Dissertations / Theses on the topic 'Dispersion interaction density'

he interactions of the chemical warfare agent sulfur mustard with amorphous silica were investigated using electronic structure calculations. In this thesis, the binding energies of sulfur mustard and mimic species used in the laboratory were calculated using density functional theory and fully ab initio calculations. The wB97XD and B97D functionals, which include functions to account for long-range dispersion interactions, were compared to experimental trends. The hydroxylated amorphous silica surface was approximated using a gas-phase silanol molecule and clusters containing a single hydroxyl moiety. Recent temperature programmed desorption experiments performed in UHV concluded that sulfur mustard and its less toxic mimics undergo molecular adsorption to amorphous silica. Hydrogen bonding can occur between surface silanol groups and either the sulfur or chlorine atom of the adsorbates, and the calculations indicate that the binding energies for the two hydrogen bond acceptors are similar. The adsorption of sulfur mustard and its mimics on silica also exhibits the presence of significant van der Waals interactions between alkyl of the adsorbates and the surface. These interactions, in combination with the formation of a hydrogen bond between a surface silanol group and the Cl or S atoms of the adsorbates, provide remarkably large binding energies.
Master of Science

Dans cette thèse sont montrés des développements de l'approximation de la phase aléatoire (RPA) dans le contexte de théories à séparation de portée. On présente des travaux sur le formalisme de la RPA en général, et en particulier sur le formalisme "matrice diélectrique" qui est exploré de manière systématique. On montre un résumé d'un travail sur les équations RPA dans le contexte d'orbitales localisées, notamment des développements des orbitales virtuelles localisées que sont les "orbitales oscillantes projetées" (POO). Un programme a été écrit pour calculer des fonctions telles que le trou de d'échange, la fonction de réponse, etc... sur des grilles de l'espace réel (grilles parallélépipédiques ou de type "DFT"). On montre certaines de ces visualisations. Dans l'espace réel, on expose une adaptation de l'approximation du dénominateur effectif (EED), développée originellement dans l'espace réciproque en physique du solide. Également, les gradients analytiques des énergies de corrélation RPA dans le contexte de la séparation de portée sont dérivés. Le formalisme développé ici à l'aide d'un lagrangien permet une dérivation tout-en-un des termes courte- et longue-portée qui émergent dans les expressions du gradient, et qui montrent un parallèle intéressant. Des applications sont montrées, telles que des optimisations de géométries aux niveaux RSH-dRPA-I et RSH-SOSEX d'un ensemble de 16 petites molécules, ou encore le calcul et la visualisation des densités corrélées au niveau RSH-dRPA-I
In this thesis are shown developments in the random phase approximation (RPA) in the context of range-separated theories. We present advances in the formalism of the RPA in general, and particularly in the "dielectric matrix" formulation of RPA, which is explored in details. We show a summary of a work on the RPA equations with localized orbitals, especially developments of the virtual localized orbitals that are the "projected oscillatory orbitals" (POO). A program has been written to calculate functions such as the exchange hole, the response function, etc... on real space grid (parallelepipedic or of the "DFT" type) ; some of those visualizations are shown here. In the real space, we offer an adaptation of the effective energy denominator approximation (EED), originally developed in the reciprocal space in solid physics. The analytical gradients of the RPA correlation energies in the context of range separation has been derived. The formalism developed here with a Lagrangian allows an all-in-one derivation of the short- and long-range terms that emerge in the expressions of the gradient. These terms show interesting parallels. Geometry optimizations at the RSH-dRPA-I and RSH-SOSEX levels on a set of 16 molecules are shown, as well as calculations and visualizations of correlated densities at the RSH-dRPA-I level

