Chemistry Commons^™

Synthesis Of [1,2,4]-Triazines As Kinase Inhibitors And Of Novel Fluorine Capture Reagents For Pet Probes, Fenger Zhou

USF Tampa Graduate Theses and Dissertations

ABSTRACT

Anaplastic lymphoma kinase (ALK) is a tyrosine kinase receptor, which plays a pivotal part in the development of the central nervous system. Aberrant expression of full-length ALK occurs in neuroblastoma and chromosomal translocation or inversion of the ALK gene can generate novel fusion-ALK proteins that possess constitutive kinase activity and contribute to oncogenic processes. One of the well-studied fusion proteins is nucleophosmin (NPM-ALK), which draws a lot of attention for medicinal chemists to design small molecules as kinase inhibitors for this target. In this dissertation, [1, 2, 4]-Dihydrotriazine dimers as competitors of the lead compound NVP-TAE684 targeting NPM-ALK have …

Synthesis, Characterization And Mechanistic Studies Of Biomolecules@Mesomofs, Yao Chen

USF Tampa Graduate Theses and Dissertations

Encapsulation of biomolecules is of great interest to research advances related to biology, physiology, immunology, and biochemistry, as well as industrial and biomedical applications such as drug delivery, biocatalysis, biofuel, food and cosmetics. Encapsulation provides functional characteristics that are not fulfilled by free biomolecules and stabilizes the fragile biomolecules. In terms of biocatalysis, solid support can often enhance the stability of enzymes, as well as facilitate separation and recovery for reuse while maintaining activity and selectivity. Various kinds of materials have been used for encapsulation of biomolecules, among which, porous materials are an important group. Metal-organic frameworks (MOFs) have attracted …

Development And Assessment Of Self-Explaining Skills In College Chemistry Instruction, Adrian Villalta-Cerdas

USF Tampa Graduate Theses and Dissertations

The prevalent trend in chemistry instruction relies on what has been described as the classroom game. In this model, students take a passive role and the instructor does all the explaining (thinking), and learning is trivialized to knowing the correct answers (memorizing) and being able to produce them when prompted (regurgitating). The generation of explanations is central to scientific and technological development. In the process of figuring out explanations, the generation of inferences relies on the application of skills associated with scientific behaviors (e.g., analytical reasoning and critical thinking). The process of explanation generation causes a deeper analysis and revision …

Template-Directed Synthesis And Post-Synthetic Modification Of Porphyrin-Encapsulating Metal-Organic Materials, Zhenjie Zhang

USF Tampa Graduate Theses and Dissertations

Metal-organic materials (MOMs) represent an emerging class of materials comprised of molecular building blocks (MBBs) linked by organic linker ligands. MOMs recently attract great attention because of their ability to exhibit permanent porosity, thereby enabling study of properties in the context of gas storage, gas separation, solid supports for sensors, catalysis and so on. Although MOMs have been studied for over 60 years, the porous nature of MOMs was not systematically and widely explored until the early 1990's. This may be one of the reasons why template-directed synthesis of MOMs remains relatively underexplored, especially when compared to other classes of …

A Synthesis Approach Of Trp-Like Primary Amine Peptoid Side Chains Used In Cyclic Beta-Hairpin - Like Scaffolds, Josanne-Dee Woodroffe

USF Tampa Graduate Theses and Dissertations

In recent studies it was reported that the D-amino acid containing peptide HYD1 was used in the treatment of necrotic cell death in multiple myeloma cell lines and showed promising biological activity and in vivo activity. It was meaningful to explore strategies for increasing the therapeutic efficacy of HYD1, a linear peptide. These efforts led to the development of MT1-101 (cyclized peptidomimetics), a lead compound that showed increased in vitro activity and in vivo activity. MTI-101 was found to bind the cell adhesion molecule CD44 and induce programmed necrosis in myeloma cell lines. It was important to improve on the …

Investigation Of Energy Alignment Models At Polymer Interfaces, Wenfeng Wang

USF Tampa Graduate Theses and Dissertations

The presented study investigated the Induced Density of Interface States (IDIS) model at different polymer interfaces by using photoemission spectroscopy in combination with electrospray deposition.

