Physical Sciences and Mathematics Commons^™

Rfx2 Is A Candidate Downstream Amplifier Of A-Myb Regulation In Mouse Spermatogenesis, Gary C. Horvath, Malathi K. Kistler, Wilson Stephen Kistler

Faculty Publications

Background: Mammalian spermatogenesis involves formation of haploid cells from the male germline and then a complex morphological transformation to generate motile sperm. Focusing on meiotic prophase, some tissue-specific transcription factors are known (A-MYB) or suspected (RFX2) to play important roles in modulating gene expression in pachytene spermatocytes. The current work was initiated to identify both downstream and upstream regulatory connections for Rfx2.

Results: Searches of pachytene up-regulated genes identified high affinity RFX binding sites (X boxes) in promoter regions of several new genes: Adam5, Pdcl2, and Spag6. We confirmed a strong promoter-region X-box for Alf, a germ cell-specific variant of …

Wavepacket Approach To The Cumulative Reaction Probability Within The Flux Operator Formalism, Sophya Garashchuk, Tijo Vazhappilly

Faculty Publications

Expressions for the singular flux operator eigenfunctions and eigenvalues are given in terms of the Dirac δ-function representable as a localized Gaussian wavepacket. This functional form enables computation of the cumulative reaction probability N(E) from the wavepacket time-correlation functions. The Gaussian based form of the flux eigenfunctions, which is not tied to a finite basis of a quantum-mechanical calculation, is particularly useful for approximate calculation of N(E) with the trajectory based wavepacket propagation techniques. Numerical illustration is given for the Eckart barrier using the conventional quantum-mechanical propagation and the quantum trajectory dynamics with the approximate quantum potential. N(E) converges with …

Chemistry In Second Life, Andrew Lang, Jean-Claude Bradley

College of Science and Engineering Faculty Research and Scholarship

This review will focus on the current level on chemistry research, education, and visualization possible within the multi-user virtual environment of Second Life. We discuss how Second Life has been used as a platform for the interactive and collaborative visualization of data from molecules and proteins to spectra and experimental data. We then review how these visualizations can be scripted for immersive educational activities and real-life collaborative research. We also discuss the benefits of the social networking affordances of Second Life for both chemists and chemistry students.

Chemistry In Second Life, Andrew Lang, Jean-Claude Bradley

College of Science and Engineering Faculty Research and Scholarship

This review will focus on the current level on chemistry research, education, and visualization possible within the multi-user virtual environment of Second Life. We discuss how Second Life has been used as a platform for the interactive and collaborative visualization of data from molecules and proteins to spectra and experimental data. We then review how these visualizations can be scripted for immersive educational activities and real-life collaborative research. We also discuss the benefits of the social networking affordances of Second Life for both chemists and chemistry students.

Hierarchical Subject Inter-Relations In Physical Chemistry, Carl W. David

Chemistry Education Materials

Students mystified by the progression of topics in Physical Chemistry may gain insight into their path through the material if acquainted with the diagrams presented and discussed herein.

Succination Of Thiol Groups In Adipose Tissue Proteins In Diabetes: Succination Inhibits Polymerization And Secretion Of Adiponectin, Norma Frizzell, Mathur Rajesh, Matthew J. Jepson, Ryoji Nagai, James A. Carson, Suzanne R. Thorpe, John W. Baynes

Faculty Publications

S-(2-Succinyl)cysteine (2SC) is formed by reaction of the Krebs cycle intermediate fumarate with cysteine residues in protein, a process termed succination of protein. Both fumarate and succination of proteins are increased in adipocytes cultured in high glucose medium (Nagai, R., Brock, J. W., Blatnik, M., Baatz, J. E., Bethard, J., Walla, M. D., Thorpe, S. R., Baynes, J. W., and Frizzell, N. (2007) J. Biol. Chem. 282, 34219-34228). We show here that succination of protein is also increased in epididymal, mesenteric, and subcutaneous adipose tissue of diabetic (db/db) mice and that adiponectin is a major target for succination in both …

Cardiac And Renal Function Are Progressively Impaired With Aging In Zucker Diabetic Fatty Type Ii Diabetic Rats, John W. Baynes, David B. Murray

Faculty Publications

This study investigated the temporal relationship between cardiomyopathy and renal pathology in the type II diabetic Zucker diabetic fatty (ZDF) rat. We hypothesized that changes in renal function will precede the development of cardiac dysfunction in the ZDF rat. Animals (10 weeks old) were divided into four experimental groups: Lean Control (fa/?) LC(n = 7), untreated ZDF rats (n = 7) sacrificed at 16 weeks of age, and LC (n = 7) untreated ZDF rats (n = 9) sacrificed at 36 weeks of age. LV structural/functional parameters were assessed via Millar conductance catheter. Renal function was evaluated via markers of …

Mesoporosity And Functional Group Dependent Endocytosis And Cytotoxicity Of Silica Nanomaterials, Zhimin Tao, Jerry Goodisman, Tewodros Asefa, Bonnie B. Toms