Van der Waals-Wechselwirkungen (vdW) sind allgegenwärtig und spielen eine zentrale Rolle in einer großen Anzahl biologischer und moderner synthetischer Materialien. Die am weitesten verbreitete theoretische Methode zur Berechnung von Materialeigenschaften, die Dichtefunktionaltheorie (DFT) in semilokaler Näherung, vernachlässigt diese Wechselwirkungen jedoch größtenteils, was zur Entwicklung vieler verschiedener vdW-Modelle führte. Die hier vorgestellte Arbeit ebnet den Weg hin zu einem vereinheitlichten vdW-Modell welches die besten Elemente der unterschiedlichen Klassen von vdW-Modellen vereint. Zu diesem Zweck haben wir einen vereinheitlichten theoretischen Rahmen geschaffen, der auf dem Reichweite-separierten Adiabatischer-Zusammenhang-Fluktuations-Dissipations-Theorem aufbaut und die meisten existierenden vdW-Modelle umfasst. Wir analysieren die MBD-korrelierte Wellenfunktion am prototypischen Beispiel von π–π-Wechselwirkungen in supramolekularen Komplexen und stellen fest, dass diese Wechselwirkungen größtenteils durch delokalisierte kollektive Ladungsfluktuationen entstehen. Um zu dem langreichweitigen vdW-Modell ein ausgewogenes kurzreichweitiges Dichtefunktional zu identifizieren, präsentieren wir eine umfassende Untersuchung zum Zusammenspiel der kurz- und langreichweitigen Energiebeiträge in acht semilokalen Funktionalen und drei vdW-Modellen für eine große Spanne von Systemen. Die Bindungsenergieprofile vieler der DFT+vdW-Kombinationen unterscheiden sich sowohl quantitativ als auch qualitativ stark voneinander. Schließlich untersuchen wir die Performance des Vydrov–Van Voorhis-Polarisierbarkeitsfunktionals über das Periodensystem der Elemente hinweg und identifizieren eine systematische Unterschätzung der Polarisierbarkeiten und vdW-C₆-Koeffizienten für s- und d-Block-Elemente. Als Lösung entwickeln wir eine orbitalabhängige Verallgemeinerung des Funktionals.
The ubiquitous long-range van der Waals interactions play a central role in nearly all biological and modern synthetic materials. Yet the most widely used theoretical method for calculating material properties, the density functional theory (DFT) in semilocal approximation, largely neglects these interactions, which motivated the development of many different vdW models. The work in this thesis paves way towards a unified vdW model that combines best elements from the different classes of the vdW models. To this end, we developed a unified theoretical framework based on the range-separated adiabatic-connection fluctuation--dissipation theorem that encompasses most existing vdW models. We analyze the MBD correlated wave function on the prototypical case of π–π interactions in supramolecular complexes and find that these interactions are largely driven by delocalized collective charge fluctuations. To identify a balanced short-range density functional to accompany the long-range vdW model, we present a comprehensive study of the interplay between the short-range and long-range energy contributions in eight semilocal functionals and three vdW models on a wide range of systems. The binding-energy profiles of many of the DFT+vdW combinations differ both quantitatively and qualitatively, and some of the qualitative differences are independent of the choice of the vdW model. Finally, we investigate the performance of the Vydrov—Van Voorhis polarizability functional across the periodic table, identify systematic underestimation of the polarizabilities and vdW C₆ coefficients for s- and d-block elements, and develop an orbital-dependent generalization of this functional to resolve the issue.

Molecular simulation is applied to understanding the behaviour of alkane liquids with the eventual goal of being able to predict the viscosity of an arbitrary alkane mixture from first principles. Such prediction would have numerous scientific and industrial applications, as alkanes are the largest component of fuels, lubricants, and waxes; furthermore, they form the backbones of a myriad of organic compounds. This dissertation details the creation of a potential, a model for how the atoms and molecules in the simulation interact, based on a systematic approximation of the quantum mechanical potential energy surface using machine learning. This approximation has the advantage of producing forces and energies of nearly quantum mechanical accuracy at a tiny fraction of the usual cost. It enables accurate simulation of the large systems and long timescales required for accurate prediction of properties such as the density and viscosity. The approach is developed and tested on methane, the simplest alkane, and investigations are made into potentials for longer, more complex alkanes. The results show that the approach is promising and should be pursued further to create an accurate machine learning potential for the alkanes. It could even be extended to more complex molecular liquids in the future.

Les descriptions des interactions faibles et notamment de la dispersion représentent un problème majeur pour la théorie de la fonctionnelle de la densité. En effet, le caractère fortement local des fonctionnelles rend problématique la description des interactions à longue-portée. Aussi, plusieurs stratégies sont envisagées: des corrections des fonctionnelles existantes ou une introduction de méthodes post-Hartree-Fock par séparation de portée. Des résultats dans les deux cas sont exposés. Tout d'abord, la méthodologie hybride est appliquée à des dimères de métaux de transition (Cr2, Mn2 et Zn2). Ensuite, le calcul de coefficients de corrections pour la dispersion dans un cadre relativiste est présenté. Enfin, les interactions faibles peuvent également résulter de l'interaction d'une molécule avec un champ magnétique. Dans ce cadre, une modélisation de la modification de la densité électronique dans les systèmes aromatiques sous l'influence d'un champ magnétique extérieur est présentée.

