applied to derive a reaction operator for the standard avian radical-pair reaction. Our reaction operator predicts the same recombination dephasing rate as the conventional Haberkorn model, which is consistent with recent experiments [K. Maeda et al., J. Chem. Phys. 139, 234309 (2013), 10.1063/1.4844355], in contrast to previous work by Jones and Hore [J. A. Jones and P. J. Hore, Chem. Phys. Lett. 488, 90 (2010), 10.1016/j.cplett.2010.01.063]. The standard radical-pair reaction has conventionally been described by either a normalized density operator incorporating both the radical pair and reaction products or a trace-decreasing density operator that considers only the radical pair. We demonstrate a density operator that is both normalized and refers only to radical-pair states. Generalizations to include additional dephasing processes and an arbitrary number of sites are also discussed.

  13. Modeling of simulated photochemical smog with kinetic mechanisms. Volume 2. Chemk: a computer modeling scheme for chemical kinetics. Final report, July 1978-September 1979

    SciTech Connect

    Whitten, G.Z.; Hogo, H.

    1980-02-01

    Mechanisms that describe the formation of photochemical smog are developed using a computer modeling technique directed toward the simulation of data collected in two smog chambers: an indoor chamber and a dual outdoor chamber. Individual compounds for which specific experiments were simulated and mechanisms developed include the following: formaldehyde, acetaldehyde, ethylene, propylene, butane, and toluene. Volume 2 contains the user's manual and coding for a chemical kinetics computer program, CHEMK.

  14. Computer program for calculation of complex chemical equilibrium compositions and applications. Part 1: Analysis

    NASA Technical Reports Server (NTRS)

    Gordon, Sanford; Mcbride, Bonnie J.

    1994-01-01

    This report presents the latest in a number of versions of chemical equilibrium and applications programs developed at the NASA Lewis Research Center over more than 40 years. These programs have changed over the years to include additional features and improved calculation techniques and to take advantage of constantly improving computer capabilities. The minimization-of-free-energy approach to chemical equilibrium calculations has been used in all versions of the program since 1967. The two principal purposes of this report are presented in two parts. The first purpose, which is accomplished here in part 1, is to present in detail a number of topics of general interest in complex equilibrium calculations. These topics include mathematical analyses and techniques for obtaining chemical equilibrium; formulas for obtaining thermodynamic and transport mixture properties and thermodynamic derivatives; criteria for inclusion of condensed phases; calculations at a triple point; inclusion of ionized species; and various applications, such as constant-pressure or constant-volume combustion, rocket performance based on either a finite- or infinite-chamber-area model, shock wave calculations, and Chapman-Jouguet detonations. The second purpose of this report, to facilitate the use of the computer code, is accomplished in part 2, entitled 'Users Manual and Program Description'. Various aspects of the computer code are discussed, and a number of examples are given to illustrate its versatility.

  15. A consistent calculation of the chemical potential for dense simple fluids.

    PubMed

    Bomont, Jean-Marc

    2006-05-28

    A general method to calculate the excess chemical potential betamuex, that is based on the Kirkwood coupling parameter's dependence of the correlation functions, is presented. The expression for the one particle bridge function B(1)r is derived for simple fluids with spherical interactions. Only the knowledge of the bridge function B(2)r is required. The accuracy of our approach is illustrated for a dense hard sphere fluid. As far as B(2)r is considered as exact, B(1)r is found to be, at high densities, the normalized bridge function -B(2)rB(2)(r=0). This expression ensures a consistent calculation of the excess chemical potential by satisfying implicitly the Gibbs-Duhem constraint. Only the pressure-consistency condition is necessary to calculate the structural and thermodynamic properties of the fluid. PMID:16774388

  16. The PubChemQC project: A large chemical database from the first principle calculations

    NASA Astrophysics Data System (ADS)

    Maho, Nakata

    2015-12-01

    In this research, we have been constructing a large database of molecules by ab initio calculations. Currently, we have over 1.53 million entries of 6-31G* B3LYP optimized geometries and ten excited states by 6-31+G* TDDFT calculations. To calculate molecules, we only refer the InChI (International Chemical Identifier) representation of chemical formula by the International Union of Pure and Applied Chemistry (IUPAC), thus, no reference to experimental data. These results are open to public at http://pubchemqc.riken.jp/. The molecular data have been taken from the PubChem Project (http://pubchem.ncbi.nlm.nih.gov/) which is one of the largest in the world (approximately 63 million molecules are listed) and free (public domain) database. Our final goal is, using these data, to develop a molecular search engine or molecular expert system to find molecules which have desired properties.

  17. A Comparison of EPIcode and ALOHA Calculations for Pool Evaporation and Chemical Atmospheric Transport and Dispersion.

    SciTech Connect

    Andrew, VINCENT

    2005-04-22

    EPIcode (version 7.0) and ALOHA (version 5.2.3) are two of the designated toolbox codes identified in the Department of Energy's Implementation Plan for DNFSB Recommendation 2002-1 on Software Quality Assurance issues in the DOE Complex. Both have the capability to estimate evaporation rates from pools formed from chemical spills and to predict subsequent atmospheric transport and dispersion. This paper provides an overview of the algorithms used by EPIcode and ALOHA to calculate evaporation rates and downwind plume concentrations. The technical bases for these algorithms are briefly discussed, and differences in the EPIcode and ALOHA methodologies highlighted. In addition, sample calculations are performed using EPIcode and ALOHA for selected chemicals under various environmental conditions. Side-by-side comparisons of results from sample calculations are analyzed to illustrate the impact that the different methodologies used by EPIcode and ALOHA have on predicted evaporation rates and downwind concentrations.

  18. Chemical bond as a test of density-gradient expansions for kinetic and exchange energies

    SciTech Connect

    Perdew, J.P.; Levy, M.; Painter, G.S.; Wei, S.; Lagowski, J.B.

    1988-01-15

    Errors in kinetic and exchange contributions to the molecular bonding energy are assessed for approximate density functionals by reference to near-exact Hartree-Fock values. From the molecular calculations of Allan et al. and of Lee and Ghosh, it is demonstrated that the density-gradient expansion does not accurately describe the noninteracting kinetic contribution to the bonding energy, even when this expansion is carried to fourth order and applied in its spin-density-functional form to accurate Hartree-Fock densities. In a related study, it is demonstrated that the overbinding of molecules such as N/sub 2/ and F/sub 2/, which occurs in the local-spin-density (LSD) approximation for the exchange-correlation energy, is not attributable to errors in the self-consistent LSD densities. Contrary to expectations based upon the Gunnarsson-Jones nodality argument, it is found that the LSD approximation for the exchange energy can seriously overbind a molecule even when bonding does not create additional nodes in the occupied valence orbitals. LSD and exact values for the exchange contribution to the bonding energy are displayed and discussed for several molecules.

  19. Colloidal chemical synthesis and formation kinetics of uniformly sized nanocrystals of metals, oxides, and chalcogenides.

    PubMed

    Kwon, Soon Gu; Hyeon, Taeghwan

    2008-12-01

    Nanocrystals exhibit interesting electrical, optical, magnetic, and chemical properties not achieved by their bulk counterparts. Consequently, to fully exploit the potential of nanocrystals, the synthesis of nanocrystals must focus on producing materials with uniform size and shape. Top-down physical processes can produce large quantities of nanocrystals, but controlling the size is difficult with these methods. On the other hand, colloidal chemical synthetic methods can produce uniform nanocrystals with a controlled particle size. In this Account, we present our synthesis of uniform nanocrystals of various shapes and materials, and we discuss the kinetics of nanocrystal formation. We employed four different synthetic approaches including thermal decomposition, nonhydrolytic sol-gel reactions, thermal reduction, and use of reactive chalcogen reagents. We synthesized uniform oxide nanocrystals via heat-up methods. This method involved slowly heat-up reaction mixtures composed of metal precursors, surfactants, and solvents from room temperature to high temperature. We then held reaction mixtures at an aging temperature for a few minutes to a few hours. Kinetics studies revealed a three-step mechanism for the synthesis of nanocrystals through the heat-up method with size distribution control. First, as metal precursors thermally decompose, monomers accumulate. At the aging temperature, burst nucleation occurs rapidly; at the end of this second phase, nucleation stops, but continued diffusion-controlled growth leads to size focusing to produce uniform nanocrystals. We used nonhydrolytic sol-gel reactions to synthesize various transition metal oxide nanocrystals. We employed ester elimination reactions for the synthesis of ZnO and TiO(2) nanocrystals. Uniform Pd nanoparticles were synthesized via a thermal reduction reaction induced by heating up a mixture of Pd(acac)(2), tri-n-octylphosphine, and oleylamine to the aging temperature. Similarly, we synthesized nanoparticles of copper and nickel using metal(II) acetylacetonates. Ni/Pd core/shell nanoparticles were synthesized by simply heating the reaction mixture composed of acetylacetonates of nickel and palladium. Using alternative chalcogen reagents, we synthesized uniform nanocrystals of various metal chalcogenides. Uniform nanocrystals of PbS, ZnS, CdS, and MnS were obtained by heating reaction mixtures composed of metal chlorides and sulfur dissolved in oleylamine. In the future, a detailed understanding of nanocrystal formation kinetics and synthetic chemistry will lead to the synthesis of uniform nanocrystals with controlled size, shape, and composition. In particular, the synthesis of uniform nanocrystals of doped materials, core/shell materials, and multicomponent materials is still a challenge. We expect that these uniformly sized nanocrystals will find important applications in areas including information technology, biomedicine, and energy/environmental technology. PMID:18681462

  20. Research in chemical kinetics. Progress report, July 20, 1988--August 30, 1989

    SciTech Connect

    Rowland, F.S.

    1996-09-01

    A major aspect of our research over the past decade under this contract has been the application of radioisotopes generated by nuclear reactions for the study of various kinetic mechanisms. Two general theoretical concepts have been explored in detail by this technique: (a) The addition of halogen atoms to olefins, which have been described for fifty years by the phrase {open_quotes}anti-Markownikoff{close_quotes} to indicate that the preference for one or the other end of an unsymmetric olefin is opposite to that ({open_quotes}Markownikoff addition{close_quotes}) for hydrogen halide addition. (b) The redistribution of internal energy within a molecule after an energetic addition reaction, for which the usual assumption is rapid equilibration into all available degrees of freedom, as calculated by the Rice-Rarnsperger-Kassel-Marcus (RRKM) model. In both instances, significant results have been obtained which expand the overall view of each of these two concepts.

  1. Stabilization of the Simplest Criegee Intermediate from the Reaction between Ozone and Ethylene: A High-Level Quantum Chemical and Kinetic Analysis of Ozonolysis.

    PubMed

    Nguyen, Thanh Lam; Lee, Hyunwoo; Matthews, Devin A; McCarthy, Michael C; Stanton, John F

    2015-06-01

    The fraction of the collisionally stabilized Criegee species CH2OO produced from the ozonolysis of ethylene is calculated using a two-dimensional (E, J)-grained master equation technique and semiclassical transition-state theory based on the potential energy surface obtained from high-accuracy quantum chemical calculations. Our calculated yield of 42 6% for the stabilized CH2OO agrees well, within experimental error, with available (indirect) experimental results. Inclusion of angular momentum in the master equation is found to play an essential role in bringing the theoretical results into agreement with the experiment. Additionally, yields of HO and HO2 radical products are predicted to be 13 6% and 17 6%, respectively. In the kinetic simulation, the HO radical product is produced mostly from the stepwise decomposition mechanism of primary ozonide rather than from dissociation of hot CH2OO. PMID:25945650

  2. Use of a pressuremeter to measure the kinetics of carbon dioxide evolution in chemically leavened wheat flour dough.

    PubMed

    Bellido, Guillermo G; Scanlon, Martin G; Sapirstein, Harry D; Page, John H

    2008-11-12

    Among a number of impediments to a wider use of chemical leavening agents in bakery applications is the lack of standardized instrumentation capable of providing information on the rates of CO2 production from chemical leaveners in a format that is meaningful to both the technologist (i.e., the dough rate of reaction or DRR) and the researcher (e.g., in terms of fundamental unitskmol CO2 per kg of dough per s). This paper presents an original methodology to carry out the DRR test using a commercial pressuremeter, the Gassmart apparatus, and to model the kinetics of CO2 evolution of chemically leavened dough. Lean formula doughs were leavened at 27 and 39 degrees C with four chemical leavening systems containing sodium bicarbonate and one of four leavening acids, sodium acid pyrophosphate 40 (SAPP), adipic acid (ADA), potassium acid tartrate (KAT), and glucono-delta-lactone (GDL). Chemical kinetics theory was used to gain an insight into the reaction mechanisms responsible for the evolution of carbon dioxide from the leaveners. A first-order reaction kinetics model was found to be suitable for describing the neutralizing properties of GDL and ADA leavening systems, whereas a first-order reaction kinetics model for irreversible parallel reactions better described the leavening properties of the acidic salts KAT and SAPP. PMID:18841986

  3. A comparative study of chemical kinetics models for HMX in mesoscale simulations of shock initiation due to void collapse

    NASA Astrophysics Data System (ADS)

    Rai, Nirmal; Schweigert, Igor; Udaykumar, H. S.

    2015-06-01

    The development of chemical kinetics schemes for use in modeling the reactive mechanics of energetic materials such as HMX has been an active area of research. Decomposition, deflagration and detonation models need to predict time to ignition and locations of onset of chemical reaction in energetic materials when used in meso- and macro-scale simulations. Modeling the chemical processes and development of appropriate kinetic law is challenging work because of lack of experimental data. However, significant work has been done in this area. Multistep kinetic models by Tarver and Tran, Henson and Smilowitz have provided plausible chemical kinetic rate laws for HMX. These models vary in the way they model the details of the decomposition process. Hence, a comparative study of different models will provide an understanding of the uncertainties involved in predicting ignition in HMX. In the current work, hot-spot ignition due to void collapse in shock compressed HMX has been analyzed using several reaction rate models, including the Tarver-Tran 4-equation model, the Henson-Smilowitz 7-equation model, and a new rate model that combines the condensed-phase decomposition rates measured by Brill et al and the detailed mechanism of nitramine flame chemistry due to Yetter et al. The chemical models have been incorporated in a massively parallel Eulerian code SCIMITAR3D. The variations in the predicted thresholds due to differences in the rate models will be discussed.

  4. LSENS: A General Chemical Kinetics and Sensitivity Analysis Code for homogeneous gas-phase reactions. Part 3: Illustrative test problems

    NASA Technical Reports Server (NTRS)

    Bittker, David A.; Radhakrishnan, Krishnan

    1994-01-01

    LSENS, the Lewis General Chemical Kinetics and Sensitivity Analysis Code, has been developed for solving complex, homogeneous, gas-phase chemical kinetics problems and contains sensitivity analysis for a variety of problems, including nonisothermal situations. This report is part 3 of a series of three reference publications that describe LSENS, provide a detailed guide to its usage, and present many example problems. Part 3 explains the kinetics and kinetics-plus-sensitivity analysis problems supplied with LSENS and presents sample results. These problems illustrate the various capabilities of, and reaction models that can be solved by, the code and may provide a convenient starting point for the user to construct the problem data file required to execute LSENS. LSENS is a flexible, convenient, accurate, and efficient solver for chemical reaction problems such as static system; steady, one-dimensional, inviscid flow; reaction behind incident shock wave, including boundary layer correction; and perfectly stirred (highly backmixed) reactor. In addition, the chemical equilibrium state can be computed for the following assigned states: temperature and pressure, enthalpy and pressure, temperature and volume, and internal energy and volume. For static problems the code computes the sensitivity coefficients of the dependent variables and their temporal derivatives with respect to the initial values of the dependent variables and/or the three rate coefficient parameters of the chemical reactions.

  5. An efficient method for energy levels calculation using full symmetry and exact kinetic energy operator: Tetrahedral molecules

    SciTech Connect

    Nikitin, A. V.; Rey, M.; Tyuterev, Vl. G.

    2015-03-07

    A simultaneous use of the full molecular symmetry and of an exact kinetic energy operator (KEO) is of key importance for accurate predictions of vibrational levels at a high energy range from a potential energy surface (PES). An efficient method that permits a fast convergence of variational calculations would allow iterative optimization of the PES parameters using experimental data. In this work, we propose such a method applied to tetrahedral AB{sub 4} molecules for which a use of high symmetry is crucial for vibrational calculations. A symmetry-adapted contracted angular basis set for six redundant angles is introduced. Simple formulas using this basis set for explicit calculation of the angular matrix elements of KEO and PES are reported. The symmetric form (six redundant angles) of vibrational KEO without the sin(q){sup ?2} type singularity is derived. The efficient recursive algorithm based on the tensorial formalism is used for the calculation of vibrational matrix elements. A good basis set convergence for the calculations of vibrational levels of the CH{sub 4} molecule is demonstrated.

  6. Advantages of isothermal titration calorimetry for xylanase kinetics in comparison to chemical-reducing-end assays.

    PubMed

    Baumann, Martin J; Murphy, Leigh; Lei, Nina; Krogh, Kristian B R M; Borch, Kim; Westh, Peter

    2011-03-01

    In lignocellulosic raw materials for biomass conversion, hemicelluloses constitute a substantial fraction, with xylan being the primary part. Although many pretreatments reduce the amount or change the distribution of xylan, it is important to degrade residual xylan so as to improve the overall yield. Typically, xylanase reaction rates are measured in stopped assays by chemical quantification of the reducing ends. With isothermal titration calorimetry (ITC), the heat flow of the hydrolysis can be measured in continuous fashion, with the reaction rate being directly proportional to the heat flow. Reaction enthalpies for carbohydrate hydrolysis are typically below 5kJ/mol, which is the limiting factor for straight forward calorimetric quantification of enzymatic reaction rates using current ITC technology. To increase the apparent reaction enthalpy, we employed a subsequent oxidation of hydrolysis products by carbohydrate oxidase and catalase. Here we show that the coupled assay with carbohydrate oxidase and catalase can be used to measure enzyme kinetics of a GH10 xylanase from Aspergillus aculeatus on birch xylan and wheat arabinoxylan. Results are discussed in the light of a critical analysis of the sensitivity of four chemical-reducing-end quantification methods using well-characterized substrates. PMID:21074510

  7. The Quantum-Kinetic Chemical Reaction Model for Navier-Stokes Codes

    NASA Astrophysics Data System (ADS)

    Gallis, Michael A.; Wagnild, Ross M.; Torczynski, John R.

    2013-11-01

    The Quantum-Kinetic chemical reaction model of Bird is formulated as a non-equilibrium chemical reaction model for Navier-Stokes codes. The model is based solely on thermophysical, molecular-level information and is capable of reproducing measured equilibrium reaction rates without using any experimentally measured reaction-rate information. The model recognizes the principal role of vibrational energy in overcoming the reaction energy threshold. The effect of rotational non-equilibrium is introduced as a perturbation to the effect of vibrational non-equilibrium. Since the model uses only molecular-level properties, it is inherently able to predict reaction rates for arbitrary non-equilibrium conditions. This ability is demonstrated in the context of both Navier-Stokes and DSMC codes. Sandia National Laboratories is a multi-program laboratory managed and operated by Sandia Corporation, a wholly owned subsidiary of Lockheed Martin Corporation, for the U.S. Department of Energy's National Nuclear Security Administration under contract DE-AC04-94AL85000.

  8. Chemical kinetic model of hydrocarbon generation, expulsion, and destruction applied to the Maracaibo basin, Venezuela

    SciTech Connect

    Sweeney, J.J.; Braun, R.L.; Burnham, A.K.

    1995-10-01

    This paper describes the development and application of a compositional chemical model of hydrocarbon generation, expulsion,a nd destruction for the Cretaceous La Luna Formation source rock of the Maraciabo basin, Venezuela. Applications include both laboratory and geological settings. Laboratory pyrolysis experiments were used to study bulk oil generation, expulsion, and associated changes in composition of the kerogen, extractable organic matter, and expelled and unexpelled hydrocarbons. The laboratory experiments were also used to determine kinetic parameters to quantitatively describe organic reactions, via a computer model that also includes simulation of pressure-driven primary expulsion, over widely varying conditions. We show that the chemical model accuratley simulates the experimental results. Thermal history models for wells in the Maraciabo basin were used to simulate hydrocarbon generation and pore pressure development in the La Luna Formation and expulsion into nearby Cretaceous reservoirs. Results of the modeling indicate that both compaction disequilibrium and organic maturation play important roles in the development of excess pore pressure in the La Luna Formation. The model simulation of the variation of indicators such as Rock-Eval parameters and extract and oil compositions shows generally good agreement with measurements from remaining kerogen, oils, and extracts recovered from the La Luna Formation and from nearby Cretaceous reservoirs.

