Computer Sciences Commons^™

A Database And Tool, Im Browser, For Exploring And Integrating Emerging Gene And Protein Interaction Data For Drosophila, Svetlana Pacifico, Guozhen Liu, Stephen Guest, Jodi R. Parrish, Farshad Fotouhi, Russell L. Finley Jr

Wayne State University Associated BioMed Central Scholarship

Abstract

Background

Biological processes are mediated by networks of interacting genes and proteins. Efforts to map and understand these networks are resulting in the proliferation of interaction data derived from both experimental and computational techniques for a number of organisms. The volume of this data combined with the variety of specific forms it can take has created a need for comprehensive databases that include all of the available data sets, and for exploration tools to facilitate data integration and analysis. One powerful paradigm for the navigation and analysis of interaction data is an interaction graph or map that represents proteins …

Foreign-Born Population In Selected Ohio Cities, 1870 To 2000 A Brief Descriptive Report, Mark Salling, Ellen Cyran

All Maxine Goodman Levin School of Urban Affairs Publications

No abstract provided.

Predicting Domain Specific Entities With Limited Background Knowledge, Christopher Thomas, Amit P. Sheth

Kno.e.sis Publications

This paper proposes a framework for automatic recognition of domain-specific entities from text, given limited background knowledge, e.g. in form of an ontology. The algorithm exploits several lightweight natural language processing techniques, such as tokenization and stemming, as well as statistical techniques, such as singular value decomposition (SVD) to suggest domain relatedness of unknown entities.

Using Query-Specific Variance Estimates To Combine Bayesian Classifiers, Chi-Hoon Lee, Russell Greiner, Shaojun Wang

Kno.e.sis Publications

Many of today's best classification results are obtained by combining the responses of a set of base classifiers to produce an answer for the query. This paper explores a novel "query specific" combination rule: After learning a set of simple belief network classifiers, we produce an answer to each query by combining their individual responses, using weights based inversely on their respective variances around their responses. These variances are based on the uncertainty of the network parameters, which in turn depend on the training datasample. In essence, this variance quantifies the base classifier's confidence of its response to this query. …

Clustering Similarity Comparison Using Density Profiles, Eric Bae, James Bailey, Guozhu Dong

Kno.e.sis Publications

The unsupervised nature of cluster analysis means that objects can be clustered in many ways, allowing different clustering algorithms to generate vastly different results. To address this, clustering comparison methods have traditionally been used to quantify the degree of similarity between alternative clusterings. However, existing techniques utilize only the point memberships to calculate the similarity, which can lead to unintuitive results. They also cannot be applied to analyze clusterings which only partially share points, which can be the case in stream clustering. In this paper we introduce a new measure named ADCO, which takes into account density profiles for each …

An Online Discriminative Approach To Background Subtraction, Li Cheng, Shaojun Wang, Terry Caelli

Kno.e.sis Publications

We present a simple, principled approach to detecting foreground objects in video sequences in real-time. Our method is based on an on-line discriminative learning technique that is able to cope with illumination changes due to discontinuous switching, or illumination drifts caused by slower processes such as varying time of the day. Starting from a discriminative learning principle, we derive a training algorithm that, for each pixel, computes a weighted linear combination of selected past observations with time-decay. We present experimental results that show the proposed approach outperforms existing methods on both synthetic sequences and real video data.

Realtime Query Expansion And Procedural Interfaces For Information Hierarchies, Saverio Perugini

Computer Science Faculty Publications

We demonstrate the use of two user interfaces for interacting with web hierarchies. One uses the dependencies underlying a hierarchy to perform real-time query expansion and, in this way, acts as an in situ feedback mechanism. The other enables the user to cascade the output from one interaction to the input of another, and so on, and, in this way, supports procedural information-seeking tasks without disrupting the flow of interaction.

Information Assurance Through Binary Vulnerability Auditing, William B. Kimball, Saverio Perugini

Computer Science Faculty Publications

The goal of this research is to develop improved methods of discovering vulnerabilities in software. A large volume of software, from the most frequently used programs on a desktop computer, such as web browsers, e-mail programs, and word processing applications, to mission-critical services for the space shuttle, is unintentionally vulnerable to attacks and thus insecure. By seeking to improve the identification of vulnerabilities in software, the security community can save the time and money necessary to restore compromised computer systems. In addition, this research is imperative to activities of national security such as counterterrorism. The current approach involves a systematic …

A Dyadic Composition To Foster Virtual Team Effectiveness: An Experimental Study, Gamze Karayaz

Engineering Management & Systems Engineering Theses & Dissertations

The importance of effectiveness for virtual teamwork continues to gain momentum as technology and globalization of work accelerate. The implementation of virtual teams provides one approach to enhance competitiveness, overcoming the disadvantages of space and time differences through collaborative technologies. The influence of structure to virtual team performance has not been clearly established in the literature. The purpose of this research study was to investigate the effectiveness of a dyad structured approach for virtual teams using a quasi-experimental research design.