Ce travail de thèse démontre l’importance d’intégrer des outils théoriques à des observations expérimentales dans le but d’étudier le rôle des interactions non-covalentes et plus précisément de la dispersion dans la chimie des métaux de transition. Plusieurs thèmes ont ainsi été abordés comme les interactions d’empilement entre chélates de métaux de transition à l’état solide; l’influence de la chiralité sur l’oligomérisation en solution de complexes plans carrés de Rh(I) isonitrile; la stabilité et inactivité inhabituelles de complexes de type cis-platine en solution concentrée. Les résultats obtenus par titration calorimétrique isotherme ont permis d’évaluer la capacité de méthodes théoriques à reproduire avec précision les résultats expérimentaux. Les calculs ont démontré qu’un traitement théorique approprié des effets de la dispersion et de la solvatation, donne des valeurs cohérentes avec les résultats expérimentaux. Cependant, des améliorations supplémentaires sont nécessaires
This thesis has shown the importance of integration of theoretical calculations and experimental investigations in studying the role of non-covalent interactions and particularly dispersion interactions in transition metal chemistry. Several subjects were addressed, such as stacking interactions of chelates in transition metal complexes in solid state, influence of chirality on the oligomerization of Rh(I) isonitrile complexes in solution and the stability of the cis-platin type complexes in concentrated solutions. Isothermal titration calorimetry proved to be very useful in the studies by providing accurate experimental data on the thermochemistry of addressed processes. This data was used to gauge the ability of the theoretical methods to accurately reproduce the experimental results. Calculations have shown that the proper treatment of dispersion effects and solvation by theoretical models gives values in relatively good agreement with experiments, but further improvements are needed

Social network development has been studied in the social sciences for the last several decades, but little work has applied social network theory to study-abroad research. This study seeks to quantitatively describe factors that predict social network formation among study-abroad students while in the host countries. Social networks were measured in terms of the number of friends the students made, the number of distinct social groups reported, and the number of friends within those groups. The Study Abroad Social Interaction Questionnaire was compared against these pre-trip factors: intercultural competence, target-language proficiency, prior missionary experience, gender, study-abroad program, neuroticism, extroversion, agreeableness, openness to new experience, agreeableness, and conscientiousness. Results showed that pre-trip oral proficiency in the target language was the strongest predictor of the number of friends made in-country. Certain programs showed stronger predictive statistics in terms of size of largest social group, number of social groups, and number of friends made. A distinction is made between total number of friends and number of friends who are more likely to be native speakers. Neither intercultural competence nor personality showed a significant correlation with the number of friendships made during study abroad.

London or dispersion interactions are weak van der Waals (vdW) interactions. They are important in determining the structure and properties of many chemical and biochemical systems. In this thesis, an optimizer using the nonempirical generalized gradient approximation (GGA) functional PW86+PBE+XDM, to capture van der Waals interactions, is presented. The work in this thesis covers the assessment of a variety of basis sets for their ability to reproduce accurate GGA repulsive and binding energies. Selected basis sets were then used to compute binding energies of 65 vdW complexes at equilibrium. This functional was also tested for binding energies of two sets of vdW complexes at distorted geometries. The last part deals with forces to investigate their accuracy using PW86+PBE+XDM in order to build an optimizer for vdW complexes using a nonempirical DFT method. Eventually, after confirming a high reproducibility of the optimizer on the geometries and binding energies, it was used in two biologically relevant applications. This optimizer is a unique tool to compute deformation energies with a nonempirical DFT method. The second part of this thesis covers a biologically relevant application where a conventional DFT is used. This application is related to the carrier of the genetic codes in living cells, DNA. DNA undergoes harmful mutations under external perturbations such as applied external electric fields. In this study, DNA base pairs were first mimicked by a simpler model, namely, the formic acid dimer. The effect of applied external electric fields on the geometries of the formic acid dimer is studied. The effect of these applied fields on the potential energy surface, the barrier height and the frequency of the double proton transfer in the formic acid dimer are also investigated. The study was then repeated on DNA base pairs to study the effect of an external applied electric field on the tunneling corrected rate constants of the double proton transfer reactions in AT and GC.