Chemistry - All Scholarship

We report different mesoporosity-dependent and functional group-dependent cytotoxicity and endocytosis of various silica nanomaterials on suspended and adherent cells. This dependency further varied with incubation time and particle dosage, and appeared to be associated with the particles’ endocytotic efficiency and their chemical and physical properties. We studied two common mesoporous nanomaterials (MSNs), MCM-41 and SBA-15, and one type of solid-cored silica microsphere, paralleled by their quaternary amine functionalized counterparts. Compared to SBA-15, MCM-41 has a larger surface area but smaller pore size, whereas SMS exhibits low surface area and poor porosity. In Jurkat cells, SBA-15 and MCM- 41 exhibited different …

The Spectral Game: Leveraging Open Data And Crowdsourcing For Education, Andrew Lang, Jean-Claude Bradley, Robert J. Lancashire, Anthony J. Williams

College of Science and Engineering Faculty Research and Scholarship

We report on the implementation of the Spectral Game, a web-based game where players try to match molecules to various forms of interactive spectra including 1D/2D NMR, Mass Spectrometry and Infrared spectra. Each correct selection earns the player one point and play continues until the player supplies an incorrect answer. The game is usually played using a web browser interface, although a version has been developed in the virtual 3D environment of Second Life. Spectra uploaded as Open Data to ChemSpider in JCAMP-DX format are used for the problem sets together with structures extracted from the website. The spectra are …

Copper(Ii) Catalyzed Aminomethylation Of Alkanes With Amine N-Oxides Via C-H Bond Activation, Matthew Cipolla

Senior Honors Projects

The formation of a C-C bond via double C-H bond activation is very challenging. There are only a few examples of such a coupling having been accomplished. Only one of these examples consists of a coupling of two sp3 hybridized carbons. I set out to reproduce this coupling, using substrates that would have a functional application to the synthesis of appealing molecules such as bioactive molecules. Cyclohexane and trimethylamine N-oxide were successfully coupled via a double C-H bond activation, catalyzed by copper(II). Current research now involves the coupling of toluene with trimethylamine N-oxide. As this work progresses, more interesting and …

Universal Scaling Of Nonequilibrium Transport In The Kondo Regime Of Single Molecule Devices, G D. Scott, Z K. Keane, Jacob W. Ciszek, J M. Tour, D Natelson

Chemistry: Faculty Publications and Other Works

Scaling laws and universality are often associated with systems exhibiting emergent phenomena possessing a characteristic energy scale. We report nonequilibrium transport measurements on two different types of single molecule transistor devices in the Kondo regime. The conductance at low bias and temperature adheres to a scaling function characterized by two parameters. This result, analogous to that reported recently in semiconductor dots with Kondo temperatures two orders of magnitude lower, demonstrates the universality of this scaling form. We compare the extracted values of the scaling coefficients to previous experimental and theoretical results.

Visualizing Atomic Orbitals Using Second Life, Andrew Lang, David C. Kobilnyk

College of Science and Engineering Faculty Research and Scholarship

No abstract provided.

Visualizing Atomic Orbitals Using Second Life, Andrew Lang, David C. Kobilnyk

College of Science and Engineering Faculty Research and Scholarship

We demonstrate the usefulness of Second Life as a platform for enlivening major concepts in chemistry education. These concepts include absorption spectra, selection rules, quantum numbers, and atomic orbital shapes. We have built several exhibits in Second Life which provide 3-dimensional interactivity for each of those areas: an interactive experiment showing the absorption spectrum of hydrogen, an interactive model of selection rules showing allowed and forbidden transitions for each state, a 3-dimensional grid of orbitals showing the constraints on the values of quantum numbers, and a large-scale interactive orbital display allowing the user to choose and rotate to-scale atomic orbitals …

Mammaglobin As A Potential Molecular Target For Breast Cancer Drug Delivery, Lian Zuo, Ly Li, Qian Wang, Timothy P. Fleming, Shaojin You

Faculty Publications

Background Mammaglobin (MAM) has been used as a specific molecular marker for breast cancer diagnosis. Recently, several groups of researchers proposed a number of therapeutic strategies targeting this molecule. Some of the strategies are based upon an essential but not demonstrated hypothesis - mammaglobin is associated with the surface of breast cancer cells, which strongly disputes the therapeutic strategies. Results We conducted a computer-based predictive analysis and identified a small fragment at the N-end of MAM as a potential transmembrane domain. We provided several evidences to demonstrate the presence of the membrane-associated MAM. We isolated the membrane protein components from …

Tetraquabis(5-Fluorosaccharinato)Nickel(Ii), Larnelle Peterson, Jennifer Kelley, Leroy Peterson Jr., Mark D. Smith, Hans-Conrad Zur Loye

Faculty Publications

In the centrosymmetric title complex, [Ni(C₇H₃FNO₃S)₂(H₂O)₄], the Ni^II atom exhibits a slightly distorted trans-NiN₂O₄ octahedral coordination. The nitrogen donors are provided by two 5-fluorosaccharinate ligands and the oxygen donors are provided by four water molecules. The crystal structure features O-HO and bifurcated O-H(F,O) hydrogen bonds, the latter involving the F atom of the 5-fluorosaccharinate ligand.