  9. First principle chemical kinetics in zeolites: the methanol-to-olefin process as a case study.

    PubMed

    Van Speybroeck, Veronique; De Wispelaere, Kristof; Van der Mynsbrugge, Jeroen; Vandichel, Matthias; Hemelsoet, Karen; Waroquier, Michel

    2014-11-01

    To optimally design next generation catalysts a thorough understanding of the chemical phenomena at the molecular scale is a prerequisite. Apart from qualitative knowledge on the reaction mechanism, it is also essential to be able to predict accurate rate constants. Molecular modeling has become a ubiquitous tool within the field of heterogeneous catalysis. Herein, we review current computational procedures to determine chemical kinetics from first principles, thus by using no experimental input and by modeling the catalyst and reacting species at the molecular level. Therefore, we use the methanol-to-olefin (MTO) process as a case study to illustrate the various theoretical concepts. This process is a showcase example where rational design of the catalyst was for a long time performed on the basis of trial and error, due to insufficient knowledge of the mechanism. For theoreticians the MTO process is particularly challenging as the catalyst has an inherent supramolecular nature, for which not only the Brnsted acidic site is important but also organic species, trapped in the zeolite pores, must be essentially present during active catalyst operation. All these aspects give rise to specific challenges for theoretical modeling. It is shown that present computational techniques have matured to a level where accurate enthalpy barriers and rate constants can be predicted for reactions occurring at a single active site. The comparison with experimental data such as apparent kinetic data for well-defined elementary reactions has become feasible as current computational techniques also allow predicting adsorption enthalpies with reasonable accuracy. Real catalysts are truly heterogeneous in a space- and time-like manner. Future theory developments should focus on extending our view towards phenomena occurring at longer length and time scales and integrating information from various scales towards a unified understanding of the catalyst. Within this respect molecular dynamics methods complemented with additional techniques to simulate rare events are now gradually making their entrance within zeolite catalysis. Recent applications have already given a flavor of the benefit of such techniques to simulate chemical reactions in complex molecular environments. PMID:25054453

  10. The addition reaction between silylene and ethyne: further isotope studies, pressure dependence studies, and quantum chemical calculations.

    PubMed

    Becerra, Rosa; Cannady, J Pat; Dormer, Guy; Walsh, Robin

    2008-09-18

    Time-resolved kinetic studies of the reaction of dideutero-silylene, SiD 2, generated by laser flash photolysis of phenylsilane-d 3, have been carried out to obtain rate constants for its bimolecular reaction with C 2H 2. The reaction was studied in the gas phase over the pressure range 1-100 Torr in SF 6 bath gas, at five temperatures in the range 297-600 K. The second-order rate constants obtained by extrapolation to the high-pressure limits at each temperature fitted the Arrhenius equation log( k (infinity)/cm (3) molecule (-1) s (-1)) = (-10.05 +/- 0.05) + (3.43 +/- 0.36 kJ mol (-1))/ RT ln 10. The rate constants were used to obtain a comprehensive set of isotope effects by comparison with earlier obtained rate constants for the reactions of SiH 2 with C 2H 2 and C 2D 2. Additionally, pressure-dependent rate constants for the reaction of SiH 2 with C 2H 2 in the presence of He (1-100 Torr) were obtained at 300, 399, and 613 K. Quantum chemical (ab initio) calculations of the SiC 2H 4 reaction system at the G3 level support the initial formation of silirene, which rapidly isomerizes to ethynylsilane as the major pathway. Reversible formation of vinylsilylene is also an important process. The calculations also indicate the involvement of several other intermediates, not previously suggested in the mechanism. RRKM calculations are in semiquantitative agreement with the pressure dependences and isotope effects suggested by the ab initio calculations, but residual discrepancies suggest the possible involvement of the minor reaction channel, SiH 2 + C 2H 2 --> Si( (3)P 1) + C 2H 4. The results are compared and contrasted with previous studies of this reaction system. PMID:18714973

  11. MP2 calculation of (77) Se NMR chemical shifts taking into account relativistic corrections.

    PubMed

    Rusakov, Yury Yu; Rusakova, Irina L; Krivdin, Leonid B

    2015-07-01

    The main factors affecting the accuracy and computational cost of the Second-order Mller-Plesset perturbation theory (MP2) calculation of (77) Se NMR chemical shifts (methods and basis sets, relativistic corrections, and solvent effects) are addressed with a special emphasis on relativistic effects. For the latter, paramagnetic contribution (390-466?ppm) dominates over diamagnetic term (192-198?ppm) resulting in a total shielding relativistic correction of about 230-260?ppm (some 15% of the total values of selenium absolute shielding constants). Diamagnetic term is practically constant, while paramagnetic contribution spans over 70-80?ppm. In the (77) Se NMR chemical shifts scale, relativistic corrections are about 20-30?ppm (some 5% of the total values of selenium chemical shifts). Solvent effects evaluated within the polarizable continuum solvation model are of the same order of magnitude as relativistic corrections (about 5%). For the practical calculations of (77) Se NMR chemical shifts of the medium-sized organoselenium compounds, the most efficient computational protocols employing relativistic Dyall's basis sets and taking into account relativistic and solvent corrections are suggested. The best result is characterized by a mean absolute error of 17?ppm for the span of (77) Se NMR chemical shifts reaching 2500?ppm resulting in a mean absolute percentage error of 0.7%. PMID:25998325

  12. Quantum chemical calculation of the equilibrium structures of small metal atom clusters

    NASA Technical Reports Server (NTRS)

    Kahn, L. R.

    1981-01-01

    A decomposition of the molecular energy is presented that is motivated by the atom superposition and electron delocalization physical model of chemical binding. The energy appears in physically transparent form consisting of a classical electrostatic interaction, a zero order two electron exchange interaction, a relaxation energy, and the atomic energies. Detailed formulae are derived in zero and first order of approximation. The formulation extends beyond first order to any chosen level of approximation leading, in principle, to the exact energy. The structure of this energy decomposition lends itself to the fullest utilization of the solutions to the atomic sub problems to simplify the calculation of the molecular energy. If nonlinear relaxation effects remain minor, the molecular energy calculation requires at most the calculation of two center, two electron integrals. This scheme thus affords the prospects of substantially reducing the computational effort required for the calculation of molecular energies.

  13. A Detailed Chemical Kinetic Reaction Mechanism for Oxidation of Four Small Alkyl Esters in Laminar Premixed Flames

    SciTech Connect

    Westbrook, C K; Pitz, W J; Westmoreland, P R; Dryer, F L; Chaos, M; Osswald, P; Kohse-Hoinghaus, K; Cool, T A; Wang, J; Yang, B; Hansen, N; Kasper, T

    2008-02-08

    A detailed chemical kinetic reaction mechanism has been developed for a group of four small alkyl ester fuels, consisting of methyl formate, methyl acetate, ethyl formate and ethyl acetate. This mechanism is validated by comparisons between computed results and recently measured intermediate species mole fractions in fuel-rich, low pressure, premixed laminar flames. The model development employs a principle of similarity of functional groups in constraining the H atom abstraction and unimolecular decomposition reactions in each of these fuels. As a result, the reaction mechanism and formalism for mechanism development are suitable for extension to larger oxygenated hydrocarbon fuels, together with an improved kinetic understanding of the structure and chemical kinetics of alkyl ester fuels that can be extended to biodiesel fuels. Variations in concentrations of intermediate species levels in these flames are traced to differences in the molecular structure of the fuel molecules.

  14. Shock tube study of the fuel structure effects on the chemical kinetic mechanisms responsible for soot formation, part 2

    NASA Technical Reports Server (NTRS)

    Frenklach, M.; Clary, D. W.; Ramachandra, M. K.

    1985-01-01

    Soot formation in oxidation of allene, 1,3-butadiene, vinylacetylene and chlorobenzene and in pyrolysis of ethylene, vinylacetylene, 1-butene, chlorobenzene, acetylen-hydrogen, benzene-acetylene, benzene-butadiene and chlorobenzene-acetylene argon-diluted mixtures was studied behind reflected shock waves. The results are rationalized within the framework of the conceptual models. It is shown that vinylacetylene is much less sooty than allene, which indicates that conjugation by itself is not a sufficient factor for determining the sooting tendency of a molecule. Structural reactivity in the context of the chemical kinetics is the dominant factor in soot formation. Detailed chemical kinetic modeling of soot formation in pyrolysis of acetylene is reported. The main mass growth was found to proceed through a single dominant route composed of conventional radical reactions. The practically irreversible formation reactions of the fused polycyclic aromatics and the overshoot by hydrogen atom over its equilibrium concentration are the g-driving kinetic forces for soot formation.

  15. NASA Data Evaluation: Chemical Kinetics and Photochemical Data for Use in Atmospheric Studies

    NASA Astrophysics Data System (ADS)

    Burkholder, J. B.; Sander, S. P.; Abbatt, J.; Barker, J. R.; Fleming, E. L.; Friedl, R.; Huie, R. E.; Jackman, C. H.; Kolb, C. E., Jr.; Kurylo, M. J., III; Orkin, V. L.; Wine, P. H.

    2014-12-01

    Atmospheric chemistry models must include a large number of processes to accurately describe the temporal and spatial behavior of atmospheric composition. They require a wide range of chemical and physical data (parameters) that describe elementary gas-phase and heterogeneous processes. The review and evaluation of chemical and physical data has, therefore, played an important role in the development of chemical models and in their use in environmental assessment activities. The NASA data panel was originally established in 1977 by the NASA Upper Atmosphere Research Program Office to provide a critical evaluation of kinetic and photochemical data for use in laboratory studies and in atmospheric modeling of stratospheric ozone. Today, the NASA data panel evaluations have a broader atmospheric focus and include Ox, O(1D), singlet O2, HOx, NOx, Organic, FOx, ClOx, BrOx, IOx, SOx, and Na reactions, three-body reactions, equilibrium constants, photochemistry, aqueous chemistry, heterogeneous chemistry and processes, and thermodynamic parameters. The 2011 evaluation (JPL 10-6 available at http://jpldataeval.jpl.nasa.gov.) includes the comprehensive coverage of ~670 bimolecular reactions, 75 three-body reactions, 24 equilibrium constants, 215 photochemical species, 355 aqueous and heterogeneous processes, thermodynamic parameters for 590 species, and over 4000 literature citations. Each evaluation includes (1) recommended values (e.g. rate coefficients, absorption cross sections, and uptake coefficients) with estimated uncertainty factors and (2) a note describing the available experimental and theoretical data and explanation for the recommendation. As new studies have become available over the years the recommendations are critically reviewed and updated as warranted (the next evaluation is scheduled for release in early 2015). This presentation provides an overview of the NASA data panel evaluation process and the methodology used to estimate uncertainties. Examples on the current use of a 2-D model to help set evaluation priorities will be illustrated. Evaluation users are encouraged to discuss/suggest potential improvements in analysis and the communication of the evaluation results to the modeling community.

  16. Combustion Research Program: Flame studies, laser diagnostics, and chemical kinetics. Final report, 15 July 1987--15 June 1992

    SciTech Connect

    Crosley, D.R.

    1992-09-01

    This project has comprised laser flame diagnostic experiments, chemical kinetics measurements, and low pressure flame studies. Collisional quenching has been investigated for several systems: the OH radical, by H{sub 2}0 in low pressure flames; the rotational level dependence for NH, including measurements to J=24; and of NH{sub 2} at room temperature. Transition probability measurements for bands involving v{prime} = 2 and 3 of the A-X system of OH were measured in a flame. Laser-induced fluorescence of vinyl radicals was unsuccessfully attempted. RRKM and transition state theory calculations were performed on the OH + C{sub 2}H{sub 4} reaction, on the t-butyl radical + HX; and transition state theory has been applied to a series of bond scission reactions. OH concentrations were measured quantitatively in low pressure H{sub 2}/N{sub 2}O and H{sub 2}/O{sub 2} flames, and the ability to determine spatially precise flame temperatures accurately using OH laser-induced fluorescence was studied.

  17. Non-Isothermic Chemical Kinetics in the Undergraduate Laboratory: Arrhenius Parameters from Experiments with Hyperbolic Temperature Variation.

    ERIC Educational Resources Information Center

    Salvador, F.; And Others

    1984-01-01

    Describes a method which adapts itself to the characteristics of the kinetics of a chemical reaction in solution, enabling students to determine the Arrhenius parameters with satisfactory accuracy by means of a single non-isothermic experiment. Both activation energy and the preexponential factor values can be obtained by the method. (JN)

  18. A Microscale Approach to Chemical Kinetics in the General Chemistry Laboratory: The Potassium Iodide Hydrogen Peroxide Iodine-Clock Reaction

    ERIC Educational Resources Information Center

    Sattsangi, Prem D.

    2011-01-01

    A microscale laboratory for teaching chemical kinetics utilizing the iodine clock reaction is described. Plastic pipets, 3 mL volume, are used to store and deliver precise drops of reagents and the reaction is run in a 24 well plastic tray using a total 60 drops of reagents. With this procedure, students determine the rate of reaction and the…

  19. Is Case-Based Learning an Effective Teaching Strategy to Challenge Students' Alternative Conceptions regarding Chemical Kinetics?

    ERIC Educational Resources Information Center

    Yalcinkaya, Eylem; Tastan-Kirik, Ozgecan; Boz, Yezdan; Yildiran, Demet

    2012-01-01

    Background: Case-based learning (CBL) is simply teaching the concept to the students based on the cases. CBL involves a case, which is a scenario based on daily life, and study questions related to the case, which allows students to discuss their ideas. Chemical kinetics is one of the most difficult concepts for students in chemistry. Students…

  20. A Microscale Approach to Chemical Kinetics in the General Chemistry Laboratory: The Potassium Iodide Hydrogen Peroxide Iodine-Clock Reaction

    ERIC Educational Resources Information Center

    Sattsangi, Prem D.

    2011-01-01

    A microscale laboratory for teaching chemical kinetics utilizing the iodine clock reaction is described. Plastic pipets, 3 mL volume, are used to store and deliver precise drops of reagents and the reaction is run in a 24 well plastic tray using a total 60 drops of reagents. With this procedure, students determine the rate of reaction and the

  1. Promoting Higher-Order Thinking Skills: Uses of Mathcad and Classical Chemical Kinetics To Foster Student Development.

    ERIC Educational Resources Information Center

    Zielinski, Theresa Julia

    1995-01-01

    Explains how the Mathcad computer program can promote the development of higher-order chemical thinking skills of students taking junior-level physical chemistry courses. The kinetics of first-order series and reversible reactions is used as an example of how this can be implemented within an interactive laboratory or lecture format. (PVD)

  2. Is Case-Based Learning an Effective Teaching Strategy to Challenge Students' Alternative Conceptions regarding Chemical Kinetics?

    ERIC Educational Resources Information Center

    Yalcinkaya, Eylem; Tastan-Kirik, Ozgecan; Boz, Yezdan; Yildiran, Demet

    2012-01-01

    Background: Case-based learning (CBL) is simply teaching the concept to the students based on the cases. CBL involves a case, which is a scenario based on daily life, and study questions related to the case, which allows students to discuss their ideas. Chemical kinetics is one of the most difficult concepts for students in chemistry. Students

  3. Calculation of NMR chemical shifts. 7. Gauge-invariant INDO method

    NASA Astrophysics Data System (ADS)

    Fukui, H.; Miura, K.; Hirai, A.

    A gauge-invariant INDO method based on the coupled Hartree-Fuck perturbation theory is presented and applied to the calculation of 1H and 13C chemical shifts of hydrocarbons including ring compounds. Invariance of the diamagnetic and paramagnetic shieldings with respect to displacement of the coordinate origin is discussed. Comparison between calculated and experimental results exhibits fairly good agreement, provided that the INDO parameters of Ellis et al. (J. Am. Chem. Soc.94, 4069 (1972)) are used with the inclusion of all multicenter one-electron integrals.

  4. Projected and hidden Markov models for calculating kinetics and metastable states of complex molecules

    NASA Astrophysics Data System (ADS)

    Noé, Frank; Wu, Hao; Prinz, Jan-Hendrik; Plattner, Nuria

    2013-11-01

    Markov state models (MSMs) have been successful in computing metastable states, slow relaxation timescales and associated structural changes, and stationary or kinetic experimental observables of complex molecules from large amounts of molecular dynamics simulation data. However, MSMs approximate the true dynamics by assuming a Markov chain on a clusters discretization of the state space. This approximation is difficult to make for high-dimensional biomolecular systems, and the quality and reproducibility of MSMs has, therefore, been limited. Here, we discard the assumption that dynamics are Markovian on the discrete clusters. Instead, we only assume that the full phase-space molecular dynamics is Markovian, and a projection of this full dynamics is observed on the discrete states, leading to the concept of Projected Markov Models (PMMs). Robust estimation methods for PMMs are not yet available, but we derive a practically feasible approximation via Hidden Markov Models (HMMs). It is shown how various molecular observables of interest that are often computed from MSMs can be computed from HMMs/PMMs. The new framework is applicable to both, simulation and single-molecule experimental data. We demonstrate its versatility by applications to educative model systems, a 1 ms Anton MD simulation of the bovine pancreatic trypsin inhibitor protein, and an optical tweezer force probe trajectory of an RNA hairpin.

  5. Influence of Chemical Kinetics on Postcolumn Reaction in a Capillary Taylor Reactor with Catechol Analytes and Photoluminescence Following Electron Transfer

    PubMed Central

    Jung, Moon Chul; Weber, Stephen G.

    2006-01-01

    Postcolumn derivatization reactions can enhance detector sensitivity and selectivity, but their successful combination with capillary liquid chromatography has been limited because of the small peak volumes in capillary chromatography. A capillary Taylor reactor (CTR), developed in our laboratory, provides simple and effective mixing and reaction in a 25-?m-radius postcolumn capillary. Homogenization of reactant streams occurs by radial diffusion, and a chemical reaction follows. Three characteristic times for a given reaction process can be predicted using simple physical and chemical parameters. Two of these times are the homogenization time, which governs how long it takes the molecules in the analyte and reagent streams to mix, and the reaction time, which governs how long the molecules in a homogeneous solution take to react. The third characteristic time is an adjustment to the reaction time called the start time, which represents an estimate of the average time the analyte stream spends without exposure to reagent. In this study, laser-induced fluorescence monitored the extent of the postcolumn reaction (reduction of Os(bpy)33+ by analyte to the photoluminescent Os(bpy)32+) in a CTR. The reaction time depends on the reaction rates. Analysis of product versus time data yielded second-order reaction rate constants between the PFET reagent, tris(2,2?-bipyridine)osmium, and standards ((ferrocenylmethyl)trimethylammonium cation and p-hydroquinone) or catechols (dopamine, epinephrine, norepinephrine, 3, 4-dihydroxyphenylacetic acid. The extent of the reactions in a CTR were then predicted from initial reaction conditions and compared to experimental results. Both the theory and experimental results suggested the reactions of catechols were generally kinetically controlled, while those of the standards were controlled by mixing time (12 s). Thus, the extent of homogenization can be monitored in a CTR using the relatively fast reaction of the reagent and p-hydroquinone. Kinetically controlled reactions of catechols, however, could be also completed in a reasonable time at increased reagent concentration. A satisfactory reactor, operating at 1.7 cm/s (2 ?L/min) velocity with solutes having diffusion coefficients in the 5 10?6 cm2/s range, can be constructed from 8.0 cm of 25-?m-radius capillary. Slower reactions require longer reaction times, but theoretical calculations expect that a CTR does not broaden a chromatographic peak (N = 14 000) from a 100-?m-capillary chromatography column by 10% if the pseudo-first-order rate constant is larger than 0.1 s?1. PMID:15858975

  6. SIML: a fast SIMD algorithm for calculating LINGO chemical similarities on GPUs and CPUs.

    PubMed

    Haque, Imran S; Pande, Vijay S; Walters, W Patrick

    2010-04-26

    LINGOs are a holographic measure of chemical similarity based on text comparison of SMILES strings. We present a new algorithm for calculating LINGO similarities amenable to parallelization on SIMD architectures (such as GPUs and vector units of modern CPUs). We show that it is nearly 3x as fast as existing algorithms on a CPU, and over 80x faster than existing methods when run on a GPU. PMID:20218693

  7. Theoretical study on chemical vapor transport of ZnS-I 2 system. Part I. Kinetic process and one-dimensional model

    NASA Astrophysics Data System (ADS)

    Zuo, Ran; Wang, Wenkui

    2002-03-01

    In this two-part paper, mass transport coupled with chemical reactions in closed ampoule chemical vapor transport (CVT) of the ZnS-I 2 system is theoretically studied and numerically modeled. Part I focuses on the kinetic process of equilibrium chemical reactions and one-dimensional mass transport for the ZnS-I 2 system, which is preliminary to the two-dimensional numerical modeling of the transport process in Part II. When equilibrium chemical reactions at the two ends of an ampoule are assumed, partial pressures and mass fractions of the various species near the source and crystal surfaces are determined. By relating the diffusional mass transfer with stoichiometric chemical reactions at the interface, the velocity boundary condition for the two ends of the ampoule is established; the transport rate expression for one-dimensional diffusion/advection process is further derived. The velocity boundary condition and transport rate thus derived are applicable to general CVT and PVT processes, from simple one-component sublimation to complicated multi-component, multi-reaction processes, provided that chemical equilibrium for each process can be assumed. The theoretical values of the transport rate are calculated and compared with the experimental literature values under the same conditions for the ZnS-I 2 system. Good agreement between theoretical and experimental values is achieved for diffusion-dominated regime.