In recent years, organic electronics have attracted considerable attention due to their advantages of low-cost and easy-fabrication. The performance of such devices crucially depends on the energy barrier that controls the interface charge transfer. A significant effort has been made to explore the mechanisms that determine the direction and magnitude of charge transfer barriers in these devices. As a result of this effort, the IDIS model was developed to predict the energy alignment at metal/organic …

Homochiral Metal-Organic Materials: Design, Synthetic And Enantioseletive Separation, Shi-Yuan Zhang

USF Tampa Graduate Theses and Dissertations

Owing to the growing demand for enantiopurity in biological and chemical processes, tremendous efforts have been devoted to the synthesis of homochiral metal-organic materials (MOMs) because of their potential applications in chiral separation and asymmetric catalysis. In this dissertation, the synthetic strategies for homochiral MOMs are discussed keeping the focus on their applications. Two distinct approaches have been taken to synthesize chiral structures with different topologies and accessible cavities. The chiral MOMs have been utilized in enantioselective separation of racemates.

Chiral variants of the prototypal metal-organic framework MOF-5, δ-CMOF-5 and [lambda]-CMOF-5, have been synthesized by preparing MOF-5 in the presence …

Combination Of The Computational Methods: Molecular Dynamics, Homology Modeling And Docking To Design Novel Inhibitors And Study Structural Changes In Target Proteins For Current Diseases, Katherine Cristina Parra

USF Tampa Graduate Theses and Dissertations

In this thesis, molecular dynamics simulations, molecular docking, and homology modeling methods have been used in combination to design possible inhibitors as well as to study the structural changes and function of target proteins related to diseases that today are in the spotlight of drug discovery. The inwardly rectifying potassium (Kir) channels constitute the first target in this study; they are involved in cardiac problems. On the other hand, tensin, a promising target in cancer research, is the second target studied here.

The first chapter includes a brief update on computational methods and the current proposal of the combination of …

Photocatalysis And Grazing-Ion Beam Surface Modifications Of Planar Tio2 Model Systems, Timothy Luttrell

USF Tampa Graduate Theses and Dissertations

This dissertation is related to the understanding of catalytic reactions of metal oxides. For several decades, the surfaces and bulk of materials have been probed to determine additional properties that relate to photocatalytic applications. This investigation furthers these efforts by the (a) modification of a metal oxide surface to isolate known influences of chemical properties and (b) proposing and utilizing a novel methodology for attribution of photocatalytic activity to a discernable influence. For the first effort, by effectively utilizing a known technique for a new application on a metal oxide, such isolations can be made despite unfavorable states. For the …

Design & Synthesis Of Peptidomimetics Adopting Secondary Structures For Inhibition Of P53/Mdm2 Protein-Protein Interaction And Multiple Myeloma Cell Adhesion, Hyun Joo Kil

USF Tampa Graduate Theses and Dissertations

The protein-protein interactions (PPIs) occur when two or more proteins are bound together. Also, this protein-protein interactions (PPIs) cause the various biological processes in the body. Due to this reason, abilities of controlling or inhibiting PPIs can give us promising advantages like (1) better understanding of biological systems, (2) development of new diagnostic approaches for health or disease, and (3) establishment of novel molecular therapeutics. Many proteins adopt the secondary structures, where most of protein-protein interactions take place. -Helices and -sheets are the prevalent secondary conformations, but there are extended secondary structures such as -hairpins, -turns, 310 helix, and so …

Synthesis And Evaluation Of 3-Aryl-4(1h)-Quinolones As Orally Active Antimalarials: Overcoming Challenges In Solubility, Metabolism, And Bioavailability, Andrii Monastyrskyi

USF Tampa Graduate Theses and Dissertations

Infectious diseases are the second leading cause of deaths in the world with malaria being responsible for approximately the same amount of deaths as cancer in 2012. Despite the success in malaria prevention and control measures decreasing the disease mortality rate by 45% since 2000, the development of single-dose therapeutics with radical cure potential is required to completely eradicate this deadly disease. Targeting multiple stages of the malaria parasite is becoming a primary requirement for new candidates in antimalarial drug discovery and development. Recently, 4(1H)-pyridone, 4(1H)-quinolone, 1,2,3,4-tetrahydroacridone, and phenoxyethoxy-4(1H)-quinolone chemotypes have been shown to be antimalarials with blood stage activity, …

Insights Into [Aacute]-Aa Peptides And Ã-Aa Peptides As Broad Spectrum Antimicrobial Peptidomimetics And As Anti-Biofilm Agents, Shruti Padhee