This research investigated four questions related to the influence of structure on virtual team effectiveness related to task performance, communication …

K-Spmm: A Database Of Murine Spermatogenic Promoters Modules & Motifs, Yi Lu, Adrian E. Platts, G Charles Ostermeier, Stephen A. Krawetz

Wayne State University Associated BioMed Central Scholarship

Abstract

Background

Understanding the regulatory processes that coordinate the cascade of gene expression leading to male gamete development has proven challenging. Research has been hindered in part by an incomplete picture of the regulatory elements that are both characteristic of and distinctive to the broad population of spermatogenically expressed genes.

Description

K-SPMM, a database of murine Spermatogenic Promoters Modules and Motifs, has been developed as a web-based resource for the comparative analysis of promoter regions and their constituent elements in developing male germ cells. The system contains data on 7,551 genes and 11,715 putative promoter regions …

Driving Deep Semantics In Middleware And Networks: What, Why And How?, Amit P. Sheth

Kno.e.sis Publications

No abstract provided.

Knowledge Modeling And Its Application In Life Sciences: A Tale Of Two Ontologies, Satya S. Sahoo, Christopher Thomas, Amit P. Sheth, William S. York, Samir Tartir

Kno.e.sis Publications

High throughput glycoproteomics, similar to genomics and proteomics, involves extremely large volumes of distributed, heterogeneous data as a basis for identification and quantification of a structurally diverse collection of biomolecules. The ability to share, compare, query for and most critically correlate datasets using the native biological relationships are some of the challenges being faced by glycobiology researchers. As a solution for these challenges, we are building a semantic structure, using a suite of ontologies, which supports management of data and information at each step of the experimental lifecycle. This framework will enable researchers to leverage the large scale of glycoproteomics …

Show Me What You Mean! Exploiting Domain Semantics In Ontology Visualization, Ravi Pavagada, Christopher Thomas, Amit P. Sheth, William S. York

Kno.e.sis Publications

Ontologies build the backbone for many life-sciences applications. These ontologies, however, are represented in XML based languages that are meant for machine-consumption and hence are difficult for humans to comprehend. For a meaningful visualization of these ontologies, it is important that the display of entities and relationships captures the cognitive representation of the domain as perceived by the domain experts. In this paper we present OntoVista, an ontology visualization tool that is adaptable to the needs of different domains, especially in the life sciences. While keeping the graph structures as the predominant model, we provide a semantically enhanced graph display …

Organizational Transformation Through Business Models: A Framework For Business Model Design, Peter Keen, Sajda Qureshi

Information Systems and Quantitative Analysis Faculty Proceedings & Presentations

Organizations are increasingly inter-connected as they source talent, goods and services from other organizations located in disparate parts of the world. They seek new ways of creating value for themselves, customers and partners. They operate outside and across traditional industry boundaries and definitions. These innovations have lead to a focus on business models as a fundamental statement of direction and identity. This paper highlights what is known about the business model concept and where and why it differs from more established concepts of business strategy. It illustrates how the application of business models has transformed organizations. The contribution of this …

Information Systems And Health Care Xiii: Examining The Critical Requirements, Design Approaches And Evaluation Methods For A Public Health Emergency Response System, Ann L. Fruhling

Information Systems and Quantitative Analysis Faculty Publications

Research pertaining to emergency response systems has accelerated over the past few years, particularly since 9/11 events, and more recently due to Hurricane Katrina and concern over a potential of an avian flu pandemic. This study examines the requirements that are the most demanding with respect to software and hardware, and the associated design strategies for a public health emergency response system (ERS) for electronic laboratory diagnostics consultation. In addition, this study illustrates ways to evaluate the design decisions.

An important goal of a public health ERS is to improve the communication and notification of life-threatening diseases and harmful agents. …

Using The Census Bureau's Public Use Microdata For Migration Analysis, Mark Salling, Ellen Cyran

All Maxine Goodman Levin School of Urban Affairs Publications

Using the Census Bureau's Public Use Microdata for Migration Analysis, Proceedings of the annual conference of the Urban and Regional Information Systems Association, Vancouver, BC, Canada, September 2006, pp.336-348.

Testcase Tool, John Louis Van Hemert

Honors Program Theses

The title of my project is "TestCASE Tool." TestCASE Tool is the name, or label, I assigned to the software application that I created for this project. The application is a Tool for storing and reporting data in software testing projects. A Test Case consists of a planned action within a system, the expected result of that action and an assessment of whether the expected result occurred. The acronym, CASE, stands for Computer Aided Software Engineering, which is the software tool genre to which my application belongs.

