Digital Commons Network^™

A Proposed Undergraduate Bioinformatics Curriculum For Computer Scientists, Travis E. Doom, Michael L. Raymer, Dan E. Krane, Oscar Garcia

Kno.e.sis Publications

Bioinformatics is a new and rapidly evolving discipline that has emerged from the fields of experimental molecular biology and biochemistry, and from the the artificial intelligence, database, and algorithms disciplines of computer science. Largely because of the inherently interdisciplinary nature of bioinformatics research, academia has been slow to respond to strong industry and government demands for trained scientists to develop and apply novel bioinformatics techniques to the rapidly-growing, freely-available repositories of genetic and proteomic data. While some institutions are responding to this demand by establishing graduate programs in bioinformatics, the entrance barriers for these programs are high, largely due to …

Multi-Dimensional Regression Analysis Of Time-Series Data Streams, Yixin Chen, Guozhu Dong, Jiawei Han, Benjamin W. Wah, Jianyong Wang

Kno.e.sis Publications

Real-time production systems and other dynamic environments often generate tremendous (potentially infinite) amount of stream data; the volume of data is too huge to be stored on disks or scanned multiple times. Can we perform on-line, multi-dimensional analysis and data mining of such data to alert people about dramatic changes of situations and to initiate timely, high-quality responses? This is a challenging task.

In this paper, we investigate methods for online, multi-dimensional regression analysis of time-series stream data, with the following contributions: (1) our analysis shows that only a small number of compressed regression measures instead of the complete stream …

Donor And Acceptor Concentrations In Degenerate Inn, David C. Look, H. Lu, William J. Schaff, J. Jasinski, Z. Liliental-Weber

Physics Faculty Publications

A formalism is presented to determine donor (N_D) and acceptor (N_A) concentrations in wurtzitic InN characterized by degenerate carrier concentration (n) and mobility (μ). The theory includes scattering not only by charged point defects and impurities, but also by charged threading dislocations, of concentration N_dis. For a 0.45-μm-thick InN layer grown on Al₂O₃ by molecular beam epitaxy, having N_dis = 5×10¹⁰ cm⁻², determined by transmission electron microscopy, n(20 K) = 3.5×10¹⁸ cm⁻³ and μ(20 K) = 1055 cm^{2 …}

High Spatial Resolution Thermal Conductivity Of Bulk Zno (0001), Diana I. Florescu, L. G. Mourokh, Fred H. Pollak, David C. Look, G. Cantwell, X. Li

Physics Faculty Publications

We measured high spatial/depth resolution 300 K thermal conductivity κ of the Zn and O surfaces of two bulk n-type ZnO (0001) samples, grown by a vapor-phase transport method, using scanning thermal microscopy (SThM). The thermal investigation was performed in both point-by-point (∼2 μm resolution) and area-scan modes. On the first sample κ=1.16±0.08 (Zn face)/1.10±0.09 (O face) W/cm K while for the second material κ=1.02±0.07 (Zn face)/0.98±0.08 (O face) W/cm K. These are the highest κ values reported on ZnO. A correlation between SThM area-scan readings and surface topography was established by simultaneously performing atomic force microscopy scans. The …

Wright State University Men's And Women's Swimming And Diving Media Guide 2002-2003, Wright State University Athletics

Athletics Publications

A media guide for Wright State University's 2002-2003 Swimming and Diving team. This guide includes photographs, player stats, game results, and records.

Xml-Based Modeling And Simulation: Web Service Technologies And Their Synergy With Simulation, Senthilanand Chandrasekaran, Gregory S. Silver, John A. Miller, Jorge Cardoso, Amit P. Sheth

Kno.e.sis Publications

The World Wide Web has had an huge influence on the computing field in general as well as simulation in particular (e.g., Web-based simulation). A new wave of development based upon XML has started. Two of the most interesting aspects of this development are the Semantic Web and Web services. This paper examines the synergy between Web service technology and simulation. In one direction, Web service processes can be simulated for the purpose of correcting/improving the design. In the other direction, simulation models/components can be built out of Web services. Work on seamlessly using simulation as a part of Web …

Authorization And Access Control Of Application Data In Workflow Systems, Shengli Wu, Amit P. Sheth, John A. Miller, Zongwei Luo