  8. The chemical mechanism generation programme CHEMATAPart 2: Comparison of four chemical mechanisms for mesoscale calculation of atmospheric pollution

    NASA Astrophysics Data System (ADS)

    Junier, Martin; Kirchner, Frank; Clappier, Alain; van den Bergh, Hubert

    RACM and the three new mechanisms described in the companion paper (the extended, reduced and small mechanisms) are implemented in a mesoscale 3D transport-chemistry model (TAPOM for Transport and Air POllution Model) in order to find an optimum between calculation speed and mechanism detail. The 3D tests are performed in the domains of Milan, Mexico City and Bogota. The three domains present different chemical and meteorological conditions, which are used to test the behaviour of the four mechanisms in different situations. Three emission scenarios are simulated: the whole emission inventory, 35% NO x reduction and 35% VOC reduction. The comparison of the four mechanisms is performed for O 3, NO x , aldehydes and peroxy radicals. Only the small mechanism presents significant differences in ozone concentrations. RO 2 and aldehyde differences are important with the reduced and the small mechanism, which share a new RO 2 parameterisation. Compared to RACM, the small mechanism shows very large differences for aldehydes and RO 2. The extended mechanism and RACM show almost the same ozone response to emissions reduction strategies, and the reduced mechanism presents differences in the range of 10% with respect to the extended mechanisms. The small mechanism is found to be the most VOC sensitive and therefore presents very different results from the other when emissions are modified. The results indicate a strong restriction to the use of the small mechanism in 3D models. Finally, the calculation time required for the calculation of a simulation with the four mechanisms is compared.

  9. Fragment quantum chemical approach to geometry optimization and vibrational spectrum calculation of proteins.

    PubMed

    Liu, Jinfeng; Zhang, John Z H; He, Xiao

    2016-01-21

    Geometry optimization and vibrational spectra (infrared and Raman spectra) calculations of proteins are carried out by a quantum chemical approach using the EE-GMFCC (electrostatically embedded generalized molecular fractionation with conjugate caps) method (J. Phys. Chem. A, 2013, 117, 7149). The first and second derivatives of the EE-GMFCC energy are derived and employed in geometry optimization and vibrational frequency calculations for several test systems, including a polypeptide ((GLY)6), an ?-helix (AKA), a ?-sheet (Trpzip2) and ubiquitin (76 residues with 1231 atoms). Comparison of the present results with those obtained from full system QM (quantum mechanical) calculations shows that the EE-GMFCC approach can give accurate molecular geometries, vibrational frequencies and vibrational intensities. The EE-GMFCC method is also employed to simulate the amide I vibration of proteins, which has been widely used for the analysis of peptide and protein structures, and the results are in good agreement with the experimental observations. PMID:26686896

  10. Autoignition of toluene reference fuels at high pressures modeled with detailed chemical kinetics

    SciTech Connect

    Andrae, J.C.G.; Bjoernbom, P.; Cracknell, R.F.; Kalghatgi, G.T.

    2007-04-15

    A detailed chemical kinetic model for the autoignition of toluene reference fuels (TRF) is presented. The toluene submechanism added to the Lawrence Livermore Primary Reference Fuel (PRF) mechanism was developed using recent shock tube autoignition delay time data under conditions relevant to HCCI combustion. For two-component fuels the model was validated against recent high-pressure shock tube autoignition delay time data for a mixture consisting of 35% n-heptane and 65% toluene by liquid volume. Important features of the autoignition of the mixture proved to be cross-acceleration effects, where hydroperoxy radicals produced during n-heptane oxidation dramatically increased the oxidation rate of toluene compared to the case when toluene alone was oxidized. Rate constants for the reaction of benzyl and hydroperoxyl radicals previously used in the modeling of the oxidation of toluene alone were untenably high for modeling of the mixture. To model both systems it was found necessary to use a lower rate and introduce an additional branching route in the reaction between benzyl radicals and O{sub 2}. Good agreement between experiments and predictions was found when the model was validated against shock tube autoignition delay data for gasoline surrogate fuels consisting of mixtures of 63-69% isooctane, 14-20% toluene, and 17% n-heptane by liquid volume. Cross reactions such as hydrogen abstractions between toluene and alkyl and alkylperoxy radicals and between the PRF were introduced for completion of chemical description. They were only of small importance for modeling autoignition delays from shock tube experiments, even at low temperatures. A single-zone engine model was used to evaluate how well the validated mechanism could capture autoignition behavior of toluene reference fuels in a homogeneous charge compression ignition (HCCI) engine. The model could qualitatively predict the experiments, except in the case with boosted intake pressure, where the initial temperature had to be increased significantly in order to predict the point of autoignition. (author)

  11. Gas-phase reaction between calcium monocation and fluoromethane: Analysis of the potential energy hypersurface and kinetics calculations

    SciTech Connect

    Varela-Alvarez, Adrian; Sordo, Jose A.; Rayon, V. M.; Redondo, P.; Barrientos, C.

    2009-10-14

    The gas-phase reaction between calcium monocation and fluoromethane: Ca{sup +}+CH{sub 3}F{yields}CaF{sup +}+CH{sub 3} was theoretically analyzed. The potential energy hypersurface was explored by using density functional theory methodology with different functionals and Pople's, Dunning's, Ahlrichs', and Stuttgart-Dresden basis sets. Kinetics calculations (energy and total angular momentum resolved microcanonical variational/conventional theory) were accomplished. The theoretically predicted range for the global kinetic rate constant values at 295 K (7.2x10{sup -11}-5.9x10{sup -10} cm{sup 3} molecule{sup -1} s{sup -1}) agrees reasonably well with the experimental value at the same temperature [(2.6{+-}0.8)x10{sup -10} cm{sup 3} molecule{sup -1} s{sup -1}]. Explicit consideration of a two transition state model, where the formation of a weakly bounded prereactive complex is preceded by an outer transition state (entrance channel) and followed by an inner transition state connecting with a second intermediate that finally leads to products, is mandatory. Experimental observations on the correlation, or lack of correlation, between reaction rate constants and second ionization energies of the metal might well be rationalized in terms of this two transition state model.

  12. Effect of excluded volume on 2D discrete stochastic chemical kinetics

    PubMed Central

    Lampoudi, Sotiria; Gillespie, Dan T.; Petzold, Linda R.

    2009-01-01

    The Stochastic Simulation Algorithm (SSA) is widely used in the discrete stochastic simulation of chemical kinetics. The propensity functions which play a central role in this algorithm have been derived under the point-molecule assumption, i.e., that the total volume of the molecules is negligible compared to the volume of the container. It has been shown analytically that for a one dimensional system and the A+A reaction, when the point molecule assumption is relaxed, the propensity function need only be adjusted by replacing the total volume of the system with the free volume of the system. In this paper we investigate via numerical simulations the impact of relaxing the point-molecule assumption in two dimensions. We find that the distribution of times to the first collision is close to exponential in most cases, so that the formalism of the propensity function is still applicable. In addition, we find that the area excluded by the molecules in two dimensions is usually higher than their close-packed area, requiring a larger correction to the propensity function than just the replacement of the total volume by the free volume. PMID:19360139

  13. The interplay between discrete noise and nonlinear chemical kinetics in a signal amplification cascade

    NASA Astrophysics Data System (ADS)

    Lan, Yueheng; Papoian, Garegin A.

    2006-10-01

    We used various analytical and numerical techniques to elucidate signal propagation in a small enzymatic cascade which is subjected to external and internal noises. The nonlinear character of catalytic reactions, which underlie protein signal transduction cascades, renders stochastic signaling dynamics in cytosol biochemical networks distinct from the usual description of stochastic dynamics in gene regulatory networks. For a simple two-step enzymatic cascade which underlies many important protein signaling pathways, we demonstrated that the commonly used techniques such as the linear noise approximation and the Langevin equation become inadequate when the number of proteins becomes too low. Consequently, we developed a new analytical approximation, based on mixing the generating function and distribution function approaches, to the solution of the master equation that describes nonlinear chemical signaling kinetics for this important class of biochemical reactions. Our techniques work in a much wider range of protein number fluctuations than the methods used previously. We found that under certain conditions the burst phase noise may be injected into the downstream signaling network dynamics, resulting possibly in unusually large macroscopic fluctuations. In addition to computing first and second moments, which is the goal of commonly used analytical techniques, our new approach provides the full time-dependent probability distributions of the colored non-Gaussian processes in a nonlinear signal transduction cascade.

  14. A path flux analysis method for the reduction of detailed chemical kinetic mechanisms

    SciTech Connect

    Sun, Wenting; Ju, Yiguang; Chen, Zheng; Gou, Xiaolong

    2010-07-15

    A direct path flux analysis (PFA) method for kinetic mechanism reduction is proposed and validated by using high temperature ignition, perfect stirred reactors, and steady and unsteady flame propagations of n-heptane and n-decane/air mixtures. The formation and consumption fluxes of each species at multiple reaction path generations are analyzed and used to identify the important reaction pathways and the associated species. The formation and consumption path fluxes used in this method retain flux conservation information and are used to define the path indexes for the first and the second generation reaction paths related to a targeted species. Based on the indexes of each reaction path for the first and second generations, different sized reduced chemical mechanisms which contain different number of species are generated. The reduced mechanisms of n-heptane and n-decane obtained by using the present method are compared to those generated by the direct relation graph (DRG) method. The reaction path analysis for n-decane is conducted to demonstrate the validity of the present method. The comparisons of the ignition delay times, flame propagation speeds, flame structures, and unsteady spherical flame propagation processes showed that with either the same or significantly less number of species, the reduced mechanisms generated by the present PFA are more accurate than that of DRG in a broad range of initial pressures and temperatures. The method is also integrated with the dynamic multi-timescale method and a further increase of computation efficiency is achieved. (author)

  15. Temperature rule for the speed of sound in water: a chemical kinetics model

    PubMed

    Okazaki

    2000-09-15

    Water forms three-dimensional polymeric structures due to the influence of hydrogen bonds and is fundamentally different from other substances. One of the simplest ways to analyze the structure of water in any system, such as hydration, is to measure the degree of compressibility, which can be determined from the speed of sound, by making use of the physical laws established by Newton and later perfected by Laplace. Although the speed of sound is strongly dependent on the temperature of a liquid, Laplace's equation does not refer to temperature in any of its terms. It is necessary, therefore, to determine the degree of temperature dependency. However, only approximate expressions of a fifth-order polynomial have been reported so far in the literature. In this paper, a universal method for describing the speed of sound from the perspective of physicochemical reaction kinetics is presented. It is shown that the speed of sound U [ms(-1)] changes with temperature T [K] according to a thermodynamically-derived formula given as U= exp(-A/T-BlnT+C) and that the motion and propagation phenomena of sound energy can also be regarded as chemical reactions. PMID:11039524

  16. A reduced chemical kinetic model for IC engine combustion simulations with primary reference fuels

    SciTech Connect

    Ra, Youngchul; Reitz, Rolf D.

    2008-12-15

    A reduced chemical kinetic mechanism for the oxidation of primary reference fuel (PRF) has been developed and applied to model internal combustion engines. Starting from an existing reduced reaction mechanism for n-heptane oxidation, a new reduced n-heptane mechanism was generated by including an additional five species and their relevant reactions, by updating the reaction rate constants of several reactions pertaining to oxidation of carbon monoxide and hydrogen, and by optimizing reaction rate constants of selected reactions. Using a similar approach, a reduced mechanism for iso-octane oxidation was built and combined with the n-heptane mechanism to form a PRF mechanism. The final version of the PRF mechanism consists of 41 species and 130 reactions. Validation of the present PRF mechanism was performed with measurements from shock tube tests, and HCCI and direct injection engine experiments available in the literature. The results show that the present PRF mechanism gives reliable performance for combustion predictions, as well as computational efficiency improvements for multidimensional CFD simulations. (author)

  17. Modeling miRNA-mRNA interactions: fitting chemical kinetics equations to microarray data

    PubMed Central

    2014-01-01

    Background The miRNAs are small non-coding RNAs of roughly 22 nucleotides in length, which can bind with and inhibit protein coding mRNAs through complementary base pairing. By degrading mRNAs and repressing proteins, miRNAs regulate the cell signaling and cell functions. This paper focuses on innovative mathematical techniques to model gene interactions by algorithmic analysis of microarray data. Our goal was to elucidate which mRNAs were actually degraded or had their translation inhibited by miRNAs belonging to a very large pool of potential miRNAs. Results We proposed two chemical kinetics equations (CKEs) to model the interactions between miRNAs, mRNAs and the associated proteins. In order to reduce computational cost, we used a non linear profile clustering method named minimal net clustering and efficiently condensed the large set of expression profiles observed in our microarray data sets. We determined unknown parameters of the CKE models by minimizing the discrepancy between model prediction and data, using our own fast non linear optimization algorithm. We then retained only the CKE models for which the optimized fit to microarray data is of high quality and validated multiple miRNA-mRNA pairs. Conclusion The implementation of CKE modeling and minimal net clustering reduces drastically the potential set of miRNA-mRNA pairs, with a high gain for further experimental validations. The minimal net clustering also provides good miRNA candidates that have similar regulatory roles. PMID:24548346

  18. CFD analysis of municipal solid waste combustion using detailed chemical kinetic modelling.

    PubMed

    Frank, Alex; Castaldi, Marco J

    2014-08-01

    Nitrogen oxides (NO x ) emissions from the combustion of municipal solid waste (MSW) in waste-to-energy (WtE) facilities are receiving renewed attention to reduce their output further. While NO x emissions are currently 60% below allowed limits, further reductions will decrease the air pollution control (APC) system burden and reduce consumption of NH3. This work combines the incorporation of the GRI 3.0 mechanism as a detailed chemical kinetic model (DCKM) into a custom three-dimensional (3D) computational fluid dynamics (CFD) model fully to understand the NO x chemistry in the above-bed burnout zones. Specifically, thermal, prompt and fuel NO formation mechanisms were evaluated for the system and a parametric study was utilized to determine the effect of varying fuel nitrogen conversion intermediates between HCN, NH3 and NO directly. Simulation results indicate that the fuel nitrogen mechanism accounts for 92% of the total NO produced in the system with thermal and prompt mechanisms accounting for the remaining 8%. Results also show a 5% variation in final NO concentration between HCN and NH3 inlet conditions, demonstrating that the fuel nitrogen intermediate assumed is not significant. Furthermore, the conversion ratio of fuel nitrogen to NO was 0.33, revealing that the majority of fuel nitrogen forms N2. PMID:25005043

  19. Features in chemical kinetics. II. A self-emerging definition of slow manifolds

    NASA Astrophysics Data System (ADS)

    Nicolini, Paolo; Frezzato, Diego

    2013-06-01

    In the preceding paper of this series (Part I [P. Nicolini and D. Frezzato, J. Chem. Phys. 138, 234101 (2013)], 10.1063/1.4809592) we have unveiled some ubiquitous features encoded in the systems of polynomial differential equations normally applied in the description of homogeneous and isothermal chemical kinetics (mass-action law). Here we proceed by investigating a deeply related feature: the appearance of so-called slow manifolds (SMs) which are low-dimensional hyper-surfaces in the neighborhood of which the slow evolution of the reacting system occurs after an initial fast transient. Indeed a geometrical definition of SM, devoid of subjectivity, "naturally" follows in terms of a specific sub-dimensional domain embedded in the peculiar region of the concentrations phase-space that in Part I we termed as "attractiveness region." Numerical inspections on simple low-dimensional model cases are presented, including the benchmark case of Davis and Skodje [J. Chem. Phys. 111, 859 (1999)], 10.1063/1.479372 and the preliminary analysis of a simplified model mechanism of hydrogen combustion.

  20. Metal adsorption by agricultural biosorbents: Adsorption isotherm, kinetic and biosorbents chemical structures.

    PubMed

    Sadeek, Sadeek A; Negm, Nabel A; Hefni, Hassan H H; Wahab, Mostafa M Abdel

    2015-11-01

    Biosorption of Cu(II), Co(II) and Fe(III) ions from aqueous solutions by rice husk, palm leaf and water hyacinth was investigated as a function of initial pH, initial heavy metal ions concentration and treatment time. The adsorption process was examined by two adsorption isotherms: Langmuir and Freundlich isotherms. The experimental data of biosorption process were analyzed using pseudo-first order, pseudo-second order kinetic models. The equilibrium biosorption isotherms showed that the three studied biosorbents possess high affinity and sorption capacity for Cu(II), Co(II) and Fe(III) ions. Rice husk showed more efficiency than palm leaf and water hyacinth. Adsorption of Cu(II) and Co(II) was more efficient in alkaline medium (pH 9) than neutral medium due to the high solubility of metal ion complexes. The metal removal efficiency of each biosorbent was correlated to its chemical structure. DTA studies showed formation of metal complex between the biosorbents and the metal ions. The obtained results showed that the tested biosorbents are efficient and alternate low-cost biosorbent for removal of heavy metal ions from aqueous media. PMID:26282929

  1. A multiple shock tube and chemical kinetic modeling study of diethyl ether pyrolysis and oxidation.

    PubMed

    Yasunaga, K; Gillespie, F; Simmie, J M; Curran, H J; Kuraguchi, Y; Hoshikawa, H; Yamane, M; Hidaka, Y

    2010-09-01

    The pyrolysis and oxidation of diethyl ether (DEE) has been studied at pressures from 1 to 4 atm and temperatures of 900-1900 K behind reflected shock waves. A variety of spectroscopic diagnostics have been used, including time-resolved infrared absorption at 3.39 mum and time-resolved ultraviolet emission at 431 nm and absorption at 306.7 nm. In addition, a single-pulse shock tube was used to measure reactant, intermediate, and product species profiles by GC samplings at different reaction times varying from 1.2 to 1.8 ms. A detailed chemical kinetic model comprising 751 reactions involving 148 species was assembled and tested against the experiments with generally good agreement. In the early stages of reaction the unimolecular decomposition and hydrogen atom abstraction of DEE and the decomposition of the ethoxy radical have the largest influence. In separate experiments at 1.9 atm and 1340 K, it is shown that DEE inhibits the reactivity of an equimolar mixture of hydrogen and oxygen (1% of each). PMID:20690588

  2. Calculation of Ground State Rotational Populations for Kinetic Gas Homonuclear Diatomic Molecules including Electron-Impact Excitation and Wall Collisions

    SciTech Connect

    David R. Farley

    2010-08-19

    A model has been developed to calculate the ground-state rotational populations of homonuclear diatomic molecules in kinetic gases, including the effects of electron-impact excitation, wall collisions, and gas feed rate. The equations are exact within the accuracy of the cross sections used and of the assumed equilibrating effect of wall collisions. It is found that the inflow of feed gas and equilibrating wall collisions can significantly affect the rotational distribution in competition with non-equilibrating electron-impact effects. The resulting steady-state rotational distributions are generally Boltzmann for N≥3, with a rotational temperature between the wall and feed gas temperatures. The N=0,1,2 rotational level populations depend sensitively on the relative rates of electron-impact excitation versus wall collision and gas feed rates.

