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Single-Stranded Dna Scanning And Deamination With Single-Molecule Resolution, Padhuk Gamarala Senavirathne

Wayne State University Dissertations

SINGLE-STRANDED DNA SCANNING AND DEAMINATION WITH SINGLE-MOLECULE RESOLUTION

by

GAYAN SENAVIRATHNE

December 2013

Advisor: Dr. David Rueda & Dr.Ashok Bhagwat

Major: Chemistry (Analytical)

Degree: Doctor of Philosophy

APOBEC3G (Apo3G) and Activation-Induced cytidine Deaminase (AID) are the most notable members of APOBEC enzymes, a family of cytidine (C) deaminases with crucial functions in the immune system. In T cells, Apo3G deaminates C in viral cDNA to halt the replication of HIV 1 strains lacking viral infectivity factor (vif). In B cells, AID is required for the diversification of antibodies through initiation of somatic hypermutation (SHM), and class switch recombination (CSR), by …

The Extent To Which The Characteristics Of Professional Learning Communities Are Found In Cycle One Schools In Al – Ain From Teachers Prospective, Fatima Mohammed Manea Ai-Dhaheri

Theses

The purpose of this quantitative study was to investigate the extent to which the characteristics of Professional Learning Communities were found in cycle one schools in Al-Ain from teachers’ perspectives. The aim was also to investigate if there were differences of participants’ responses based on demographic variables. Using the Professional Learning Communities Assessment (PLCA) developed by Oliver, Hipp, and Huffman (2003), the study answered the following specific question: 1) To what extent do the characteristics of PLC exist in Al-Ain cycle one schools as perceived by teachers?; 2) Are there significant differences between teachers’ perception in terms of age, years …

Visual-Textual Joint Relevance Learning For Tag-Based Social Image Search, Yue Gao, Meng Wang, Zheng-Jun Zha, Jialie Shen, Xuelong Li, Xindong Wu

Research Collection School Of Computing and Information Systems

With the popularity of social media websites, extensive research efforts have been dedicated to tag-based social image search. Both visual information and tags have been investigated in the research field. However, most existing methods use tags and visual characteristics either separately or sequentially in order to estimate the relevance of images. In this paper, we propose an approach that simultaneously utilizes both visual and textual information to estimate the relevance of user tagged images. The relevance estimation is determined with a hypergraph learning approach. In this method, a social image hypergraph is constructed, where vertices represent images and hyperedges represent …

Valuation Of Participation In Social Gaming, Kwansoo Kim, Byungjoon Yoo, Robert J. Kauffman

Research Collection School Of Computing and Information Systems

This study examines the value of the time that a user spends to participate in a social game. We focus on how a massive multiplayer online role-playing game (MMORPG) vendor can establish prices to encourage participation and retain its players. We estimate value through an application of the hedonic pricing model and analyze a data set for an MMORPG in Korea. The results permit us to estimate the value of game-playing time in monetary terms. Based on our empirical results, we propose an economic model and conduct numerical simulation to show how a game vendor can apply differential pricing in …

Early Childhood Policy And Provision: A Digest To Inform A National Book Gifting Programme, Geraldine French

Reports

The purpose of this paper is to provide a broad and up to date account of early childhood education and care (ECEC) policy and to investigate if a national book gifting programme can fulfill the need of current policy. Due to the immediacy of emerging policy and provision in the field this paper can only present what is understood currently. By the end of 2013 two developments: The Child and Family Agency and The National Early Years Strategy will be completed. Both of these developments may have relevance for a book gifting programme.

The Charter's Influence Around The World, Mark Tushnet

Osgoode Hall Law Journal

Over the past several decades, the influence of the United States Constitution and Supreme Court around the world has waned while that of the Canadian Charter and Supreme Court has increased. This article examines several reasons for these changes, including: the relative ages of the constitutions; the US Supreme Court’s recent conservatism; the Canadian Supreme Court’s role in developing the doctrine of proportionality; the US Supreme Court’s interest in originalism; differing structures of constitutional review and judicial supremacy; and the two Courts’ relative openness to transnational influences.

