A quantum crystallographic approach to study properties of molecules in crystals

In this dissertation, the behaviour of atoms, bonds, functional groups and molecules in vacuo but especially also in the crystal is studied using quantum crystallographic methods. The goal is to deepen the understanding of the properties of these building blocks as well as of the interactions among them, because good comprehension of the microscopic units and their interplay also enables us to explain the macroscopic properties of crystals. The first part (chapters 1-3) and second part (chapter 4) of this dissertation contain theoretical introductions about quantum crystallography. On the one hand, this expression contains the termquantum referring to quantumchemistry. Therefore, the very first chapter gives a brief overview about this field. The second chapter addresses different options to partition quantum chemical entities, such as the electron density or the bonding energy, into their components. On the other hand, quantumcrystallography consists obviously of the crystallographic part and chapter 3 covers these aspects focusing predominantly on X-ray diffraction. A more detailed introduction to quantum crystallography itself is presented in the second part (chapter 4). The third part (chapters 5-9) starts with an overview of the goals of this work followed by the results organized in four chapters. The goal is to deepen the understanding of properties of crystals by theoretically analysing their building block. It is for example studied how electrons and orbitals rearrange due to the electric field in a crystal or how high pressure leads to the formation of new bonds. Ultimately, these findings shall help to rationally design materials with desired properties such as high refractive index or semiconductivity.Mithilfe quantenkristallografischer Methoden werden Atome, Bindungen, funktionellen Gruppen und Moleküle in vacuo aber vor allem auch in Kristallen untersucht. Das Ziel ist es die Eigenschaften dieser Bestandteile zu verstehen und wie sie miteinander interagieren. Das Verständnis der Verhaltensweise der einzelnen Bausteine sowie deren Zusammenspiel auf mikroskopischer Ebene kann auch die makroskopischen Eigenschaften von Kristallen erklären. Der erste Teil dieser Doktorarbeit (Kapitel 1-3) beinhaltet eine theoretische Einleitung in die verschiedenen Bereiche der Quantenkristallografie. Wie der Name Quantenkristallografie besagt, besteht diese zum einen aus dem quantenchemischen Teil, weswegen das erste Kapitel eine kurze Einführung in die Quantenchemie gibt. Das zweite Kapitel widmet sich den verschiedenen Möglichkeiten quantenchemische Grössen wie zum Beispiel die Elektronendichte oder Bindungsenergien in Einzelteile zu zerlegen. Zum anderen trägt der kristallografische Teil zur Quantenkristallografie bei. Kapitel drei besteht daher aus einem kurzen Überblick über die Kristallografie mit Fokus auf der Röntgenbeugung. Anschliessend folgt im zweiten Teil (Kapitel 4) eine ausführlichere Einleitung in die Quantenkristallografie selbst. Der dritte Teil (Kapitel 5-9) beginnt mit einer kurzen Übersicht über die Ziele dieser Arbeit worauf die Resultate, gegliedert in vier verschiedene Kapitel, folgen. Das Ziel dieser Arbeit ist es die Eigenschaften von Kristallen besser zu verstehen, indem man ihre Einzelteile theoretisch analysiert und mit verschiedenen Methoden rationalisiert. Beispielsweise wird untersucht wie sich Elektronen und Orbitale aufgrund des elektrischen Feldes in Kristallen neu anordnen oder wie unter hohem Druck Bindungen neu geformt werden. Schlussendlich können all diese Erkenntnisse helfen, Materialien mit spezifischen gewünschten Eigenschaften herzustellen.Les atomes, les liaisons entre eux, les groupes fonctionnels et les molécules sont examinés en utilisant des méthodes de la cristallographie quantique. Le but est de comprendre les propriétés de ces composants et comment ils interagissent in vacuo mais surtout aussi dans les cristaux. En comprenant leurs caractéristiques et interactions au niveau microscopique, on peut aussi rationaliser les propriétés macroscopiques des cristaux. La première partie (chapitres 1-3) de cette thèse de doctorat contient une introduction brève à la cristallographie quantique. Comme le noml’indique, ce domaine de recherche est composé de la chimie quantique et la cristallographie. Pour cette raison le premier chapitre donne une introduction à la chimie quantique. Le deuxième chapitre présente quelques méthodes de décomposition des quantités de la chimie quantique comme la densité électronique ou l’énergie de liaison. Le troisième chapitre couvre la partie cristallographique. Ensuite dans la deuxième partie (chapitre 4) une introduction plus détaillée sur la cristallographie quantique elle-même est donnée. La troisième partie (chapitres 5-9) commence par un aperçu des objectives de cette dissertation suivis des résultats structurés en quatre chapitres. Le but est de comprendre les propriétés des cristaux en analysant leurs building blocks avec différentes méthodes théoriques. Il était par example examiné comment les électrons et les orbitales se réorganisent dans un cristal à cause du champ électrique ou comment des nouvelles liaisons sont formées sous pression. Finalement on peut utiliser ces conclusions pour modeler des matériaux avec des propriétés désirées

Endangered by Sprawl: How Runaway Development Threatens America's Wildlife

Estimates the growth of land consumption in metropolitan areas over the next 25 years, investigates locally implemented strategies to protect natural lands from overdevelopment, and offers "smart growth" as an option for reducing suburban sprawl

Strength and Nature of Host‐Guest Interactions in Metal‐Organic Frameworks from a Quantum‐Chemical Perspective