Kno.e.sis Publications

Workflow Management Systems (WfMSs) are used to support the modeling and coordinated execution of business processes within an organization or across organizational boundaries. Although some research efforts have addressed requirements for authorization and access control for workflow systems, little attention has been paid to the requirements as they apply to application data accessed or managed by WfMSs. In this paper, we discuss key access control requirements for application data in workflow applications using examples from the healthcare domain, introduce a classification of application data used in workflow systems by analyzing their sources, and then propose a comprehensive data authorization and …

The Latent Maximum Entropy Principle, Shaojun Wang, Ronald Rosenfeld, Yunxin Zhao, Dale Schuurmans

Kno.e.sis Publications

We present an extension of Jaynes' maximum entropy principle to handle latent variables. We use an EM algorithm that incorporates nested iterative scaling to approximately calculate maximum entropy solutions for this principle, and give a proof of its convergence.

Selected Synthetic Studies Of Nlo Pi-Bridges And Thermally Stable Monomers, Stacey Marie Fauley

Browse all Theses and Dissertations

The molecular weights of two series of PEEK polymers were determined using gel permeation chromatography (GPC). The first series contains oxyalkylene linkages. The other series contains oxyethylene linkages. The synthesis of several thermally stable monomers has been investigated. These monomers include 9,9-dihexylfluorene-2,7-dicarboxaldehyde, 2,7-bis(bromomethyl)-9,9- dibutylfluorene and 2,7-bis(hydroxymethyl)-9,9-diethylfluorene. These monomers can be used to form polymers that will contain short conjugated segments separated by nonconjugated segments. The synthesis of 50 g of each of the following monomers was accomplished: bis(3-methylphenyl) phenylphosphine oxide, bis(4-methylphenyl)phenylphosphine oxide, bis(3- carboxyphenyl)phenylphosphine oxide and bis(4-carboxyphenyl)phenylphosphine oxide. These monomers will be used in a polymerization to form polybenzoxazoles. The …

Defining Benthic Organism Exposure: Bioavailability And Effects Of Non-Polar Organics, Marc Samuel Greenberg

Browse all Theses and Dissertations

Laboratory and field tests were conducted to evaluate the hypothesis that factors such as the total organic carbon (TOC) contents and groundwater-surface water interactions (GSI) in the sediments can affect chemical desorption, bioavailability and benthic organism exposure. Laboratory studies were conducted with the polycyclic aromatic hydrocarbon fluoranthene (FLU) and the herbicide trifluralin (TF). Toxicokinetic parameters were determined for Lumbriculus variegatus and Hyalella azteca in water-only exposures to 0, 5, 20 and 50 µg/L of the compounds and bioaccumulation was measured during exposures to 0, 100 and 200 mg/kg of FLU and TF spiked onto sediments from Lakes Erie and Huron. …

The Synthesis Of Bromoethoxy And Vinylbenzyloxy Substituted Nlo Chromophores, Michael Joseph Matuszewski

Browse all Theses and Dissertations

Multiphoton-absorption processes have recently attracted growing interest because of the potential impact on a wide spectrum of applications, ranging from data storage to photodynamic therapy. From the materials standpoint, particular interest is centered in designing chromophores that exhibit a large two-photon cross-section. The current research is focused on establishing synthetic routes that lead to the formation of derivatives of N,N-diphenyl-(7-benzothiazol-2-yl)-9,9-diethyl-9H-fluoren-2-ylamine which contain meta functionalization. A bromoethoxy functionalized chromophore, N-phenyl-N-(3-(2-bromoethoxy)phenyl)-7-(benzothiazol-2-yl)-9,9-diethyl-9H-fluoren- 2-ylamine , was synthesized and used as a polymer pendent while a vinylbenzyloxy chromophore, N-phenyl-N-(3-(4-vinylbenzyloxy)phenyl)-7- (benzothiazol-2-yl)-9,9-diethyl-9H-fluoren-2-ylamine, was synthesized as a hydrosilation substrate. A compound containing three chromophores, 1,3,5-tris(3-(N-phenyl- 4-(7-(benzothiazol-2-yl)-9,9-diethyl-9H-fluoren-2- ylanilino)phenoxymethyl)benzene, has …

Polariton And Free-Exciton-Like Photoluminescence In Zno, D. C. Reynolds, David C. Look, B. Jogai, T. C. Collins

Physics Faculty Publications

An unusual photoluminescence line X has been observed in ZnO at an energy between that of the common donor-bound excitons (DBEs) and the free excitons (FEs). In the presence of a high carrier concentration, induced by a second below-band gap laser, the DBEs decrease in intensity, due to screening, and both the FEs and X increase. Thus, X has free-exciton, rather than bound-exciton, character. However, its electric-field vector lies in the plane perpendicular to the c axis, as is also found for the DBEs. The appearance of X is discussed in terms of the polariton picture.