  3. Calculation of ground state rotational populations for kinetic gas homonuclear diatomic molecules including electron-impact excitation and wall collisions

    NASA Astrophysics Data System (ADS)

    Farley, David R.

    2010-09-01

    A model has been developed to calculate the ground state rotational populations of homonuclear diatomic molecules in kinetic gases, including the effects of electron-impact excitation, wall collisions, and gas feed rate. The equations are exact within the accuracy of the cross sections used and of the assumed equilibrating effect of wall collisions. It is found that the inflow of feed gas and equilibrating wall collisions can significantly affect the rotational distribution in competition with nonequilibrating electron-impact effects. The resulting steady-state rotational distributions are generally Boltzmann for N ≥3, with a rotational temperature between the wall and feed gas temperatures. The N =0,1,2 rotational level populations depend sensitively on the relative rates of electron-impact excitation versus wall collision and gas feed rates.

  4. Calculation of ground state rotational populations for kinetic gas homonuclear diatomic molecules including electron-impact excitation and wall collisions.

    PubMed

    Farley, David R

    2010-09-01

    A model has been developed to calculate the ground state rotational populations of homonuclear diatomic molecules in kinetic gases, including the effects of electron-impact excitation, wall collisions, and gas feed rate. The equations are exact within the accuracy of the cross sections used and of the assumed equilibrating effect of wall collisions. It is found that the inflow of feed gas and equilibrating wall collisions can significantly affect the rotational distribution in competition with nonequilibrating electron-impact effects. The resulting steady-state rotational distributions are generally Boltzmann for N≥3, with a rotational temperature between the wall and feed gas temperatures. The N=0,1,2 rotational level populations depend sensitively on the relative rates of electron-impact excitation versus wall collision and gas feed rates. PMID:20831314

  5. Relativistic DFT Calculation of (119)Sn Chemical Shifts and Coupling Constants in Tin Compounds.

    PubMed

    Bagno, Alessandro; Casella, Girolamo; Saielli, Giacomo

    2006-01-01

    The nuclear shielding and spin-spin coupling constants of (119)Sn in stannane, tetramethylstannane, methyltin halides Me4-nSnXn (X = Cl, Br, I; n = 1-3), tin halides, and some stannyl cations have been investigated computationally by DFT methods and Slater all-electron basis sets, including relativistic effects by means of the zeroth order regular approximation (ZORA) method up to spin-orbit coupling. Calculated (119)Sn chemical shifts generally correlate well with experimental values, except when several heavy halogen atoms, especially iodine, are bound to tin. In such cases, calculated chemical shifts are almost constant at the scalar (spin-free) ZORA level; only at the spin-orbit level is a good correlation, which holds for all compounds examined, attained. A remarkable "heavy-atom effect", analogous to that observed for analogous alkyl halides, is evident. The chemical shift of the putative stannyl cation (SnH3(+)) has also been examined, and it is concluded that the spectrum of the species obtained in superacids is inconsistent with a simple SnH3(+) structure; strong coordination to even weak nucleophiles such as FSO3H leads to a very satisfactory agreement. On the contrary, the calculated (119)Sn chemical shift of the trimesitylstannyl cation is in very good agreement with the experimental value. Coupling constants between (119)Sn and halogen nuclei are also well-modeled in general (taking into account the large uncertainties in the experimental values); relativistic spin-orbit effects are again quite evident. Couplings to (13)C and (1)H also fall, on the average, on the same correlation line, but individual values show a significant deviation from the expected unit slope. PMID:26626377

  6. Calculation of chemical potentials of chain molecules by the incremental gauge cell method

    NASA Astrophysics Data System (ADS)

    Rasmussen, Christopher J.; Vishnyakov, Aleksey; Neimark, Alexander V.

    2011-12-01

    The gauge cell Monte Carlo method is extended to calculations of the incremental chemical potentials and free energies of linear chain molecules. The method was applied to chains of Lennard-Jones beads with stiff harmonic bonds up to 500 monomers in length. We show that the suggested method quantitatively reproduces the modified Widom particle insertion method of Kumar et al. [S. K. Kumar, I. Szleifer, and A. Z. Panagiotopoulos, Phys. Rev. Lett. 66(22), 2935 (1991)], 10.1103/PhysRevLett.66.2935, and is by an order of magnitude more efficient for long chains in terms of the computational time required for the same accuracy of chemical potential calculations. The chain increment ansatz, which suggests that the incremental chemical potential is independent of the chain length, was tested at different temperatures. We confirmed that the ansatz holds only for coils above the ? temperature. Special attention is paid to the effects of the magnitude of adsorption potential and temperature on the behavior of single chains in confinements that are comparable in size with the free chain radius of gyration. At sufficiently low temperatures, the dependence of the incremental chemical potential on the chain length in wetting pores is superficially similar to a capillary condensation isotherm, reflecting monolayer formation following by pore volume filling, as the chain length increases. We find that the incremental gauge cell method is an accurate and efficient technique for calculations of the free energies of chain molecules in bulk systems and nanoconfinements alike. The suggested method may find practical applications, such as modeling polymer partitioning on porous substrates and dynamics of chain translocation into nanopores.

  7. Infrared absorption spectroscopy and chemical kinetics of free radicals. Final performance report, August 1, 1985--July 31, 1994

    SciTech Connect

    Curl, R.F.; Glass, G.P.

    1995-06-01

    This research was directed at the detection, monitoring, and study (by infrared absorption spectroscopy) of the chemical kinetic behavior of small free radical species thought to be important intermediates in combustion. The work typically progressed from the detection and analysis of the infrared spectrum of combustion radical to the utilization of the infrared spectrum thus obtained in the investigation of chemical kinetics of the radical species. The methodology employed was infrared kinetic spectroscopy. In this technique the radical is produced by UV flash photolysis using an excimer laser and then its transient infrared absorption is observed using a single frequency cw laser as the source of the infrared probe light. When the probe laser frequency is near the center of an absorption line of the radical produced by the flash, the transient infrared absorption rises rapidly and then decays as the radical reacts with the precursor or with substances introduced for the purpose of studying the reaction kinetics or with itself. The decay times observed in these studies varied from less than one microsecond to more than one millisecond. By choosing appropriate time windows after the flash and the average infrared detector signal in a window as data channels, the infrared spectrum of the radical may be obtained. By locking the infrared probe laser to the center of the absorption line and measuring the rate of decay of the transient infrared absorption signal as the chemical composition of the gas mixture is varied, the chemical kinetics of the radical may be investigated. In what follows the systems investigated and the results obtained are outlined.

  8. Infrared Absorption Spectroscopy and Chemical Kinetics of Free Radicals. Final Performance Report, August 1, 1985--July 31, 1994

    DOE R&D Accomplishments Database

    Curl, R. F.; Glass, G. P.

    1995-06-01

    This research was directed at the detection, monitoring, and study (by infrared absorption spectroscopy) of the chemical kinetic behavior of small free radical species thought to be important intermediates in combustion. The work typically progressed from the detection and analysis of the infrared spectrum of combustion radical to the utilization of the infrared spectrum thus obtained in the investigation of chemical kinetics of the radical species. The methodology employed was infrared kinetic spectroscopy. In this technique the radical is produced by UV flash photolysis using an excimer laser and then its transient infrared absorption is observed using a single frequency cw laser as the source of the infrared probe light. When the probe laser frequency is near the center of an absorption line of the radical produced by the flash, the transient infrared absorption rises rapidly and then decays as the radical reacts with the precursor or with substances introduced for the purpose of studying the reaction kinetics or with itself. The decay times observed in these studies varied from less than one microsecond to more than one millisecond. By choosing appropriate time windows after the flash and the average infrared detector signal in a window as data channels, the infrared spectrum of the radical may be obtained. By locking the infrared probe laser to the center of the absorption line and measuring the rate of decay of the transient infrared absorption signal as the chemical composition of the gas mixture is varied, the chemical kinetics of the radical may be investigated. In what follows the systems investigated and the results obtained are outlined.

  9. Temperature effects in first-principles solid state calculations of the chemical shielding tensor made simple

    NASA Astrophysics Data System (ADS)

    Monserrat, Bartomeu; Needs, Richard J.; Pickard, Chris J.

    2014-10-01

    We study the effects of atomic vibrations on the solid-state chemical shielding tensor using first principles density functional theory calculations. At the harmonic level, we use a Monte Carlo method and a perturbative expansion. The Monte Carlo method is accurate but computationally expensive, while the perturbative method is computationally more efficient, but approximate. We find excellent agreement between the two methods for both the isotropic shift and the shielding anisotropy. The effects of zero-point quantum mechanical nuclear motion are important up to relatively high temperatures: at 500 K they still represent about half of the overall vibrational contribution. We also investigate the effects of anharmonic vibrations, finding that their contribution to the zero-point correction to the chemical shielding tensor is small. We exemplify these ideas using magnesium oxide and the molecular crystals L-alanine and ?-aspartyl-L-alanine. We therefore propose as the method of choice to incorporate the effects of temperature in solid state chemical shielding tensor calculations using the perturbative expansion within the harmonic approximation. This approach is accurate and requires a computational effort that is about an order of magnitude smaller than that of dynamical or Monte Carlo approaches, so these effects might be routinely accounted for.

  10. chempetCalculation for the chemical systematics of igneous rocks based on the CIPW norm

    NASA Astrophysics Data System (ADS)

    Yegorov, D. G.; Korobeinikov, A. N.; Dubrovskii, M. I.

    1998-01-01

    CHEMPET is a Pascal program based on the CIPW norm calculation for the classification of igneous rocks. It is suggested that the sequence of desilication steps of the CIPW norm is an approximation for the activity of silica in the rock-forming environment. The main chemical features of rocks can be plotted on the "silica saturation-index of alumina-alkalinity" diagram using the results obtained from the CHEMPET calculations. The program also divides rocks into two series the Ca- and Fe-Mg ones which differ in their crystallization schemes and metallogeny. The proposed routine gives the same results for major norms as the conventional CIPW norm algorithm which prescribes the successive desilication of normative minerals. The new algorithm is simpler and follows the natural sequence of magmatic crystallization more closely. In addition to the main conventional chemical systematics of rocks (SiO 2 versus (Na 2O+K 2O)) the proposed method enables a rapid assessment of the rock chemistry using the concept of "saturation". This, in turn makes it possible to mark essential chemical differences between igneous rocks which result in gaps in their CIPW-normative mineral compositions.

  11. LSENS, a general chemical kinetics and sensitivity analysis code for homogeneous gas-phase reactions. 2: Code description and usage

    NASA Technical Reports Server (NTRS)

    Radhakrishnan, Krishnan; Bittker, David A.

    1994-01-01

    LSENS, the Lewis General Chemical Kinetics Analysis Code, has been developed for solving complex, homogeneous, gas-phase chemical kinetics problems and contains sensitivity analysis for a variety of problems, including nonisothermal situations. This report is part 2 of a series of three reference publications that describe LSENS, provide a detailed guide to its usage, and present many example problems. Part 2 describes the code, how to modify it, and its usage, including preparation of the problem data file required to execute LSENS. Code usage is illustrated by several example problems, which further explain preparation of the problem data file and show how to obtain desired accuracy in the computed results. LSENS is a flexible, convenient, accurate, and efficient solver for chemical reaction problems such as static system; steady, one-dimensional, inviscid flow; reaction behind incident shock wave, including boundary layer correction; and perfectly stirred (highly backmixed) reactor. In addition, the chemical equilibrium state can be computed for the following assigned states: temperature and pressure, enthalpy and pressure, temperature and volume, and internal energy and volume. For static problems the code computes the sensitivity coefficients of the dependent variables and their temporal derivatives with respect to the initial values of the dependent variables and/or the three rate coefficient parameters of the chemical reactions. Part 1 (NASA RP-1328) derives the governing equations describes the numerical solution procedures for the types of problems that can be solved by lSENS. Part 3 (NASA RP-1330) explains the kinetics and kinetics-plus-sensitivity-analysis problems supplied with LSENS and presents sample results.

  12. Molecular structure, vibrational, electronic and thermal properties of 4-vinylcyclohexene by quantum chemical calculations.

    PubMed

    Nagabalasubramanian, P B; Periandy, S; Karabacak, Mehmet; Govindarajan, M

    2015-06-15

    The solid phase FT-IR and FT-Raman spectra of 4-vinylcyclohexene (abbreviated as 4-VCH) have been recorded in the region 4000-100cm(-1). The optimized molecular geometry and vibrational frequencies of the fundamental modes of 4-VCH have been precisely assigned and analyzed with the aid of structure optimizations and normal coordinate force field calculations based on density functional theory (DFT) method at 6-311++G(d,p) level basis set. The theoretical frequencies were properly scaled and compared with experimentally obtained FT-IR and FT-Raman spectra. Also, the effect due the substitution of vinyl group on the ring vibrational frequencies was analyzed and a detailed interpretation of the vibrational spectra of this compound has been made on the basis of the calculated total energy distribution (TED). The time dependent DFT (TD-DFT) method was employed to predict its electronic properties, such as electronic transitions by UV-Visible analysis, HOMO and LUMO energies, molecular electrostatic potential (MEP) and various global reactivity and selectivity descriptors (chemical hardness, chemical potential, softness, electrophilicity index). Stability of the molecule arising from hyper conjugative interaction, charge delocalization has been analyzed using natural bond orbital (NBO) analysis. Atomic charges obtained by Mulliken population analysis and NBO analysis are compared. Thermodynamic properties (heat capacity, entropy and enthalpy) of the title compound at different temperatures are also calculated. PMID:25795608

  13. FragIt: a tool to prepare input files for fragment based quantum chemical calculations.

    PubMed

    Steinmann, Casper; Ibsen, Mikael W; Hansen, Anne S; Jensen, Jan H

    2012-01-01

    Near linear scaling fragment based quantum chemical calculations are becoming increasingly popular for treating large systems with high accuracy and is an active field of research. However, it remains difficult to set up these calculations without expert knowledge. To facilitate the use of such methods, software tools need to be available to support these methods and help to set up reasonable input files which will lower the barrier of entry for usage by non-experts. Previous tools relies on specific annotations in structure files for automatic and successful fragmentation such as residues in PDB files. We present a general fragmentation methodology and accompanying tools called FragIt to help setup these calculations. FragIt uses the SMARTS language to locate chemically appropriate fragments in large structures and is applicable to fragmentation of any molecular system given suitable SMARTS patterns. We present SMARTS patterns of fragmentation for proteins, DNA and polysaccharides, specifically for D-galactopyranose for use in cyclodextrins. FragIt is used to prepare input files for the Fragment Molecular Orbital method in the GAMESS program package, but can be extended to other computational methods easily. PMID:23028546

  14. Molecular structure, vibrational, electronic and thermal properties of 4-vinylcyclohexene by quantum chemical calculations

    NASA Astrophysics Data System (ADS)

    Nagabalasubramanian, P. B.; Periandy, S.; Karabacak, Mehmet; Govindarajan, M.

    2015-06-01

    The solid phase FT-IR and FT-Raman spectra of 4-vinylcyclohexene (abbreviated as 4-VCH) have been recorded in the region 4000-100 cm-1. The optimized molecular geometry and vibrational frequencies of the fundamental modes of 4-VCH have been precisely assigned and analyzed with the aid of structure optimizations and normal coordinate force field calculations based on density functional theory (DFT) method at 6-311++G(d,p) level basis set. The theoretical frequencies were properly scaled and compared with experimentally obtained FT-IR and FT-Raman spectra. Also, the effect due the substitution of vinyl group on the ring vibrational frequencies was analyzed and a detailed interpretation of the vibrational spectra of this compound has been made on the basis of the calculated total energy distribution (TED). The time dependent DFT (TD-DFT) method was employed to predict its electronic properties, such as electronic transitions by UV-Visible analysis, HOMO and LUMO energies, molecular electrostatic potential (MEP) and various global reactivity and selectivity descriptors (chemical hardness, chemical potential, softness, electrophilicity index). Stability of the molecule arising from hyper conjugative interaction, charge delocalization has been analyzed using natural bond orbital (NBO) analysis. Atomic charges obtained by Mulliken population analysis and NBO analysis are compared. Thermodynamic properties (heat capacity, entropy and enthalpy) of the title compound at different temperatures are also calculated.

  15. A Chemical Kinetic Modeling Study of the Effects of Oxygenated Hydrocarbons on Soot Emissions from Diesel Engines

    SciTech Connect

    Westbrook, C K; Pitz, W J; Curran, H J

    2005-11-14

    A detailed chemical kinetic modeling approach is used to examine the phenomenon of suppression of sooting in diesel engines by addition of oxygenated hydrocarbon species to the fuel. This suppression, which has been observed experimentally for a few years, is explained kinetically as a reduction in concentrations of soot precursors present in the hot products of a fuel-rich diesel ignition zone when oxygenates are included. Oxygenates decrease the overall equivalence ratio of the igniting mixture, producing higher ignition temperatures and more radical species to consume more soot precursor species, leading to lower soot production. The kinetic model is also used to show how different oxygenates, ester structures in particular, can have different soot-suppression efficiencies due to differences in molecular structure of the oxygenated species.

  16. An integrated fingerprinting and kinetic approach to accelerated shelf-life testing of chemical changes in thermally treated carrot puree.

    PubMed

    Kebede, Biniam T; Grauwet, Tara; Magpusao, Johannes; Palmers, Stijn; Michiels, Chris; Hendrickx, Marc; Loey, Ann Van

    2015-07-15

    To have a better understanding of chemical reactions during shelf-life, an integrated analytical and engineering toolbox: "fingerprinting-kinetics" was used. As a case study, a thermally sterilised carrot puree was selected. Sterilised purees were stored at four storage temperatures as a function of time. Fingerprinting enabled selection of volatiles clearly changing during shelf-life. Only these volatiles were identified and studied further. Next, kinetic modelling was performed to investigate the suitability of these volatiles as quality indices (markers) for accelerated shelf-life testing (ASLT). Fingerprinting enabled selection of terpenoids, phenylpropanoids, fatty acid derivatives, Strecker aldehydes and sulphur compounds as volatiles clearly changing during shelf-life. The amount of Strecker aldehydes increased during storage, whereas the rest of the volatiles decreased. Out of the volatiles, based on the applied kinetic modelling, myristicin, α-terpinolene, β-pinene, α-terpineol and octanal were identified as potential markers for ASLT. PMID:25722143

  17. Coupled thermodynamic and kinetic model for plagioclase growth from a silicate melt: Implications for non-linear growth rates, chemical zoning and time scales of magma solidification

    NASA Astrophysics Data System (ADS)

    Pillar, Vclav .; Dolej, David

    2010-05-01

    Magmatic rocks exhibit a wide range of igneous textures, which can provide valuable information about kinetics of crystallization as well as thermal evolution and time scales of solidification in natural magmatic reservoirs. The nucleation and growth rates are often assumed to remain constant in simple models that are used to predict and compare crystal size distributions in natural samples. However, these rates are affected and enhanced by undercooling and increasing departures from equilibrium, whereas the formation of depleted boundary layers of melt and progressive changes in interstitial melt composition tend to reduce them. Hence the nucleation and growth rates are expected to vary in a complex and non-monotonous manner. We have formulated thermodynamic and kinetic model for plagioclase growth from a silicate melt, which uses magnitude of undercooling to determine the thermodynamic driving force for crystallization und converts this variable via appropriate kinetic law to the crystal growth rate. The model predicts growth rates, composition and thickness of melt boundary layer while recording the chemical zoning of growing plagioclase crystal. The zoning observed in natural samples can thus be compared to model results and used to constrain how the growth rates may have varied in geological settings of interest. Numerical simulation of crystal growth uses one-dimensional finite difference method. Partitioning of chemical components at the solid-melt interface is determined thermodynamically assuming local equilibrium, and thermodynamic affinity provides the Gibbs energy of crystallization. Kinetic relation between the thermodynamic driving force and the growth rate is based on experimental studies of plagioclase growth and has been extended to three-component haplotonalite system. Thermal and chemical gradients resulting from production of latent heat and chemical partitioning are dissipated by diffusion. Chemical diffusion is treated as multicomponent one and it incorporates dependence on local melt composition and temperature. Calculations performed for a various initial melt compositions and undercoolings of 1 and 10 % below plagioclase liquidus at equilibrium demonstrate that (1) formation of a boundary layer in silicate melt is significant, especially at higher undercoolings. Its thickness exceeds the actual grain size; (2) the calculated zoning of plagioclase spans up to 50 mol. % anorthite component. At low undercoolings, monotonous trend towards albite enrichment is predicted whereas at high disequilibrium, transient maximum in albite concentration occurs and the crystal either maintains a constant composition or its growth reverses towards a weak anorthite enrichment outwards; (3) simulated growth rates strongly depend on the initial melt composition and tend to decrease as grain size increases. In albite-rich melts, grain sizes are always larger at greater undercoolings whereas in anorthite-rich compositions a reversal is predicted that leads to larger grains produced at lower undercoolings. Temperature dependencies of the physical parameters that govern the model permit extrapolation of results to geologically relevant hydrous melt compositions and crystallization temperatures. We expect natural growth rates in granitic melt to be on the order of 10-14 to 10-15 m s-1 at 800 C, and they produce a 1 mm grain in 3 to 30 thousand years. Such short time spans may indicate that natural magmas solidify much faster than assumed previously and this occurs when advancing cooling front is migrating through the magma chamber. Our model highlights the importance of the counteracting effects of chemical partitioning, growth kinetics, and chemical and thermal diffusion, and reveals important non-linearities in growth rates and time scales of magmatic crystallization in natural settings.