Metal-organic frameworks (MOFs) offer a convenient means for capturing, transporting, and releasing small molecules. Their rational design requires an in-depth understanding of the underlying non-covalent host-guest interactions, and the ability to easily and rapidly pre-screen candidate architectures in silico. In this work, we devised a recipe for computing the strength and analysing the nature of the host-guest interactions in MOFs. By assessing a range of density functional theory methods across periodic and finite supramolecular cluster scale we find that appropriately constructed clusters readily reproduce the key interactions occurring in periodic models at a fraction of the computational cost. Host-guest interaction energies can be reliably computed with dispersion-corrected density functional theory methods; however, decoding their precise nature demands insights from energy decomposition schemes and quantum-chemical tools for bonding analysis such as the quantum theory of atoms in molecules, the non-covalent interactions index or the density overlap regions indicator

Engineering Host–Guest Interactions in Organic Framework Materials for Drug Delivery

Metal-organic frameworks (MOF) and covalent organic frameworks (COFs) are promising nanocarriers for targeted drug delivery. Noncovalent interactions between frameworks and drugs play a fundamental role in the therapeutic uptake and release of the latter. However, the scope of framework functionalizations and deliverable drugs remains underexplored. Using a multilevel approach combining molecular docking and density functional theory, we show for a range of drugs and frameworks that experimentally reported release metrics are in good agreement with the in silico computed host–guest interaction energies. Functional groups within the framework significantly impact the strength of these host–guest interactions, while a given framework can serve as an efficient delivery agent for drugs beyond the prototypical few. Our findings identify the interaction energy as a reliable and relatively easy to compute descriptor of organic framework materials for drug delivery, able to facilitate their high-throughput screening and targeted design towards extended-release times

Disconnected: Poverty, Water Supply and Development in Jakarta, Indonesia

human development, water, sanitation

The Regional Response to Federal Funding for Bicycle and Pedestrian Projects

Examines the efficacy of federal funding for non-motorized modes of transportation based on funding patterns across metropolitan regions, case studies of policies and projects, and an analysis of the funding's impact on bicycling and walking behavior

Host–guest interactions in framework materials:Insight from modeling

The performance of metal–organic and covalent organic framework materials in sought-after applications—capture, storage, and delivery of gases and molecules, and separation of their mixtures—heavily depends on the host–guest interactions established inside the pores of these materials. Computational modeling provides information about the structures of these host–guest complexes and the strength and nature of the interactions present at a level of detail and precision that is often unobtainable from experiment. In this Review, we summarize the key simulation techniques spanning from molecular dynamics and Monte Carlo methods to correlate ab initio approaches and energy, density, and wavefunction partitioning schemes. We provide illustrative literature examples of their uses in analyzing and designing organic framework hosts. We also describe modern approaches to the high-throughput screening of thousands of existing and hypothetical metal–organic frameworks (MOFs) and covalent organic frameworks (COFs) and emerging machine learning techniques for predicting their properties and performances. Finally, we discuss the key methodological challenges on the path toward computation-driven design and reliable prediction of high-performing MOF and COF adsorbents and catalysts and suggest possible solutions and future directions in this exciting field of computational materials science

Locating Guest Molecules inside Metal–Organic Framework Pores with a Multilevel Computational Approach

Molecular docking has traditionally mostly been employed in the field of protein–ligand binding. Here, we extend this method, in combination with DFT-level geometry optimizations, to locate guest molecules inside the pores of metal–organic frameworks. The position and nature of the guest molecules tune the physicochemical properties of the host–guest systems. Therefore, it is essential to be able to reliably locate them to rationally enhance the performance of the known metal–organic frameworks and facilitate new material discovery. The results obtained with this approach are compared to experimental data. We show that the presented method can, in general, accurately locate adsorption sites and structures of the host–guest complexes. We therefore propose our approach as a computational alternative when no experimental structures of guest-loaded MOFs are available. Additional information on the adsorption strength in the studied host–guest systems emerges from the computed interaction energies. Our findings provide the basis for other computational studies on MOF–guest systems and contribute to a better understanding of the structure–interaction–property interplay associated with them

Bioengineering of Fetal Skin: Differentiation of Amniotic Fluid Stem Cells into Keratinocytes

PURPOSE Open fetal spina bifida repair has become a novel clinical standard of care. In very large spina bifida lesions, the skin defect cannot be covered primarily, asking for alternative solutions. We hypothesize that amniotic fluid stem cells (AFSC) could be differentiated into keratinocytes that could then be used to bioengineer autologous skin usable for in utero back coverage. METHODS To obtain human AFSC, amniotic fluid samples obtained from fetal surgeries were subjected to immunoselection for c-kit. C-kit-positive samples and controls were cultured with the additives morphogenetic protein 4 and vitamin C to induce differentiation towards keratinocytes. This process was monitored by measuring the expression of K8 and K14 via immunohistochemical staining, flow cytometry, and polymerase chain reaction. RESULTS After immunoselection and expansion, most cells were positive for K8, but none for K14. After completion of the differentiation protocol, cell colonies with keratinocyte-like appearance could be observed, but cells remained positive for K8 and negative for K14, indicating failed differentiation into keratinocytes. CONCLUSIONS Culturing of keratinocyte-like cells from AFSC, harvested intraoperatively, was not feasible in this setting. The reasons for failure must be investigated and eliminated, as bioengineering of fetal skin for clinical use during fetal surgery for spina bifida remains an attractive goal