The formation and patterns of a monolayer are determined by the interplay of two fundamental interactions, adsorbate-substrate and intermolecular interactions. The binding strength between adsorbate and substrate affects the mobility of the adsorbate at the surface and the stability of the complex. The intermolecular interaction plays a significant role in the monolayer patterns on the epitaxial layer of the substrate. A monolayer can be formed either by a spontaneous self-assembly, or by fabrication via atomic-layer deposition (ALD). The physical and chemical properties of the resulting monolayer have a broad array of applications in fabricating functional materials for hydrophobic or hydrophilic surfaces, biological sensors, alternating the properties of the substrate, catalysis and forming ordered layered structures. In this dissertation, the investigation focuses primarily on the influence of the surface topology on the binding behaviour of adsorbate-surface complexes. The state of the art DFT-TS method is used to simulate the sulfur-containing amino acids at complex gold surfaces and examine the relationship between the binding strengths and the binding sites with various nearest neighbouring environments. The same method is also used to determine if a chemical reaction will take place for various catalytic silicon precursors at a silicon oxide surface. Simulating surface chemistry using the DFT-TS method requires intensive com- puting resources, including CPU use and computing time. Another focus of this dissertation is to increase the data generating speed by reducing the size of the sim- ulated systems without altering the outcome. A relatively small gold cluster is used to study the binding behaviours of small organic molecules on the cluster. The same strategy is also used to simulate the chemical reactions between various self-catalying silicon precursors and a water molecule.
Graduate
2021-10-21

Density-functional theory has become an indispensible tool for studying matter on the atomic level, being routinely applied across diverse disciplines from solid-state physics to chemistry and molecular biology. Its failure to account for dispersion interactions has spurred intensive research over the past decade. In this thesis, a semilocal density-functional approximation including dispersion is developed by combining standard functionals for exchange and correlation with the nonempirical “exchange-hole dipole moment“ (XDM) dispersion model of Becke and Johnson. With a minimum of empiricism, the method accurately describes all types of noncovalent interactions, from the extremely weak dispersion forces in rare-gas systems to the hydrogen bonding and stacking interactions responsible for the structure and function of biological macromolecules such as DNA and proteins. The method is compatible with a wide variety of standard Gaussian basis sets, and is easily applied to any system that can be modeled with density-functional theory.

Στην εργασία αυτή, μελετάμε, τόσο με αναλυτικό όσο και με υπολογιστικό τρόπο, γραμμικά και μη γραμμικά οπτικά φαινόμενα σε συστήματα ημιαγώγιμων κβαντικών πηγαδιών GaAs/AlGaAs δύο ενεργειακών υποζωνών, όπου επάγονται διαϋποζωνικές μεταβάσεις, υπό την επίδραση ηλεκτρομαγνητικών πεδίων. Στο πρώτο κεφάλαιο, γίνεται μια θεωρητική περιγραφή των ημιαγώγιμων ετεροεπαφών. Ακολουθούν βασικά στοιχεία της στατιστικής και κβαντικής μηχανικής. Στο δεύτερο κεφάλαιο, εξάγονται οι γενικευμένες εξισώσεις Bloch για τις διαϋποζωνικές μεταβάσεις σε ημιαγώγιμα κβαντικά πηγάδια, στις οποίες ενυπάρχουν όροι που υπεισάγουν τις μη αμελητέες, λόγω εμπλουτισμού, αλληλεπιδράσεις μεταξύ των ηλεκτρονίων. Οι εξισώσεις αυτές αποτελούν τη βάση της μελέτης που ακολουθεί. Στα δύο επόμενα κεφάλαια, μελετούμε την αλληλεπίδραση μιας δομής διπλών συζευγμένων ημιαγώγιμων κβαντικών πηγαδιών με ένα ηλεκτρομαγνητικό πεδίο μεταβλητής γωνιακής συχνότητας, καταλήγουμε σε αναλυτικές εκφράσεις για τη οπτική επιδεκτικότητα πρώτης, τρίτης και πέμπτης τάξεως και αναλύουμε τα φάσματα διαφόρων οπτικών φαινομένων, ως προς τη γωνιακή συχνότητα του εξωτερικού πεδίου, για διάφορες τιμές της επιφανειακής ηλεκτρονιακής πυκνότητας της κβαντικής δομής. Επιπλέον, προσδιορίζουμε τις περιοχές όπου λαμβάνουν τιμή οι διάφορες παράμετροι, ούτος ώστε στο σύστημά μας να αναδυθεί η οπτική διστάθεια. Στα τρία τελευταία κεφάλαια, θεωρούμε ότι η ημιαγώγιμη κβαντική δομή αλληλεπιδρά ταυτόχρονα με ένα ισχυρό ηλεκτρομαγνητικό πεδίο (πεδίο άντλησης) καθορισμένης γωνιακής συχνότητας και ένα ασθενές (πεδίο ανίχνευσης) μεταβλητής συχνότητας και μελετούμε τα φάσματα γραμμικών και μη γραμμικών φαινομένων του πεδίου ανίχνευσης (μίξη τεσσάρων κυμάτων, απορρόφηση, διασπορά, μη γραμμικό οπτικό φαινόμενο Kerr), σε στάσιμη κατάσταση, καθώς και τη χρονική εξέλιξη αυτών. Περιγράφουμε τα φαινόμενα τόσο με αναλυτικές εκφράσεις που εξάγουμε, όσο και με την αριθμητική επίλυση των μη-γραμμικών διαφορικών εξισώσεων του πίνακα πυκνότητας που διέπουν τη δυναμική. Στη μελέτη των φαινομένων αυτών, εξετάζεται η επίδραση της επιφανειακής ηλεκτρονιακής πυκνότητας της κβαντικής δομής στις οπτικές ιδιότητες των κβαντικών πηγαδιών.
In this PhD thesis, we study analytically and numerically linear and nonlinear optical phenomena in intersubband transitions of a symmetric GaAs/AlGaAs double quantum well structure, with two energy subbands. In the first chapter, a theoretical description of the semiconductor heterostructures is presented. This is accompanied with a brief analysis of the basic elements of statistical and quantum mechanics follows, as far as this kind of structures is concerned. In the second chapter, we derive the generalised optical Bloch equations in intersubband transitions of semiconductor quantum well structures, which constitute the basis of the analysis that follows. These equations contain terms which owe their presence to the electron-electron interactions, because the quantum structure is doped with electron carriers. In the two following chapters, we consider the interaction of intersubband transitions of a double quantum well structure with an electromagnetic field of varying frequency, we derive analytical expressions for the first, third and fifth order optical susceptibility and, at last, we analyze the corresponding spectra, with respect to the frequency of the external field, for different values of electron sheet density of the structure. Furthermore, we identify the areas of values of the parameters used, in which the phenomenon of optical bistability arises. In the last three chapters, we consider the two quantum well subbands to be coupled to a strong pump electromagnetic field with fixed frequency and a weak probe electromagnetic field of varying frequency and study the spectra of various linear and nonlinear optical phenomena, which are due to the existence of the probe field. More specifically, we examine the spectra of four-wave mixing, absorption, dispersion and the nonlinear optical Kerr effect of the probe field as they evolve in time and in the steady state. Both analytical expressions are derived and numerical results are presented by solving the nonlinear differential density matrix equations that govern the dynamics of the system. In the study of the different kinds of optical phenomena, the influence of the electron sheet density on the spectral shapes is carefully examined.