  18. An implicit flux-split algorithm to calculate hypersonic flowfields in chemical equilibrium

    NASA Technical Reports Server (NTRS)

    Palmer, Grant

    1987-01-01

    An implicit, finite-difference, shock-capturing algorithm that calculates inviscid, hypersonic flows in chemical equilibrium is presented. The flux vectors and flux Jacobians are differenced using a first-order, flux-split technique. The equilibrium composition of the gas is determined by minimizing the Gibbs free energy at every node point. The code is validated by comparing results over an axisymmetric hemisphere against previously published results. The algorithm is also applied to more practical configurations. The accuracy, stability, and versatility of the algorithm have been promising.

  19. Physical and numerical sources of computational inefficiency in integration of chemical kinetic rate equations: Etiology, treatment and prognosis

    NASA Technical Reports Server (NTRS)

    Pratt, D. T.; Radhakrishnan, K.

    1986-01-01

    The design of a very fast, automatic black-box code for homogeneous, gas-phase chemical kinetics problems requires an understanding of the physical and numerical sources of computational inefficiency. Some major sources reviewed in this report are stiffness of the governing ordinary differential equations (ODE's) and its detection, choice of appropriate method (i.e., integration algorithm plus step-size control strategy), nonphysical initial conditions, and too frequent evaluation of thermochemical and kinetic properties. Specific techniques are recommended (and some advised against) for improving or overcoming the identified problem areas. It is argued that, because reactive species increase exponentially with time during induction, and all species exhibit asymptotic, exponential decay with time during equilibration, exponential-fitted integration algorithms are inherently more accurate for kinetics modeling than classical, polynomial-interpolant methods for the same computational work. But current codes using the exponential-fitted method lack the sophisticated stepsize-control logic of existing black-box ODE solver codes, such as EPISODE and LSODE. The ultimate chemical kinetics code does not exist yet, but the general characteristics of such a code are becoming apparent.

  20. Hybridation of electrical, chemical kinetics and particle models for numerical study of XeCl laser discharges

    SciTech Connect

    Lamrous, O.; Gaouar, A.; Yousfi, M.

    1995-12-31

    Discharge pumped XeCl lasers are very convenient sources of high radiative power useful for many industrial and medical applications. So numerous codes, devoted to numerical modeling of excimer laser, are available in the literature. The aim of this paper is to present an hybrid model to study the plasma characteristics of XeCl laser impulsional discharge in Ne-Xe-HCl mixture. This model is a coupling of electric circuit equations (electric model), electron Boltzmann equation (particle model) and kinetic equations of both charged particles and the main neutral or excited species (chemical kinetics model). This hybrid model presents some specificity and originality for each part of the model (kinetic, particle and electric). The particle model is based on a powerful iterative solution of non linear electron Boltzmann equation including the main processes involved in the discharge plasma (inelastic, superelastic, Coulomb collisions, dissociation, attachment, ionization Penning, recombination). The chemical kinetics model including vibrational states is based on a powerful numerical scheme valid for stiff equations and for any kind of interactions whatever its time scale or the magnitude of its rate coefficient. The electrical circuit model is modular enough to take into account any kind of electric circuit including equivalent impedance of discharge for several cases of number of loops of the network (1 or 2 or 3 or more).

  1. Evaluation of uncertainties in solid-aqueous-gas chemical equilibrium calculations

    NASA Astrophysics Data System (ADS)

    Novoselov, Alexey A.; Popov, Serguei; de Souza Filho, Carlos Roberto

    2015-06-01

    Thermodynamic calculations are traditionally carried out under the assumption of specified input parameters. Errors associated to the results are not often estimated. Here, we propose a novel algorithm that propagates the uncertainty intervals on thermodynamic constants to the uncertainty in chemical equilibrium compositions. The computing uses a dataset of uncertainties on thermodynamic parameters for minerals, solution species and gases consistent with the SUPCRT92 database. Also the algorithm of nonlinear optimization is thoroughly described and realized on a base of the CRONO software. This code can be incorporated into reactive mass transport models as a core for calculating equilibrium compositions. The performance of the algorithm is tested in an experimental system involving Mont Terri's Opalinus Clay interacting with pore water. Its effectiveness is also evaluated against Monte Carlo simulations and Latin Hypercube sampling.

  2. Promoting Higher-Order Thinking Skills: Uses of Mathcad and Classical Chemical Kinetics to Foster Student Development

    NASA Astrophysics Data System (ADS)

    Zielinski, Theresa Julia

    1995-07-01

    Mathematical models play an important role in physical chemistry. This paper describes the use of Mathcad software in a series of exercises that explore the mathematical models for reversible first order and series first order reactions. In this approach students learn to use the Mathcad software while exploring kinetics models in an open ended format. Other objectives of the exercises include helping students to develop higher order thinking skills and to foster deeper chemical thinking processes. The method uses the Perry model of student development as the pedagogical framework. This approach to teaching chemical kinetics is an easily implemented alternative to traditional lecture presentations. This is important as retention of material learned through immediate use of the learning in teaching others rises to 90% in group work. The student pair interaction that these exercises require provides the opportunity for teaching that increases learning. Positive student responses to the method and the advantages of this approach are given in the paper.

  3. Acceleration of the KINETICS Integrated Dynamical/Chemical Computational Model Using MPI

    NASA Technical Reports Server (NTRS)

    Grossman, Max; Willacy, Karen; Allen, Mark

    2011-01-01

    Understanding the evolution of a planet's atmosphere not only provides a better theoretical understanding of planetary physics and the formation of planets, but also grants useful insight into Earth's own atmosphere. One of the tools used at JPL for the modeling of planetary atmospheres and protostellar disks is KINETICS. KINETICS can simulate years of complex dynamics and chemistry.

  4. The Study of a Simple Redox Reaction as an Experimental Approach to Chemical Kinetics.

    ERIC Educational Resources Information Center

    Elias, Horst; Zipp, Arden P.

    1988-01-01

    Recommends using iodide ions and peroxodisulfate ions for studying rate laws instead of the standard iodine clock for kinetic study. Presents the methodology and a discussion of the kinetics involved for a laboratory experiment for a high school or introductory college course. (ML)

  5. Chemical vapour deposition growth of carbon nanotube forests: kinetics, morphology, composition, and their mechanisms

    NASA Astrophysics Data System (ADS)

    Vinten, Phillip

    This thesis analyzes the chemical vapour deposition (CVD) growth of vertically aligned carbon nanotube (CNT) forests in order to understand how CNT forests grow, why they stop growing, and how to control the properties of the synthesized CNTs. in situ kinetics data of the growth of CNT forests are gathered by in situ optical microscopy. The overall morphology of the forests and the characteristics of the individual CNTs in the forests are investigated using scanning electron microscopy and Raman spectroscopy. The in situ data show that forest growth and termination are activated processes (with activation energies on the order of 1 eV), suggesting a possible chemical origin. The activation energy changes at a critical temperature for ethanol CVD (approximately 870C). These activation energies and critical temperature are also seen in the temperature dependence of several important characteristics of the CNTs, including the defect density as determined by Raman spectroscopy. This observation is seen across several CVD processes and suggests a mechanism of defect healing. The CNT diameter also depends on the growth temperature. In this thesis, a thermodynamic model is proposed. This model predicts a temperature and pressure dependence of the CNT diameter from the thermodynamics of the synthesis reaction and the effect of strain on the enthalpy of formation of CNTs. The forest morphology suggests significant interaction between the constituent CNTs. These interactions may play a role in termination. The morphology, in particular a microscale rippling feature that is capable of diffracting light, suggest a non-uniform growth rate across the forest. A gas phase diffusion model predicts a non-uniform distribution of the source gas. This gas phase diffusion is suggested as a possible explanation for the non-uniform growth rate. The gas phase diffusion is important because growth by acetylene CVD is found to be very efficient (approximately 30% of the acetylene is converted to CNTs). It is seen that multiple mechanisms are active during CNT growth. The results of this thesis provide insight into both the basic understanding of the microscopic processes involved in CVD growth and how to control the properties of the synthesized CNTs.

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

    PubMed

    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 valid, the free energy calculation can be expressed in terms of the moment generating function of the "chemical work" distribution. PMID:24664967

  7. Reactions of Th(+) + H2, D2, and HD Studied by Guided Ion Beam Tandem Mass Spectrometry and Quantum Chemical Calculations.

    PubMed

    Cox, Richard M; Armentrout, P B; de Jong, Wibe A

    2016-03-01

    Kinetic energy dependent reactions of Th(+) with H2, D2, and HD were studied using a guided ion beam tandem mass spectrometer. Formation of ThH(+) and ThD(+) is endothermic in all cases with similar thresholds. Branching ratio results for the reaction with HD indicate that Th(+) reacts via a statistical mechanism, similar to Hf(+). The kinetic energy dependent cross sections for formation of ThH(+) and ThD(+) were evaluated to determine a 0 K bond dissociation energy (BDE) of D0(Th(+)-H) = 2.45 ± 0.07 eV. This value is in good agreement with a previous result obtained from analysis of the Th(+) + CH4 reaction. D0(Th(+)-H) is observed to be larger than its transition metal congeners, TiH(+), ZrH(+), and HfH(+), believed to be a result of lanthanide contraction. The reactions with H2 were also explored using quantum chemical calculations that include a semiempirical estimation and explicit calculation of spin-orbit contributions. These calculations agree nicely and indicate that ThH(+) most likely has a (3)Δ1 ground level with a low-lying (1)Σ(+) excited state. Theory also provides the reaction potential energy surfaces and BDEs that are in reasonable agreement with experiment. PMID:26414691

  8. A study of the accuracy of moment-closure approximations for stochastic chemical kinetics

    NASA Astrophysics Data System (ADS)

    Grima, Ramon

    2012-04-01

    Moment-closure approximations have in recent years become a popular means to estimate the mean concentrations and the variances and covariances of the concentration fluctuations of species involved in stochastic chemical reactions, such as those inside cells. The typical assumption behind these methods is that all cumulants of the probability distribution function solution of the chemical master equation which are higher than a certain order are negligibly small and hence can be set to zero. These approximations are ad hoc and hence the reliability of the predictions of these class of methods is presently unclear. In this article, we study the accuracy of the two moment approximation (2MA) (third and higher order cumulants are zero) and of the three moment approximation (3MA) (fourth and higher order cumulants are zero) for chemical systems which are monostable and composed of unimolecular and bimolecular reactions. We use the system-size expansion, a systematic method of solving the chemical master equation for monostable reaction systems, to calculate in the limit of large reaction volumes, the first- and second-order corrections to the mean concentration prediction of the rate equations and the first-order correction to the variance and covariance predictions of the linear-noise approximation. We also compute these corrections using the 2MA and the 3MA. Comparison of the latter results with those of the system-size expansion shows that: (i) the 2MA accurately captures the first-order correction to the rate equations but its first-order correction to the linear-noise approximation exhibits the wrong dependence on the rate constants. (ii) the 3MA accurately captures the first- and second-order corrections to the rate equation predictions and the first-order correction to the linear-noise approximation. Hence while both the 2MA and the 3MA are more accurate than the rate equations, only the 3MA is more accurate than the linear-noise approximation across all of parameter space. The analytical results are numerically validated for dimerization and enzyme-catalyzed reactions.

  9. First-principles Calculations of Nuclear Magnetic Resonance Chemical Shielding Tensors in Complex Ferroelectric Perovskites

    NASA Astrophysics Data System (ADS)

    Pechkis, Daniel Lawrence

    Nuclear magnetic resonance (NMR) spectroscopy is one of the most important experimental probes of local atomistic structure, chemical ordering, and dynamics. Recently, NMR has increasingly been used to study complex ferroelectric perovskite alloys, where spectra can be difficult to interpret. First-principles calculations of NMR spectra can greatly assist in this task. In this work, oxygen, titanium, and niobium NMR chemical shielding tensors, ? , were calculated with first-principles methods for ferroelectric transition metal prototypical ABO3 perovskites [SrTiO3, BaTiO 3, PbTiO3 and PbZrO3] and A(B,B')O3 perovskite alloys Pb(Zr1/2Ti1/2)O3 (PZT) and Pb(Mg1/3Nb2/3)O3 (PMN). The principal findings are 1) a large anisotropy between deshielded sigma xx(O) ? sigmayy(O) and shielded sigma zz(O) components; 2) a nearly linear dependence on nearest-distance transition-metal/oxygen bond length, rs, was found for both isotropic deltaiso(O) and axial deltaax(O) chemical shifts ( d?=? reference- ? ), across all the systems studied, with deltaiso(O) varying by ? 400 ppm; 3) the demonstration that the anisotropy and linear variation arise from large paramagnetic contributions to sigmaxx(O) and sigmayy(O), due to virtual transitions between O(2p) and unoccupied B(nd) states. Using these results, an argument against Ti clustering in PZT, as conjectured from recent 17O NMR magic-angle-spinning measurements, is made. The linear dependence of the chemical shifts on rs provides a scale for determining transition-metal/oxygen bond lengths from experimental 17O NMR spectra. As such, it can be used to assess the degree of local tetragonality in perovskite solid solutions for piezoelectric applications. Results for transition metal atoms show less structural sensitivity, compared to 17O NMR, in homovalent B-site materials, but could be more useful in heterovalent B-site perovskite alloys. This work shows that both 17O and B-site NMR spectroscopy, coupled with first principles calculations, can be an especially useful probe of local structure in complex perovskite alloys.

  10. The Development of a Detailed Chemical Kinetic Mechanism for Diisobutylene and Comparison to Shock Tube Ignition Times

    SciTech Connect

    Metcalfe, W; Curran, H J; Simmie, J M; Pitz, W J; Westbrook, C K

    2005-01-21

    There is much demand for chemical kinetic models to represent practical fuels such as gasoline, diesel and aviation fuel. These blended fuels contain hundreds of components whose identity and amounts are often unknown. A chemical kinetic mechanism that would represent the oxidation of all these species with accompanying chemical reactions is intractable with current computational capabilities, chemical knowledge and manpower resources. The use of surrogate fuels is an approach to make the development of chemical kinetic mechanisms for practical fuels tractable. A surrogate fuel model consists of a small number of fuel components that can be used to represent the practical fuel and still predict desired characteristics of the practical fuel. These desired fuel characteristics may include ignition behavior, burning velocity, fuel viscosity, fuel vaporization, and fuel emissions (carbon monoxide, hydrocarbons, soot and nitric oxides). Gasoline consists of many different classes of hydrocarbons including n-alkanes, alkenes, iso-alkanes, cycloalkanes, cycloalkenes, and aromatics. One approach is to use a fuel surrogate that has a single component from each class of hydrocarbon in gasoline so that the unique molecular structure of each class is represented. This approach may lead to reliable predictions of many of the combustion properties of the practical fuel. In order to obtain a fuel surrogate mechanism, detailed chemical kinetic mechanisms must be developed for each component in the surrogate. In this study, a detailed chemical kinetic mechanism is developed for diisobutylene, a fuel intended to represent alkenes in practical fuels such as gasoline, diesel, and aviation fuel. The fuel component diisobutylene usually consists of a mixture of two conjugate olefins of iso-octane: 1- or 2-pentene, 2,4,4-trimethyl. Diisobutylene has a similar molecular structure to iso-octane, so that its kinetics offers insight into the effect of including a double bond in the carbon skeletal structure of iso-octane. There are few previous studies on diisobutylene. Kaiser et al. [1] examined the exhaust emission from a production spark ignition engine with neat diisobutylene and with it mixed with gasoline. They found the exhaust emissions of diisobutylene to be similar to that of iso-octane. They saw a significant increase in the amount of 2-methyl-1,3-butadiene measured in the exhaust of the engine. They also found appreciable amount of propene in the exhaust, but could not explain the source of this product as they did others in terms of C-C bond beta scission of alkyl radicals. Risberg et al. [2] studied a number of fuel blends to evaluate their autoignition quality for use in a homogeneous charge compression ignition engine, using diisobutylene to represent olefins in one of their test fuels. In this study, experiments on the shock tube ignition of both isomers of diisobutylene will be described. Then, the development of a detailed chemical kinetic mechanism for the two isomers of diisobutylene will be discussed.

  11. Molecular structure and spectroscopic characterization of Carbamazepine with experimental techniques and DFT quantum chemical calculations

    NASA Astrophysics Data System (ADS)

    Suhasini, M.; Sailatha, E.; Gunasekaran, S.; Ramkumaar, G. R.

    2015-04-01

    A systematic vibrational spectroscopic assignment and analysis of Carbamazepine has been carried out by using FT-IR, FT-Raman and UV spectral data. The vibrational analysis were aided by electronic structure calculations - ab initio (RHF) and hybrid density functional methods (B3LYP) performed with standard basis set 6-31G(d,p). Molecular equilibrium geometries, electronic energies, natural bond order analysis, harmonic vibrational frequencies and IR intensities have been computed. A detailed interpretation of the vibrational spectra of the molecule has been made on the basis of the calculated Potential Energy Distribution (PED) by VEDA program. UV-visible spectrum of the compound was also recorded and the electronic properties, such as HOMO and LUMO energies and ?max were determined by HF/6-311++G(d,p) Time-Dependent method. The thermodynamic functions of the title molecule were also performed using the RHF and DFT methods. The restricted Hartree-Fock and density functional theory-based nuclear magnetic resonance (NMR) calculation procedure was also performed, and it was used for assigning the 13C and 1H NMR chemical shifts of Carbamazepine.

  12. Recommendations on adopting the values and correlations for calculating the thermophysical and kinetic properties of liquid lead

    NASA Astrophysics Data System (ADS)

    Savchenko, I. V.; Lezhnin, S. I.; Mosunova, N. A.

    2015-06-01

    Recent years have seen an essentially increased interest in studying the properties of liquid lead, which is primarily connected with the possibility of using it as coolant in nuclear power installations, first of all, in reactors based on fission of heavy nuclei by fast neutrons. The article presents an analysis of published data on the thermophysical and kinetic properties of lead in liquid state, the results of which served as a basis for selecting and recommending correlations to be used in carrying out scientific and engineering calculations. A general assessment of the state of experimental investigations into the thermophysical properties of liquid lead is presented. The presented value of lead solidification temperature is the maximally reliable one. The data on the boiling temperature, melting and vaporization enthalpies, and saturated vapor pressure have been determined with satisfactory accuracy. The published data on the liquid lead heat capacity differ considerably from each other; therefore, the recommended values should be experimentally checked and determined more exactly. The available experimental data on surface tension density, volumetric expansion coefficient, sound velocity, viscosity, and thermal conductivity do not cover the entire range of liquid phase existence temperatures. The temperature region above 1200 K and the crystal-liquid phase transition region are the least studied ones. Additional investigations of these properties in the above-mentioned temperature intervals are necessary. The question about the influence of impurities on the thermophysical properties of lead still remains to be answered and requires experimental investigations.