USF Tampa Graduate Theses and Dissertations

The emergent resistance of bacteria against the conventional antibiotics has motivated the search for novel antimicrobial agents. Nature abounds with a number of antimicrobial peptides that are a part of our innate immune system and protect us against a variety of pathogenic bacteria. While they are broad-spectrum in their activity and show less drug-resistance induction, their intrinsic metabolic stability limits their potential therapeutic applications. Herein we describe the development of novel broad-spectrum bioactive antimicrobial peptidomimetics AA-peptides. AApeptides were designed based on chiral PNA backbone. Substitution of nucleobases yields AApeptides that are resistant to proteolysis and capable of mimicking peptides. Two …

[M3(Μ3-O)(O2cr)6] And Related Trigonal Prisms: Versatile Molecular Building Blocks For 2-Step Crystal Engineering Of Functional Metal-Organic Materials, Alexander Schoedel

USF Tampa Graduate Theses and Dissertations

Metal-organic materials (MOMs) assembled from metal-based building blocks and organic linkers have attracted much interest due to their large pore dimensions and their enormous structural diversity. In comparison to their inorganic counterparts (zeolites), these crystalline materials can be easily modified to tailor pore dimensions and functionality for specifically targeted properties.

The work presented herein encompasses the development of a synthetic 2-step process for the construction of novel families of MOMs or 'platforms' and allow us exquisite design and control over the resulting network topologies. Examples of cationic mesoporous structures were initially exploited, containing carboxylate based centers connected by metal-pyridine bonds. …

Br[O/]Nsted Acid Catalyzed Asymmetric Allylation And Propargylation Of Aldehydes, Pankaj Jain

USF Tampa Graduate Theses and Dissertations

Carbonyl allylation and propargylation reactions have been an important tool for the stereocontrolled formation of carbon-carbon bonds for synthetic chemists. The chiral homoallylic and homopropargylic alcohols obtained from these reactions serve as versatile intermediates for the synthesis of natural and pharmaceutical products. Over the past three decades and continuing on, various synthetic groups around the globe have directed their research towards the efficient synthesis of these chiral moieties. In spite extensive research, asymmetric allylation and propargylation reactions remain an enduring challenge in organic chemistry.

Chapter 1 of this thesis describes the first phosphoric acid catalyzed asymmetric allylboration of aldehydes. We …

Investigation And Characterization Of Pt-Modified Au Catalysts And Polymer Composites By Electrochemistry, Raman And Surface Enhanced Raman Spectroscopy (Sers), Ranjani Muralidharan

USF Tampa Graduate Theses and Dissertations

This dissertation thesis consists of six chapters. The main focus of this study is the need for understanding the reaction mechanism and intermediates formed on Pt-modified Au surface as anode catalysts in the formic acid fuel cells. Chapter 1 gives an introduction to formic acid and methanol fuel cells, an overview of the current catalysts employed at the anode of the fuel cells, specifically the Pt-modified Au electrodes as potential catalysts and the different deposition methods for preparing this catalytic surface. Information about different electrochemical methods used like cyclic voltammetry and potential step method along with other characterization methods and …

Nonexistent Compounds As A Guide To Innovation, Dean F. Martin, Barbara B. Martin

Chemistry Faculty Publications

A study of nonexistent compounds can be a useful exercise in gaining insight into the factors that can inhibit innovation. Several reasons are suggested: lack of financial support, disinterest in preparing compounds that lack evident utility, notable synthetic challenges with inadequate rewards, inhibition by well-established contemporary knowledge, and invalid interpolations.

Source Assessment Of Deposited Particles In A Slovenian Show Cave (Postojnska Jama): Evidence Of Long-Lasting Anthropogenic Impact, Gregor Muri, Aleksandra Jovičić, Andrej Mihevc

International Journal of Speleology

Postojnska jama (Postojna Cave) is one of the most famous karst caves in the world and has been a well-known tourist attraction for nearly 200 years. It is particularly famous for its unique double-track railway. Eight heavy metals – aluminium (Al), chromium (Cr), copper (Cu), iron (Fe), lead (Pb), manganese (Mn), strontium (Sr), and zinc (Zn) – were determined in dust deposits by ICP-MS in order to assess sources of deposited particles on the cave walls. The samples were collected along the main passage in the cave, at different horizontal and vertical levels, in order to test horizontal homogeneity and …

Environmental And Energy Saving Technologies Of Vinyl Chloride Production, Mykola Kurta

USF Tampa Graduate Theses and Dissertations

Recently, because of the increase of environmental concerns in process design, the need to enhance conversion to product and prevent generation of wasteful byproducts in the reactor network has become urgent. This prevents high cost treatment and separation costs downstream in the process. Therefore, in this thesis I focus on making production of vinyl chloride monomer (VCM) more efficient and on possible ways of industrial organochlorine waste (OCW) recycling. In particular, in the first experiment, we investigate how catalyst and its structure can affect product output.