Diaquabis(5-Fluoro-2-Hydroxybenzoato-Κo1)Zinc(Ii), Diana Rishmawi, Jennifer Kelley, Mark D. Smith, Leroy Peterson, Hans-Conrad Zur Loye

Faculty Publications

The title compound, [Zn(C₇H₄FO₃)₂(H₂O)₂], is a monomeric Zn^II complex. The Zn^II atom, which lies on a twofold rotation axis, is situated in a distorted tetrahedral environment composed of two monodentate carboxlyate O atoms and two water O atoms. O-HO hydrogen bonds link these units, forming sheets that are stacked along the c axis.

Come For The Content, Stay For The Community, Hilary J. Eppley

Chemistry & Biochemistry Faculty publications

No abstract provided.

Validation Of Ozone Measurements From The Atmospheric Chemistry Experiment (Ace), Nicholas B. Jones, David W. Griffith, M Wolff, E Mahieu, G Bodeker, I Boyd, M De Maziere, P Demoulin, T Blumenstock, Y. Murayama, A. Kagawa, J Jin, Christopher Mcelroy, J Hannigan, M Coffey, M Hopfner, H W. Fischer, T Kerzenmacher, I Kramer, J Mellqvist, R Sussmann, K Strong, J R. Taylor, K Mizutani, Y Kasai, J Urban, D Murtagh, E Dupuy, V Catoire, S Chabrillat, P Baron, C Brogniez, G L. Manney, C Piccolo, C Randall, C Robert, C Senten, C Tetard, N J. Livesey, A Kleinbohl, S Godin-Beekmann, T Borsdorff, James Drummond, C De Clercq, J C. Lambert, U Cortesi, K W. Jucks, C Boone, H Oelhaf, M Schneider, T Steck, K A. Walker, P Bernath, T Von Clarmann, R Hughes, C Vigouroux, J Kuttippurath, A Bracher, J Mcconnell, C Mclinden, H Kullmann, L Froidevaux, J Dodion, F Vanhellemont, J P. Burrows, J Kar, F Goutail, D G. Dufour, J M. Zawodny, F Nichitiu, J-P Pommereau, C Nowlan, D Fussen, J Zou, A R Klekociuk, G Forbes, H Bovensmann, R M Bevilacqua, C Haley, S Ceccherini, S D Mcleod, P Gerard, R Skelton, B Firanski, A E Bourassa, D A Degenstein, J Davies, T Christensen, J Granville, A Parrish, C Roth, J W. Waters, C Von Savigny, A Standberg, M Mchugh, A M. Thompson, E J Llewellyn, P Von Der Gathen, M B. Tully, J C. Witte, C Roth, B T. Marshall, K B. Strawbridge, E Kyrola, M P. Mccormick, D P J Swart, N D Lloyd, D W. Tarasick, S V. Petelina, L W. Thomason, A Jones, I S. Mcdermid

Faculty of Science - Papers (Archive)

This paper presents extensive bias determination analyses of ozone observations from the Atmospheric Chemistry Experiment (ACE) satellite instruments: the ACE Fourier Transform Spectrometer (ACE-FTS) and the Measurement of Aerosol Extinction in the Stratosphere and Troposphere Retrieved by Occultation (ACE-MAESTRO) instrument. Here we compare the latest ozone data products from ACE-FTS and ACE-MAESTRO with coincident observations from nearly 20 satellite-borne, airborne, balloonborne and ground-based instruments, by analysing volume mixing ratio profiles and partial column densities. The ACEFTS version 2.2 Ozone Update product reports more ozone than most correlative measurements from the upper troposphere to the lower mesosphere. At altitude levels from …

A Comparison Of Cationic Surfactant Immobilized Ion Exchange Membranes In Their Application For Use In Extraction Of 4-Nitophenol, Robert Derrek Brown

Mahurin Honors College Capstone Experience/Thesis Projects

Solid Phase Extraction has replaced distillation and liquid-liquid extraction as the most widely used method for extraction from solution. Though traditional SPE has seen great success, its downfalls are that it requires meticulous preparation procedures requiring funtionalized silanes and silica or polymerization courses. An alternative is ion exchange membranes to which long carbon chain ionic surfactants have been attached. The S1000 membrane ion exchange capacity was measured to be approximately 110 micro-equil/disc while the P81 membrane was 150 micro-equil/disc. Octadecyltri-methylammonium surfactant was immobilized on the membrane surface, qualitated through the use of ATR-FTIR, and quantified through elemental analysis. Kinetic adsorption …