  13. Power optimization of chemically driven heat engine based on first and second order reaction kinetic theory and probability theory

    NASA Astrophysics Data System (ADS)

    Zhang, Lei; Chen, Lingen; Sun, Fengrui

    2016-03-01

    The finite-time thermodynamic method based on probability analysis can more accurately describe various performance parameters of thermodynamic systems. Based on the relation between optimal efficiency and power output of a generalized Carnot heat engine with a finite high-temperature heat reservoir (heat source) and an infinite low-temperature heat reservoir (heat sink) and with the only irreversibility of heat transfer, this paper studies the problem of power optimization of chemically driven heat engine based on first and second order reaction kinetic theory, puts forward a model of the coupling heat engine which can be run periodically and obtains the effects of the finite-time thermodynamic characteristics of the coupling relation between chemical reaction and heat engine on the power optimization. The results show that the first order reaction kinetics model can use fuel more effectively, and can provide heat engine with higher temperature heat source to increase the power output of the heat engine. Moreover, the power fluctuation bounds of the chemically driven heat engine are obtained by using the probability analysis method. The results may provide some guidelines for the character analysis and power optimization of the chemically driven heat engines.

  14. Kinetic studies of chemical shrinkage and residual stress formation in thermoset epoxy adhesives under confined curing conditions

    NASA Astrophysics Data System (ADS)

    Schumann, M.; Gei, P. L.

    2015-05-01

    Faultless processing of thermoset polymers in demanding applications requires a profound mastering of the curing kinetics considering both the physico-chemical changes in the transition from the liquid to the solid state and the consolidation of the polymers network in the diffusion controlled curing regime past the gel point. Especially in adhesive joints shrinkage stress occurring at an early state of the curing process under confined conditions is likely to cause defects due to local debonding and thus reduce their strength and durability1. Rheometry is considered the method of choice to investigate the change of elastic and viscous properties in the progress of curing. Drawbacks however relate to experimental challenges in accessing the full range of kinetic parameters of thermoset resins with low initial viscosity from the very beginning of the curing reaction to the post-cure consolidation of the polymer due to the formation of secondary chemical bonds. Therefore the scope of this study was to interrelate rheological data with results from in-situ measurements of the shrinkage stress formation in adhesive joints and with the change of refractive index in the progress of curing. This combination of different methods has shown to be valuable in gaining advanced insight into the kinetics of the curing reaction. The experimental results are based on a multi component thermoset epoxy-amine adhesive.

  15. Chemical expansion affected oxygen vacancy stability in different oxide structures from first principles calculations

    SciTech Connect

    Aidhy, Dilpuneet S.; Liu, Bin; Zhang, Yanwen; Weber, William J.

    2015-03-01

    We study the chemical expansion for neutral and charged oxygen vacancies in fluorite, rocksalt, perovskite and pyrochlores materials using first principles calculations. We show that the neutral oxygen vacancy leads to lattice expansion whereas the charged vacancy leads to lattice contraction. In addition, we show that there is a window of strain within which an oxygen vacancy is stable; beyond that range, the vacancy can become unstable. Using CeO2|ZrO2 interface structure as an example, we show that the concentration of oxygen vacancies can be manipulated via strain, and the vacancies can be preferentially stabilized. These results could serve as guiding principles in predicting oxygen vacancy stability in strained systems and in the design of vacancy stabilized materials.

  16. An Analytical Investigation of Three General Methods of Calculating Chemical-Equilibrium Compositions

    NASA Technical Reports Server (NTRS)

    Zeleznik, Frank J.; Gordon, Sanford

    1960-01-01

    The Brinkley, Huff, and White methods for chemical-equilibrium calculations were modified and extended in order to permit an analytical comparison. The extended forms of these methods permit condensed species as reaction products, include temperature as a variable in the iteration, and permit arbitrary estimates for the variables. It is analytically shown that the three extended methods can be placed in a form that is independent of components. In this form the Brinkley iteration is identical computationally to the White method, while the modified Huff method differs only'slightly from these two. The convergence rates of the modified Brinkley and White methods are identical; and, further, all three methods are guaranteed to converge and will ultimately converge quadratically. It is concluded that no one of the three methods offers any significant computational advantages over the other two.

  17. O?migration rates in [NiFe] hydrogenases. A joint approach combining free-energy calculations and kinetic modeling.

    PubMed

    Topin, Jrmie; Diharce, Julien; Fiorucci, Sbastien; Antonczak, Serge; Golebiowski, Jrme

    2014-01-23

    Hydrogenases are promising candidates for the catalytic production of green energy by means of biological ways. The major impediment to such a production is rooted in their inhibition under aerobic conditions. In this work, we model dioxygen migration rates in mutants of a hydrogenase of Desulfovibrio fructusovorans. The approach relies on the calculation of the whole potential of mean force for O2 migration within the wild-type as well as in V74M, V74F, and V74Q mutant channels. The three free-energy barriers along the entire migration pathway are converted into chemical rates through modeling based on Transition State Theory. The use of such a model recovers the trend of O2 migration rates among the series. PMID:24377375

  18. Structural and chemical trends in doped silicon nanocrystals: First-principles calculations

    NASA Astrophysics Data System (ADS)

    Zhou, Zhiyong; Steigerwald, Michael L.; Friesner, Richard A.; Brus, Louis; Hybertsen, Mark S.

    2005-06-01

    Electronic and structural properties of substitutional group-V donors (N, P, As, Sb) and group-III acceptors (B, Al, Ga, In) in silicon nanocrystals with hydrogen passivation are explored using first-principles calculations based on hybrid density functional theory with complete geometrical optimization. The bonding near the impurity is similar to that found for the impurity in bulk crystalline silicon, with some quantitative differences. The N case shows large local distortions, as it does in the bulk, characteristic of a deep trap. For the other impurities, no evidence is found for a transition to atomic scale localization induced by the small size of the nanocrystal. The chemical trends of the donor and acceptor binding energies and the donor excited state energies in doped nanocrystals are similar to those in the bulk; however, the absolute magnitudes are substantially larger. The increase in the magnitude of the binding energy is mainly due to the quantum confinement effect combined with the reduced screening of the impurity potential in small nanocrystals. The screening of the impurity potential is carefully examined using the self-consistent electrostatic potential from the full calculations. Strong chemical and local-field effects are seen within the radius of the first neighbor bonds to the impurity atom. This explains the large increase in the donor excited state energy level splittings and the relative importance of the central cell contributions to the binding energies. The acceptor and donor orbitals have different atomic character on the impurity site, leading to substantially different acceptor and donor energy level splittings.

  19. An upwind, kinetic flux-vector splitting method for flows in chemical and thermal non-equilibrium

    NASA Technical Reports Server (NTRS)

    Eppard, W. M.; Grossman, B.

    1993-01-01

    We have developed new upwind kinetic difference schemes for flows with non-equilibrium thermodynamics and chemistry. These schemes are derived from the Boltzmann equation with the resulting Euler schemes developed as moments of the discretized Boltzmann scheme with a locally Maxwellian velocity distribution. Splitting the velocity distribution at the Boltzmann level is seen to result in a flux-split Euler scheme and is called Kinetic Flux Vector Splitting (KFVS). Extensions to flows with finite-rate chemistry and vibrational relaxation is accomplished utilizing nonequilibrium kinetic theory. Computational examples are presented comparing KFVS with the schemes of Van Leer and Roe for a quasi-one-dimensional flow through a supersonic diffuser, inviscid flow through two-dimensional inlet, and viscous flow over a cone at zero angle-of-attack. Calculations are also shown for the transonic flow over a bump in a channel and the transonic flow over an NACA 0012 airfoil. The results show that even though the KFVS scheme is a Riemann solver at the kinetic level, its behavior at the Euler level is more similar to the existing flux-vector splitting algorithms than to the flux-difference splitting scheme of Roe.

  20. Four-Component Relativistic DFT Calculations of (13) C Chemical Shifts of Halogenated Natural Substances.

    PubMed

    Casella, Girolamo; Bagno, Alessandro; Komorovsky, Stanislav; Repisky, Michal; Saielli, Giacomo

    2015-12-14

    We have calculated the (13) C?NMR chemical shifts of a large ensemble of halogenated organic molecules (81 molecules for a total of 250 experimental (13) C?NMR data at four different levels of theory), ranging from small rigid organic compounds, used to benchmark the performance of various levels of theory, to natural substances of marine origin with conformational degrees of freedom. Carbon atoms bonded to heavy halogen atoms, particularly bromine and iodine, are known to be rather challenging when it comes to the prediction of their chemical shifts by quantum methods, due to relativistic effects. In this paper, we have applied the state-of-the-art four-component relativistic density functional theory for the prediction of such NMR properties and compared the performance with two-component and nonrelativistic methods. Our results highlight the necessity to include relativistic corrections within a four-component description for the most accurate prediction of the NMR properties of halogenated organic substances. PMID:26541625

  1. Burnup calculations and chemical analysis of irradiated fuel samples studied in LWR-PROTEUS phase II

    SciTech Connect

    Grimm, P.; Guenther-Leopold, I.; Berger, H. D.

    2006-07-01

    The isotopic compositions of 5 UO{sub 2} samples irradiated in a Swiss PWR power plant, which were investigated in the LWR-PROTEUS Phase II programme, were calculated using the CASMO-4 and BOXER assembly codes. The burnups of the samples range from 50 to 90 MWd/kg. The results for a large number of actinide and fission product nuclides were compared to those of chemical analyses performed using a combination of chromatographic separation and mass spectrometry. A good agreement of calculated and measured concentrations is found for many of the nuclides investigated with both codes. The concentrations of the Pu isotopes are mostly predicted within {+-}10%, the two codes giving quite different results, except for {sup 242}Pu. Relatively significant deviations are found for some isotopes of Cs and Sm, and large discrepancies are observed for Eu and Gd. The overall quality of the predictions by the two codes is comparable, and the deviations from the experimental data do not generally increase with burnup. (authors)

  2. Vibrational spectra, structural conformations, scaled quantum chemical calculations and NBO analysis of 3-acetyl-7-methoxycoumarin.

    PubMed

    Joseph, Lynnette; Sajan, D; Reshmy, R; Arun Sasi, B S; Erdogdu, Y; Thomas, K Kurien

    2012-12-01

    The powder form NIR-FT Raman and FT-IR spectra of 3-acetyl-7-methoxycoumarin (3A7MC) have been recorded in the regions 4000-400 and 3500-100 cm(-1), respectively. The equilibrium geometry, vibrational frequencies, band intensities, NMR spectra, NBO analysis and UV-Vis spectral studies of the most stable conformer have been calculated by density functional B3LYP method with the 6-311G(d,p) basis set. A complete vibrational analysis has been attempted on the basis of experimental infrared and Raman spectra, the calculated wavenumber and intensity of the vibrational bands and the potential energy distribution over the internal coordinates. Information about the size, shape, charge density distribution and site of chemical reactivity of the molecules has been obtained by mapping the electron density isosurface with electrostatic potential surfaces (ESP). Natural bond orbital analysis has been carried out to understand the nature of different interactions responsible for the electron delocalization and the intramolecular charge transfer between the orbitals (n??(?), n??(?), ???(?)). PMID:23078790

  3. Molecular structure, spectroscopic assignments and other quantum chemical calculations of anticancer drugs - A review.

    PubMed

    Ghasemi, A S; Deilam, M; Sharifi-Rad, J; Ashrafi, F; Hoseini-Alfatemi, S M

    2015-01-01

    In many texts, both theoretical and experimental studies on molecular structure and spectroscopic assignments of anticancer medicines have been reported. Molecular geometry parameters have been experimentally obtained by x-ray structure determination method and optimized using computational chemistry method like density functional theory. In this review, we consider calculations based on density function theory at B3LYP/6-31G (d,p) and B3LYP/6-311++G (d,p) levels of theory. Based on optimized geometric parameters of the molecules, molecular structures (length of bonds, bond angles and torsion angles) and vibrational assignments have been obtained. Molecular stability and bond strength have been investigated by applying natural bond orbital (NBO) analysis. Other molecular properties such as mulliken population analysis, thermodynamic properties and polarizabitities of these drugs have been reported. Calculated energies of HOMO and LUMO show that charge transfer occurs in the molecular. Information about the size, shape, charge density distribution and site of molecular chemical reactivity has been obtained by mapping electron density isosurface of electrostatic and compared with experiment data. PMID:26638891

  4. Primary Ion Depletion Kinetics (PIDK) Studies as a New Tool for Investigating Chemical Ionization Fragmentation Reactions with PTR-MS

    PubMed Central

    Schuhfried, Erna; Mrk, Tilmann D.; Biasioli, Franco

    2013-01-01

    We report on a new approach for studying fragmentation channels in Proton Transfer Reaction-Mass Spectrometry (PTR-MS), which we name primary ion depletion kinetics (PIDK). PTR-MS is a chemical ionization mass spectrometric (CIMS) technique deploying hydronium ions for the chemical ionization. Induced by extremely high concentrations of analyte M, depletion of the primary ions in the drift tube occurs. This is observed as quasi zero concentration of the primary ion H3O+, and constant MH+. Under these non-standard conditions, we find an overall changed fragmentation. We offer two explanations. Either the changed fragmentation pattern is the result of secondary proton transfer reactions. Or, alternatively, the fast depletion of H3O+ leads to reduced heating of H3O+ in the drift field, and consequently changed fragmentation following protonation of the analyte M. In any case, we use the observed changes in fragmentation as a successful new approach to fragmentation studies, and term it primary ion depletion kinetics, PIDK. PIDK easily yields an abundance of continuous data points with little deviation, because they are obtained in one experimental run, even for low abundant fragments. This is an advantage over traditional internal kinetic energy variation studies (electric field per number density (E/N) variation studies). Also, some interpretation on the underlying fragmentation reaction mechanisms can be gleamed. We measure low occurring fragmentation (<2% of MH+) of the compounds dimethyl sulfide, DMS, a compound that reportedly does not fragment, diethyl sulfide DES, and dipropyl sulfide DPS. And we confirm and complement the results with traditional E/N studies. Summing up, the new approach of primary ion depletion kinetics allows for the identification of dehydrogenation [MH+ -H2] and adduct formation (RMH+) as low abundant fragmentation channels in monosulfides. PMID:23840555

  5. S3 and S4 abundances and improved chemical kinetic model for the lower atmosphere of Venus

    NASA Astrophysics Data System (ADS)

    Krasnopolsky, Vladimir A.

    2013-07-01

    Mixing ratios of S3 and S4 are obtained from reanalysis of the spectra of true absorption in the visible range retrieved by Maiorov et al. (Maiorov, B.S. et al. [2005]. Solar Syst. Res. 39, 267-282) from the Venera 11 observations. These mixing ratios are fS3 = 11 3 ppt at 3-10 km and 18 3 ppt at 10-19 km, fS4 = 4 4 ppt at 3-10 km and 6 2 ppt at 10-19 km, and show a steep decrease in both S3 and S4 above 19 km. Photolysis rates of S3 and S4 at various altitudes are calculated using the Venera 11 spectra and constant photolysis yields as free parameters. The chemical kinetic model for the Venus lower atmosphere (Krasnopolsky, V.A. [2007]. Icarus 191, 25-37) has been improved by inclusion of the S4 cycle from Yung et al. (Yung, Y.L. et al. [2009]. J. Geophys. Res. 114, E00B34), reduction of the H2SO4 and CO fluxes at the upper boundary of 47 km by a factor of 4 in accord with the recent photochemical models for the middle atmosphere, by using a closed lower boundary for OCS instead of a free parameter for this species at the surface, and some minor updates. Our model with the S4 cycle but without the SO3 + 2 OCS reaction suggested by Krasnopolsky and Pollack (Krasnopolsky, V.A., Pollack, J.B. [1994]. Icarus 109, 58-78) disagrees with the observations of OCS, CO, S3, and S4. However, inclusion of the S4 cycle improves the model fit to all observational constraints. The best-fit activation energy of 7800 K for thermolysis of S4 supports the S4 enthalpy from Mills (Mills, K.C. [1974]. Thermodynamic Data for Inorganic Sulfides, Selenides and Tellurides. Butterworths, London). Chemistry of the Venus lower atmosphere is initiated by disequilibrium products H2SO4 and CO from the middle atmosphere, photolysis of S3 and S4, and thermochemistry in the lowest scale height. The chemistry is mostly driven by sulfur that is formed in a slow reaction SO + SO, produces OCS, and results in dramatic changes in abundances of OCS, CO, and free sulfur allotropes. The SX + OCS fraction is constant and equal to 20 ppm in the lower atmosphere. A source of free sulfur on Venus is in the lower atmosphere, and the calculated S8 mixing ratio is 2.5 ppm above 40 km and results in condensation and formation of aerosol sulfur near 50 km. Therefore the model does not support sulfur as the NUV absorber that was observed by Venera 14 above 58 km. Sources and sinks of the major chemical products in the model are briefly discussed. The model predicts a significant abundance of 3.5 ppb for SO2Cl2 above 25 km. This prediction of SO2Cl2 as well as that in the photochemical model for the middle atmosphere (Krasnopolsky, V.A. [2012]. Icarus 218, 230-246) may stimulate search for this species. A modified concept of the fast and slow sulfur cycles in the middle and lower atmospheres, respectively, has been presented and discussed. Some sources of the model uncertainty are briefly discussed.

  6. Features in chemical kinetics. I. Signatures of self-emerging dimensional reduction from a general format of the evolution law.

    PubMed

    Nicolini, Paolo; Frezzato, Diego

    2013-06-21

    Simplification of chemical kinetics description through dimensional reduction is particularly important to achieve an accurate numerical treatment of complex reacting systems, especially when stiff kinetics are considered and a comprehensive picture of the evolving system is required. To this aim several tools have been proposed in the past decades, such as sensitivity analysis, lumping approaches, and exploitation of time scales separation. In addition, there are methods based on the existence of the so-called slow manifolds, which are hyper-surfaces of lower dimension than the one of the whole phase-space and in whose neighborhood the slow evolution occurs after an initial fast transient. On the other hand, all tools contain to some extent a degree of subjectivity which seems to be irremovable. With reference to macroscopic and spatially homogeneous reacting systems under isothermal conditions, in this work we shall adopt a phenomenological approach to let self-emerge the dimensional reduction from the mathematical structure of the evolution law. By transforming the original system of polynomial differential equations, which describes the chemical evolution, into a universal quadratic format, and making a direct inspection of the high-order time-derivatives of the new dynamic variables, we then formulate a conjecture which leads to the concept of an "attractiveness" region in the phase-space where a well-defined state-dependent rate function ? has the simple evolution ?[over dot]=-?(2) along any trajectory up to the stationary state. This constitutes, by itself, a drastic dimensional reduction from a system of N-dimensional equations (being N the number of chemical species) to a one-dimensional and universal evolution law for such a characteristic rate. Step-by-step numerical inspections on model kinetic schemes are presented. In the companion paper [P. Nicolini and D. Frezzato, J. Chem. Phys. 138, 234102 (2013)] this outcome will be naturally related to the appearance (and hence, to the definition) of the slow manifolds. PMID:23802945

  7. Features in chemical kinetics. I. Signatures of self-emerging dimensional reduction from a general format of the evolution law

    NASA Astrophysics Data System (ADS)

    Nicolini, Paolo; Frezzato, Diego

    2013-06-01

    Simplification of chemical kinetics description through dimensional reduction is particularly important to achieve an accurate numerical treatment of complex reacting systems, especially when stiff kinetics are considered and a comprehensive picture of the evolving system is required. To this aim several tools have been proposed in the past decades, such as sensitivity analysis, lumping approaches, and exploitation of time scales separation. In addition, there are methods based on the existence of the so-called slow manifolds, which are hyper-surfaces of lower dimension than the one of the whole phase-space and in whose neighborhood the slow evolution occurs after an initial fast transient. On the other hand, all tools contain to some extent a degree of subjectivity which seems to be irremovable. With reference to macroscopic and spatially homogeneous reacting systems under isothermal conditions, in this work we shall adopt a phenomenological approach to let self-emerge the dimensional reduction from the mathematical structure of the evolution law. By transforming the original system of polynomial differential equations, which describes the chemical evolution, into a universal quadratic format, and making a direct inspection of the high-order time-derivatives of the new dynamic variables, we then formulate a conjecture which leads to the concept of an "attractiveness" region in the phase-space where a well-defined state-dependent rate function ? has the simple evolution dot{? }= - ? ^2 along any trajectory up to the stationary state. This constitutes, by itself, a drastic dimensional reduction from a system of N-dimensional equations (being N the number of chemical species) to a one-dimensional and universal evolution law for such a characteristic rate. Step-by-step numerical inspections on model kinetic schemes are presented. In the companion paper [P. Nicolini and D. Frezzato, J. Chem. Phys. 138, 234102 (2013)], 10.1063/1.4809593 this outcome will be naturally related to the appearance (and hence, to the definition) of the slow manifolds.