Engineering new solid propellant materials requires optimization of several factors, to include energy density, burn rate, sensitivity, and environmental impact. Equally important is the need for materials that will maintain their mechanical properties and thermal stability during long periods of storage. The nanoscale materials considered in this dissertation are proposed metal additives that may enhance energy density and improve combustion in a composite rocket motor. Density Functional Theory methods are used to determine cluster geometries, bond strengths, and energy densities. The ground-state geometries and electron affinities (EAs) for MnxO?: x = 3, 4, y = 1, 2 clusters were calculated with GGA, and estimates for the vertical detachment energies compare well with experimental results. It was found that the presence of oxygen influences the overall cluster moment and spin configuration, stabilizing ferrimagnetic and antiferromagnetic isomers. The calculated EAs range from 1.29-1.84 eV, which is considerably lower than the 3.0-5.0 eV EAs characteristic of current propellant oxidizers. Their use as solid propellant additives is limited. The structures and bonding of a range of Al-cyclopentadienyl cluster compounds were studied with multilayer quantum mechanics/molecular mechanics (QM:MM) methods. The organometallic Al-ligand bonds are generally 55-85 kcal/mol and are much stronger than Al-Al interactions. This suggests that thermal decomposition in these clusters will proceed via the loss of surface metal-ligand units. The energy density of the large clusters is calculated to be nearly 60% that of pure aluminum. These organometallic cluster systems may provide a route to extremely rapid Al combustion in solid rocket motors. Lastly, the properties of COOH-terminated passivating agents were modeled with the GPW method. It is confirmed that fluorinated polymers bind to both Al(111) and Al(100) at two Al surface sites. The oligomers HCOOH, CH3CH2COOH, and CF3CF2COOH chemisorb onto Al(111) with adsorption energies of 10-45 kcal/mol. The preferred contact angle for the organic chains is 65-85 degrees, and adsorption energy weakens slightly with increasing chain length. Despite their relatively weak adsorption energies, fluorinated polymers have elevated melting temperatures, making them good passivation materials for micron-scale Al fuel particles.