Digital Commons Network^™

Modeling And Testing Of Dna Motion For Nanoinjection, Regis Agenor David

Theses and Dissertations

A new technique, called nanoinjection, is being developed to insert foreign DNA into a living cell. Such DNA transfection is commonly used to create transgenic organisms vital to the study of genetics, immunology, and many other biological sciences. In nanoinjection, DNA, which has a net negative charge, is electrically attracted to a micromachined lance. The lance then pierces the cell membranes, and the voltage on the lance is reversed, repelling the DNA into the cell. It is shown that DNA motion is strongly correlated to ion transport through a process called electrophoresis. Gel electrophoresis is used to move DNA using …

Gene Network Inference And Expression Prediction Using Recurrent Neural Networks And Evolutionary Algorithms, Heather Y. Chan

Theses and Dissertations

We demonstrate the success of recurrent neural networks in gene network inference and expression prediction using a hybrid of particle swarm optimization and differential evolution to overcome the classic obstacle of local minima in training recurrent neural networks. We also provide an improved validation framework for the evaluation of genetic network modeling systems that will result in better generalization and long-term prediction capability. Success in the modeling of gene regulation and prediction of gene expression will lead to more rapid discovery and development of therapeutic medicine, earlier diagnosis and treatment of adverse conditions, and vast advancements in life science research.

Umsl Magazine - Fall 2010, University Of Missouri-St. Louis

UMSL Magazine and other UMSL Magazines

The University of Missouri–St. Louis publishes UMSL Magazine for alumni and friends. The magazine highlights excellence at the university. Circulation is 79,000, and the magazine is released twice a year.

Assigning Value To Intuitive Dimensions In Creativity, Susan Coburn

Creativity and Change Leadership Graduate Student Master's Projects

Assigning Value to Intuitive Dimensions in Creativity

The abilities described by people as intuitive processes include anything from having an unexplained feeling surrounding an event, or having met with a psychic experience, the latter occurring mostly without a catalyst or deliberate engagement. This paper briefly explores the use of these intuitive qualities within the subject of creativity, a thinking skill enhanced by using all available resources. A brief questionnaire was administered to fifteen colleagues regarding information or feelings gained from intuition, dreams, unexplained voice contact or sensations, visual events, and other self-described developments that could be classified as intuitive phenomena. …

Southern Alumni, Siu Alumni Association

SIU Alumni Magazine

No abstract provided.

The Synthesis, Characterization, And Electrochemical Study Of Tris(Pyrazolyl)-Type Iron(Ii) Complexes, Iron(Ii) Sulfur- And Selenium-Containing Complexes, And Tris(Pyrazolyl)-Type Ruthenium(Ii) Complexes, Christopher Underwood

All Theses

Highly reactive radical species such as hydroxyl radical cause oxidative stress, resulting in chronic or degenerative diseases. In the biological Fenton reaction, iron(II) generates hydroxyl radical, OH, but only within a specific electrochemical potential window (-324 mV to 640 mV). Selenium and sulfur compounds have been extensively studied for their antioxidant properties, and they may exert their effects by binding iron(II) and shifting its electrochemical potential out of this window. This work has investigated the synthesis and electrochemical characterization of iron(II) chalcogenate complexes and iron(II) chalcogenone complexes. Cyclic voltammetry (CV) of [Fe(EPh)4][(PPh4)2] (E = S, Se) complexes shows Fe2+/3+ redox …

A New Approach To Construct Pathway Connected Networks And Its Application In Dose Responsive Gene Expression Profiles Of Rat Liver Regulated By 2,4dnt, Sudhir Chowbina, Youping Deng, Junmei Ai, Xiaogang Wu, Xin Guan, Mitchell S. Wilbanks, Barbara Lynn Escalon, Edward J. Perkins, Jake Y. Chen

Faculty Publications

Background: Military and industrial activities have lead to reported release of 2,4-dinitrotoluene (2,4DNT) into soil, groundwater or surface water. It has been reported that 2,4DNT can induce toxic effects on humans and other organisms. However the mechanism of 2,4DNT induced toxicity is still unclear. Although a series of methods for gene network construction have been developed, few instances of applying such technology to generate pathway connected networks have been reported.