  8. Kinetic resolution of oxazinones: rational exploration of chemical space through the design of experiments.

    PubMed

    Renzi, Polyssena; Kronig, Christel; Carlone, Armando; Erksz, Serap; Berkessel, Albrecht; Bella, Marco

    2014-09-01

    The organocatalytic kinetic resolution of 4-substituted oxazinones has been optimised (selectivity factor S up to 98, chiral oxazinone ee values up to 99.6?% (1?a-g) and product ee values up to 90?% (3?a-g)) in a rational way by applying the Design of Experiments (DoE) approach. PMID:25078283

  9. The Utility of the Lambert Function W[a exp(a - bt)] in Chemical Kinetics

    ERIC Educational Resources Information Center

    Williams, Brian Wesley

    2010-01-01

    The mathematical Lambert function W[a exp(a - bt)] is used to find integrated rate laws for several examples, including simple enzyme and Lindemann-Christiansen-Hinshelwood (LCH) unimolecular decay kinetics. The results derived here for the well-known LCH mechanism as well as for a dimer-monomer reaction mechanism appear to be novel. A nonlinear…

  10. The Utility of the Lambert Function W[a exp(a - bt)] in Chemical Kinetics

    ERIC Educational Resources Information Center

    Williams, Brian Wesley

    2010-01-01

    The mathematical Lambert function W[a exp(a - bt)] is used to find integrated rate laws for several examples, including simple enzyme and Lindemann-Christiansen-Hinshelwood (LCH) unimolecular decay kinetics. The results derived here for the well-known LCH mechanism as well as for a dimer-monomer reaction mechanism appear to be novel. A nonlinear

  11. An Analogy Using Pennies and Dimes to Explain Chemical Kinetics Concepts

    ERIC Educational Resources Information Center

    Cortes-Figueroa, Jose E.; Perez, Wanda I.; Lopez, Jose R.; Moore-Russo, Deborah A.

    2011-01-01

    In this article, the authors present an analogy that uses coins and graphical analysis to teach kinetics concepts and resolve pseudo-first-order rate constants related to transition-metal complexes ligand-solvent exchange reactions. They describe an activity that is directed to upper-division undergraduate and graduate students. The activity

  12. The Fizz Keeper, a Case Study in Chemical Education, Equilibrium, and Kinetics.

    ERIC Educational Resources Information Center

    Howald, Reed A.

    1999-01-01

    The loss of carbon dioxide from carbonated beverages provides an interesting case of the combination of equilibrium and kinetic principles. Adding air with a commercial device (the Fizz Keeper) has a negligible effect on various equilibria present but will slow diffusion in the gas space of a resealed bottle, decreasing the rate at which

  13. Large scale application of kinetic ART, a near order-1 topologically- based off-lattice kinetic Monte-Carlo algorithm with on-the-fly calculation of events

    NASA Astrophysics Data System (ADS)

    Beland, Laurent Karim; El-Mellouhi, Fedwa; Mousseau, Normand

    2010-03-01

    Using a topological classification of eventsfootnotetextB. D. McKay, Congressus Numerantium 30, 45 (1981). combined with the Activation-Relaxation Technique (ART nouveau) for the generation of diffusion pathways, the kinetic ART (k-ART)footnotetextF. El-Mellouhi, N. Mousseau and L. J. Lewis, Phys Rev B, 78,15 (2008). lifts many restrictions generally associated with standard kinetic Monte Carlo algorithms. In particular, it can treat on and off-lattice atomic positions and handles exactly long-range elastic deformation. Here we introduce a set of modifications to k-ART that reduce the computational cost of the algorithm to near order 1 and show applications of the algorithm to the diffusion of vacancy and interstitial complexes in large models of crystalline Si (100 000 atoms).

  14. Kinetics of para-nitrophenol and chemical oxygen demand removal from synthetic wastewater in an anaerobic migrating blanket reactor.

    PubMed

    Kuşçu, Ozlem Selçuk; Sponza, Delia Teresa

    2009-01-30

    A laboratory scale anaerobic migrating blanket reactor (AMBR) was operated at different HRTs (1-10.38 days) in order to determine the para-nitrophenol (p-NP) and COD removal kinetic constants. The reactor was fed with 40 mg L(-1)p-NP and 3000 mg L(-1) glucose-COD. Modified Stover-Kincannon and Grau second-order kinetic models were applied to the experimental data. The predicted p-NP and COD concentrations were calculated using the kinetic constants. It was found that these data were in better agreement with the observed ones in the modified Stover-Kincannon compared to Grau second-order model. The kinetic constants calculated according to Stover-Kincannon model are as follows: the saturation value constant (K(B)) and maximum utilization rate constants (R(max)) were found as 31.55 g CODL(-1)day(-1), 29.49 g CODL(-1)day(-1) for COD removal and 0.428 g p-NPL(-1)day(-1), 0.407 g p-NPL(-1)day(-1) for p-NP removal, respectively (R(2)=1). The values of (a) and (b) were found to be 0.096 day and 1.071 (dimensionless) with high correlation coefficients of R(2)=0.85 for COD removal. Kinetic constants for specific gas production rate were evaluated using modified Stover-Kincannon, Van der Meer and Heerrtjes and Chen and Hasminoto models. It was shown that Stover-Kincannon model is more appropriate for calculating the effluent COD, p-NP concentrations in AMBR compared to the other models. The maximum specific biogas production rate, G(max), and proportionality constant, G(B), were found to be 1666.7 mL L(-1) day(-1) and 2.83 (dimensionless), respectively in modified Stover-Kincannon gas model. The bacteria had low Haldane inhibition constants (K(ID)=14 and 23 mg L(-1)) for p-NP concentrations higher than 40 mg L(-1) while the half velocity constant (K(s)) increased from 10 to 60 and 118 mg L(-1) with increasing p-NP concentrations from 40 to 85 and 125 mg L(-1). PMID:18515004

  15. Characterization of the active site of DNA polymerase beta by molecular dynamics and quantum chemical calculation.

    PubMed

    Rittenhouse, Robert C; Apostoluk, Wlodzimierz K; Miller, John H; Straatsma, T P

    2003-11-15

    It is well established that the fully formed polymerase active site of the DNA repair enzyme, polymerase beta (pol beta), including two bound Mg2+ cations and the nucleoside triphosphate (dNTP) substrate, exists at only one point in the catalytic cycle just prior to the chemical nucleotidyl transfer step. The structure of the active conformation has been the subject of much interest as it relates to the mechanism of the chemical step and also to the question of fidelity assurance. Although crystal structures of ternary pol beta-(primer-template) DNA-dNTP complexes have provided the main structural features of the active site, they are necessarily incomplete due to intentional alterations (e.g., removal of the 3'OH groups from primer and substrate) needed to obtain a structure from midcycle. Working from the crystal structure closest to the fully formed active site [Protein Data Bank (PDB) code: 1bpy], two molecular dynamics (MD) simulations of the solvated ternary complex were performed: one with the missing 3'OHs restored, via modeling, to the primer and substrate, and the other without restoration of the 3'OHs. The results of the simulations, together with ab initio optimizations on simplified active-site models, indicate that the missing primer 3'OH in the crystal structure is responsible for a significant perturbation in the coordination sphere of the catalytic cation and allow us to suggest several corrections and additions to the active-site structure as observed by crystallography. In addition, the calculations help to resolve questions raised regarding the protonation states of coordinating ligands. PMID:14579358

  16. Characterization of the Active Site of DNA Polymerase Beta by Molecular Dynamics and Quantum Chemical Calculation

    SciTech Connect

    Rittenhouse, Robert C.; Apostoluk, Wlodzimierz K.; Miller, John H.; Straatsma, TP

    2003-11-15

    It is well established that the fully formed polymerase active site of the DNA repair enzyme, polymerase b (pol b), including two bound Mg2+ cations and the nucleoside triphosphate (dNTP) substrate, exists at only one point in the catalytic cycle just prior to the chemical nucleotidyl transfer step. The structure of the active conformation has been the subject of much interest as it relates to the mechanism of the chemical step and also to the question of fidelity assurance. While crystal structures of ternary pol b - (primer-template) DNA - dNTP complexes have provided the main structural features of the active site, they are necessarily incomplete due to intentional alterations, e.g. removal of the 3?OH groups from primer and substrate, that were needed to obtain a structure from mid-cycle. Working from the crystal structure closest to the fully formed active site, (pdb: 1bpy), two MD simulations of the solvated ternary complex were performed; one with the missing 3?OH?s restored, via modeling, to the primer and substrate, and the other without restoration of the 3?OH?s. The results of the simulations, taken together with ab initio optimizations on simplified active site models, indicate that the missing primer 3?OH in the crystal structure is responsible for a significant perturbation in the coordination sphere of the catalytic cation and allow us to suggest several corrections and additions to the active site structure as observed by crystallography. In addition, the calculations help to resolve questions that have been raised regarding the protonation states of coordinating ligands.

  17. Evaluation of intrinsic chemical kinetics and transient product spectra from time-resolved spectroscopic data.

    PubMed

    Dioumaev, A K

    1997-09-01

    This communication is devoted to the evaluation of true spectra and intrinsic (microscopic) rate constants from apparent kinetics measured in time-resolved spectroscopic experiments monitoring complex relaxation dynamics of multi-intermediate systems. Retinal proteins, cytochrom c oxidase, phytochrome, hemoglobin, and photoactive yellow protein are examples of natural systems in which several transient states (intermediates) overlap so strongly, both in time and spectral domains, that their isolation and full characterization by classical biochemical methods is impossible, and mathematical evaluation of their true spectra and microscopic kinetic constants is required. Most of the popular methods for analysis of kinetic data, global fitting (GF), singular value decomposition (SVD), principal component analysis (PCA) and factor analysis (FA), are applicable to two-dimensional (2D, in time and spectral domains) arrays of data. All these methods produce only a phenomenological description of data, that approximates the measured data only with apparent kinetics. A fundamental limitation, namely, insufficient information in 2D data, does not allow any of these methods to reach the final goal: to recalculate from apparent to intrinsic values in any but the most trivial cases. A strategy was proposed (J.F. Nagle, Biophys. J.. 59 (1991) 476-487) to include an additional (third) information-rich dimension, temperature, into the simultaneous computer analysis. A simultaneous direct fitting of 3D data arrays to systems of differential rate equations allows recalculation of apparent kinetics into true spectra and intrinsic rate constants. In spite of its evident theoretical advantages, this strategy has not been successful on real data. Here we describe another custom-built program, SCHEMEFIT, developed for the same purpose: to fit measured kinetics directly to the system of coupled differential rate equations describing the photochrome's relaxation dynamics. Though sharing the main strategy with the previous approach, SCHEMEFIT is based on a different set of numeric algorithms, and its application requires different tactics. Its performance is illustrated on synthetic data, and compared with GF and SVD. An example of applying SCHEMEFIT to the photocycle of halorhodopsin is also reported. PMID:17029887

  18. Detailed Chemical Kinetic Reaction Mechanisms for Primary Reference Fuels for Diesel Cetane Number and Spark-Ignition Octane Number

    SciTech Connect

    Westbrook, C K; Pitz, W J; Mehl, M; Curran, H J

    2010-03-03

    For the first time, a detailed chemical kinetic reaction mechanism is developed for primary reference fuel mixtures of n-hexadecane and 2,2,4,4,6,8,8-heptamethyl nonane for diesel cetane ratings. The mechanisms are constructed using existing rules for reaction pathways and rate expressions developed previously for the primary reference fuels for gasoline octane ratings, n-heptane and iso-octane. These reaction mechanisms are validated by comparisons between computed and experimental results for shock tube ignition and for oxidation under jet-stirred reactor conditions. The combined kinetic reaction mechanism contains the submechanisms for the primary reference fuels for diesel cetane ratings and submechanisms for the primary reference fuels for gasoline octane ratings, all in one integrated large kinetic reaction mechanism. Representative applications of this mechanism to two test problems are presented, one describing fuel/air autoignition variations with changes in fuel cetane numbers, and the other describing fuel combustion in a jet-stirred reactor environment with the fuel varying from pure 2,2,4,4,6,8,8-heptamethyl nonane (Cetane number of 15) to pure n-hexadecane (Cetane number of 100). The final reaction mechanism for the primary reference fuels for diesel fuel and gasoline is available on the web.

  19. Kinetics study of solid ammonia borane hydrogen release--modeling and experimental validation for chemical hydrogen storage.

    PubMed

    Choi, Young Joon; Rnnebro, Ewa C E; Rassat, Scot; Karkamkar, Abhi; Maupin, Gary; Holladay, Jamie; Simmons, Kevin; Brooks, Kriston

    2014-05-01

    Ammonia borane (AB), NH3BH3, is a promising material for chemical hydrogen storage with 19.6 wt% gravimetric hydrogen capacity of which maximum 16.2 wt% hydrogen can be released via an exothermic thermal decomposition below 200 C. We have investigated the kinetics of hydrogen release from AB and from an AB-methyl cellulose (AB/MC) composite at temperatures of 160-300 C using both experiments and modeling. The hydrogen release rate at 300 C is twice as fast as at 160 C. The purpose of our study was to show safe hydrogen release without thermal runaway effects and to validate system model kinetics. AB/MC released hydrogen at ?20 C lower than neat AB and at a faster release rate in that temperature range. Based on the experimental results, the kinetics equations were revised to better represent the growth and nucleation process during decomposition of AB. We explored two different reactor concepts; auger and fixed bed. The current auger reactor concept turned out to not be appropriate, however, we demonstrated safe self-propagation of the hydrogen release reaction of solid AB/MC in a fixed bed reactor. PMID:24647627

  20. Thermogravimetric Analysis of Modified Hematite by Methane (CH{sub 4}) for Chemical-Looping Combustion: A Global Kinetics Mechanism

    SciTech Connect

    Monazam, Esmail R.; Breault, Ronald W.; Siriwardane, Ranjani; Miller, Duane D.

    2013-10-01

    Iron oxide (Fe{sub 2}O{sub 3}) or in its natural form (hematite) is a potential material to capture CO{sub 2} through the chemical-looping combustion (CLC) process. It is known that magnesium (Mg) is an effective methyl cleaving catalyst and as such it has been combined with hematite to assess any possible enhancement to the kinetic rate for the reduction of Fe{sub 2}O{sub 3} with methane. Therefore, in order to evaluate its effectiveness as a hematite additive, the behaviors of Mg-modified hematite samples (hematite –5% Mg(OH){sub 2}) have been analyzed with regard to assessing any enhancement to the kinetic rate process. The Mg-modified hematite was prepared by hydrothermal synthesis. The reactivity experiments were conducted in a thermogravimetric analyzer (TGA) using continuous stream of CH{sub 4} (5, 10, and 20%) at temperatures ranging from 700 to 825 {degrees}C over ten reduction cycles. The mass spectroscopy analysis of product gas indicated the presence of CO{sub 2}, H{sub 2}O, H{sub 2} and CO in the gaseous product. The kinetic data at reduction step obtained by isothermal experiments could be well fitted by two parallel rate equations. The modified hematite samples showed higher reactivity as compared to unmodified hematite samples during reduction at all investigated temperatures.

  1. Kinetics of the single-electron chemical oxidation of rhenium(V) meso-phenyl-β-octaethylporphyrinate

    NASA Astrophysics Data System (ADS)

    Bichan, N. G.; Tyulyaeva, E. Yu.; Lomova, T. N.

    2014-10-01

    The states and reactions of rhenium(V) complexes with meso-monophenyl-β-octaethylporphines containing Cl- and OPh- as axial ligands O=Re(Cl)MPOEP and O=Re(OPh)MPOEP in concentrated sulfuric acid at 298-348 K are studied via spectral and kinetic methods. While stable along M-N bonds, O=Re(Cl)MPOEP is found to undergo slow oxidation after transforming into axial hydrosulfate complex O=Re(HSO4)MPOEP. It is shown that the sole electron oxidizing agent is atmospheric oxygen (with the assistance of highly concentrated protons) and the sites of reduction are aromatic ligands. The reaction product was identified as π-radical cation O=Re(HSO4)MPOEP·+. Forward and inverse chemical kinetics solutions are used to obtain a full kinetic equation and the reaction rate parameters of elementary steps, and to establish the stoichiometric mechanism of the composite oxidation of the complex. Complex O=Re(OPh)MPOEP in the form O=Re(OPh)(O2)MPOEP with coordinated oxygen is shown experimentally to be stable with respect to oxidation. The obtained results are important for identifying intermediates in processes catalyzed by stable metal porphyrins.

  2. Kinetic Monte Carlo simulations of anisotropic Si(100) etching: Modeling the chemical origins of characteristic etch morphologies

    NASA Astrophysics Data System (ADS)

    Gupta, Ankush; Aldinger, Brandon S.; Faggin, Marc F.; Hines, Melissa A.

    2010-07-01

    An atomistic, chemically realistic, kinetic Monte Carlo simulator of anisotropic Si(100) etching was developed. Surface silicon atoms were classified on the basis of their local structure, and all atoms of each class were etched with the same rate. A wide variety of morphologies, including rough, striped, and hillocked, was observed. General reactivity trends were correlated with specific morphological features. The production of long rows of unstrained dihydride species, recently observed in NH4F (aq) etching of Si(100), could only be explained by the rapid etching of dihydrides that are adjacent to (strained) monohydridesso-called "?-dihydrides." Some etch kinetics promoted the formation of {111}-microfaceted pyramidal hillocks, similar in structure to those observed experimentally during Si(100) etching. Pyramid formation was intrinsic to the etch kinetics. In contrast with previously postulated mechanisms of pyramid formation, no masking agent (e.g., impurity, gas bubble) was required. Pyramid formation was explained in terms of the slow etch rate of the {111} sides, {110} edges, and the dihydride species that terminated the apex of the pyramid. As a result, slow etching of Si(111) surfaces was a necessary, but insufficient, criterion for microfacet formation on Si(100) surfaces.