Infrared spectroscopy and X-ray diffraction analysis were utilized to investigate the structure of the …

Diffusion Of Vitamin B12 Across A Mesoporous Metal Organic Framework, Veronica Valencia

Undergraduate Journal of Mathematical Modeling: One + Two

We measure the rate of uptake and the rate of release of a Vitamin B12 solution (dissolved in water) at 2 different temperatures (room temperature and 37°C) by the mesoporous metal organic framework TbMOF-100 at 1-hour intervals using a spectrophotometer. Using the Beer-Lambert law, we calculate the concentration of the stock solution based on the absorbance values obtained with the spectrophotometer. These values allow for the quantification of the initial rate of uptake and the rate of uptake at a random incubation time of the Vitamin B12 by the TbMOF-100. We also calculate the value of the coefficient of diffusion …

Study Of Dieldrin In Coralville Reservoir, Jeremy Smith

Undergraduate Journal of Mathematical Modeling: One + Two

Using existing experimental data taken over a period of roughly 12 years that documents the concentrations of dieldrin levels in the environment and fatty tissue of the fish, we construct a model of the total dieldrin concentration decline. Comparisons between the experimental data and speculative data can be made using calculus and elements of statistics in order to better understand the movement of dieldrin in the reservoir. Because of the potentially harmful exposure effects of dieldrin to humans as well as the environment, it is important to be able to predict when stability has been restored to the ecosystem.

Kamlet Laboratories And Clinitest: Idea To Product, Dean F. Martin, Brodie A. Reiger

Chemistry Faculty Publications

This paper examines the process of development of Clinitest pills that could be used in clinics or physicians' offices for rapid, convenient analysis of glucose and other components of clinical interest. It was invented by Dr. Jonas Kamlet. We were able to follow the process because his papers are accessible (as The Kamlet Laboratories Collection) at the University of South Florida Library. The accessibility of these papers gives an opportunity to see steps in the development of a successful product from conception to patent and commercialization. Kamlet, a consulting chemist, took the invention to Miles Laboratories of Elkhart, Indiana, in …

Characterizing Interactions Between Chromophores In Synthetic And Natural Macromolecular Films Via Maldi-Tof, Ibf And Dielectric Analyzer, Parul Jain

USF Tampa Graduate Theses and Dissertations

With the emergence of Matrix Assisted Laser Desorption/Ionization-Time-of-flight as a tool for diagnosis of diseases via proteomics, there is an increasing need for greater sensitivity. Analysis of peptides by MALDI-TOF-MS is affected by sample formulation and spotting onto a MALDI target. This dissertation investigates a novel MALDI sample preparation technique, Induction Based Fluidics (IBF), for depositing precise volumes (pL to nL) of samples onto the target. We have seen that while using IBF, the induced electric field accompanying deposition enhances matrix crystallization yielding smaller crystals with more homogeneity, as compared to conventional manual micropipette (MP) depositions. An investigation of the …

Refinement, Application, And Evaluation Of Cognitive And Affective Chemistry Measures For College Students, Keily Heredia

USF Tampa Graduate Theses and Dissertations

This work describes three case studies conducted to address two major problems in the area of chemistry education research, the lack of reported psychometrics regarding instrument scores, and the need for well-characterized assessments to evaluate college chemistry curricula.

The first case study describes a psychometric evaluation of the Colorado Learning Attitudes about Science Survey (CLASS), an instrument designed to assess student beliefs about the learning of chemistry. Results from this work suggest that the CLASS instrument provides fertile ground for short instruments with reasonable psychometric properties. Responses to a single scale instrument, created from CLASS, showed that students in an …

Chiral Phosphoric Acid-Catalyzed Acetalization And Iso-Pictet-Spengler Reactions, Matthew Jon Kaplan

USF Tampa Graduate Theses and Dissertations

The development of novel asymmetric reaction methodologies has been invaluable in both the academic and industrial world. In just 15 years, organocatalysis has provided a new means of developing asymmetric reaction methodologies using catalysts that are environmentally benign, relatively inexpensive, bench stable, and non-toxic. One development in organocatalysis that is important to our group in particular is chiral phosphoric acid-catalysis. BINOL-derived and VAPOL-derived phosphoric acids have proven to be excellent catalysts for a number of reactions.