Designing Microblogging-Based Class Activities With Twiducate, Tian Luo, Fei Gao

STEMPS Faculty Publications

[First paragraph] Microblogging tools such as Twitter have been frequently adopted in educational setting to facilitate learning in recent years. Although the original purpose of microblogging tools is to connect with others in a wide network and instantly share what is happening to them with the rest of the world, educators have vigorously attempted to repurpose the utilization of the tool and integrate it into various educational settings to promote student learning.

Identification Of Pleiotropic Genetic Effects On Obesity And Brain Anatomy, Joanne E. Curran, D Reese Mckay, Anderson M. Winkler, Rene L. Olvera, Thomas D. Dyer, Peter T. Fox, Laura Almasy, Ravi Duggirala, John Blangero, David C. Glahn

School of Medicine Publications

Background/aims: Obesity is a major contributor to the global burden of chronic disease and disability, though current knowledge of causal biologic underpinnings is lacking. Through the regulation of energy homeostasis and interactions with adiposity and gut signals, the brain is thought to play a significant role in the development of this disorder. While neuroanatomical variation has been associated with obesity, it is unclear if this relationship is influenced by common genetic mechanisms. In this study, we sought genetic components that influence both brain anatomy and body mass index (BMI) to provide further insight into the role of the brain in …

In Ignatian Footsteps: Translational Learning For Educating And Training Adults In The 21st Century, Janna L. Oakes

Jesuit Higher Education: A Journal

Each fall, countless people of various ages, ethnicities, and intentions begin a college education at a variety of American institutions of higher education. Higher education has long been viewed as the doorway to the American dream; a ‘social good,’ in economic terms, that promises benefit to the American masses. Studying under higher minds in traditional and non-traditional college and university settings is an opportunity afforded to nearly any person of ability in the United States. Indeed, higher education touches nearly every aspect of American society, from research and biomedicine to technology and the arts.

The Lismullin Enclosure:A Designed Ritual Space, Frank Prendergast

Book/Book Chapter

The discovery in 2007 of a prehistoric post-built enclosure at Lismullin, Co. Meath, during archaeological investigations in advance of the construction of the M3 motorway is, arguably, the most significant Irish archaeological discovery of recent times. This appendix summarises a commissioned specialist report on the spatial and archaeoastronomical features of the enclosure.

Raman Spectroscopy In Nanomedicine: Current Status And Future Perspectives, Hugh Byrne, Mark Keating

Articles

Raman spectroscopy is a branch of vibration spectroscopy which is capable of probing the chemical composition of materials. Recent advances in Raman microscopy have added significantly to the range of applications which now extend from medical diagnostics to exploring interfaces between biological organisms and nanomaterials. In this review, Raman is introduced in a general context, highlighting some of the areas in which the technique has found success in the past, as well as some of the potential benefits it offers over other analytical modalities. The subset of Raman techniques which specifically probe the nanoscale, namely Surface Enhanced and Tip Enhanced …

Using Modelling And Simulation To Improve Elderly Care In Ireland: A Case Study, Mohamed Ragab, Wael Rashwan, Waleed Abo-Hamad, Amr Arisha

Articles

Health care services both globally and domestically - are encountering critical issues due to the increasing demand for services at the time of economic recession. Hospital performance is subject to many constraints, and planning is made more difficult by the complexity and uncertainty of demand. Population ageing is creating immense pressures on healthcare facilities across the world, leaving them struggling to cope with the growing demand for elderly healthcare services. Current demand-supply gaps result in prolonged waiting times for patients and substantial cost burdens for healthcare systems due to delayed discharges. This paper reports on a project that uses modelling …

No-Boundary Thinking In Bioinformatics Research, Xiuzhen Huang, Barry Bruce, Alison Buchan, Clare Bates Congdon, Carole L. Cramer, Steven F. Jennings, Hongmei Jiang, Zenglu Li, Gail Mcclure, Rick Mcmullen, Jason H. Moore, Bindu Nanduri, Joan Peckham, Andy Perkins, Shawn W. Polson, Bhanu Rekepalli, Saeed Salem, Jennifer Specker, Donald C. Wunsch, Donghai Xiong, Shuzhong Zhang, Zhongming Zhao

Electrical and Computer Engineering Faculty Research & Creative Works

Currently there are definitions from many agencies and research societies defining "bioinformatics" as deriving knowledge from computational analysis of large volumes of biological and biomedical data. Should this be the bioinformatics research focus? We will discuss this issue in this review article. We would like to promote the idea of supporting human-infrastructure (HI) with no-boundary thinking (NT) in bioinformatics (HINT).