Results: Microarray analyses were conducted using liver tissue of rats collected 24h after exposure to a single oral gavage with one of five concentrations of 2,4DNT. We observed …

Recreational Boats As Potential Vectors Of Marine Organisms At An Invasion Hotspot, Ian C. Davidson, Chela J. Zabin, Andrew L. Chang, Christopher W. Brown, Mark Sytsma, Gregory M. Ruiz

Center for Lakes and Reservoirs Publications and Presentations

With more than 200 aquatic nonindigenous species (NIS), San Francisco Bay (California, USA) is among the world’s most invaded harbors. Hard-substratum benthic (biofouling) organisms, which dominate NIS richness, have arrived primarily as a result of shipping and aquaculture activity over past centuries. To date there has been no assessment of the leisure craft vector in the Bay. We aimed to characterize (1) biofouling on boats’ submerged surfaces and (2) boater behavior likely to affect the risk of NIS transfers. We used an underwater pole-cam, specimen collections, and a boater questionnaire to quantify the extent and composition of biofouling on recreational …

The In Situ Function Of A Microbial Community Profiled By Ft-Ir: A Snapshot In Time, Ryan Roberts

Department of Biochemistry: Dissertations, Theses, and Student Research

Photographs of an ecosystem are an important tool in macro-community ecology. The photograph is a permanent record of species phenotype. In microbiology, biochemical activity provides the most descriptive information of an organism’s phenotype. A method for fingerprinting all biochemical activities occurring within a microbial community is analogous to a photograph. Infrared spectroscopy in the region between wavelengths 2500 to 20,000 nm (mid-IR) is a well established instrumental method for fingerprinting the total biochemical profile of axenic cultures. Spectra are complex and sensitive as demonstrated by the ability to discriminate between strains of bacteria, fungi, and algae. This thesis develops the …

Antimicrobial-Resistant Bacteria In A General Intensive Care Unit In Saudi Arabia, Nermin K. Saeed, Abdulmageed M. Kambal, Noura A. El-Khizzi

Saudi Medical Journal

OBJECTIVE: To assess the prevalence of multi-drug resistant (MDR) bacteria causing infections in patients at the intensive care units (ICUs) of Riyadh Military Hospital (RMH), as well as their antimicrobial resistance patterns for one year. METHODS: A retrospective, cohort investigation was performed. Laboratory records from January to December 2009 were studied for the prevalence of MDR Gram-negative and Gram-positive bacteria and their antimicrobial resistance in ICU patients from RMH, Riyadh, Kingdom of Saudi Arabia. RESULTS: A total of 1210 isolates were collected from various specimens such as: respiratory (469), blood (400), wound/tissue (235), urinary (56), nasal swabs (35), and cerebro-spinal …

The Effects Of Two Insecticides On California Anurans (Rana Sierrae And Pseudacris Sierra) And The Implications For Declining Amphibian Populations., David Dimitrie

Theses

Evidence is growing that agrochemicals are playing a role in the decline of amphibians in California. An area of concern is the Sierra Nevada Mountains, where insecticides used in the Central Valley are aerially transported to amphibian habitats. I examined the effects of two of these insecticides, endosulfan and chlorpyrifos, in two experiments on anuran larvae. For the first experiment I exposed Sierra Mountain yellow-legged frog (Rana sierrae) larvae starting at Gosner stage 25 to each insecticide for 63 d to determine median lethal concentrations (LC50) and sublethal effects on growth and development. In the second experiment Sierran treefrog (Pseudacris …

Network To Pology In Human Protein Interaction Data Predicts Functional Association, Hua Li

Dissertations and Theses (Open Access)