The two projects I will discuss my efforts on are acetalization and iso-Pictet-Spengler reactions. These were projects that I performed during my first two …

A Rheological Examination Of Polymer Composites: Including Functionalized Carbon Nanotubes, Viable Polyurethane Alternates, And Contact Lens Hydrogels, Bernard Knudsen

USF Tampa Graduate Theses and Dissertations

From medicine to aerospace, innovation in multiple fields will not occur without addressing current questions that still exist in polymer behavior and manipulation. This dissertation represents the research carried out over the course of three separate experiments using rheometry as the key technique to explore the behavior of polymer composites. In all three studies, polymer composites were investigated for changes to their known physical properties caused through the addition of a filler or functionalization.

Chapter Two examines the possibility of enhancing poly(4-methyl-1-pentene) through the use of soluble carbon nanotubes. In this series of experiments, carbon nanotubes were covalently functionalized using …

Reaction Enthalpy And Volume Profiles For Excited State Reactions Involving Electron Transfer And Proton-Coupled Electron Transfer, William Antonio Maza

USF Tampa Graduate Theses and Dissertations

Electron transfer, ET, and proton-coupled electron transfer, PCET, reactions are central to biological reactions involving catalysis, energy conversion and energy storage. The movement of electrons and protons in either a sequential or concerted manner are coupled in a series of elementary reaction steps in respiration and photosynthesis to harvest and convert energy consumed in foodstuffs or by absorption of light into high energy chemi-cal bonds in the form of ATP. These electron transfer processes may be modulated by conformational dynamics within the protein matrix or at the protein-protein interface, the energetics of which are still not well understood. Photoacoustic calorimetry …

Development Of Novel Nano-Composite Membranes As Introduction Systems For Mass Spectrometers: Contrasting Nano-Composite Membranes And Conventional Inlet Systems, Luis Miranda

USF Tampa Graduate Theses and Dissertations

This dissertation presents the development of novel nano-composite membranes as introduction systems for mass spectrometers. These nano-composite membranes incorporate anodic aluminum oxide (AAO) membranes as templates that can be used by themselves or modified by a variety of chemical deposition processes. Two types of nano-composite membranes are presented. The first nano-composite membrane has carbon deposited within the pores of an AAO membrane. The second nano-composite membrane is made by coating an AAO membrane with a thin polymer film. The following chapters describe the transmission properties these nano-composite membranes and compare them to conventional mass spectrometry introduction systems. The nano- composite …

Computational Approaches For Structure Based Drug Design And Protein Structure-Function Prediction, Sai Lakshmana Kumar Vankayala

USF Tampa Graduate Theses and Dissertations

This dissertation thesis consists of a series of chapters that are interwoven by solving interesting biological problems, employing various computational methodologies. These techniques provide meaningful physical insights to promote the scientific fields of interest. Focus of chapter 1 concerns, the importance of computational tools like docking studies in advancing structure based drug design processes. This chapter also addresses the prime concerns like scoring functions, sampling algorithms and flexible docking studies that hamper the docking successes. Information about the different kinds of flexible dockings in terms of accuracy, time limitations and success studies are presented. Later the importance of Induced fit …

Asymmetric Nitrene Transfer Reactions With Azides Via Co(Ii)-Based Metalloradical Catalysis (Mrc), Jingran Tao

USF Tampa Graduate Theses and Dissertations

Asymmetric nitrene transfer reactions via metalloradical catalysis (MRC) with

azides has attracted research interest because of its fundamental and practical importance.

The resulting nitrogen-containing units are recurrent motifs in biologically important

molecules and can serve as versatile precursors in organic synthesis.

The [Co(D2-Por*)] have emerged as a new class of catalysts for asymmetric

aziridination and C-H amination. These metalloradical catalysts have been shown to be

highly effective for the asymmetric intermolecular aziridination of a broad scope of

substrates with different classes of azides with excellent to good enantioselectivity. The

intramolecular C-H amination utilizing various azides can allow for the construction …

Model Pt- And Pd-Based Electrocatalysts For Low Temperature Fuel Cells Applications, Selasi Ofoe Blavo

USF Tampa Graduate Theses and Dissertations

In the search for alternative energy technologies, low temperature fuel cells continue to feature as technologies with the most promise for mass commercialization. Among the low temperature fuel cells, alkaline and proton exchange membrane fuel cells are the most popular. Alkaline fuel cells have typically been used for water generation as well as auxiliary power for space shuttles. Their bulkiness however makes them undesirable for other applications, especially in automobiles, where there is a great demand for alternative technologies to internal combustion engines. Proton exchange membrane fuel cells on the other hand possess numerous qualities including their compact size, high …