Extension Of The Reiner-Riwlin Equation To Determine Modified Bingham Parameters Measured In Coaxial Cylinders Rheometers, Dimitri Feys, Jon E. Wallevik, Ammar Yahia, Kamal H. Khayat, Olafur H. Wallevik

Civil, Architectural and Environmental Engineering Faculty Research & Creative Works

The Determination of the Exact Rheological Properties, in Fundamental Units, of Cementitious Materials Has Become Gradually a Necessary Step in the Domain of Concrete Science. Several Types of Rheometers and their Corresponding Transformation Equations Are Described in the Literature. in This Paper, the Reiner-Riwlin Transformation Equation, Valid for Coaxial Cylinders Rheometers, is Developed for the Modified Bingham Model, which is an Extension of the Bingham Model with a Second Order Term in the Shear Rate. the Established Transformation is Shown to Be Compatible with the Reiner-Riwlin Equation for the Bingham and Herschel-Bulkley Models. its Validation is Further Proven by Means …

Exploratory Coverage In Limited Mobility Sensor Networks, Mark Snyder, Sriram Chellappan, Mayur Thakur

Computer Science Faculty Research & Creative Works

Autonomous drones are employed with ever-increasing frequency in applications ranging from search and rescue, detection of forest fires, and battlefield/civilian surveillance. In this paper, we study the effects of limited mobility in such mobile sensor platforms, from the perspective of the effect limited mobility has on coverage effectiveness. We define a problem that we call Exploratory Coverage in Limited Mobility Sensor Networks, wherein the objective is to move a number of mobile sensors to fully explore (and hence, sense every point in) a target area in order to detect any critical event that has already occurred in the area. Further, …

Characterization And Visualization Of Sophisticated Scanning Attacks, Maggie Xiaoyan Cheng, Quanmin Ye, Robert F. Erbacher

Computer Science Faculty Research & Creative Works

Detection of sophisticated stealthy network scans requires analyzing large amounts of network data collected over long periods of time. The sheer volume of the data prohibits efficient detection from a pure algorithmic approach. However timely detection of such sophisticated scanning attacks is critical since the attacker employing these approaches is usually well-resourced and potentially can bring high impact to the network than a naive attacker can. To detect such sophisticated scans, we propose the integration of algorithmic detection and visualization for human detection to simultaneously optimize computational complexity and human analyst time. The proposed approach provides real world detection capabilities …

Probability Of Failure For Slopes With Sensitivity Analysis, Michelle Deng, Ronaldo Luna

Civil, Architectural and Environmental Engineering Faculty Research & Creative Works

The significance of random variables on the probability of failure of slopes is generally evaluated by changing a different set of values for each variable and repeating the approach several times to conclude a trend. This method is very straightforward but requires time and computational resources; and it is inefficient especially when the number of random variables is large. This paper presents an analysis approach in which the sensitivity analysis is introduced to quantify the influence of the random variables on the probability of failure for slopes. In this study, the factor of safety of the slope was determined using …

Effect Of Moist Curing And Use Of Lightweight Sand On Characteristics Of High-Performance Concrete, Soo Duck Hwang, Kamal H. Khayat, Dalia Youssef

Civil, Architectural and Environmental Engineering Faculty Research & Creative Works

Factorial design approach was undertaken to determine the effect of initial moist-curing duration (0 and 6 days) on properties of high-performance concrete (HPC) made with different water-to-cementitious materials ratios (w/cm) of 0.30 and 0.40 and sand substitution rates with lightweight sand (LWS) of 0 and 30 %, by volume. Mechanical properties of HPC are shown to be mainly affected by w/cm and total shrinkage of concrete by the LWS replacement rate and initial moist-curing period. It should be noted that concrete made with 30 % LWS replacement that did not receive any moist-curing exhibited lower shrinkage than moist-cured concrete prepared …