The Challenges Of Itil Implementations, Jason Gray

Theses : Honours

Originating from the UK, the IT Infrastructure Library (ITIL) is an IT Service Management framework whose adoption is rapidly spreading throughout Canada, Netherlands, South Africa, India, USA, and Australia. Promoted as a collection of "Best Practices" in IT service management, ITIL is gaining a reputation as a "silver bullet" to IT Service Management woes and is now .gaining popularity amongst IT vendors and leaders of best practices worldwide. Increased IT productivity, IT accountability, increased compliance and reduced IT costs, are just some of the promised list of benefits. More and more organisations are plam1ing to embark on ITIL implementations as …

Efficient Mining Of Group Patterns From User Movement Data, Yida Wang, Ee Peng Lim, San-Yih Hwang

Research Collection School Of Computing and Information Systems

In this paper, we present a new approach to derive groupings of mobile users based on their movement data. We assume that the user movement data are collected by logging location data emitted from mobile devices tracking users. We formally define group pattern as a group of users that are within a distance threshold from one another for at least a minimum duration. To mine group patterns, we first propose two algorithms, namely AGP and VG-growth. In our first set of experiments, it is shown when both the number of users and logging duration are large, AGP and VG-growth are …

Using Social Development Lenses To Understand E-Government Development, Keng Siau, Y. Long

Research Collection School Of Computing and Information Systems

As governments at different levels and all around the world are increasingly using the Web to enhance and improve their services, understanding e-government development and exploring factors that affect e-government development have become important research topics. The purpose of this research is to investigate factors explaining e-government development in terms of social development lenses. Based on growth and regional development theories, the paper hypothesizes that income level, development status, and region are three factors that differentiate e- government development in countries. Group comparison tests are conducted using secondary data from the United Nations and the United Nations Development Programme. The …

Synchronization And Multiple Group Server Support For Kepler, K. Maly, M. Zubair, H. Siripuram, S. Zunjarwad, Yannis Manolopoulos (Ed.), Joaquim Filipe (Ed.), Panos Constantopoulos (Ed.), José Cordeiro (Ed.)

Computer Science Faculty Publications

In the last decade literally thousands of digital libraries have emerged but one of the biggest obstacles for dissemination of information to a user community is that many digital libraries use different, proprietary technologies that inhibit interoperability. Kepler framework addresses interoperability and gives publication control to individual publishers. In Kepler, OAI-PMH is used to support "personal data providers" or "archivelets".". In our vision, individual publishers can be integrated with an institutional repository like Dspace by means of a Kepler Group Digital Library (GDL). The GDL aggregates metadata and full text from archivelets and can act as an OAI-compliant data provider …

Systems Analysis & Design: An Essential Part Of Is Education, Albert L. Harris, Michael Lang, Briony J. Oates, Keng Siau

Research Collection School Of Computing and Information Systems

Systems analysis and design has been as critical building block in Information Systems (IS) education since the inception of the IS major. Whether it is taught using the traditional or "structured approach or the object-oriented approach, it exposes students to the different methods, tools, and techniques used in developing new systems, develops students analytical and problem-solving skills, teaches fact-finding and data gathering techniques, and provides teamwork skills. All of these are valuable skills for systems analysts. This paper introduces the reader of this special issue on systems analysis and design education to the issue, discusses the two approaches to teaching …

Advances In Data Modeling Research, G. Allen, A. Bajaj, V. Khatri, S. Ram, Keng Siau

Research Collection School Of Computing and Information Systems

In this paper, we summarize the discussions of the panel on "Advances in Data Modeling Research," held at the Americas Conference on Information Systems (AMCIS) in 2005. We focus on four primary areas where data modeling research offers rich opportunities: spatio-temporal semantics, genome research, ontological analysis and empirical evaluation of existing models. We highlight past work in each area and also discuss open questions, with a view to promoting future research in the overall data modeling area.

E-Healthcare In Abc County Health Department (Abcchd): Trade-Offs Analysis And Evaluation, Keng Siau, Hwee-Joo Kam

Research Collection School Of Computing and Information Systems

The issue of privacy stirred a tumultuous uproar when the ABC County Health Department (ABCCHD) was planning for an e-Healthcare system that utilized information technology to streamline the administration process of patients. ABCCHD had hired a software vendor, Info-Health, a company that specialized in information system development for the healthcare industry to help in the project. The privacy of patients with Sexually Transmitted Diseases/Human Immunity System was a thorny issue in the implementation of the e-Healthcare system. A trade-off between privacy and cost was discussed and debated. Three alternatives, with varying degrees of privacy and cost, were considered.