High-throughput assays, such as yeast two-hybrid system, have generated a huge amount of protein-protein interaction (PPI) data in the past decade. This tremendously increases the need for developing reliable methods to systematically and automatically suggest protein functions and relationships between them. With the available PPI data, it is now possible to study the functions and relationships in the context of a large-scale network. To data, several network-based schemes have been provided to effectively annotate protein functions on a large scale. However, due to those inherent noises in high-throughput data generation, new methods and algorithms should be developed to increase the …

2k09 And Thereafter: The Coming Era Of Integrative Bioinformatics, Systems Biology And Intelligent Computing For Functional Genomics And Personalized Medicine Research, Jack Y. Yang, Andrzej Niemierko, Ruzena Bajcsy, Dong Xu, Brian D. Athey, Aidong Zhang, Okan K. Ersoy, Guo-Zheng Li, Mark Borodovsky, Joe C. Zhang, Hamid R. Arabnia, Youping Deng, A. Keith Dunker, Yunlong Liu, Arif Ghafoor

Faculty Publications

Significant interest exists in establishing synergistic research in bioinformatics, systems biology and intelligent computing. Supported by the United States National Science Foundation (NSF), International Society of Intelligent Biological Medicine (http://www.ISIBM.org), International Journal of Computational Biology and Drug Design (IJCBDD) and International Journal of Functional Informatics and Personalized Medicine, the ISIBM International Joint Conferences on Bioinformatics, Systems Biology and Intelligent Computing (ISIBM IJCBS 2009) attracted more than 300 papers and 400 researchers and medical doctors world-wide. It was the only inter/multidisciplinary conference aimed to promote synergistic research and education in bioinformatics, systems biology and intelligent computing. The conference committee …

Network Analysis And Comparative Phylogenomics Of Micrornas And Their Respective Messenger Rna Targets Using Twelve Drosophila Species, M Ryan Woodcock

Theses and Dissertations

MicroRNAs represent a special class of small (~21–25 nucleotides) non-coding RNA molecules which exert powerful post-transcriptional control over gene expression in eukaryotes. Indeed microRNAs likely represent the most abundant class of regulators in animal gene regulatory networks. This study describes the recovery and network analyses of a suite of homologous microRNA targets recovered through two different prediction methods for whole gene regions across twelve Drosophila species. Phylogenetic criteria under an accepted tree topology were used as a reference frame to 1) make inference into microRNA-target predictions, 2) study mathematical properties of microRNA-gene regulatory networks, 3) and conduct novel phylogenetic analyses …

Anticancer And Antifungal Activity Of Copper(Ii) Complexes Of Quinolin-2(1h)-One-Derived Schiff Bases, Bernadette S. Creaven, Brian Duff, Denise A. Egan, Kevin Kavanagh, Georgina Rosair, Venkat Reddy Thangella, Maureen Walsh

Articles

The condensation of substituted aromatic aldehydes with 7-amino-4-methyl-quinolin-2(1H)-one (1) has lead to the isolation of quinolin-2(1H)-one derived Schiff bases (2–14). The copper(II) complexes (2a–14a) of the ligands were also prepared, and together with their corresponding free ligands were fully characterised by elemental analyses, spectral methods (IR, ¹H and ¹³C NMR, AAS, UV–Vis), magnetic and conductance measurements. The bidentate ligands coordinated to the copper(II) ion through the deprotonated phenolic oxygen and the azomethine nitrogen of the ligands in almost all cases. X-ray crystal structures of two of the complexes, 5a and 8a, confirmed the bidentate …

October 2010 Academic Affairs Minutes, University Of Nebraska At Kearney Academic Affairs Committee

Academic Affairs Committee Minutes

No abstract provided.