Intercalation And Delamination Of Layered Carbides And Carbonitrides, Olha Mashtalir, Michael Naguib, Vadym Mochalin, Yohan Dall'agnese, Min Heon, Michel W. Barsoum, Yury G. Gogotsi

Chemistry Faculty Research & Creative Works

Intercalation and delamination of two-dimensional solids in many cases is a requisite step for exploiting their unique properties. Herein we report on the intercalation of two-dimensional Ti₃C₂, Ti₃ CN and TiNbC - so called MXenes. Intercalation of hydrazine, and its co-intercalation with N,N-dimethylformamide, resulted in increases of the c-lattice parameters of surface functionalized f-Ti₃C₂, from 19.5 to 25.48 and 26.8 Å, respectively. Urea is also intercalated into f-Ti₃C₂. Molecular dynamics simulations suggest that a hydrazine monolayer intercalates between f-Ti₃C₂ layers. Hydrazine is also intercalated …

In Vivo Ultrasonic Detection Of Polyurea Crosslinked Silica Aerogel Implants, Firouzeh Sabri, Merry E. Sebelik, Ryan K. Meacham, John Dudley Boughter, Mitchell J. Challis, Nicholas Leventis

Chemistry Faculty Research & Creative Works

Background:Polyurea crosslinked silica aerogels are highly porous, lightweight, and mechanically strong materials with great potential for in vivo applications. Recent in vivo and in vitro studies have demonstrated the biocompatibility of this type of aerogel. the highly porous nature of aerogels allows for exceptional thermal, electric, and acoustic insulating capabilities that can be taken advantage of for non-invasive external imaging techniques. Sound-based detection of implants is a low cost, non-invasive, portable, and rapid technique that is routinely used and readily available in major clinics and hospitals.Methodology:In this study the first in vivo ultrasound response of polyurea crosslinked silica aerogel implants …

Comparing Second Grade Students' Creative And Content Knowledge Performance On Figural Transformation Activities Introduced In A Standard Or Enhanced Manner With Nutrition Content Knowledge Taught Through Factual Or Fantasy Reading, Angela Naomi Webb

Dissertations and Theses @ UNI

Creativity and problem solving are skills students need for success in the 21st century. With the increasing pressures of achieving higher student scores in emphasized content areas, teachers' instruction in science, social studies, music and art has been reduced to provide additional time for teaching reading and mathematics.These lost instructional areas often allowed students to express themselves creatively. Therefore, educators need to find a way to incorporate creativity into content areas like reading and mathematics.

This 16 week repeated measures study examined second grade students' academic and creative performance on figural transformation drawings during an extended reading-science-creativity integrated unit. A …

Simultaneous Routing And Multiplexing In Ad Hoc Networks With Mimo Links, Maggie Cheng, Quanmin Ye, Xiaochun Cheng

Computer Science Faculty Research & Creative Works

This paper addresses how to leverage the spatial multiplexing function of MIMO links to improve wireless network throughput. Wireless interference modeling of a half-duplex MIMO node is presented, based on which, routing, spatial multiplexing and scheduling are jointly considered in one optimization model. A linear program-based algorithm is proposed for the joint optimization, and numerical simulation results show that the joint optimization of routing with spatial-temporal multiplexing is superior to the separate design approaches, including separating routing from the other two designs, and separating scheduling from the other two designs. © 2013 IEEE.

Optimization Of Object Queries On Collections Using Annotations For The String Valued Attributes, Venkata Krishna Suhas Nerella, Sanjay K. Madria, Thomas Weigert

Computer Science Faculty Research & Creative Works

Object oriented programming languages raised the level of abstraction by supporting the explicit first-class query constructs in the programming codes. The query constructs can be optimized by leveraging the techniques of query optimization from the domain of databases. The existing optimization approaches such as JQL, however, incur high run time overhead as optimizations are performed only at run time. Therefore, in this paper, we propose an approach that performs the query optimization at compile time utilizing the metadata annotations in the source code. The proposed approach first collects the data from the sample execution of the program and extracts the …

Pcv: Predicting Contact Volume For Reliable And Efficient Data Transfers In Opportunistic Networks, Shiraz Qayyum, Mehrab Shahriar, Mohan Kumar, Sajal K. Das