The Roles Of Digital Libraries In Teaching And Learning Geography, Chew-Hung Chang, John Hedberg, Tiong-Sa Teh, Ee Peng Lim

Research Collection School Of Computing and Information Systems

Adopting a problem-centred approach helps students to learn Geography more effectively as they are able to identify and generalize about where different resources or activities are spatially located and they learn to associate certain patterns and processes with geographical changes. In an era where web-based student-centred inquiry is gaining popularity as a mode of learning Geography, the role of digital libraries as delivery trucks (in Clark’s terminology, 1983) needs to be better understood. An obvious affordance of the digital library is that it organizes information around themes for problems to be solved. This paper describes a developmental project to build …

Grid-Partition Index: A Hybrid Approach To Nearest-Neighbor Queries In Wireless Location-Based Services, Baihua Zheng, Jianliang Xu, Wang-Chien Lee, Dik Lun Lee

Research Collection School Of Computing and Information Systems

Traditional nearest-neighbor (NN) search is based on two basic indexing approaches: object-based indexing and solution-based indexing. The former is constructed based on the locations of data objects: using some distance heuristics on object locations. The latter is built on a precomputed solution space. Thus, NN queries can be reduced to and processed as simple point queries in this solution space. Both approaches exhibit some disadvantages, especially when employed for wireless data broadcast in mobile computing environments. In this paper, we introduce a new index method, called the grid-partition index, to support NN search in both ondemand access and periodic broadcast …

Research-Based Web Design & Usability Guidelines [2006 Edition], Michael O. Leavitt, Ben Shneiderman, Robert W. Bailey, Carol Barnum, John Bosley, Barbara Chaparro, Joseph Dumas, Melody Y. Ivory, Bonnie John, Hal Miller-Jacobs, Sanjay J. Koyani, James R. Lewis, Stanley Page, Judith Ramey, Janice (Ginny) Redish, Jean Scholtz, Steve Wigginton, Cari A. Wolfson, Larry E. Wood, Don Zimmerman

Publications

The new edition of the U.S. Department of Health and Human Services’ (HHS) Research-Based Web Design and Usability Guidelines. These guidelines reflect HHS’ commitment to identifying innovative, research-based approaches that result in highly responsive and easy-to-use Web sites for the public.

These guidelines help move us in that direction by providing practical, yet authoritative, guidance on a broad range of Web design and communication issues. Having access to the best available research helps to ensure we make the right decisions the first time around and reduces the possibility of errors and costly mistakes.

Using Cognitive Mapping Techniques To Supplement Uml And Up In Information Requirements Determination, Keng Siau, Tan Xin

Research Collection School Of Computing and Information Systems

Information requirements determination is a critical task in system development projects. Many human issues may hinder the efforts to accurately capture and clearly understand users' information requirements. In this paper, we review the cognitive underpinnings of some human issues, which are discussed in existing literature and relevant to information requirements determination. We then propose the use of cognitive mapping techniques in the process of information requirements determination. Three widely used cognitive mapping techniques - causal mapping, semantic mapping, and concept mapping – are briefly introduced in this article. A case is used to illustrate how to use these cognitive mapping …

In-Network Join Processing For Sensor Networks, Hai Yu, Ee Peng Lim, Jun Zhang

Research Collection School Of Computing and Information Systems

Recent advances in hardware and wireless technologies have led to sensor networks consisting of large number of sensors capable of gathering and processing data collectively. Query processing on these sensor networks has to consider various inherent constraints. While simple queries such as select and aggregate queries in wireless sensor networks have been addressed in the literature, the processing of join queries in sensor networks remains to be investigated. In this paper, we present a synopsis join strategy for evaluating join queries in sensor networks with communication efficiency. In this strategy, instead of directly joining two relations distributed in a sensor …

Intelligent Resource Discovery Using Ontology-Based Resource Profiles, J. Steven Hughes, Dan Crichton, Sean Kelly, Chris A. Mattmann, Jerry Crichton, Thuy Tran

Copyright, Fair Use, Scholarly Communication, etc.

Successful resource discovery across heterogeneous repositories is highly dependent on the semantic and syntactic homogeneity of the associated resource descriptions in each repository. Ideally, consistent resource descriptions are easily extracted from each repository, expressed using standard syntactic and semantic structures, and managed and accessed within a distributed, flexible, and scalable software framework. In practice however, seldom do all three of these elements exist. To help address this situation, the Object Oriented Data Technology (OODT) project at the Jet Propulsion Laboratory has developed an extensible, standards-based resource description scheme that provides the necessary description and management facilities for the discovery of …