Wsu Board Of Trustees Meeting Minutes, November 29-30, 2001

Board of Trustees Minutes

Minutes from the Wright State University Board of Trustees Meeting held on November 29-30, 2001.

The Guardian, November 14, 2001, Wright State University Student Body

The Guardian Student Newspaper

Twenty page issue of The Guardian, the official student-run newspaper for Wright State University. The Guardian has been published regularly since March of 1965.

Wright State University College Of Engineering And Computer Science Bits And Pcs Newsletter, Volume 18, Number 3, November 2001, College Of Engineering And Computer Science, Wright State University

BITs and PCs Newsletter

An eight page newsletter created by the Wright State University College of Engineering and Computer Science that addresses the current affairs of the college.

Knowledge Discovery In Biological Datasets Using A Hybrid Bayes Classifier/Evolutionary Algorithm, Michael L. Raymer, Leslie A. Kuhn, William F. Punch

Kno.e.sis Publications

A key element of bioinformatics research is the extraction of meaningful information from large experimental data sets. Various approaches, including statistical and graph theoretical methods, data mining, and computational pattern recognition, have been applied to this task with varying degrees of success. We have previously shown that a genetic algorithm coupled with a k-nearest-neighbors classifier performs well in extracting information about protein-water binding from X-ray crystallographic protein structure data. Using a novel classifier based on the Bayes discriminant function, we present a hybrid algorithm that employs feature selection and extraction to isolate salient features from large biological data sets. The …

Thermal Stability Of Isolated And Complexed Ga Vacancies In Gan Bulk Crystals, K. Saarinen, T. Suski, I. Grzegory, David C. Look

Physics Faculty Publications

We have applied positron annihilation spectroscopy to show that 2-MeV electron irradiation at 300 K creates primary Ga vacancies in GaN with an introduction rate of 1 cm^-1. The Ga vacancies recover in long-range migration processes at 500–600 K with an estimated migration energy of 1.5 (2) eV. Since the native Ga vacancies in as-grown GaN survive up to much higher temperatures (1300–1500 K), we conclude that they are stabilized by forming complexes with oxygen impurities. The estimated binding energy of 2.2 (4) eV of such complexes is in good agreement with the results of theoretical calculations.

Electrical Characterization Of 1.8 Mev Proton-Bombarded Zno, F. D. Auret, S. A. Goodman, M. Hayes, M. J. Legodi, H. A. Van Laarhoven, David C. Look

Physics Faculty Publications

We report on the electrical characterization of single-crystal ZnO and Au Schottky contacts formed thereon before and after bombarding them with 1.8 MeV protons. From capacitance–voltage measurements, we found that ZnO is remarkably resistant to high-energy proton bombardment and that each incident proton removes about two orders of magnitude less carriers than in GaN. Deep level transient spectroscopy indicates a similar effect: the two electron traps detected are introduced in extremely low rates. One possible interpretation of these results is that the primary radiation-induced defects in ZnO may be unstable at room temperature and anneal out without leaving harmful defects …

Profile Combinatorics For Fragment Selection In Comparative Protein Structure Modeling, Deacon Sweeney, Travis E. Doom, Michael L. Raymer

Kno.e.sis Publications

Sequencing of the human genome was a great stride towards modeling cellular complexes, massive systems whose key players are proteins and DNA. A major bottleneck limiting the modeling process is structure and function annotation for the new genes. Contemporary protein structure prediction algorithms represent the sequence of every protein of known structure with a profile to which the profile of a protein sequence of unknown structure is compared for recognition. We propose a novel approach to increase the scope and resolution of protein structure profiles. Our technique locates equivalent regions among the members of a structurally similar fold family, and …

The Guardian, October 17, 2001, Wright State University Student Body

The Guardian Student Newspaper

Twenty-four page issue of The Guardian, the official student-run newspaper for Wright State University. The Guardian has been published regularly since March of 1965.