Computer Science Faculty Research & Creative Works

Exploiting opportunistic contacts between mobile devices to enable deployment of real applications through reliable and efficient data transfers poses a significant research challenge. Indeed, accurate prediction of contact volume, defined as the maximum amount of data transferable during a contact, can improve performance of deployments. However, existing schemes for estimating contact volume that make use of preconceived patterns or contact time distributions may not be applicable in uncertain environments. In this paper, we propose a novel scheme called PCV that predicts contact volume in soft real-time to enable efficient and reliable data transfers in opportunistic networks. An Android Application that …

Improving Adaptation Rules Quality Using Genetic Programming, Makram Soui, Asma Abdelbaki, Marouane Kessentini, Khaled Ghedira

Computer Science Faculty Research & Creative Works

Personalized Information System (PIS) aims to provide tailored services to users in various contexts. The aim of such system is to help users find relevant content easier and faster. To achieve such behavior, the system needs a user model providing information about users, e.g., about their interests, skills, background and custom information while ensuring their adaptation to the needs and preferences of each user. This system is able to learn about the preferences of individual users and to tailor the content, interface, and behavior to the user preferences. In fact, the diversity of contexts and the proliferation of profiles make …

Casat-Hoomt: Computer Aided Software Analysis Tool Based On High Order Object-Oriented Modeling Technique, Fan Zhang, Jinwu Wang, Xiaoqing Frank Liu, Buqing Cao, Mingdong Tang

Computer Science Faculty Research & Creative Works

This paper presents the first computer aided software analysis tool based on HOOMT (High Order Object-oriented Modeling Technique), which provides facilities for structured object-oriented analysis by integrating structured analysis and object-oriented analysis. It contains a graphical user interface for HOOMT-based modeling, supports modeling information management, and provides functionalities for developing three component sub-models in HOOMT: High Order Object Model (HOOM), Hierarchical Object Information Flow Model (HOIFM), and Hierarchical State Transition Model (HSTM). It supports structured decomposition of high-order objects, processes, and states. We describe its system architecture and implementation in this paper. © 2013 IEEE.

Laboratory Schools Annual Report, 2012-2013, Laboratory Schools, Illinois State University

Annual Reports – Laboratory Schools

Illinois State University Laboratory Schools annual report

Investigating The Implementation Of The Indonesian Ktsp (School-Based Curriculum) In The Teaching Of Writing In Year Two, Sulfasyah

Theses: Doctorates and Masters

This study focused on the interpretation and implementation of the Kurikulum Tingkat Satuan Pendidikan (KTSP) in primary schools in Makassar City, Indonesia. The KTSP is a school-based curriculum which was introduced in 2006 and became compulsory across Indonesia in 2009. The main purpose of the study was to explore teachers‟ interpretation of the KTSP in relation to teaching writing to Year 2 students; to investigate how these teachers implemented the KTSP when teaching writing; and, to identify factors that influenced their interpretation and implementation of the KTSP in relation to writing. The teachers‟ interpretation and implementation of this new curriculum …

Using Genetic Algorithms To Find Cellular Automata Rule Sets Capable Of Generating Maze-Like Game Level Layouts, Andrew Pech

Theses : Honours

The video game industry has grown substantially over the last decade and the quality of video games has also been advancing rapidly. In recent years, video games have been advancing to a point that the increased time required to manually create their content is making this process too costly. This has made procedural content generation a desirable option for game developers due to its speed of generating content, and the variety of content that a single PCG method can produced.

The main purpose of this dissertation is to detail a new approach to procedurally generate video game level layouts, and …

Synthesis Of Orthogonally Protected Azalanthionines (Lanazanines) By Sequential Ring-Opening Of N-Substituted Aziridine 2-Carboxylates, Keith O'Brien, Keith Ó Proinsias, Fintan Kelleher

Articles

Orthogonally protected azalanthionines (lanazanines, 4-azadiaminopimelic acids or b-aminoalaninoalanines) have been synthesised in good yields by the ring-opening of N-protected aziridine 2-carboxylates with suitably protected diaminopropanoic acids (DAPs). The required DAPs were also synthesised by ring-opening of N-protected aziridine 2-carboxylates with para-methoxybenzylamine.