  3. Nuclei-selected NMR shielding calculations: a sublinear-scaling quantum-chemical method.

    PubMed

    Beer, Matthias; Kussmann, Jrg; Ochsenfeld, Christian

    2011-02-21

    An ab initio method for the direct calculation of NMR shieldings for selected nuclei at the Hartree-Fock and density-functional theory level is presented. Our method shows a computational effort scaling only sublinearly with molecular size, as it is motivated by the physical consideration that the chemical shielding is dominated by its local environment. The key feature of our method is to avoid the conventionally performed calculation of all NMR shieldings but instead to solve directly for specific nuclear shieldings. This has important implications not only for the study of large molecules, but also for the simulation of solvent effects and molecular dynamics, since often just a few shieldings are of interest. Our theory relies on two major aspects both necessary to provide a sublinear scaling behavior: First, an alternative expression for the shielding tensor is derived, which involves the response density matrix with respect to the nuclear magnetic moment instead of the response to the external magnetic field. Second, as unphysical long-range contributions occur within the description of distributed gauge origin methods that do not influence the final expectation value, we present a screening procedure to truncate the B-field dependent basis set, which is crucial in order to ensure an early onset of the sublinear scaling. The screening is in line with the r(-2) distance decay of Biot-Savarts law for induced magnetic fields. Our present truncation relies on the introduced concept of "individual gauge shielding contributions" applied to a reformulated shielding tensor, the latter consisting of gauge-invariant terms. The presented method is generally applicable and shows typical speed-ups of about one order of magnitude; moreover, due to the reduced scaling behavior of O(1) as compared to O(N), the wins become larger with increasing system size. We illustrate the validity of our method for several test systems, including ring-current dominated systems and biomolecules with more than 1000 atoms. PMID:21341823

  4. Thermal Decomposition of NCN: Shock-Tube Study, Quantum Chemical Calculations, and Master-Equation Modeling.

    PubMed

    Busch, Anna; Gonzlez-Garca, Nria; Lendvay, Gyrgy; Olzmann, Matthias

    2015-07-16

    The thermal decomposition of cyanonitrene, NCN, was studied behind reflected shock waves in the temperature range 1790-2960 K at pressures near 1 and 4 bar. Highly diluted mixtures of NCN3 in argon were shock-heated to produce NCN, and concentration-time profiles of C atoms as reaction product were monitored with atomic resonance absorption spectroscopy at 156.1 nm. Calibration was performed with methane pyrolysis experiments. Rate coefficients for the reaction (3)NCN + M ? (3)C + N2 + M (R1) were determined from the initial slopes of the C atom concentration-time profiles. Reaction R1 was found to be in the low-pressure regime at the conditions of the experiments. The temperature dependence of the bimolecular rate coefficient can be expressed with the following Arrhenius equation: k1(bim) = (4.2 2.1) 10(14) exp[-242.3 kJ mol(-1)/(RT)] cm(3) mol(-1) s(-1). The rate coefficients were analyzed by using a master equation with specific rate coefficients from RRKM theory. The necessary molecular data and energies were calculated with quantum chemical methods up to the CCSD(T)/CBS//CCSD/cc-pVTZ level of theory. From the topography of the potential energy surface, it follows that reaction R1 proceeds via isomerization of NCN to CNN and subsequent C-N bond fission along a collinear reaction coordinate without a tight transition state. The calculations reproduce the magnitude and temperature dependence of the rate coefficient and confirm that reaction R1 is in the low-pressure regime under our experimental conditions. PMID:25853321

  5. The promising chemical kinetics for the simulation of propane-air combustion with KIVA-II code

    NASA Technical Reports Server (NTRS)

    Ying, S. J.; Gorla, Rama S. R.; Kundu, Krishna P.

    1993-01-01

    The development of chemical kinetics for the simulation of propane-air combustion with the use of computer code KIVA-II since 1989 is summarized here. In order to let readers understand the general feature well, a brief description of the KIVA-II code, specially related with the chemical reactions is also given. Then the results of recent work with 20 reaction mechanism is presented. It is also compared with the 5 reaction mechanism. It may be expected that the numerical stability of the 20 reaction mechanism is better as compared to that of 5 reaction mechanism, but the CPU time of the CRAY computer is much longer. Details are presented in the paper.

  6. GCKP84-general chemical kinetics code for gas-phase flow and batch processes including heat transfer effects

    NASA Technical Reports Server (NTRS)

    Bittker, D. A.; Scullin, V. J.

    1984-01-01

    A general chemical kinetics code is described for complex, homogeneous ideal gas reactions in any chemical system. The main features of the GCKP84 code are flexibility, convenience, and speed of computation for many different reaction conditions. The code, which replaces the GCKP code published previously, solves numerically the differential equations for complex reaction in a batch system or one dimensional inviscid flow. It also solves numerically the nonlinear algebraic equations describing the well stirred reactor. A new state of the art numerical integration method is used for greatly increased speed in handling systems of stiff differential equations. The theory and the computer program, including details of input preparation and a guide to using the code are given.

  7. Turbulent Chemically Reacting Flows According to a Kinetic Theory. Ph.D. Thesis; [statistical analysis/gas flow

    NASA Technical Reports Server (NTRS)

    Hong, Z. C.

    1975-01-01

    A review of various methods of calculating turbulent chemically reacting flow such as the Green Function, Navier-Stokes equation, and others is presented. Nonequilibrium degrees of freedom were employed to study the mixing behavior of a multiscale turbulence field. Classical and modern theories are discussed.

  8. Single crystal XRD, vibrational and quantum chemical calculation of pharmaceutical drug paracetamol: A new synthesis form.

    PubMed

    Anitha, R; Gunasekaran, M; Kumar, S Suresh; Athimoolam, S; Sridhar, B

    2015-11-01

    The common house hold pharmaceutical drug, paracetamol (PAR), has been synthesized from 4-chloroaniline as a first ever report. After the synthesis, good quality single crystals were obtained for slow evaporation technique under the room temperature. The crystal and molecular structures were re-determined by the single crystal X-ray diffraction. The vibrational spectral measurements were carried out using FT-IR and FT-Raman spectroscopy in the range of 4000-400 cm(-1). The single crystal X-ray studies shows that the drug crystallized in the monoclinic system polymorph (Form-I). The crystal packing is dominated by N-H?O and O-H?O classical hydrogen bonds. The ac diagonal of the unit cell features two chain C(7) and C(9) motifs running in the opposite directions. These two chain motifs are cross-linked to each other to form a ring R4(4)(22) motif and a chain C2(2)(6) motif which is running along the a-axis of the unit cell. Along with the classical hydrogen bonds, the methyl group forms a weak C-H?O interactions in the crystal packing. It offers the support for molecular assembly especially in the hydrophilic regions. Further, the strength of the hydrogen bonds are studied the shifting of vibrational bands. Geometrical optimizations of the drug molecule were done by the Density Functional Theory (DFT) using the B3LYP function and Hartree-Fock (HF) level with 6-311++G(d,p) basis set. The optimized molecular geometry and computed vibrational spectra are compared with experimental results which show significant agreement. The factor group analysis of the molecule was carried out by the various molecular symmetry, site and factor group species using the standard correlation method. The Natural Bond Orbital (NBO) analysis was carried out to interpret hyperconjugative interaction and intramolecular charge transfer (ICT). The chemical softness, chemical hardness, electro-negativity, chemical potential and electrophilicity index of the molecule were found out first time by HOMO-LUMO plot. The frontier orbitals shows lower band gap values signify the possible biological/pharmaceutical activity of the molecule. The thermodynamical properties are also obtained from the calculated frequencies of the optimized structures. PMID:26072380

  9. Kinetics of Structural and Chemical Transformations of Adsorbates Obtained with a Time-Resolved Electron Energy Loss Spectrometer.

    NASA Astrophysics Data System (ADS)

    Gurney, Bruce Alvin

    1987-09-01

    This thesis traces the development of the first time-resolved electron energy loss spectrometer (TREELS), and its application to study the kinetics of chemical and structural transformations of adsorbed molecules on single crystal transition metal surfaces. This advancement in EEL spectroscopy was accomplished by outfitting the analyzer of the EEL spectrometer with a multi-detector possessing 96 anodes which were monitored in parallel by a micro-computer, making possible the successive accumulation of rapidly taken spectra. Spectral acquisition times between 20 ms and 60 s were employed. By monitoring the evolution of features in the vibrational spectra following a concentration or temperature perturbation of the surface the kinetics of surface processes was investigated. The structural transitions between the top, bridge and tilted p1g1 sites of CO on Ni(110) which occur with increasing CO coverage were observed by following the CO stretch intensity continuously during adsorption, and the kinetics was obtained at elevated temperatures by monitoring changes in EELS intensities induced by a linear temperature ramp and from the isothermal nonequilibrium relaxation of CO following a saturation exposure from a pulsed gas doser. The populations of bridge and top site CO on Rh(100) were monitored during adsorption and desorption, and versus temperature at a fixed coverage. The difference in binding enthalpy for the two sites was obtained. The CO site populations during reaction of CO with O were correlated with the CO_ 2 production rate and long range adsorbate order. The kinetics of the synthesis of OH (hydroxyl) from coadsorbed O and H, and of HCOO (formate) from coadsorbed CO, H_ 2O and O on Rh(100) was obtained. This is the first identification of OH and HCOO during reaction, demonstrating that they are important chemical intermediates. By varying the reactant concentration it was determined that OH is formed at the boundary of O islands, showing the importance of long range order on surface reaction kinetics, and that high reactant concentrations which force OH and CO into close proximity are required for HCOO synthesis, suggesting this may be an important role for catalysts under high pressure conditions.

  10. The kinetic and chemical mechanism of high-fidelity DNA polymerases

    PubMed Central

    Johnson, Kenneth A.

    2011-01-01

    This review summarizes our current understanding of the structural, kinetic and thermodynamic basis for the extraordinary accuracy of high fidelity DNA polymerases. High fidelity DNA polymerases, such as the enzyme responsible for the replication of bacteriophage T7 DNA, discriminate against similar substrates with an accuracy that approaches one error in a million base pairs while copying DNA at a rate of approximately 300 base pairs per second. When the polymerase does make an error, it stalls, giving time for the slower proofreading exonuclease to remove the mismatch so that the overall error frequency approaches one in a billion. Structural analysis reveals a large change in conformation after nucleotide binding from an open to a closed state. Kinetic analysis has shown that the substrate-induced structural change plays a key role in the discrimination between correct and incorrect base pairs by governing whether a nucleotide will be retained and incorporated or rapidly released. PMID:20079883

  11. The Fizz Keeper, a Case Study in Chemical Education, Equilibrium, and Kinetics

    NASA Astrophysics Data System (ADS)

    Howald, Reed

    1999-02-01

    The chemistry of the loss of carbonation from carbonated beverages on storage was considered. Increasing the pressure of CO2(g) will restore carbonation, but an increase in pressure adding air should not affect the equilibria. It can and does, however, affect the kinetics-the rate at which a new equilibrium is established. Thus the Fizz Keeper is effective for storage of resealed pop containers for hours, but not for periods of weeks or months.

  12. Chemical Kinetics, Heat Transfer, and Sensor Dynamics Revisited in a Simple Experiment

    ERIC Educational Resources Information Center

    Sad, Maria E.; Sad, Mario R.; Castro, Alberto A.; Garetto, Teresita F.

    2008-01-01

    A simple experiment about thermal effects in chemical reactors is described, which can be used to illustrate chemical reactor models, the determination and validation of their parameters, and some simple principles of heat transfer and sensor dynamics. It is based in the exothermic reaction between aqueous solutions of sodium thiosulfate and

  13. Chemical Kinetics, Heat Transfer, and Sensor Dynamics Revisited in a Simple Experiment

    ERIC Educational Resources Information Center

    Sad, Maria E.; Sad, Mario R.; Castro, Alberto A.; Garetto, Teresita F.

    2008-01-01

    A simple experiment about thermal effects in chemical reactors is described, which can be used to illustrate chemical reactor models, the determination and validation of their parameters, and some simple principles of heat transfer and sensor dynamics. It is based in the exothermic reaction between aqueous solutions of sodium thiosulfate and…

  14. Sample Handling and Chemical Kinetics in an Acoustically Levitated Drop Microreactor

    PubMed Central

    2009-01-01

    Accurate measurement of enzyme kinetics is an essential part of understanding the mechanisms of biochemical reactions. The typical means of studying such systems use stirred cuvettes, stopped-flow apparatus, microfluidic systems, or other small sample containers. These methods may prove to be problematic if reactants or products adsorb to or react with the container’s surface. As an alternative approach, we have developed an acoustically-levitated drop reactor eventually intended to study enzyme-catalyzed reaction kinetics related to free radical and oxidative stress chemistry. Microliter-scale droplet generation, reactant introduction, maintenance, and fluid removal are all important aspects in conducting reactions in a levitated drop. A three capillary bundle system has been developed to address these needs. We report kinetic measurements for both luminol chemiluminescence and the reaction of pyruvate with nicotinamide adenine dinucleotide, catalyzed by lactate dehydrogenase, to demonstrate the feasibility of using a levitated drop in conjunction with the developed capillary sample handling system as a microreactor. PMID:19769373

  15. Model-based analysis of coupled equilibrium-kinetic processes: indirect kinetic studies of thermodynamic parameters using the dynamic data.

    PubMed

    Emami, Fereshteh; Maeder, Marcel; Abdollahi, Hamid

    2015-05-01

    Thermodynamic studies of equilibrium chemical reactions linked with kinetic procedures are mostly impossible by traditional approaches. In this work, the new concept of generalized kinetic study of thermodynamic parameters is introduced for dynamic data. The examples of equilibria intertwined with kinetic chemical mechanisms include molecular charge transfer complex formation reactions, pH-dependent degradation of chemical compounds and tautomerization kinetics in micellar solutions. Model-based global analysis with the possibility of calculating and embedding the equilibrium and kinetic parameters into the fitting algorithm has allowed the complete analysis of the complex reaction mechanisms. After the fitting process, the optimal equilibrium and kinetic parameters together with an estimate of their standard deviations have been obtained. This work opens up a promising new avenue for obtaining equilibrium constants through the kinetic data analysis for the kinetic reactions that involve equilibrium processes. PMID:25723920

  16. The (impossible?) formation of acetaldehyde on the grain surfaces: insights from quantum chemical calculations

    NASA Astrophysics Data System (ADS)

    Enrique-Romero, J.; Rimola, A.; Ceccarelli, C.; Balucani, N.

    2016-02-01

    Complex Organic Molecules (COMs) have been detected in the interstellar medium (ISM). However, it is not clear whether their synthesis occurs on the icy surfaces of interstellar grains or via a series of gas-phase reactions. As a test case of the COMs synthesis in the ISM, we present new quantum chemical calculations on the formation of acetaldehyde (CH3CHO) from the coupling of the HCO and CH3 radicals, both in gas phase and on water ice surfaces. The binding energies of HCO and CH3 on the amorphous water ice were also computed (2333 and 734 K, respectively). Results indicate that, in gas phase, the products could be either CH3CHO, CH4 + CO, or CH3OCH, depending on the relative orientation of the two radicals. However, on the amorphous water ice, only the CH4 + CO product is possible due to the geometrical constraints imposed by the water ice surface. Therefore, acetaldehyde cannot be synthesised by the CH3 + HCO coupling on the icy grains. We discuss the implications of these results and other cases, such as ethylene glycol and dimethyl ether, in which similar situations can occur, suggesting that formation of these molecules on the grain surfaces might be unlikely.

  17. Predicting new, simple inorganic species by quantum chemical calculations: some successes.

    PubMed

    Pyykk, Pekka

    2012-11-21

    A combination of ab initio calculations with the isoelectronic principle and chemical intuition is a useful way to predict new species. Some experimentally verified examples are (1) the transition-metal hydrides, MH(n) (n = 4-12), (2) new members of the multiply-bonded 2nd- or 3rd-period species A?B, A=B=C, A=B=C=D or A?B-C?D, and A=B=C=D=E classes, the last-mentioned class including the cations N and OCNCO(+), (3) new members of the uranyl isoelectronic series, (4) actinyls where one of the oxygens is replaced by a 5d transition-metal (TM), (5) certain systems with noble-gas-noble-metal bonds, (6) the first argon compound HArF, (7) the cluster series of WAu(12), (8) TM-centred polyazide anions, (9) covalent molecules with a central -Zn-Zn- bond, (10) tetrahedral clusters of zinc and cadmium, (11) model systems for otherwise missing multiple bonds and (12) certain endohedral A@B systems. Further series of hypothetical species were used as a tool for developing recent sets of covalent radii, for studying the endohedral intermolecular interactions in A@B systems, or for finding examples of a 32-electron rule, corresponding to the well-known 8e- and 18e-rules. For obvious reasons, much of the molecular chemistry of the superheavy elements is based on studies of hypothetical model systems. PMID:22334093

  18. Elucidating triplet-sensitized photolysis mechanisms of sulfadiazine and metal ions effects by quantum chemical calculations.

    PubMed

    Wang, Se; Song, Xuedan; Hao, Ce; Gao, Zhanxian; Chen, Jingwen; Qiu, Jieshan

    2015-03-01

    Sulfadiazine (SDZ) mainly proceeds triplet-sensitized photolysis with dissolved organic matter (DOM) in the aquatic environment. However, the mechanisms underlying the triplet-sensitized photolysis of SDZ with DOM have not been fully worked out. In this study, we investigated the mechanisms of triplet-sensitized photolysis of SDZ(0) (neutral form) and SDZ(-) (anionic form) with four DOM analogues, i.e., fluorenone (FL), thioxanthone (TX), 2-acetonaphthone (2-AN), and 4-benzoylbenzoic acid (CBBP), and three metal ions (i.e., Mg(2+), Ca(2+), and Zn(2+)) effects using quantum chemical calculations. Results indicated that the triplet-sensitized photolysis mechanism of SDZ(0) with FL, TX, and 2-AN was hydrogen transfer, and with CBBP was electron transfer along with proton transfer (for complex SDZ(0)-CBBP2) and hydrogen transfer (for complex SDZ(0)-CBBP1). The triplet-sensitized photolysis mechanisms of SDZ(-) with FL, TX, and CBBP was electron transfer along with proton transfer, and with 2-AN was hydrogen transfer. The triplet-sensitized photolysis product of both SDZ(0) and SDZ(-) was a sulfur dioxide extrusion product (4-(2-iminopyrimidine-1(2H)-yl)aniline), but the formation routs of the products for SDZ(0) and SDZ(-) were different. In addition, effects of the metal ions on the triplet-sensitized photolysis of SDZ(0) and SDZ(-) were different. The metal ions promoted the triplet-sensitized photolysis of SDZ(0), but inhibited the triplet-sensitized photolysis of SDZ(-). PMID:25496743

  19. Norm-conserving pseudopotentials with chemical accuracy compared to all-electron calculations

    NASA Astrophysics Data System (ADS)

    Willand, Alex; Kvashnin, Yaroslav O.; Genovese, Luigi; Vázquez-Mayagoitia, Álvaro; Deb, Arpan Krishna; Sadeghi, Ali; Deutsch, Thierry; Goedecker, Stefan

    2013-03-01

    By adding a nonlinear core correction to the well established dual space Gaussian type pseudopotentials for the chemical elements up to the third period, we construct improved pseudopotentials for the Perdew-Burke-Ernzerhof [J. Perdew, K. Burke, and M. Ernzerhof, Phys. Rev. Lett. 77, 3865 (1996), 10.1103/PhysRevLett.77.3865] functional and demonstrate that they exhibit excellent accuracy. Our benchmarks for the G2-1 test set show average atomization energy errors of only half a kcal/mol. The pseudopotentials also remain highly reliable for high pressure phases of crystalline solids. When supplemented by empirical dispersion corrections [S. Grimme, J. Comput. Chem. 27, 1787 (2006), 10.1002/jcc.20495; S. Grimme, J. Antony, S. Ehrlich, and H. Krieg, J. Chem. Phys. 132, 154104 (2010), 10.1063/1.3382344] the average error in the interaction energy between molecules is also about half a kcal/mol. The accuracy that can be obtained by these pseudopotentials in combination with a systematic basis set is well superior to the accuracy that can be obtained by commonly used medium size Gaussian basis sets in all-electron calculations.

  20. Fast Prediction of HCCI and PCCI Combustion with an Artificial Neural Network-Based Chemical Kinetic Model

    SciTech Connect

    Piggott, W T; Aceves, S M; Flowers, D L; Chen, J Y

    2007-09-26

    We have added the capability to look at in-cylinder fuel distributions using a previously developed ignition model within a fluid mechanics code (KIVA3V) that uses an artificial neural network (ANN) to predict ignition (The combined code: KIVA3V-ANN). KIVA3V-ANN was originally developed and validated for analysis of Homogeneous Charge Compression Ignition (HCCI) combustion, but it is also applicable to the more difficult problem of Premixed Charge Compression Ignition (PCCI) combustion. PCCI combustion refers to cases where combustion occurs as a nonmixing controlled, chemical kinetics dominated, autoignition process, where the fuel, air, and residual gas mixtures are not necessarily as homogeneous as in HCCI combustion. This paper analyzes the effects of introducing charge non-uniformity into a KIVA3V-ANN simulation. The results are compared to experimental results, as well as simulation results using a more physically representative and computationally intensive code (KIVA3V-MPI-MZ), which links a fluid mechanics code to a multi-zone detailed chemical kinetics solver. The results indicate that KIVA3V-ANN produces reasonable approximations to the more accurate KIVA3V-MPI-MZ at a much reduced computational cost.