The Design And Synthesis Of Functionalized Porphyrins And Their Applications In Group Transfer Reactions, Medicine, And Materials, Kimberly Bliss Fields

USF Tampa Graduate Theses and Dissertations

Porphyrins and their analogs are a class of chemically and biologically important compounds that have found a variety of applications in different fields such as catalysis, medicine, and materials. The physical, chemical, and biological dependence of the peripheral substituents of porphyrins on their properties has prompted great effort towards the synthesis of new porphyrins with different electronic, steric, and conformational environments. To this end, porphyrins have been prepared using a modular approach from bromo- and triflate synthons. These synthons underwent palladium-catalyzed cross-coupling with chiral amines, amides, alcohols, and boronic esters to create products that were tested for biological activity.

Metalloporphyrins …

St. Stephen Fish Lift Inlet Hydraulic Barrier Investigation: A Field Survey And Hydraulic Model Study, Feleke Arega, Bud Badr

S.C. Water Resources Conference

2010 S.C. Water Resources Conference - Science and Policy Challenges for a Sustainable Future

Lanthorn, Vol. 45, No. 12, October 4, 2010, Grand Valley State University

Volume 45, July 8, 2010 - June 9, 2011

Lanthorn is Grand Valley State's student newspaper, published from 1968 to the present.

Mole Street Journal, September 2010, University Of Arkansas, Fayetteville. Dept. Of Chemistry And Biochemistry

Mole Street Journal

No abstract provided.

Schizophrenia Across Cultures: Significant Interactions Of Biology And Environment, Kimberly L. Wilbanks

Research Papers

Is schizophrenia caused and ultimately guided by biology or do environmental factors such as culture and interaction style impact the course and even the onset of this disease? In this paper, the biological mechanisms of schizophrenia and the environmental influences on its behavioral and biological symptomology will be explored. Evidence will be provided that supports both the biological etiology of this mental illness as well as the strong influence of environmental factors, such as culture, on the severity, onset, and relapse rate of schizophrenia. It will be shown that even the structure and function of the schizophrenic brain is influenced …

A State Record For The Oconee Scorpionfly, Panorpa Oconee Byers (Mecoptera: Panorpidae), In Florida, Louis A. Somma

Insecta Mundi

I provide the first state record for the Oconee scorpionfly, Panorpa oconee Byers, from Putnam County, Florida. This is the southernmost record for P. oconee, extends its range 321 km south of its known distribution and, if valid, adds a seventh described species of panorpid, and twelfth mecopteran, indigenous to Florida.

Drug Off-Target Effects Predicted Using Structural Analysis In The Context Of A Metabolic Network Model, Roger L. Chang, Lei Xie, Philip E. Bourne, Bernhard O. Palsson

Publications and Research

Recent advances in structural bioinformatics have enabled the prediction of protein-drug off-targets based on their ligand binding sites. Concurrent developments in systems biology allow for prediction of the functional effects of system perturbations using large-scale network models. Integration of these two capabilities provides a framework for evaluating metabolic drug response phenotypes in silico. This combined approach was applied to investigate the hypertensive side effect of the cholesteryl ester transfer protein inhibitor torcetrapib in the context of human renal function. A metabolic kidney model was generated in which to simulate drug treatment. Causal drug off-targets were predicted that have previously been …

Two Methods To Detect Clonal Populations Of Human Cells In Situ, Philip Scorza Hall

Yale Medicine Thesis Digital Library

TWO METHODS TO DETECT CLONAL POPULATIONS OF HUMAN CELLS IN SITU. Philip Hall, Jonathan Murphy, and Jeffrey Sklar, Department of Pathology, Yale University, School of Medicine, New Haven, CT. A molecular assay to detect clonal populations of human cells in situ would be potentially valuable for both investigational and diagnostic purposes. Two such methods are proposed, both utilizing fluorescence in situ hybridization (FISH). The first relies upon random monoallelic expression of genes (so-called allelic exclusion), in which a subset of human genes are normally expressed at a single allele in a fixed fraction of cells within a tissue, independent of …

Volume 48, Number 3: September 08, 2010, University Of North Dakota

University Letter Archive

No abstract provided.