Wsu Board Of Trustees Meeting Minutes, October 4-5, 2001

Board of Trustees Minutes

Minutes from the Wright State University Board of Trustees Meeting held on October 4-5, 2001

The Guardian, October 3, 2001, Wright State University Student Body

The Guardian Student Newspaper

Twenty page issue of The Guardian, the official student-run newspaper for Wright State University. The Guardian has been published regularly since March of 1965.

Undergraduate Curriculum And Academic Policy Minutes, October 2, 2001 And 2001-2002 Committee Member List

Undergraduate Curriculum and Academic Policy Committee Minutes

Committee member list from 2001-2002 and minutes from the Wright State University Faculty Senate Undergraduate Curriculum and Academic Policy Committee meeting held on October 2, 2001.

Right Flier: Newsletter Of The Aaup-Wsu Volume 1, Number 3, Fall, 2001, American Association Of University Professors-Wright State University

The Right Flier Newsletter

A four page newsletter created by the Wright State University chapter of the American Association of University Professors. The newsletter discusses topics related to the faculty.

Convergence Classes And Spaces Of Partial Functions, Anthony K. Seda, Roland Heinze, Pascal Hitzler

Computer Science and Engineering Faculty Publications

We study the relationship between convergence spaces and convergence classes given by means of both nets and filters, we consider the duality between them and we identify in convergence terms when a convergence space coincides with a convergence class. We examine the basic operators in the Vienna Development Method of formal systems development, namely, extension, glueing, restriction, removal and override, from the perspective of the Logic for Computable Functions. Thus, we examine in detail the Scott continuity, or otherwise, of these operators when viewed as operators on the domain (X → Y) of partial functions mapping X into …

Wright State University College Of Engineering And Computer Science Bits And Pcs Newsletter, Volume 18, Number 2, October 2001, College Of Engineering And Computer Science, Wright State University

BITs and PCs Newsletter

An eight page newsletter created by the Wright State University College of Engineering and Computer Science that addresses the current affairs of the college.

Hot Carbon Densities In The Exosphere Of Mars, Andrew F. Nagy, Michael W. Liemohn, Jane L. Fox, Jhoon Kim

Physics Faculty Publications

Theoretical results of hot carbon densities in the exosphere of Mars are presented. The calculation is a two-step process: First a two-stream transport code is used to solve for the distribution function at the exobase, and then these results are used in a Liouville equation solution above the exobase. It is found that photodissociation of carbon monoxide is the largest source of hot carbon atoms in the upper atmosphere of Mars, larger than dissociative recombination of CO⁺ and much larger than the creation of hot carbon through collisions with hot oxygen atoms. It is also found that the high …

Photochemical Escape Of Atomic Carbon From Mars, Jane L. Fox, F. M. Bakalian

Physics Faculty Publications

We have modeled the escape fluxes of atomic carbon from the Martian atmosphere for low and high solar activities due to various photochemical escape mechanisms, including photodissociation of CO, dissociative recombination of CO⁺, electron impact dissociation and dissociative ionization of CO, photodissociative ionization of CO, and dissociative charge transfer of O⁺⁺ to CO. Only photodissociation of CO and dissociative recombination of CO⁺ are found to be important, and the time-averaged escape flux is predicted to be controlled by the high solar activity values. The computed global average escape fluxes of C due to photodissociation of CO …

Solar Activity Variations Of The Venus Thermosphere/Ionosphere, Jane L. Fox, K. Y. Sung

Physics Faculty Publications

We present models of the low and high solar activity thermospheres and ionospheres of Venus for a background atmosphere based largely on the VTS3 model of Hedin et al. [1983]. Our background model consists of 12 neutral species, and we compute the density profiles of 13 ions and 7 minor neutrals. We find that the peak production rates of some ions, such as CO₂⁺ and N₂⁺, vary approximately as the solar flux and that some, whose parent neutrals are photochemically produced, such as O⁺, N⁺, and C⁺, show variations …

The Extension Newsletter, Issue 32, Fall Quarter 2001, Wright State University Retirees Association

The Extension Newsletter

An eight page newsletter from the Wright State University's Retirees Association.