Synthesis,Structural And Biological Studies Of 4-[(1-Phenyl-2,3-Dimethyl-3-Pyrozoline-5-One)Azo]-N,N-Dimethyl Anline With Some Transition Metal Ions, Rehab A.M. Al-Hasani

Baghdad Science Journal

The present work includes the preparation and characterization of{Co(II) , Ni(II), Pd(II), Fe(III) , Ru(III),Rh(III), Os(III) , Ir(III) , Pt(IV) and VO(IV)}complexes of a new ligand 4-[(1-phenyl-2,3-dimethyl-3-pyrozoline-5-one)azo]-N,N-dimethylanline (PAD). The product (PAD) was isolated,studies and characterized by phsical measurements,i.e., (FT-IR), (UV) Spectroscopy and elemental analysis(C.H.N). The prepared complexes were identified and their structural geometric were suggested in solid state by using flame atomic absorption, elemental analysis(C.H.N), (FT-IR) and (UV-Vis) Spectroscopy, as well as magnetic susceptibility and conductivity measurements . The study of the nature of the complexes formed in( ethanolic solution) following the mole ratio method,gave results which were compared successfully …

Passages, Volume 10, No. 3, Fall 2010, Joe Mitchell

Texas Cave Management Association

Contents: TCMA Wins NSS Conservation Award -- Deep and Punkin Paid Off -- View from the Palit -- A Tribute to Carl Ponebshek: 1924 - 2009 -- CARL -- Whirlpool Cave Preserve -- A Profile of Carl Ponebshek -- TCMA Volunteer Opportunities Abound -- Top Ten "Rewards" of Being President of TCMA -- Volunteer Appreciation! -- TCMA Officers and Board - 2009 -- Support TCMA Get a T-Shirt!

What Psychiatry, Developmental Psychology, And Neuroscience Can Teach Us About At- Risk Students, Eileen P. Ryan

Washington and Lee Journal of Civil Rights and Social Justice

No abstract provided.

The Marine Sponge Metabolite Mycothiazole: A Novel Prototype Mitochondrial Complex I Inhibitor., J Brian Morgan, Fakhri Mahdi, Yang Liu, Veena Coothankandaswamy, Mika B. Jekabsons, Tyler A. Johnson, Koneni V. Sashidhara, Phillip Crews, Dale G. Nagle, Yu-Dong Zhou

Natural Sciences and Mathematics | Faculty Scholarship

A natural product chemistry-based approach was applied to discover small-molecule inhibitors of hypoxia-inducible factor-1 (HIF-1). A Petrosaspongia mycofijiensis marine sponge extract yielded mycothiazole (1), a solid tumor selective compound with no known mechanism for its cell line-dependent cytotoxic activity. Compound 1 inhibited hypoxic HIF-1 signaling in tumor cells (IC(50) 1nM) that correlated with the suppression of hypoxia-stimulated tumor angiogenesis in vitro. However, 1 exhibited pronounced neurotoxicity in vitro. Mechanistic studies revealed that 1 selectively suppresses mitochondrial respiration at complex I (NADH-ubiquinone oxidoreductase). Unlike rotenone, MPP(+), annonaceous acetogenins, piericidin A, and other complex I inhibitors, mycothiazole is a mixed polyketide/peptide-derived compound …

Review Of The Exploitation Of Marine Resources Of The Australian Indian Ocean Territories: The Implications Of Biogeographic Isolation For Tropical Island Fisheries, Matthew Hourston

Fisheries Research Reports

The small islands of the Indian Ocean Territories are isolated reefs in an expanse of open ocean of abyssal depth. The majority of marine species that live on their reefs and lagoons have settled there from remote locations. Colonising individuals are presumed to have come to the island as the result of unusual weather and current conditions and form populations that are, necessarily, largely self-sustaining. The isolated populations that make up many of the fish and invertebrate stocks at the Cocos (Keeling) and Christmas Islands rely almost exclusively on larvae returning to their home reef to settle, grow and ultimately …